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Changeset 3:5ec0f8b1a609 (2024-03-05)

Previous changeset 2:298b53571782 (2024-01-22) Next changeset 4:9dbeaec173b5 (2024-03-07)

Commit message:
planemo upload for repository https://gitlab.pasteur.fr/galaxy-team/galaxy-tools/-/tree/master/tools/defense-finder commit a15597d50cfd1990e2715b8a12f99a378e89cedf

modified:
defense_finder.xml
test-data/defense-finder.loc
test-data/outputs/prot/defense_finder_genes.tsv
test-data/outputs/prot/defense_finder_hmmer.tsv
test-data/outputs/prot/defense_finder_systems.tsv

diff -r 298b53571782 -r 5ec0f8b1a609 defense_finder.xml
--- a/defense_finder.xml Mon Jan 22 13:09:24 2024 +0000
+++ b/defense_finder.xml Tue Mar 05 13:16:41 2024 +0000

[

@@ -1,16 +1,17 @@
<tool id="defense_finder" name="DefenseFinder" version="@TOOL_VERSION@+@WRAPPER_VERSION@" python_template_version="3.5" profile="21.05">
     <description>systematically detect known anti-phage systems</description>
     <macros>
-        <token name="@WRAPPER_VERSION@">galaxy1</token>
+        <token name="@WRAPPER_VERSION@">galaxy2</token>
         <import>macros.xml</import>
     </macros>
     <expand macro="edam_ontology"/>
     <expand macro="requirements"/>
     <command detect_errors="exit_code"><![CDATA[
-        ln -s '${models.fields.path}' '${models.fields.value}' &&
+        mkdir models &&
+        ln -s '${models.fields.path}' 'models/${models.fields.value}' &&
         ln -s '${genome}' '${genome.name}' &&
         defense-finder run '${genome.name}'
-        --models-dir '${models.fields.value}'
+        --models-dir 'models/${models.fields.value}'
         --workers \${GALAXY_SLOTS:-1}
         --db-type '${db_type}'
         --coverage '${coverage}'
@@ -43,14 +44,14 @@
     <tests>
         <test>
             <param name="genome" value="inputs/df_test_prot.faa"/>
-            <param name="models" value="defense-finder-models_1.2.3"/>
+            <param name="models" value="defense-finder-models_1.2.4"/>
             <output name="genes" compare="contains" file="outputs/prot/defense_finder_genes.tsv"/>
             <output name="hmmer" compare="contains" file="outputs/prot/defense_finder_hmmer.tsv"/>
             <output name="systems" compare="contains" file="outputs/prot/defense_finder_systems.tsv"/>
         </test>
         <test>
             <param name="genome" value="inputs/df_test_nt.fna"/>
-            <param name="models" value="defense-finder-models_1.2.3"/>
+            <param name="models" value="defense-finder-models_1.2.4"/>
             <output name="genes" compare="contains" file="outputs/nt/defense_finder_genes.tsv"/>
             <output name="hmmer" compare="contains" file="outputs/nt/defense_finder_hmmer.tsv"/>
             <output name="systems" compare="contains" file="outputs/nt/defense_finder_systems.tsv"/>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder.loc
--- a/test-data/defense-finder.loc Mon Jan 22 13:09:24 2024 +0000
+++ b/test-data/defense-finder.loc Tue Mar 05 13:16:41 2024 +0000

@@ -1,3 +1,4 @@
# <unique_build_id> <dbkey> <name> <version> <description> <file_base_path>

-defense-finder-models_1.2.3 defense-finder-models Defense Finder models (version 1.2.3) 1.2.3 MacSyFinder models allowing for a systematic search of anti-phage systems ${__HERE__}/defense-finder/defense-finder-models_1.2.3
\ No newline at end of file
+defense-finder-models_1.2.3 defense-finder-models Defense Finder models (version 1.2.3) 1.2.3 MacSyFinder models allowing for a systematic search of anti-phage systems ${__HERE__}/defense-finder/defense-finder-models_1.2.3
+defense-finder-models_1.2.4 defense-finder-models Defense Finder models (version 1.2.4) 1.2.4 MacSyFinder models allowing for a systematic search of anti-phage systems ${__HERE__}/defense-finder/defense-finder-models_1.2.4
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/LICENSE
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/LICENSE Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-This work is licensed under the Creative Commons Attribution-NonCommercial-ShareAlike 4.0 International License.
-To view a copy of this license, visit http://creativecommons.org/licenses/by-nc-sa/4.0/
-or send a letter to Creative Commons, PO Box 1866, Mountain View, CA 94042, USA.
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/README.md
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/README.md Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b"@@ -1,120 +0,0 @@\n-# CasFinder: annotation of CRISPR-Cas systems \n-\n-This set of MacSyFinder's models are dedicated to the genomic detection of CRISPR-Cas systems. \n-\n-This new version CasFinder v3.1.0 contains 535 HMM proteins profiles and can detect 6 different **types** and 37 different **subtypes** of CRISPR-Cas systems.\n-\t\n- | | CAS_Class1 | CAS_Class1| CAS_Class1| CAS_Class2 | CAS_Class2 | CAS_Class2| \n- | ------ | ------ | ------ |------ | ------ |------ | ------ |\n- | **Type** | Type-I | Type-III | Type-IV | Type-II | Type-V | Type-VI | \n- | **Subtype** | Subtype-I | Subtype-III | Subtype-IV | Subtype-II | Subtype-V | Subtype-VI | \n-| | I-A | III-A | IV-A | II-A | V-A | VI-A | \n-| | I-B | III-B | IV-B | II-B | V-B | VI-B | \n-| | I-C | III-C | IV-C | II-C | V-C | VI-C | \n-| | I-D | III-D | IV-D | | V-D | VI-D | \n-| | I-E | III-E | IV-E | | V-E | VI-X | \n-| | I-F | III-F | | | V-F | VI-Y | \n-| | I-G | | | | V-G | | \n-| | | | | | V-H | | \n-| | | | | | V-I | | \n-| | | | | | V-K | |\n-\n-The known *cas* operons have from 1 to 13 genes encoding very diverse proteins, among which several nucleases and helicases with DNA and/or RNA binding domains.\n-Putative *cas* genes are searched by sequence similarity using HMM protein profiles downloaded from [[1]](https://doi.org/10.1093/nar/gky425)[[2]](https://doi.org/10.1038/s41579-019-0299-x)[[3]](https://doi.org/10.1038/s41592-021-01124-4). The assignment of a gene to a given system is decided based on its compliance with the content and organization defined in different models (one model per type and subtype). Within a model, components can be defined as mandatory, accessory, neutral or forbidden (see [MacSyFinder's documentation](http://macsyfinder.readthedocs.io/en/latest/)). \n-\n-- *Mandatory* components are typically genes that are specific to a subtype (or type) of CRISPR-Cas systems.\n-- *Accessory* components correspond to genes that can be shared between different subtypes (or types). \n-- *Neutral* components are genes associated with known CRISPR-Cas systems that are not specific to them. \n-- *Forbidden* components correspond to genes that cannot belong to a defined subtype and are useful for distinguishing closely related subtypes (e.g. CAS_Class2-Subtype-II-A, CAS_Class2-Subtype-II-C).\n-\n-Cas systems are identified at the type or subtype level using increasingly specific system descriptions. Atypical systems (i.e. not respecting any of the previously defined rules) or degraded systems (i.e. not allowing to distinguish the type of the system) are identified as **CAS_Clusters**. As CRISPR-Cas systems are very diverse (in terms of size and composition), the different decision rules are even more diverse, and all specifications and models are available (in the directory called **definitions**).\n-\n-> Note: All models previously defined in CasFinder v2.0.3 include in [CRISPRCasFinder](https://crisprcas.i2bc.paris-saclay.fr/CrisprCasFinder/Index) [[1]](https://doi.org/10.1093/nar/gky425) have been rewritten to be compatible with the new version of macsyfinder v2.0rc7 and updated to take into account the most recently proposed nomenclature [[2]](https://www.nature.com/articles/s41579-019-0299-x)[[3]](https://doi.org/10.1038/s41592-021-01124-4).\n-These latest versions of macsyfinder and CasFinder will be integrated in CRISPRCasFinder as soon as possible.\n-\n-> Note: Currently, macsyfinder v2.0rc4 and CasFinder v3.0.0 are used in [DefenseFinder](https://defense-finder.mdmparis-lab.com/) [[5]](https://doi.org/10.1038/s41467-022-30269-9), a program detecting a wide range of anti-phage systems, including CRISPR-Cas systems. These latest versions of macsyfinder and CasFinder will be integrated in CRISPRCasFinder as soon as possible.\n-\n-This new version : \n-\n-* provides the possibility to detect more subtypes than the previous ones\n-* greatly improves the detection of tandem systems \n-* improves the detection of degenerated and atypical sy"..b"sh\n- macsydata install CasFinder\n-```\n-to install the CasFinder package. \n-```sh\n- macsyfinder --db-type ordered_replicon \\\n-\t\t--sequence-db myproteins.fasta \\\n-\t\t--models CasFinder all \t\t\n-```\n-\n-to run the search on your favorite organism's genome (see [MacSyFinder's documentation](http://macsyfinder.readthedocs.io/en/latest/)). \n-```sh\n- macsyfinder --db-type ordered_replicon \\\n- \t--replicon-topology circular \\\n-\t\t--sequence-db myproteins.fasta \\\n-\t\t--models CasFinder all \t\t\n-```\t\n-if you are are lucky enough to deal with a **complete genome**!\n-\n-> Note: `--models CasFinder all ` is required for highest annotation specificity.\n-\n-It has to be noted that to ensure the highest annotation specificity, it is recommended to search for **all** available models (systems) in the package at once. An independent search of the subtypes (one by one) could lead to a wrong prediction, as some subtypes are very close genetically to each other.\n-> Note: `--replicon-topology circular ` is required for complete genome.\n-\n-We also strongly recommend for **complete genomes** to use the following options: --db-type ordered_replicon and --replicon-topology circular.\n-First, because if the user considers the genome as **unordered**, then only the composition of the *cas* genes in the genome will be provided and no type, subtype or CAS cluster will be offered.\n-Secondly, because the systems can be located between the end and the start of the replicon (especially in plasmids). The **circular** option solves this circularity problem.\n-\n-In this new version, all models are challenged, and those with the highest score and best completeness will be considered the best predictions.\n-It is therefore important that the parameters specified in the model_conf.xml file are not changed, at the risk of affecting the calculation of the system scores. To ensure the highest annotation specificity, the accessory and exchangeable genes weight should be 1 and the profile coverage 0.4 (as specified in the model-conf.xml file)\n-```sh\n---accessory-weight 1\n---exchangeable-weight 1\n---coverage-profile 0.4\n- ```\n-These parameters should not be changed by the user in the command line.\n-The predictions of the CRISPR-Cas systems are reported in the output file named *best_solution.tsv* (for more details, see the [MacSyFinder documentation](https://macsyfinder.readthedocs.io/en/latest/user_guide/outputs.html)).\n-\n-## References\n-\n-- [1] Couvin, D., Bernheim, A., Toffano-Nioche, C., Touchon, M., Michalik, J., N\xc3\xa9ron, B., Rocha E.P.C, Vergnaud, G., Gautheret, D., Pourcel, C. (2018)\n-CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins\n-Nucleic Acids Research, Volume 46, Issue W1, 2 July 2018, Pages W246\xe2\x80\x93W251. [doi:10.1093/nar/gky425](https://doi.org/10.1093/nar/gky425)\n-\n-- [2] Makarova, K.S., Wolf, Y.I., Iranzo, J., et al. (2020) \n- Evolutionary classification of CRISPR\xe2\x80\x93Cas systems: a burst of class 2 and derived variants. Nat Rev Microbiol 18, 67\xe2\x80\x9383 (2020). [doi:10.1038/s41579-019-0299-x](https://doi.org/10.1038/s41579-019-0299-x)\n- \n-- [3] Xu, C., Zhou, Y., Xiao, Q. et al. (2021)\n- Programmable RNA editing with compact CRISPR\xe2\x80\x93Cas13 systems from uncultivated microbes. \n- Nat Methods 18, 499\xe2\x80\x93506 (2021).[doi:10.1038/s41592-021-01124-4](https://doi.org/10.1038/s41592-021-01124-4)\n- \n-- [4] Abby, S.S., Bertrand, N., M\xc3\xa9nager, H., Touchon, M., Rocha, E.P.C (2014).\n- MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems.\n- PLoS ONE, 9 (10), pp. e110726. [doi:10.1371/journal.pone.0110726](http://dx.doi.org/10.1371/journal.pone.0110726)\n-\n-- [5] Tesson, F., Herv\xc3\xa9, A., Mordret, E., Touchon, M., d\xe2\x80\x99Humi\xc3\xa8res, C., Cury J., Bernheim, A. (2022) \n- Systematic and quantitative view of the antiviral arsenal of prokaryotes. \n- Nat Commun 13, 2561. [doi:10.1038/s41467-022-30269-9](https://doi.org/10.1038/s41467-022-30269-9)\n-\n-\n"

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,180 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="9" vers="2.0">
-
-### cas5 ###
-<gene name="cas5a_I-A_1" presence="mandatory">
-    <exchangeables>
-        <gene name="cas5_I-A_4"/>
-        <gene name="cas5_I-A_15"/>
-        <gene name="cas5_I-A_12"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas5_I-A_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas5_I_9"/>
-    </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6_I_II_III_IV_V_VI_22" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas6_I_II_III_IV_V_VI_7"/>
-        <gene name="cas6_I_II_III_IV_V_VI_10"/>
-        <gene name="cas6_I_II_III_IV_V_VI_12"/>
-        <gene name="cas6_I_II_III_IV_V_VI_13"/>
-        <gene name="cas6_I_II_III_IV_V_VI_14"/>
-        <gene name="cas6_I_II_III_IV_V_VI_15"/>
-        <gene name="cas6_I_II_III_IV_V_VI_17"/>
-        <gene name="cas6_I_II_III_IV_V_VI_20"/>
-        <gene name="cas6_I-A_III-D_3"/>
-    </exchangeables>
-</gene>
-
-### cas8a ###
-<gene name="cas8a1_I-A_1" presence="mandatory">
-    <exchangeables>
-          <gene name="cas8a1_I-A_2"/>
-          <gene name="cas8a1_I-A_3"/>
-          <gene name="cas8a1_I-A_4"/>
-          <gene name="cas8a1_I-A_5"/>
-
-          <gene name="cas8a2_I-A_1"/>
-          <gene name="cas8a2_I-A_2"/>
-          <gene name="cas8a2_I-A_3"/>
-          <gene name="cas8a2_I-A_4"/>
-          <gene name="cas8a2_I-A_5"/>
-          <gene name="cas8a2_I-A_6"/>
-
-          <gene name="cas8a3_I-A_1"/>
-          <gene name="cas8a3_I-A_2"/>
-          <gene name="cas8a3_I-A_3"/>
-          <gene name="cas8a3_I-A_4"/>
-
-          <gene name="cas8a4_I-A_1"/>
-          <gene name="cas8a5_I-A_1"/>
-          <gene name="cas8a6_I-A_1"/>
-          <gene name="cas8a7_I-A_1"/>
-          <gene name="cas8a8_I-A_1"/>
-          <gene name="cas8a9_I-A_1"/>
-    </exchangeables>
-</gene>
-
-### csa5gr11 ###
-<gene name="csa5gr11_I-A_3" presence="mandatory">
-    <exchangeables>
-          <gene name="csa5gr11_I-A_4"/>
-          <gene name="csa5gr11_I-A_5"/>
-          <gene name="csa5gr11_I-A_6"/>
-          <gene name="csa5gr11_I-A_7"/>
-          <gene name="csa5gr11_I-A_8"/>
-          <gene name="csa5gr11_I-A_9"/>
-          <gene name="csa5gr11_I-A_10"/>
-          <gene name="csa5gr11_I-A_11"/>
-          <gene name="csa5gr11_I-A_12"/>
-          <gene name="csa5gr11_I-A_13"/>
-    </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_8" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_7"/>
-        <gene name="cas1_I_II_III_IV_V_VI_1"/>
-        <gene name="cas1_I_II_III_IV_V_VI_10"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_5" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_3"/>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-    </exchangeables>
-</gene>
-
-### cas3 ###
-<gene name="cas3_I_5" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas3_I_2"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas3HD_I_1" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas3HD_I_2"/>
-        <gene name="cas3HD_I_3"/>
-    </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I-A_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas4_I-A_2"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas4_I_II_III_IV_V_VI_4"/>
-        <gene name="cas4_I_II_III_IV_V_VI_6"/>
-        <gene name="cas4_I_II_III_IV_V_VI_7"/>
-    </exchangeables>
-</gene>
-
-### cas7 ###
-<gene name="cas7_I-A_1" presence="mandatory">
-    <exchangeables>
-        <gene name="cas7_I-A_2"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas7_I_15" presence="accessory"></gene>
-
-
-#########################
-# neutral genes
-#########################
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# casR
-<gene name="casR_I_1" presence="neutral" multi_model="1">
-    <exchangeables>
-        <gene name="casR_I_2"/>
-    </exchangeables>
-</gene>
-
-# csm6
-<gene name="csm6_III_3" presence="neutral" inter_gene_max_space="1" multi_model="1"> </gene>
-<gene name="csm6_III_6" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# other
-<gene name="PD_DExK_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="PEPT_D_III-A_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,210 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="8" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_7" presence="accessory" multi_model="1">
-      <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_1"/>
-        <gene name="cas1_I_II_III_IV_V_VI_8"/>
-        <gene name="cas1_I_II_III_IV_V_VI_10"/>
-      </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory" multi_model="1">
-      <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_1"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-      </exchangeables>
-</gene>
-
-### cas3 ###
-<gene name="cas3_I_5" presence="accessory" multi_model="1">
-      <exchangeables>
-        <gene name="cas3_I_2"/>
-        <gene name="cas3_I_7"/> #I-B
-        <gene name="cas3HD_I_1"/>
-        <gene name="cas3HD_I_3"/>
-      </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_6" presence="accessory" multi_model="1">
-      <exchangeables>
-        <gene name="cas4_I_II_III_IV_V_VI_4"/>
-        <gene name="cas4_I_II_III_IV_V_VI_1"/>
-        <gene name="cas4_I_II_III_IV_V_VI_7"/>
-      </exchangeables>
-</gene>
-
-### cas5 ###
-<gene name="cas5_I-B_6" presence="mandatory">
-      <exchangeables>
-        <gene name="cas5_I-B_2"/>
-        <gene name="cas5_I-B_1"/>
-        <gene name="cas5_I-B_7"/>
-        <gene name="cas5_I-B_8"/>
-        <gene name="cas5_I-B_10"/>
-        <gene name="cas5_I-B_14"/>
-        <gene name="cas5_I-B_17"/>
-        <gene name="cas5_I-B_19"/>
-        <gene name="cas5_I-B_20"/>
-        <gene name="cas5_I-B_22"/>
-      </exchangeables>
-</gene>
-
-<gene name="cas5_I_9" presence="accessory"></gene>
-
-
-### cas11b ###
-<gene name="cas11b_I-B_2" presence="accessory">
-    <exchangeables>
-        <gene name="cas11b_I-B_1"/>
-        <gene name="cas11b_I-B_3"/>
-    </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6_I-B_III_1" presence="accessory" multi_model="1">
-    <exchangeables>
-          <gene name="cas6_I_II_III_IV_V_VI_7"/>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_11"/> #I-B III-B
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_15"/>
-          <gene name="cas6_I_II_III_IV_V_VI_17"/>
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-          <gene name="cas6_I_II_III_IV_V_VI_21"/> # I-B
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-           <gene name="cas6_I-B_III_2"/>
-    </exchangeables>
-</gene>
-
-#### cas7 - cas7b ###
-<gene name="cas7_I-B_6" presence="mandatory">
-    <exchangeables>
-        <gene name="cas7_I-B_8"/>
-        <gene name="cas7_I-B_10"/>
-        <gene name="cas7_I-B_14"/>
-         <gene name="cas7_I-B_1"/>
-        <gene name="cas7b_I-B_1"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas7_I_15" presence="accessory">
-    <exchangeables>
-        <gene name="cas7b_I-B_I-C_2"/>
-    </exchangeables>
-</gene>
-
-### cas8 ###
-<gene name="cas8b2_I-B_2" presence="mandatory">
-    <exchangeables>
-        <gene name="cas8b10_I-B_1"/>
-        <gene name="cas8b11_I-B_1"/>
-      <gene name="cas8b12_I-B_1"/>
-      <gene name="cas8b13_I-B_1"/>
-      <gene name="cas8b1_I-B_10"/>
-      <gene name="cas8b1_I-B_11"/>
-      <gene name="cas8b1_I-B_12"/>
-      <gene name="cas8b1_I-B_13"/>
-      <gene name="cas8b1_I-B_14"/>
-      <gene name="cas8b1_I-B_2"/>
-      <gene name="cas8b1_I-B_3"/>
-      <gene name="cas8b1_I-B_4"/>
-      <gene name="cas8b1_I-B_5"/>
-      <gene name="cas8b1_I-B_7"/>
-      <gene name="cas8b1_I-B_8"/>
-      <gene name="cas8b1_I-B_9"/>
-      <gene name="cas8b2_I-B_1"/>
-      <gene name="cas8b1_I-B_1"/>
-      <gene name="cas8b2_I-B_3"/>
-      <gene name="cas8b2_I-B_4"/>
-      <gene name="cas8b2_I-B_5"/>
-      <gene name="cas8b2_I-B_6"/>
-      <gene name="cas8b2_I-B_7"/>
-      <gene name="cas8b2_I-B_8"/>
-      <gene name="cas8b2_I-B_9"/>
-      <gene name="cas8b3_I-B_1"/>
-      <gene name="cas8b3_I-B_3"/>
-      <gene name="cas8b4_I-B_1"/>
-      <gene name="cas8b5_I-B_1"/>
-      <gene name="cas8b6_I-B_1"/>
-      <gene name="cas8b7_I-B_1"/>
-      <gene name="cas8b8_I-B_1"/>
-      <gene name="cas8b9_I-B_1"/>
-    </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1" multi_model="1">
-       <exchangeables>
-            <gene name="WYL_I_II_III_IV_V_VI_4"/>
-     </exchangeables>
-</gene>
-
-# PD_DExK
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="PD_DExK_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# PrimPol
-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# TniQ
-<gene name="TniQ_I-F_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# casR
-<gene name="casR_I_1" presence="neutral" inter_gene_max_space="1" multi_model="1">
-    <exchangeables>
-        <gene name="casR_I_2"/>
-    </exchangeables>
-</gene>
-
-# RT
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"></gene>
-
-# DEDDh
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"></gene>
-
-# csx
-<gene name="csx20_I_III_1" presence="neutral" inter_gene_max_space="1" multi_model="1">
-    <exchangeables>
-        <gene name="csx20_I_III_3"/>
-        <gene name="csx1_III_11"/>
-        <gene name="csx1_III_20"/>
-        <gene name="csx1_III_9"/>
-        <gene name="csx15_I_III_1"/>
-        <gene name="csx1_III_10"/>
-    </exchangeables>
-</gene>
-
-# csm6
-<gene name="csm6_III_3" presence="neutral" inter_gene_max_space="1" multi_model="1"></gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,113 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="7" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_6" presence="accessory" multi_model="1">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_10"/>
-                <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory" multi_model="1">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_1"/>
-                <gene name="cas2_I_II_III_IV_V_VI_5"/>
-                <gene name="cas2_I_II_III_IV_V_VI_9"/>
-                <gene name="cas2_I_II_III_IV_V_VI_13"/>
-        </exchangeables>
-</gene>
-
-### cas3 ###
-<gene name="cas3_I_5" presence="accessory">
-        <exchangeables>
-                <gene name="cas3_I_2"/>
-        </exchangeables>
-</gene>
-
-<gene name="cas3HD_I_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas3HD_I_3"/>
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory" multi_model="1">
-        <exchangeables>
-                <gene name="cas4_I_II_III_IV_V_VI_4"/>
-                <gene name="cas4_I_II_III_IV_V_VI_6"/>
-                <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-### cas5 ###
-<gene name="cas5_I-C_11" presence="mandatory">
-        <exchangeables>
-                <gene name="cas5_I-C_5"/>
-        </exchangeables>
-</gene>
-
-### cas7 ###
-<gene name="cas7_I-C_13" presence="mandatory">
-        <exchangeables>
-                <gene name="cas7_I-C_7"/>
-        </exchangeables>
-</gene>
-
-<gene name="cas7b_I-B_I-C_2" presence="accessory"></gene>
-
-### cas8 ###
-<gene name="cas8c_I-C_4" presence="mandatory">
-        <exchangeables>
-                <gene name="cas8c_I-C_2"/>
-                <gene name="cas8c_I-C_3"/>
-                <gene name="cas8c_I-C_1"/>
-        </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6_I_II_III_IV_V_VI_20" presence="accessory" multi_model="1"> </gene>
-
-
-#########################
-# neutral genes
-#########################
-# RT
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"></gene>
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">
-        <exchangeables>
-                <gene name="WYL_I_II_III_IV_V_VI_4"/>
-        </exchangeables>
-</gene>
-
-# casR
-<gene name="casR_I_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="casR_I_2"/>
-    </exchangeables>
-</gene>
-
-# other
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="HEAT_CxxC_PDDEXK_I-C_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-D.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-D.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,153 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="8" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_6"/>
-        <gene name="cas1_I_II_III_IV_V_VI_7"/>
-        <gene name="cas1_I_II_III_IV_V_VI_8"/>
-        <gene name="cas1_I_II_III_IV_V_VI_10"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_1"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-    </exchangeables>
-</gene>
-
-### cas3 ###
-<gene name="cas3_I-D_4" presence="accessory"> #I-D
-    <exchangeables>
-        <gene name="cas3d_I-D_1"/>
-        <gene name="cas3d_I-D_2"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas3_I_2" presence="accessory">
-    <exchangeables>
-        <gene name="cas3_I_5"/>
-        <gene name="cas3_I_6"/> #I-D
-    </exchangeables>
-</gene>
-
-<gene name="cas3HD_I_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas3HD_I_3"/>
-    </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I-D_1" presence="mandatory"></gene>
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas4_I_II_III_IV_V_VI_4"/>
-        <gene name="cas4_I_II_III_IV_V_VI_6"/>
-        <gene name="cas4_I_II_III_IV_V_VI_7"/>
-    </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6_I-D_2" presence="mandatory"></gene>
-
-<gene name="cas6_I-A_III-D_3" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas6_I_II_III_IV_V_VI_17"/>
-        <gene name="cas6_I_II_III_IV_V_VI_15"/>
-        <gene name="cas6e_I_II_III_IV_V_VI_2"/>
-        <gene name="cas6e_I_II_III_IV_V_VI_3"/>
-        <gene name="cas6_I_II_III_IV_V_VI_7"/>
-        <gene name="cas6_I_II_III_IV_V_VI_10"/>
-        <gene name="cas6_I_II_III_IV_V_VI_12"/>
-        <gene name="cas6_I_II_III_IV_V_VI_13"/>
-        <gene name="cas6_I_II_III_IV_V_VI_14"/>
-        <gene name="cas6_I_II_III_IV_V_VI_20"/>
-        <gene name="cas6_I_II_III_IV_V_VI_22"/>
-    </exchangeables>
-</gene>
-
-### cas10 ###
-<gene name="cas10d_I-D_3" presence="mandatory">
-       <exchangeables>
-          <gene name="cas10d_I-D_2"/>
-          <gene name="cas10d_I-D_1"/>
-          <gene name="cas10d_I-D_4"/>
-          <gene name="cas10d_I-D_5"/>
-          <gene name="cas10d_I-D_7"/>
-          <gene name="cas10d_I-D_8"/>
-          <gene name="cas10d_I-D_9"/>
-      </exchangeables>
-</gene>
-
-### cas11 ###
-<gene name="cas11d_I-D_1" presence="accessory"></gene>
-
-### csc1gr5 - cas5 ###
-<gene name="csc1gr5_I-D_2" presence="mandatory">
-    <exchangeables>
-        <gene name="csc1gr5_I-D_1"/>
-        <gene name="csc1gr5_I-D_3"/>
-        <gene name="csc1gr5_I-D_4"/>
-        <gene name="csc1gr5_I-D_5"/>
-    </exchangeables>
-</gene>
-
-### csc2gr7_I-D_1 - cas7 ###
-<gene name="csc2gr7_I-D_1" presence="mandatory"> </gene>
-
-# HTH
-<gene name="HTH_I-D_2" presence="accessory"> </gene>
-#########################
-# neutral genes
-#########################
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1" multi_model="1">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# casR
-<gene name="casR_I_1" presence="neutral" inter_gene_max_space="1" multi_model="1">
-    <exchangeables>
-        <gene name="casR_I_2"/>
-    </exchangeables>
-</gene>
-
-# PD_DExK
-<gene name="PD_DExK_I_II_III_IV_V_VI_5" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="PD_DExK_I_II_III_IV_V_VI_1"/>
-        <gene name="PD_DExK_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# other
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="HEAT_CxxC_PDDEXK_I-C_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="csx15_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-E.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-E.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,135 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="8" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I-E_1" presence="mandatory"></gene>
-
-### cas2 ###
-<gene name="cas2_I-E_1" presence="accessory">
-      <exchangeables>
-         <gene name="cas2_I-E_2"/> #I-E
-         <gene name="cas2_I_II_III_IV_V_VI_4"/>  #I-E
-         <gene name="cas2_I_II_III_IV_V_VI_5"/>
-         <gene name="cas2_I_II_III_IV_V_VI_9"/>
-         <gene name="cas2_I_II_III_IV_V_VI_1"/>
-         <gene name="cas2_I_II_III_IV_V_VI_13"/>
-      </exchangeables>
-</gene>
-
-### cas3 ###
-<gene name="cas3_I_5" presence="accessory" multi_model="1">
-      <exchangeables>
-         <gene name="cas3_I_2"/>
-      </exchangeables>
-</gene>
-
-<gene name="cas3HD_I-E_4" presence="accessory">
-      <exchangeables>
-         <gene name="cas3HD_I_1"/>
-         <gene name="cas3HD_I_3"/>
-      </exchangeables>
-</gene>
-
-### cas5 ###
-<gene name="cas5_I-E_3" presence="mandatory">
-      <exchangeables>
-         <gene name="cas5_I-E_13"/>
-         <gene name="cas5_I-E_2"/>
-      </exchangeables>
-</gene>
-
-<gene name="cas5_I_9" presence="accessory"></gene>
-
-### cas7 ###
-<gene name="cas7_I-E_16" presence="mandatory">
-     <exchangeables>
-        <gene name="cas7_I-E_2"/>
-     </exchangeables>
-</gene>
-
-### cas8 ###
-<gene name="cas8e_I-E_1" presence="mandatory">
-     <exchangeables>
-        <gene name="cas8e_I-E_2"/>
-        <gene name="cas8e_I-E_3"/>
-        <gene name="cas8e_I-E_4"/>
-        <gene name="cas8e_I-E_5"/>
-     </exchangeables>
-</gene>
-
-### cse2gr11 - cas11 ###
-<gene name="cse2gr11_I-E_2" presence="mandatory">
-     <exchangeables>
-        <gene name="cse2gr11_I-E_1"/>
-        <gene name="cse2gr11_I-E_3"/>
-        <gene name="cse2gr11_I-E_4"/>
-        <gene name="cse2gr11_I-E_5"/>
-        <gene name="cse2gr11_I-E_6"/>
-        <gene name="cse2gr11_I-E_7"/>
-        <gene name="cse2gr11_I-E_8"/>
-     </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6e_I_II_III_IV_V_VI_1" presence="mandatory">
-    <exchangeables>
-          <gene name="cas6e_I_II_III_IV_V_VI_2"/>
-          <gene name="cas6e_I_II_III_IV_V_VI_3"/>
-    </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_6" presence="accessory">
-    <exchangeables>
-          <gene name="cas4_I_II_III_IV_V_VI_1"/>
-    </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-# RT
-<gene name="RT_I-E_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="RT_I_II_III_IV_V_VI_1"/>
-    </exchangeables>
-</gene>
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# DEDDh
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# casR
-<gene name="casR_I_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="casR_I_2"/>
-    </exchangeables>
-</gene>
-
-# PrimPol
- <gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-F.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-F.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,113 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="6" vers="2.0">
-
-# cas1
-<gene name="cas1_I-F_1" presence="mandatory"></gene>
-
-# cas3
-<gene name="cas3f_I-F_1" presence="mandatory"> </gene>
-
-<gene name="cas3_I_5" presence="accessory">
-      <exchangeables>
-         <gene name="cas3_I_2"/>
-         <gene name="cas3HD_I_1"/>
-         <gene name="cas3HD_I_3"/>
-      </exchangeables>
-</gene>
-
-# cas5
-<gene name="cas5f_I-F_4" presence="mandatory">
-      <exchangeables>
-        <gene name="cas5f_I-F_1"/>
-        <gene name="cas5f_I-F_2"/>
-        <gene name="cas5f_I-F_3"/>
-        <gene name="cas5_I-F_16"/>
-      </exchangeables>
-</gene>
-
-<gene name="cas5_I_9" presence="accessory"></gene>
-
-# cas7
-<gene name="cas7f_I-F_3" presence="mandatory">
-      <exchangeables>
-        <gene name="cas7f_I-F_1"/>
-        <gene name="cas7f_I-F_2"/>
-        <gene name="cas7_I-F_11"/>
-      </exchangeables>
-</gene>
-
-# cas8
-<gene name="cas8f_I-F_8" presence="mandatory">
-     <exchangeables>
-        <gene name="cas8f_I-F_2"/>
-        <gene name="cas8f_I-F_3"/>
-        <gene name="cas8f_I-F_4"/>
-        <gene name="cas8f_I-F_5"/>
-        <gene name="cas8f_I-F_6"/>
-        <gene name="cas8f_I-F_7"/>
-     </exchangeables>
-</gene>
-
-# cas6
-<gene name="cas6f_I_II_III_IV_V_VI_3" presence="accessory" multi_model="1">
-       <exchangeables>
-           <gene name="cas6f_I_II_III_IV_V_VI_2"/>
-          <gene name="cas6f_I_II_III_IV_V_VI_1"/>
-      </exchangeables>
-</gene>
-
-
-#########################
-# neutral genes
-#########################
-# cas2
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="neutral">
-       <exchangeables>
-         <gene name="cas2_I_II_III_IV_V_VI_3"/>
-         <gene name="cas2_I_II_III_IV_V_VI_5"/>
-         <gene name="cas2_I_II_III_IV_V_VI_9"/>
-         <gene name="cas2_I_II_III_IV_V_VI_13"/>
-    </exchangeables>
-</gene>
-
-# DEDDh
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# TniQ
-<gene name="TniQ_I-F_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# casR
-<gene name="casR_I_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="casR_I_2"/>
-    </exchangeables>
-</gene>
-
-# PD_DExK
-<gene name="PD_DExK_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# RT
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-G.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-I-G.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,107 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="6" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_10" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_2"/>
-                <gene name="cas1_I_II_III_IV_V_VI_6"/>
-                <gene name="cas1_I_II_III_IV_V_VI_7"/>
-                <gene name="cas1_I_II_III_IV_V_VI_8"/>
-                <gene name="cas1_I_II_III_IV_V_VI_1"/>
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_1"/>
-                <gene name="cas2_I_II_III_IV_V_VI_5"/>
-                <gene name="cas2_I_II_III_IV_V_VI_9"/>
-                <gene name="cas2_I_II_III_IV_V_VI_13"/>
-        </exchangeables>
-</gene>
-
-### cas3 ###
-<gene name="cas3_I-G_3" presence="mandatory"></gene>
-
-<gene name="cas3_I_2" presence="accessory">
-        <exchangeables>
-                <gene name="cas3_I_5"/>
-                <gene name="cas3HD_I_1"/>
-                <gene name="cas3HD_I_3"/>
-        </exchangeables>
-</gene>
-
-### cas5 ###
-<gene name="cas5u_I-G_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas5u_I-G_2"/>
-                <gene name="csb2gr5_I-G_1"/>
-                <gene name="csb2gr5_I-G_2"/>
-        </exchangeables>
-</gene>
-
-### cas7 ###
-<gene name="cas7_I-G_4" presence="mandatory">
-        <exchangeables>
-                <gene name="cas7_I-G_9"/>
-                <gene name="csb1gr7_I-G_1"/>
-        </exchangeables>
-</gene>
-
-### cas8 ###
-<gene name="cas8u1_I-G_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas8u1_I-G_2"/>
-                <gene name="cas8u2_I-G_1"/>
-                <gene name="cas8u2_I-G_2"/>
-                <gene name="cas8u2_I-G_3"/>
-        </exchangeables>
-</gene>
-
-### csb3 ###
-<gene name="csb3_I-G_1" presence="mandatory"> </gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas4_I_II_III_IV_V_VI_4"/>
-                <gene name="cas4_I_II_III_IV_V_VI_6"/>
-                <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6e_I_II_III_IV_V_VI_3" presence="accessory"></gene>
-
-#########################
-# neutral genes
-#########################
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">
-        <exchangeables>
-                <gene name="WYL_I_II_III_IV_V_VI_4"/>
-        </exchangeables>
-</gene>
-
-# DEDDh
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,256 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="9" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_10" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_5"/>
-        <gene name="cas1_I_II_III_IV_V_VI_7"/>
-        <gene name="cas1_I_II_III_IV_V_VI_8"/>
-        <gene name="cas1_I_II_III_IV_V_VI_1"/>
-        <gene name="cas1_III_1"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_5" presence="accessory" multi_model="1">
-    <exchangeables>
-         <gene name="cas2_I_II_III_IV_V_VI_1"/>
-         <gene name="cas2_I_II_III_IV_V_VI_3"/>
-         <gene name="cas2_I_II_III_IV_V_VI_6"/>
-         <gene name="cas2_I_II_III_IV_V_VI_8"/>
-         <gene name="cas2_I_II_III_IV_V_VI_9"/>
-         <gene name="cas2_I_II_III_IV_V_VI_13"/>
-    </exchangeables>
-</gene>
-
-### cas10 ###
-<gene name="cas10_III-A_1" presence="mandatory">
-    <exchangeables>
-        <gene name="cas10_III-A_2"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas10_III_7" presence="accessory"  multi_model="1"></gene>
-
-#### csm4gr5 - cas5 ###
-<gene name="csm4gr5_III-A_3" presence="mandatory">
-    <exchangeables>
-         <gene name="csm4gr5_III-A_1"/>
-         <gene name="csm4gr5_III-A_5"/>
-    </exchangeables>
-</gene>
-
-<gene name="csm4gr5_III-A_2" presence="mandatory"> </gene>
-
-### csm2gr11 - cas11 ###
-<gene name="csm2gr11_III-A_15" presence="mandatory">
-    <exchangeables>
-         <gene name="csm2gr11_III-A_2"/>
-         <gene name="csm2gr11_III-A_3"/>
-         <gene name="csm2gr11_III-A_11"/>
-         <gene name="csm2gr11_III-A_12"/>
-         <gene name="csm2gr11_III-A_13"/>
-         <gene name="csm2gr11_III-A_14"/>
-         <gene name="csm2gr11_III-A_1"/>
-    </exchangeables>
-</gene>
-
-### csm3gr7 - cas7 ###
-<gene name="csm3gr7_III-A_1" presence="mandatory">
-    <exchangeables>
-            <gene name="csm3gr7_III-A_2"/>
-    </exchangeables>
-</gene>
-
-<gene name="csm3gr7_III-A_III-D_10" presence="accessory">
-    <exchangeables>
-         <gene name="csm3gr7_III-A_III-D_10"/>
-         <gene name="csm3gr7_III-A_III-D_2"/>
-         <gene name="csm3gr7_III_1"/>
-    </exchangeables>
-</gene>
-
-<gene name="csm3gr7_III_IV" presence="accessory"></gene>
-
-### csm5grp7 - cas7 ###
-<gene name="csm5gr7_III-A_1" presence="mandatory"></gene>
-
-<gene name="csm5gr7_III-A_2" presence="mandatory">
-    <exchangeables>
-         <gene name="csm5gr7_III-A_3"/>
-         <gene name="csm5gr7_III-A_4"/>
-    </exchangeables>
-</gene>
-
-### csm6 ###
-<gene name="csm6_III_2" presence="accessory" inter_gene_max_space="2" multi_model="1">
-    <exchangeables>
-         <gene name="csm6_III_8"/>
-         <gene name="csm6_III_3"/>
-         <gene name="csm6_III_4"/>
-         <gene name="csm6_III_1"/>
-         <gene name="csm6_III_6"/>
-         <gene name="csm6_III_5"/>
-         <gene name="csm6_III_7"/>
-    </exchangeables>
-</gene>
-
-### csx22 ###
-<gene name="csx22_III-A_1" presence="accessory"></gene>
-
-### csx1 ###
-<gene name="csx1_III_10" presence="accessory"  inter_gene_max_space="1" multi_model="1">
-    <exchangeables>
-         <gene name="csx1_III_16"/>
-         <gene name="csx1_III_19"/>
-         <gene name="csx1_III_11"/>
-         <gene name="csx1_III_9"/>
-         <gene name="csx1_III_1"/>
-         <gene name="csx1_III_21"/>
-         <gene name="csx1_III_3"/>
-         <gene name="csx1_III_5"/>
-         <gene name="csx1_III_8"/>
-         <gene name="csx1_III_7"/>
-         <gene name="csx1_III_13"/>
-         <gene name="csx1_III_17"/>
-         <gene name="csx1_III_12"/>
-         <gene name="csx1_III_4"/>
-         <gene name="csx1_III_2"/>
-         <gene name="csx1_III_20"/>
- </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6_I_II_III_IV_V_VI_15" presence="accessory" multi_model="1">
-       <exchangeables>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_16"/> #IIIA
-          <gene name="cas6_I_II_III_IV_V_VI_17"/>
-          <gene name="cas6_III_1"/>
-          <gene name="cas6_I_II_III_IV_V_VI_19"/> #IIIA
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-          <gene name="cas6_I-B_III_1"/>
-           <gene name="cas6_I_II_III_IV_V_VI_7"/>
-      </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_4" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas4_I_II_III_IV_V_VI_1"/>
-        <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        <gene name="cas4_I_II_III_IV_V_VI_6"/>
-    </exchangeables>
-</gene>
-
-### TPR ###
-<gene name="TPR_III-A_2" presence="accessory"> </gene>
-<gene name="TPR_III-A_4" presence="accessory"> </gene>
-
-### csx23 ###
-<gene name="csx23_III-D_III-A_1" presence="accessory"></gene>
-
-
-#########################
-# forbidden genes
-#########################
-
-# cas11
-<gene name="SSgr11_III-F_1" presence="forbidden">
-    <exchangeables>
-        <gene name="SSgr11_III-F_2"/>
-    </exchangeables>
-</gene>
-
-
-#########################
-# neutral genes
-#########################
-
-# csx3
-<gene name="csx3_I_III_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="csx3_I_III_3"/>
-        <gene name="csx3_I_III_4"/>
-    </exchangeables>
-</gene>
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_2"/>
-        <gene name="WYL_I_II_III_IV_V_VI_3"/>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# csx20
-<gene name="csx20_I_III_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="csx20_I_III_2"/>
-        <gene name="csx20_I_III_3"/>
-    </exchangeables>
-</gene>
-
-#casR - HTH
-<gene name="casR_III_1" presence="neutral"  multi_model="1">
-    <exchangeables>
-        <gene name="casR_I_2"/>
-    </exchangeables>
-</gene>
-<gene name="HTH_III_1" presence="neutral"   multi_model="1"></gene>
-
-# PrimPol
-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1" multi_model="1"></gene>
-
-# PEPT
-<gene name="PEPT_D_III-A_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# RT
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"></gene>
-
-# csx15
-<gene name="csx15_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-# csx16
-<gene name="csx16_III-A_1" presence="neutral" inter_gene_max_space="1">
-    <exchangeables>
-        <gene name="csx16_III_1"/>
-        <gene name="csx16_III_2"/>
-    </exchangeables>
-</gene>
-
-# PD_DExK
-<gene name="PD_DExK_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1">
-     <exchangeables>
-        <gene name="PD_DExK_I_II_III_IV_V_VI_5"/>
-        <gene name="PD_DExK_I_II_III_IV_V_VI_1"/>
-    </exchangeables>
-</gene>
-
-# other
-<gene name="csx26_III_1" presence="mandatory"> </gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,261 +0,0 @@\n-\n-\n-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="9" vers="2.0">\n-\n-### cas6 ###\n-<gene name="cas6_I_II_III_IV_V_VI_17" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas6_I_II_III_IV_V_VI_12"/>\n- <gene name="cas6_I-B_III_1"/>\n- <gene name="cas6_I-B_III_2"/>\n- <gene name="cas6_I_II_III_IV_V_VI_7"/>\n- <gene name="cas6_I_II_III_IV_V_VI_10"/>\n- <gene name="cas6_I_II_III_IV_V_VI_11"/>\n- <gene name="cas6_I_II_III_IV_V_VI_13"/>\n- <gene name="cas6_I_II_III_IV_V_VI_14"/>\n- <gene name="cas6_I_II_III_IV_V_VI_15"/>\n- <gene name="cas6_I_II_III_IV_V_VI_20"/>\n- <gene name="cas6_III_1"/>\n- <gene name="cas6_I_II_III_IV_V_VI_22"/>\n- <gene name="cas6f_I_II_III_IV_V_VI_2"/>\n- <gene name="cas6f_I_II_III_IV_V_VI_3"/>\n- </exchangeables>\n-</gene>\n-\n-### cmr1gr7 - cas7 ###\n-<gene name="cmr1gr7_III-B_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cmr1gr7_III-B_2"/> \n- <gene name="cmr1gr7_III-B_3"/> \n- <gene name="cmr1gr7_III-B_4"/> \n- <gene name="cmr1gr7_III-B_5"/> \n- </exchangeables>\n-</gene>\n-<gene name="cmr1gr7_III-B_III-C_3" presence="accessory"></gene>\n-\n-### cmr3gr5 - cas5 ###\n-<gene name="cmr3gr5_III-B_III-C_5" presence="accessory">\n- <exchangeables>\n- <gene name="cmr3gr5_III-B_III-C_8"/>\n- <gene name="cmr3gr5_III-B_III-C_4"/>\n- <gene name="cmr3gr5_III-B_III-C_2"/>\n- <gene name="cmr3gr5_III-B_III-C_1"/>\n- <gene name="cmr3gr5_III-B_III-C_6"/>\n- <gene name="cmr3gr5_III-B_III-C_3"/>\n- </exchangeables>\n-</gene>\n-\n-### cmr4gr7 - cas7 ###\n-<gene name="cmr4gr7_III-B_III-C_2" presence="accessory">\n- <exchangeables>\n- <gene name="cmr4gr7_III-B_III-C_1"/>\n- </exchangeables>\n-</gene>\n-\n-### cmr5gr11 - cas11 ###\n-<gene name="cmr5gr11_III-B_18" presence="mandatory">\n- <exchangeables>\n- <gene name="cmr5gr11_III-B_5"/>\n- <gene name="cmr5gr11_III-B_12"/>\n- <gene name="cmr5gr11_III-B_15"/>\n- <gene name="cmr5gr11_III-B_4"/>\n- <gene name="cmr5gr11_III-B_6"/>\n- <gene name="cmr5gr11_III-B_7"/>\n- <gene name="cmr5gr11_III-B_8"/>\n- <gene name="cmr5gr11_III-B_9"/>\n- <gene name="cmr5gr11_III-B_3"/>\n- <gene name="cmr5gr11_III-B_13"/>\n- <gene name="cmr5gr11_III-B_2"/>\n- <gene name="cmr5gr11_III-B_16"/>\n- <gene name="cmr5gr11_III-B_17"/>\n- <gene name="cmr5gr11_III-B_1"/>\n- </exchangeables>\n-</gene>\n-\n-### cas10 ###\n-<gene name="cas10_III-B_12" presence="mandatory">\n- <exchangeables>\n- <gene name="cas10_III-B_8"/>\n- </exchangeables>\n-</gene>\n-\n-<gene name="cas10_III_1" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas10_III_6"/>\n- </exchangeables>\n-</gene>\n-\n-<gene name="cas10_III_7" presence="accessory" multi_model="1"> </gene>\n-<gene name="cas10_III-C_3" presence="forbidden"></gene>\n-\n-### cmr6gr7 - cas7 ###\n-<gene name="cmr6gr7_III-B_1" presence="mandatory"> \n- <exchangeables>\n- <gene name="cmr6gr7_III-B_2"/>\n- <gene name="cmr6gr7_III-B_3"/>\n- </exchangeables>\n-</gene>\n-\n-### cmr7 ###\n-<gene name="cmr7_III-B_1" presence="mandatory"> </gene>\n-\n-\n-### casR ###\n-<gene name="casR_III-B_9" presence="accessory" multi_model="1">\n- <exchangeables>'..b'_14"/>\n- <gene name="csx1_III_15"/>\n- <gene name="csx1_III_20"/>\n- </exchangeables>\n-</gene>\n-\n-### cas1 ###\n-<gene name="cas1_III_1" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas1_I_II_III_IV_V_VI_10"/>\n- <gene name="cas1_I_II_III_IV_V_VI_2"/>\n- <gene name="cas1_I_II_III_IV_V_VI_5"/>\n- <gene name="cas1_I_II_III_IV_V_VI_6"/>\n- <gene name="cas1_I_II_III_IV_V_VI_7"/>\n- <gene name="cas1_I_II_III_IV_V_VI_8"/>\n- <gene name="cas1_I_II_III_IV_V_VI_1"/>\n- </exchangeables>\n-</gene>\n-\n-### cas2 ###\n-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas2_I_II_III_IV_V_VI_13"/>\n- <gene name="cas2_I_II_III_IV_V_VI_5"/>\n- <gene name="cas2_I_II_III_IV_V_VI_9"/>\n- <gene name="cas2_I_II_III_IV_V_VI_1"/>\n- <gene name="cas2_I_II_III_IV_V_VI_6"/>\n- <gene name="cas2_I_II_III_IV_V_VI_8"/>\n- </exchangeables>\n-</gene>\n-\n-### cas4 ###\n-<gene name="cas4_I_II_III_IV_V_VI_4" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas4_I_II_III_IV_V_VI_1"/>\n- <gene name="cas4_I_II_III_IV_V_VI_7"/>\n- <gene name="cas4_I_II_III_IV_V_VI_6"/>\n- </exchangeables>\n-</gene>\n-\n-### corA ###\n-<gene name="corA_III-B_2" presence="accessory">\n- <exchangeables>\n- <gene name="DHH_CorA_III-B_III-D_1"/>\n- </exchangeables>\n-</gene>\n-\n-### csx18 ###\n-<gene name="csx18_III_1" presence="accessory"> </gene>\n-\n-# csm6\n-<gene name="csm6_III_3" presence="accessory" multi_model="1"> \n- <exchangeables>\n- <gene name="csm6_III_6"/>\n- <gene name="csm6_III_5"/>\n- </exchangeables>\n-</gene>\n-<gene name="csm6_III_7" presence="accessory"></gene>\n-\n-# PrimPol\n-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="accessory" inter_gene_max_space="1" multi_model="1"> </gene>\n-\n-# csm3\n-<gene name="csm3gr7_III_IV" presence="accessory"></gene>\n-\n-#########################\n-# neutral genes\n-#########################\n-\n-# csx16\n-<gene name="csx16_III_1" presence="neutral"></gene>\n-<gene name="csx16_III_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="corA_III-B_III-D_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# csx3\n-<gene name="csx3_I_III_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csx3_I_III_2"/>\n- <gene name="csx3_I_III_3"/>\n- <gene name="csx3_I_III_4"/>\n- </exchangeables>\n-</gene>\n-\n-# WYL\n-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="WYL_I_II_III_IV_V_VI_2"/>\n- <gene name="WYL_I_II_III_IV_V_VI_3"/>\n- <gene name="WYL_I_II_III_IV_V_VI_4"/>\n- </exchangeables>\n-</gene>\n-\n-# HTH\n-<gene name="HTH_III_1" presence="neutral" multi_model="1"> </gene>\n-\n-# RT\n-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"></gene>\n-\n-# csx20\n-<gene name="csx20_I_III_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csx20_I_III_3"/>\n- <gene name="csx20_I_III_2"/>\n- </exchangeables>\n-</gene>\n-\n-# DEDDh\n-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# PD_DexK\n-<gene name="PD_DExK_I_II_III_IV_V_VI_5" presence="neutral" inter_gene_max_space="1">\n- <exchangeables> \n- <gene name="PD_DExK_I_II_III_IV_V_VI_4"/>\n- </exchangeables> \n-</gene>\n-\n-# other\n-<gene name="csx15_I_III_1" presence="neutral" inter_gene_max_space="1" multi_model="1"> </gene>\n-<gene name="TPR_III-A_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-\n-\n-</model>\n\\ No newline at end of file\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,132 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="9" vers="2.0">
-
-### cas10 ###
-<gene name="cas10_III-C_3" presence="mandatory"></gene>
-
-### cmr1gr7 - cas7 ###
-<gene name="cmr1gr7_III-C_1" presence="mandatory"></gene>
-
-<gene name="cmr1gr7_III-B_III-C_3" presence="accessory">
-    <exchangeables>
-        <gene name="cmr1gr7_III-B_III-C_2"/>
-    </exchangeables>
-</gene>
-
-### cmr3gr5 - cas5 ###
-<gene name="cmr3gr5_III-C_1" presence="mandatory"></gene>
-
-<gene name="cmr3gr5_III-B_III-C_2" presence="accessory">
-    <exchangeables>
-        <gene name="cmr3gr5_III-B_III-C_3"/>
-        <gene name="cmr3gr5_III-B_III-C_4"/>
-        <gene name="cmr3gr5_III-B_III-C_5"/>
-        <gene name="cmr3gr5_III-B_III-C_6"/>
-        <gene name="cmr3gr5_III-B_III-C_1"/>
-        <gene name="cmr3gr5_III-B_III-C_8"/>
-    </exchangeables>
-</gene>
-
-### cmr4gr7 - cas7 ###
-<gene name="cmr4gr7_III-B_III-C_2" presence="accessory">
-    <exchangeables>
-        <gene name="cmr4gr7_III-B_III-C_1"/>
-    </exchangeables>
-</gene>
-
-### cmr5grp11 - cas11 ###
-<gene name="cmr5gr11_III-C_11" presence="mandatory">
-    <exchangeables>
-        <gene name="cmr5gr11_III-C_14"/>
-    </exchangeables>
-</gene>
-
-### cmr6gr7 - cas7 ###
-<gene name="cmr6gr7_III-C_1" presence="mandatory"></gene>
-
-### cas6 ###
-<gene name="cas6_I_II_III_IV_V_VI_17" presence="accessory" multi_model="1">
-    <exchangeables>
-          <gene name="cas6_I-B_III_1"/>
-          <gene name="cas6_I_II_III_IV_V_VI_7"/>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_15"/>
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_III_1"/>
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-    </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_10" presence="accessory" multi_model="1">
-       <exchangeables>
-         <gene name="cas1_I_II_III_IV_V_VI_2"/>
-         <gene name="cas1_I_II_III_IV_V_VI_5"/>
-         <gene name="cas1_I_II_III_IV_V_VI_6"/>
-         <gene name="cas1_I_II_III_IV_V_VI_7"/>
-         <gene name="cas1_I_II_III_IV_V_VI_8"/>
-         <gene name="cas1_I_II_III_IV_V_VI_1"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory" multi_model="1">
-       <exchangeables>
-         <gene name="cas2_I_II_III_IV_V_VI_13"/>
-         <gene name="cas2_I_II_III_IV_V_VI_5"/>
-         <gene name="cas2_I_II_III_IV_V_VI_9"/>
-         <gene name="cas2_I_II_III_IV_V_VI_1"/>
-         <gene name="cas2_I_II_III_IV_V_VI_6"/>
-    </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_4" presence="accessory" multi_model="1">
-    <exchangeables>
-        <gene name="cas4_I_II_III_IV_V_VI_1"/>
-        <gene name="cas4_I_II_III_IV_V_VI_7"/>
-    </exchangeables>
-</gene>
-
-# other
-<gene name="csm3gr7_III_IV" presence="accessory" inter_gene_max_space="1"></gene>
-<gene name="Toprim_III-C_1" presence="accessory" inter_gene_max_space="1"></gene>
-
-#########################
-# neutral genes
-#########################
-
-# csx3
-<gene name="csx3_I_III_1" presence="neutral" inter_gene_max_space="1">
-       <exchangeables>
-            <gene name="csx3_I_III_2"/>
-            <gene name="csx3_I_III_3"/>
-            <gene name="csx3_I_III_4"/>
-     </exchangeables>
-</gene>
-
-# csm6
-<gene name="csm6_III_7" presence="neutral" inter_gene_max_space="1"></gene>
-
-# other
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"></gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-D.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-D.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,289 +0,0 @@\n-\n-\n-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="10" vers="2.0">\n-\n-### cas1 ###\n-<gene name="cas1_I_II_III_IV_V_VI_10" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas1_I_II_III_IV_V_VI_2"/>\n- <gene name="cas1_I_II_III_IV_V_VI_5"/>\n- <gene name="cas1_I_II_III_IV_V_VI_6"/>\n- <gene name="cas1_I_II_III_IV_V_VI_7"/>\n- <gene name="cas1_I_II_III_IV_V_VI_8"/>\n- <gene name="cas1_I_II_III_IV_V_VI_1"/>\n- </exchangeables>\n-</gene>\n-\n-### cas2 ###\n-<gene name="cas2_I_II_III_IV_V_VI_5" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas2_I_II_III_IV_V_VI_1"/>\n- <gene name="cas2_I_II_III_IV_V_VI_3"/>\n- <gene name="cas2_I_II_III_IV_V_VI_6"/>\n- <gene name="cas2_I_II_III_IV_V_VI_9"/>\n- <gene name="cas2_I_II_III_IV_V_VI_13"/>\n- </exchangeables>\n-</gene>\n-\n-### cas10 ###\n-<gene name="cas10_III-D_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas10_III-D_2"/>\n- <gene name="cas10_III-D_3"/>\n- </exchangeables>\n-</gene> \n- \n-<gene name="cas10_III_6" presence="accessory"></gene> \n-<gene name="cas10_III_1" presence="accessory" inter_gene_max_space="2" multi_model="1"> </gene> \n-\n-### cas6 ###\n-<gene name="cas6_III-D_4" presence="mandatory">\n- <exchangeables>\n- <gene name="cas6_III-D_5"/>\n- </exchangeables>\n-</gene>\n-\n-<gene name="cas6_I_II_III_IV_V_VI_17" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas6_I_II_III_IV_V_VI_17"/>\n- <gene name="cas6_I_II_III_IV_V_VI_15"/>\n- <gene name="cas6_I_II_III_IV_V_VI_12"/>\n- <gene name="cas6_I_II_III_IV_V_VI_7"/>\n- <gene name="cas6_I_II_III_IV_V_VI_10"/>\n- <gene name="cas6_I_II_III_IV_V_VI_13"/>\n- <gene name="cas6_I_II_III_IV_V_VI_14"/>\n- <gene name="cas6_I-A_III-D_3"/>\n- <gene name="cas6_III_1"/>\n- <gene name="cas6_I_II_III_IV_V_VI_22"/>\n- <gene name="cas6_I_II_III_IV_V_VI_20"/>\n- <gene name="cas6_I-B_III_1"/>\n- </exchangeables>\n-</gene>\n-\n-### casR ###\n-<gene name="casR_III-D_10" presence="accessory">\n- <exchangeables>\n- <gene name="casR_III-D_5"/>\n- <gene name="casR_III-D_8"/>\n- <gene name="casR_III-D_6"/>\n- </exchangeables>\n-</gene>\n-\n-\n-### csm2gr11 - cas11 ###\n-<gene name="csm2gr11_III-D_5" presence="mandatory"> \n- <exchangeables>\n- <gene name="csm2gr11_III-D_7"/>\n- <gene name="csm2gr11_III-D_8"/>\n- <gene name="csm2gr11_III-D_6"/>\n- <gene name="csm2gr11_III-D_4"/>\n- <gene name="csm2gr11_III-D_9"/>\n- <gene name="csm2gr11_III-D_10"/>\n- <gene name="cas11_III-D_1"/>\n- </exchangeables>\n-</gene>\n-\n-<gene name="csm2gr11_III-A_13" presence="accessory">\n- <exchangeables>\n- <gene name="csm2gr11_III-A_11"/>\n- </exchangeables>\n-</gene>\n-\n-### csm3gr7 - cas7 ###\n-<gene name="csm3gr7_III-D_1" presence="mandatory">\n- <exchangeables>\n- <gene name="csm3gr7_III-D_2"/>\n- <gene name="csm3gr7_III-D_3"/>\n- <gene name="csm3gr7_III-D_4"/>\n- <gene name="csm3gr7_III-D_6"/>\n- <gene name="csm3gr7_III-D_7"/>\n- <gene name="csm3gr7_III-D_5"/>\n- </exchangeables>\n-</gene>\n-\n-<gene name="csm3gr7_III-A_III-D_10" presence="accessory">\n- <exchangeables>\n- <gene name="csm3gr7_III-A_III-D_2"/>\n- <gene name="csm3gr7'..b'ne name="csx1_III_11"/>\n- <gene name="csx1_III_9"/>\n- <gene name="csx1_III_1"/>\n- <gene name="csx1_III_21"/>\n- <gene name="csx1_III_3"/>\n- <gene name="csx1_III_5"/>\n- <gene name="csx1_III_8"/>\n- <gene name="csx1_III_7"/>\n- <gene name="csx1_III_13"/>\n- <gene name="csx1_III_17"/>\n- <gene name="csx1_III_12"/>\n- <gene name="csx1_III_4"/>\n- <gene name="csx1_III_2"/>\n- <gene name="csx1_III_20"/>\n- </exchangeables>\n-</gene>\n-\n-### cas4 ###\n-<gene name="cas4_I_II_III_IV_V_VI_4" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="cas4_I_II_III_IV_V_VI_1"/>\n- <gene name="cas4_I_II_III_IV_V_VI_7"/>\n- <gene name="cas4_I_II_III_IV_V_VI_6"/>\n- </exchangeables>\n-</gene>\n-\n-### csm6 ###\n-<gene name="csm6_III_2" presence="accessory" multi_model="1">\n- <exchangeables>\n- <gene name="csm6_III_8"/>\n- <gene name="csm6_III_3"/>\n- <gene name="csm6_III_4"/>\n- <gene name="csm6_III_1"/>\n- <gene name="csm6_III_6"/>\n- <gene name="csm6_III_5"/>\n- <gene name="csm6_III_7"/>\n- </exchangeables>\n-</gene>\n-\n-### csx21 ###\n-<gene name="csx21_III-D_1" presence="accessory"> \n- <exchangeables>\n- <gene name="csx21_III-D_2"/>\n- <gene name="csx21_III-D_3"/>\n- </exchangeables>\n-</gene>\n-\n-### csx23 - csx24 - csx25 \n-<gene name="csx23_III-D_III-A_1" presence="accessory"> </gene>\n-<gene name="csx24_III-D_1" presence="mandatory"> </gene>\n-<gene name="csx25_III-D_1" presence="mandatory"> </gene>\n-\n-\n-#########################\n-# neutral genes\n-#########################\n-\n-# casR\n-<gene name="casR_I_2" presence="neutral" inter_gene_max_space="1" multi_model="1"></gene> \n-\n-# corA\n-<gene name="corA_III-B_III-D_1" presence="neutral" inter_gene_max_space="1"> \n- <exchangeables>\n- <gene name="corA_III-D_3"/>\n- <gene name="corA_III-D_5"/>\n- </exchangeables>\n-</gene>\n-<gene name="DHH_CorA_III-B_III-D_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# csx20\n-<gene name="csx20_I_III_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csx20_I_III_2"/>\n- <gene name="csx20_I_III_3"/>\n- </exchangeables>\n-</gene>\n-\n-# WYL\n-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="WYL_I_II_III_IV_V_VI_2"/>\n- <gene name="WYL_I_II_III_IV_V_VI_3"/>\n- <gene name="WYL_I_II_III_IV_V_VI_4"/>\n- </exchangeables>\n-</gene>\n-\n-# csx3\n-<gene name="csx3_I_III_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csx3_I_III_2"/>\n- <gene name="csx3_I_III_3"/>\n- <gene name="csx3_I_III_4"/>\n- </exchangeables>\n-</gene>\n-\n-# csx16\n-<gene name="csx16_III_2" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csx16_III_1"/>\n- </exchangeables>\n-</gene>\n-\n-# PD_DExK\n-<gene name="PD_DExK_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="PD_DExK_I_II_III_IV_V_VI_5"/>\n- </exchangeables>\n-</gene>\n-\n-# other\n-<gene name="casR_III_1" presence="neutral" multi_model="1"></gene>\n-<gene name="HTH_III_1" presence="neutral" multi_model="1"></gene>\n-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1" multi_model="1"> </gene>\n-<gene name="PEPT_D_III-A_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="cmr3gr5_III-B_III-C_5" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx15_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx18_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-</model>\n\\ No newline at end of file\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-E.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-E.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,55 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="3" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_10" presence="accessory">
-       <exchangeables>
-         <gene name="cas1_I_II_III_IV_V_VI_2"/>
-         <gene name="cas1_I_II_III_IV_V_VI_5"/>
-         <gene name="cas1_I_II_III_IV_V_VI_6"/>
-         <gene name="cas1_I_II_III_IV_V_VI_7"/>
-         <gene name="cas1_I_II_III_IV_V_VI_8"/>
-         <gene name="cas1_I_II_III_IV_V_VI_1"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory">
-       <exchangeables>
-         <gene name="cas2_I_II_III_IV_V_VI_1"/>
-         <gene name="cas2_I_II_III_IV_V_VI_5"/>
-         <gene name="cas2_I_II_III_IV_V_VI_6"/>
-         <gene name="cas2_I_II_III_IV_V_VI_9"/>
-         <gene name="cas2_I_II_III_IV_V_VI_13"/>
-    </exchangeables>
-</gene>
-
-### cas10 ###
-<gene name="cas10_III_6" presence="accessory">
-    <exchangeables>
-         <gene name="cas10_III_1"/>
-     </exchangeables>
-</gene>
-
-### gRAMPE ###
-<gene name="gRAMP_III-E_1" presence="mandatory"> </gene>
-
-<gene name="RT_I_II_III_IV_V_VI_1" presence="accessory"> </gene>
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-F.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-III-F.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,69 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### cas10 ###
-<gene name="cas10_III-F_1" presence="mandatory"></gene>
-
-<gene name="cas10_III_6" presence="accessory">
-    <exchangeables>
-        <gene name="cas10_III-A_1"/>
-    </exchangeables>
-</gene>
-
-### cas11 ###
-<gene name="SSgr11_III-F_1" presence="mandatory">
-    <exchangeables>
-        <gene name="SSgr11_III-F_2"/>
-    </exchangeables>
-</gene>
-
-### csm3gr7 - cas7 ###
-<gene name="csm3gr7_III-A_III-D_2" presence="accessory">
-    <exchangeables>
-         <gene name="csm3gr7_III-A_III-D_10"/>
-         <gene name="csm3gr7_III_1"/>
-    </exchangeables>
-</gene>
-
-<gene name="csm3gr7_III_IV" presence="accessory"></gene>
-
-### cas5 ###
-<gene name="cas5_III-F_1" presence="mandatory"></gene>
-
-### cas6 ###
-<gene name="cas6_I_II_III_IV_V_VI_12" presence="accessory">
-    <exchangeables>
-        <gene name="cas6_I_II_III_IV_V_VI_7"/>
-        <gene name="cas6_I_II_III_IV_V_VI_10"/>
-        <gene name="cas6_I_II_III_IV_V_VI_15"/>
-        <gene name="cas6_I_II_III_IV_V_VI_13"/>
-        <gene name="cas6_I_II_III_IV_V_VI_14"/>
-        <gene name="cas6_I_II_III_IV_V_VI_16"/>
-        <gene name="cas6_I_II_III_IV_V_VI_17"/>
-        <gene name="cas6_III_1"/>
-        <gene name="cas6_I_II_III_IV_V_VI_20"/>
-        <gene name="cas6_I_II_III_IV_V_VI_22"/>
-    </exchangeables>
-</gene>
-
-
-<gene name="RT_I_II_III_IV_V_VI_1" presence="accessory"> </gene>
-<gene name="cas1_I_II_III_IV_V_VI_10" presence="neutral"> </gene>
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="neutral"> </gene>
-<gene name="csm6_III_7" presence="accessory"> </gene>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,103 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="5" vers="2.0">
-
-### csf1gr8 - cas8-like ###
-<gene name="csf1gr8_IV-A_3" presence="mandatory">
-    <exchangeables>
-        <gene name="csf1gr8_IV-A_2"/>
-        <gene name="csf1gr8_IV-A_5"/>
-        <gene name="csf1gr8_IV-A_6"/>
- </exchangeables>
-</gene>
-
-<gene name="csf1gr8_IV_1" presence="accessory"> </gene>
-
-### csf2gr7 - cas7 ###
-<gene name="csf2gr7_IV-A_1" presence="mandatory"></gene>
-<gene name="csf2gr7_IV_1" presence="accessory"></gene>
-
-### csf3gr5 - cas5 ###
-<gene name="csf3gr5_IV-A_1" presence="mandatory"> #IVA
-    <exchangeables>
-        <gene name="csf3gr5_IV-A_2"/> #IVA
-    </exchangeables>
-</gene>
-
-
-### csf4 - dinG ###
-<gene name="csf4_IV-A_1" presence="accessory"> #IVA
-    <exchangeables>
-        <gene name="csf4_IV-A1_1"/> #IVA
-        <gene name="csf4_IV-A1_2"/> #IVA
-    </exchangeables>
-</gene>
-
-
-### csf5 - cas6 ###
-<gene name="csf5gr6_IV-A_1" presence="mandatory"> </gene>
-
-<gene name="cas6e_I_II_III_IV_V_VI_3" presence="accessory">
-    <exchangeables>
-          <gene name="cas6f_I_II_III_IV_V_VI_3"/>
-          <gene name="cas6_I_II_III_IV_V_VI_15"/>
-          <gene name="cas6e_I_II_III_IV_V_VI_2"/>
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-          <gene name="cas6_I_II_III_IV_V_VI_7"/>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_11"/>
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_17"/>
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-    </exchangeables>
-</gene>
-
-
-#########################
-# forbidden genes
-#########################
-
-### csf4gr11 - cas11 ###
-<gene name="csf4gr11_IV-B_2" presence="forbidden">
-    <exchangeables>
-        <gene name="csf4gr11_IV-B_4"/>
-    </exchangeables>
-</gene>
-
-### LS ###
-<gene name="LSIVC_IV-C_1" presence="forbidden"> </gene>
-### SS ###
-<gene name="SSIVC_IV-C_1" presence="forbidden"> </gene>
-
-#########################
-# neutral genes
-#########################
-
-
-<gene name="cas1_I-F_1" presence="accessory" inter_gene_max_space="1"> </gene>
-<gene name="cas1_I-E_1" presence="accessory" inter_gene_max_space="1"> </gene>
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="csm3gr7_III_IV" presence="accessory" inter_gene_max_space="1"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="accessory" inter_gene_max_space="1"> </gene>
-
-
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,73 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### csf4gr11 - cas11 ###
-<gene name="csf4gr11_IV-B_2" presence="mandatory">
-    <exchangeables>
-        <gene name="csf4gr11_IV-B_4"/>
- </exchangeables>
-</gene>
-
-
-### csf2gr7 - cas7 ###
-<gene name="csf2gr7_IV-B_1" presence="mandatory"></gene>
-<gene name="csf2gr7_IV_1" presence="accessory"></gene>
-
-### csf3gr5 - cas5 ###
-<gene name="csf3gr5_IV-B_1" presence="mandatory"></gene>
-
-### csf1gr8 - cas8-like ###
-<gene name="csf1gr8_IV-B_1" presence="accessory">
-    <exchangeables>
-        <gene name="csf1gr8_IV-A_2"/>
-        <gene name="csf1gr8_IV-A_3"/>
-        <gene name="csf1gr8_IV-A_5"/>
-        <gene name="csf1gr8_IV-A_6"/>
-        <gene name="csf1gr8_IV_1"/>
- </exchangeables>
-</gene>
-
-### cysH-like ###
-<gene name="cysH_IV-B_1" presence="neutral"> </gene>
-
-### csf5 - cas6 ###
-<gene name="csf5gr6_IV-A_1" presence="accessory">
-       <exchangeables>
-          <gene name="cas6e_I_II_III_IV_V_VI_2"/>
-          <gene name="cas6e_I_II_III_IV_V_VI_3"/>
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-          <gene name="cas6_I_II_III_IV_V_VI_7"/>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_11"/>
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_15"/>
-          <gene name="cas6_I_II_III_IV_V_VI_17"/>
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-      </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1"> </gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,76 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="6" vers="2.0">
-
-### cas11  ###
-<gene name="cas11_IV-C_1" presence="mandatory">
-    <exchangeables>
-        <gene name="cas11_IV-C_2"/>
-        <gene name="cas11_IV-C_3"/>
-    </exchangeables>
-</gene>
-
-### SS - cas11 ###
-#<gene name="SSIVC_IV-C_1" presence="mandatory"> </gene>
-
-### cas10-like  ###
-<gene name="cas10-like_IV-C_1" presence="mandatory">
-    <exchangeables>
-        <gene name="cas10-like_IV-C_2"/>
-        <gene name="cas10-like_IV-C_3"/>
-        <gene name="cas10-like_IV-C_4"/>
-    </exchangeables>
-</gene>
-
-### LS ###
-#<gene name="LSIVC_IV-C_1" presence="mandatory"> </gene>
-
-### csf3gr5 - cas5 ###
-<gene name="csf3gr5_IV-C_4" presence="mandatory"> </gene>
-
-### csf2gr7 - cas7 ###
-<gene name="csf2gr7_IV_1" presence="accessory"> </gene>
-
-### cas6 ###
-<gene name="cas6_I_II_III_IV_V_VI_10" presence="accessory"> </gene>
-
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory">
-      <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_1"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_6"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_10"/>
-        <gene name="cas2_I_II_III_IV_V_VI_11"/>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-      </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory"> </gene>
-<gene name="cas4_I_II_III_IV_V_VI_4" presence="accessory"> </gene>
-
-
-#########################
-# neutral genes
-#########################
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral"  inter_gene_max_space="1"> </gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-D.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-D.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,82 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### recD ###
-<gene name="recD_IV-D_1" presence="mandatory"></gene>
-
-### cas6 ###
-<gene name="cas6_IV-D_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas6_IV-D_2"/>
-  </exchangeables>
-</gene>
-
-
-### csf4gr11 - cas11 ###
-<gene name="csf4gr11_IV-B_2" presence="accessory">
-    <exchangeables>
-        <gene name="csf4gr11_IV-B_4"/>
- </exchangeables>
-</gene>
-
-
-### csf2gr7 - cas7 ###
-<gene name="csf2gr7_IV-B_1" presence="mandatory"></gene>
-<gene name="csf2gr7_IV_1" presence="accessory"></gene>
-
-### csf3gr5 - cas5 ###
-<gene name="csf3gr5_IV-B_1" presence="mandatory"></gene>
-
-### csf1gr8 - cas8-like ###
-<gene name="csf1gr8_IV-A_3" presence="accessory">
-    <exchangeables>
-        <gene name="csf1gr8_IV-B_1"/>
-        <gene name="csf1gr8_IV-A_2"/>
-        <gene name="csf1gr8_IV-A_5"/>
-        <gene name="csf1gr8_IV-A_6"/>
-        <gene name="csf1gr8_IV_1"/>
- </exchangeables>
-</gene>
-
-
-### csf5 - cas6 ###
-<gene name="csf5gr6_IV-A_1" presence="accessory">
-       <exchangeables>
-          <gene name="cas6e_I_II_III_IV_V_VI_2"/>
-          <gene name="cas6e_I_II_III_IV_V_VI_3"/>
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-          <gene name="cas6_I_II_III_IV_V_VI_7"/>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_11"/>
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_15"/>
-          <gene name="cas6_I_II_III_IV_V_VI_17"/>
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-      </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-<gene name="cas1_I-E_1" presence="neutral"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-E.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Subtype-IV-E.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,71 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-
-### csf3-csf1 - cas8-cas5 ###
-<gene name="csf3-csf1_IV-E_1" presence="mandatory"> </gene>
-
-### csf2gr7 - cas7 ###
-<gene name="csf2gr7_IV_1" presence="accessory">
-    <exchangeables>
-         <gene name="csf2gr7_IV-A_1"/>
-         <gene name="csf2gr7_IV-B_1"/>
-    </exchangeables>
-</gene>
-
-
-
-### csf5 - cas6 ###
-<gene name="cas6_IV-E_1" presence="mandatory"> </gene>
-
-
-<gene name="cas6_I_II_III_IV_V_VI_15" presence="accessory">
-    <exchangeables>
-          <gene name="cas6e_I_II_III_IV_V_VI_2"/>
-          <gene name="cas6e_I_II_III_IV_V_VI_3"/>
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-          <gene name="cas6_I_II_III_IV_V_VI_7"/>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_11"/>
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_17"/>
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-    </exchangeables>
-</gene>
-
-
-## csf4 - dinG ##
-<gene name="csf4_IV-E_1" presence="accessory">
-    <exchangeables>
-        <gene name="csf4_IV-A_1"/>
-    </exchangeables>
-</gene>
-
-<gene name="cas1_I-F_1" presence="neutral"></gene>
-
-
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="csm3gr7_III_IV" presence="accessory" inter_gene_max_space="1"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="accessory" inter_gene_max_space="1"> </gene>
-
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Type-I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Type-I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,361 +0,0 @@\n-\n-\n-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="20" vers="2.0">\n-\n-### cas1 ###\n-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">\n- <exchangeables>\n- <gene name="cas1_I_II_III_IV_V_VI_2"/>\n- <gene name="cas1_I-F_1"/>\n- <gene name="cas1_I-E_1"/>\n- <gene name="cas1_I_II_III_IV_V_VI_6"/>\n- <gene name="cas1_I_II_III_IV_V_VI_7"/>\n- <gene name="cas1_I_II_III_IV_V_VI_8"/>\n- <gene name="cas1_I_II_III_IV_V_VI_10"/>\n- </exchangeables>\n-</gene>\n-\n-### cas2 ###\n-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">\n- <exchangeables>\n- <gene name="cas2_I-E_2"/>\n- <gene name="cas2_I_II_III_IV_V_VI_3"/>\n- <gene name="cas2_I_II_III_IV_V_VI_4"/>\n- <gene name="cas2_I_II_III_IV_V_VI_5"/>\n- <gene name="cas2_I_II_III_IV_V_VI_9"/>\n- <gene name="cas2_I-E_1"/>\n- <gene name="cas2_I_II_III_IV_V_VI_13"/>\n- </exchangeables>\n-</gene>\n-\n-### cas5 ###\n-<gene name="cas5_I-A_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas5_I_9"/>\n- \n- <gene name="cas5a_I-A_1"/>\n- <gene name="cas5_I-A_4"/>\n- <gene name="cas5_I-A_12"/>\n- <gene name="cas5_I-A_15"/>\n-\n- <gene name="cas5_I-B_1"/>\n- <gene name="cas5_I-B_2"/>\n- <gene name="cas5_I-B_6"/>\n- <gene name="cas5_I-B_7"/>\n- <gene name="cas5_I-B_8"/>\n- <gene name="cas5_I-B_10"/>\n- <gene name="cas5_I-B_14"/>\n- <gene name="cas5_I-B_17"/>\n- <gene name="cas5_I-B_19"/>\n- <gene name="cas5_I-B_20"/>\n- <gene name="cas5_I-B_22"/>\n-\n- <gene name="cas5_I-C_5"/>\n- <gene name="cas5_I-C_11"/>\n-\n- <gene name="csc1gr5_I-D_2"/>\n- <gene name="csc1gr5_I-D_1"/>\n- <gene name="csc1gr5_I-D_3"/>\n- <gene name="csc1gr5_I-D_4"/>\n- <gene name="csc1gr5_I-D_5"/>\n- \n- <gene name="cas5_I-E_3"/>\n- <gene name="cas5_I-E_2"/>\n- <gene name="cas5_I-E_13"/>\n-\n- <gene name="cas5f_I-F_4"/>\n- <gene name="cas5f_I-F_1"/>\n- <gene name="cas5f_I-F_2"/>\n- <gene name="cas5f_I-F_3"/>\n- <gene name="cas5_I-F_16"/>\n-\n- <gene name="cas5u_I-G_1"/>\n- <gene name="cas5u_I-G_2"/>\n- <gene name="csb2gr5_I-G_1"/>\n- <gene name="csb2gr5_I-G_2"/>\n- </exchangeables>\n-</gene>\n-\n-### cas6 ###\n-<gene name="cas6_I_II_III_IV_V_VI_7" presence="accessory" >\n- <exchangeables>\n- <gene name="cas6e_I_II_III_IV_V_VI_1"/>\n- <gene name="cas6e_I_II_III_IV_V_VI_2"/>\n- <gene name="cas6e_I_II_III_IV_V_VI_3"/>\n-\n- <gene name="cas6f_I_II_III_IV_V_VI_1"/>\n- <gene name="cas6f_I_II_III_IV_V_VI_2"/>\n- <gene name="cas6f_I_II_III_IV_V_VI_3"/>\n-\n- <gene name="cas6_I_II_III_IV_V_VI_10"/>\n- <gene name="cas6_I_II_III_IV_V_VI_11"/>\n- <gene name="cas6_I_II_III_IV_V_VI_12"/>\n- <gene name="cas6_I_II_III_IV_V_VI_13"/>\n- <gene name="cas6_I_II_III_IV_V_VI_14"/>\n- <gene name="cas6_I_II_III_IV_V_VI_15"/>\n- <gene name="cas6_I_II_III_IV_V_VI_17"/>\n- <gene name="cas6_I_II_III_IV_V_VI_20"/>\n- <gene name="cas6_I_II_III_IV_V_VI_21"/>\n- <gene name="cas6_I_II_III_IV_V_VI_22"/>\n-\n- <gene name="cas6_I-A_III-D_3"/>\n- \n- <ge'..b'- <gene name="csa5gr11_I-A_4"/>\n- <gene name="csa5gr11_I-A_5"/>\n- <gene name="csa5gr11_I-A_6"/>\n- <gene name="csa5gr11_I-A_7"/>\n- <gene name="csa5gr11_I-A_8"/>\n- <gene name="csa5gr11_I-A_9"/>\n- <gene name="csa5gr11_I-A_10"/>\n- <gene name="csa5gr11_I-A_11"/>\n- <gene name="csa5gr11_I-A_12"/>\n- <gene name="csa5gr11_I-A_13"/>\n-\n- <gene name="cas11b_I-B_2"/>\n- <gene name="cas11b_I-B_1"/>\n- <gene name="cas11b_I-B_3"/>\n- \n- <gene name="cas11d_I-D_1"/>\n- \n- <gene name="cse2gr11_I-E_2"/>\n- <gene name="cse2gr11_I-E_1"/>\n- <gene name="cse2gr11_I-E_3"/>\n- <gene name="cse2gr11_I-E_4"/>\n- <gene name="cse2gr11_I-E_5"/>\n- <gene name="cse2gr11_I-E_6"/>\n- <gene name="cse2gr11_I-E_7"/>\n- <gene name="cse2gr11_I-E_8"/> \n- </exchangeables>\n-</gene>\n-\n-### cas10 ###\n-<gene name="cas10d_I-D_3" presence="mandatory">\n- <exchangeables>\n- <gene name="cas10d_I-D_2"/>\n- <gene name="cas10d_I-D_1"/>\n- <gene name="cas10d_I-D_4"/>\n- <gene name="cas10d_I-D_5"/>\n- <gene name="cas10d_I-D_7"/>\n- <gene name="cas10d_I-D_8"/>\n- <gene name="cas10d_I-D_9"/>\n- </exchangeables>\n-</gene>\n-\n-\n-#########################\n-# neutral genes\n-#########################\n-\n-### cas3 ###\n-<gene name="cas3_I_5" presence="neutral">\n- <exchangeables>\n- <gene name="cas3_I_2"/>\n- <gene name="cas3_I_6"/>\n- <gene name="cas3_I_7"/>\n- <gene name="cas3HD_I_1"/>\n- <gene name="cas3HD_I_2"/>\n- <gene name="cas3HD_I_3"/>\n- <gene name="cas3d_I-D_1"/>\n- <gene name="cas3d_I-D_2"/>\n- <gene name="cas3f_I-F_1"/>\n- <gene name="cas3_I-G_3"/>\n- <gene name="cas3_I-D_4"/>\n- </exchangeables>\n-</gene>\n-\n-### cas4 ###\n-<gene name="cas4_I_II_III_IV_V_VI_1" presence="neutral">\n- <exchangeables>\n- <gene name="cas4_I-A_2"/>\n- <gene name="cas4_I-D_1"/>\n- <gene name="cas4_I_II_III_IV_V_VI_4"/>\n- <gene name="cas4_I-A_1"/>\n- <gene name="cas4_I_II_III_IV_V_VI_6"/>\n- <gene name="cas4_I_II_III_IV_V_VI_7"/>\n- </exchangeables>\n-</gene>\n-\n-# casR\n-<gene name="casR_I_1" presence="neutral"> \n- <exchangeables>\n- <gene name="casR_I_2"/>\n- </exchangeables>\n-</gene>\n-\n-<gene name="csb3_I-G_1" presence="accessory"> </gene>\n-\n-# WYL\n-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="WYL_I_II_III_IV_V_VI_4"/>\n- </exchangeables>\n-</gene>\n-\n-# PD_DExK\n-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="PD_DExK_I_II_III_IV_V_VI_4"/>\n- <gene name="PD_DExK_I_II_III_IV_V_VI_5"/>\n- </exchangeables>\n-</gene>\n-\n-# csx\n-<gene name="csx20_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx20_I_III_3" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx3_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx1_III_20" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx1_III_21" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx1_III_7" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# others\n-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="HEAT_CxxC_PDDEXK_I-C_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="HTH_I-D_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="PEPT_D_III-A_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-</model>\n\\ No newline at end of file\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Type-III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Type-III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,380 +0,0 @@\n-\n-\n-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="20" vers="2.0">\n-\n-### cas1 ###\n-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">\n- <exchangeables>\n- <gene name="cas1_I_II_III_IV_V_VI_2"/>\n- <gene name="cas1_I_II_III_IV_V_VI_5"/>\n- <gene name="cas1_I_II_III_IV_V_VI_6"/>\n- <gene name="cas1_I_II_III_IV_V_VI_7"/>\n- <gene name="cas1_I_II_III_IV_V_VI_8"/>\n- <gene name="cas1_I_II_III_IV_V_VI_10"/>\n- <gene name="cas1_III_1"/>\n- </exchangeables>\n-</gene>\n-\n-### cas2 ###\n-<gene name="cas2_I_II_III_IV_V_VI_5" presence="accessory">\n- <exchangeables>\n- <gene name="cas2_I_II_III_IV_V_VI_1"/>\n- <gene name="cas2_I_II_III_IV_V_VI_3"/>\n- <gene name="cas2_I_II_III_IV_V_VI_6"/>\n- <gene name="cas2_I_II_III_IV_V_VI_8"/>\n- <gene name="cas2_I_II_III_IV_V_VI_9"/>\n- <gene name="cas2_I_II_III_IV_V_VI_13"/>\n- </exchangeables>\n-</gene>\n-\n-### cas10 ###\n-<gene name="cas10_III_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas10_III-A_1"/>\n- <gene name="cas10_III-D_1"/>\n- <gene name="cas10_III-D_2"/>\n- <gene name="cas10_III_6"/>\n- <gene name="cas10_III_7"/>\n- <gene name="cas10_III-A_2"/>\n- <gene name="cas10_III-D_3"/>\n-\n- <gene name="cas10_III-F_1"/>\n- <gene name="cas10_III-B_12"/>\n- <gene name="cas10_III-B_8"/>\n- <gene name="cas10_III-C_3"/>\n- </exchangeables>\n-</gene>\n-\n-### cas5 ###\n-<gene name="csm4gr5_III-A_3" presence="mandatory">\n- <exchangeables>\n- # csm4gr5 - cas5\n- <gene name="csm4gr5_III-A_1"/>\n- <gene name="csm4gr5_III-A_5"/>\n- <gene name="cas5_III-F_1"/>\n- <gene name="csm4gr5_III-A_2"/>\n- <gene name="csm4gr5_III-D_2"/>\n-\n- # cmr3gr5 - cas5\n- <gene name="cmr3gr5_III-B_III-C_8"/>\n- <gene name="cmr3gr5_III-B_III-C_4"/>\n- <gene name="cmr3gr5_III-B_III-C_2"/>\n- <gene name="cmr3gr5_III-B_III-C_1"/>\n- <gene name="cmr3gr5_III-B_III-C_6"/>\n- <gene name="cmr3gr5_III-C_1"/>\n- <gene name="cmr3gr5_III-B_III-C_3"/>\n-\n- # csx10gr5 - cas5\n- <gene name="csx10gr5_III-D_3"/> \n- <gene name="csx10gr5_III-D_4"/>\n- <gene name="csx10gr5_III-D_5"/>\n- <gene name="csx10gr5_III-D_2"/>\n- <gene name="csx10gr5_III-D_1"/>\n- </exchangeables>\n-</gene>\n-\n-<gene name="cmr3gr5_III-B_III-C_5" presence="neutral"></gene>\n-\n-### cas6 ###\n-<gene name="cas6_I_II_III_IV_V_VI_17" presence="accessory">\n- <exchangeables>\n- <gene name="cas6_I-B_III_1"/>\n- <gene name="cas6_I-B_III_2"/>\n- <gene name="cas6_I_II_III_IV_V_VI_12"/>\n-\n- <gene name="cas6_I_II_III_IV_V_VI_7"/>\n- <gene name="cas6_I_II_III_IV_V_VI_10"/>\n- <gene name="cas6_I_II_III_IV_V_VI_11"/>\n- <gene name="cas6_I_II_III_IV_V_VI_13"/>\n- <gene name="cas6_I_II_III_IV_V_VI_14"/>\n- <gene name="cas6_I_II_III_IV_V_VI_15"/>\n- <gene name="cas6_I_II_III_IV_V_VI_16"/>\n- <gene name="cas6_III_1"/>\n- <gene name="cas6_I_II_III_IV_V_VI_19"/>\n- <gene name="cas6_I_II_III_IV_V_VI_20"/>\n- <gene name="cas6_I_II_III_IV_V_VI_22"/>\n- <gene name="cas6_I-A_III-D_3"/>\n- <gene name="cas6_III-D_4"/>\n- <gene name="cas6_III-D_5"/>\n- '..b'/gene>\n-\n-\n-#########################\n-# neutral genes\n-#########################\n-\n-# csx21\n-<gene name="csx21_III-D_1" presence="neutral"> \n- <exchangeables>\n- <gene name="csx21_III-D_2"/>\n- <gene name="csx21_III-D_3"/>\n- </exchangeables>\n-</gene>\n-\n-# csx22\n-<gene name="csx22_III-A_1" presence="neutral"> </gene>\n-<gene name="csx23_III-D_III-A_1" presence="neutral"> </gene>\n-<gene name="csx24_III-D_1" presence="neutral"> </gene>\n-<gene name="csx25_III-D_1" presence="neutral"> </gene>\n-<gene name="csx26_III_1" presence="neutral"> </gene>\n-\n-# casR\n-<gene name="casR_III-B_9" presence="neutral">\n- <exchangeables>\n- <gene name="casR_III_1"/>\n- <gene name="casR_I_2"/>\n- <gene name="casR_III-D_10"/>\n- <gene name="casR_III-D_5"/>\n- <gene name="casR_III-D_8"/>\n- <gene name="casR_III-D_6"/>\n- </exchangeables>\n-</gene>\n- cas4\n-<gene name="cas4_I_II_III_IV_V_VI_4" presence="neutral">\n- <exchangeables>\n- <gene name="cas4_I_II_III_IV_V_VI_1"/>\n- <gene name="cas4_I_II_III_IV_V_VI_7"/>\n- <gene name="cas4_I_II_III_IV_V_VI_6"/>\n- </exchangeables>\n-</gene>\n-\n-# csx18\n-<gene name="csx18_III_1" presence="accessory"> </gene>\n-\n-# DEDDh\n-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# PD_DExK\n-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="PD_DExK_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="PD_DExK_I_II_III_IV_V_VI_5" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# PrimPol\n-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# WYL\n-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="WYL_I_II_III_IV_V_VI_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="WYL_I_II_III_IV_V_VI_3" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# csx\n-<gene name="csx15_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx16_III-A_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx16_III_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx16_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx20_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx20_I_III_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx20_I_III_3" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx3_I_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx3_I_III_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx3_I_III_3" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csx3_I_III_4" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-\n-<gene name="DHH_CorA_III-B_III-D_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="HTH_III_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-<gene name="PEPT_D_III-A_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-<gene name="TPR_III-A_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="TPR_III-A_4" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-<gene name="Toprim_III-C_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-# corA\n-<gene name="corA_III-B_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="corA_III-B_III-D_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="corA_III-D_3" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="corA_III-D_5" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-\n-\n-\n-\n-\n-\n-</model>\n- \n- \n-\n-\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Type-IV.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class1-Type-IV.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,156 +0,0 @@
-
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="20" vers="2.0">
-
-### csf1gr8 - cas8-like ###
-<gene name="csf1gr8_IV-A_3" presence="mandatory">
-    <exchangeables>
-        <gene name="csf1gr8_IV-B_1"/>
-        <gene name="csf1gr8_IV-A_2"/>
-        <gene name="csf1gr8_IV-A_5"/>
-        <gene name="csf1gr8_IV-A_6"/>
-    </exchangeables>
-</gene>
-
-### csf2gr7 - cas7 ###
-<gene name="csf2gr7_IV-A_1" presence="mandatory">
-  <exchangeables>
-        <gene name="csf2gr7_IV-B_1"/>
-       <gene name="csf2gr7_IV_1"/>
-    </exchangeables>
-</gene>
-
-### csf3gr5 - cas5 ###
-<gene name="csf3gr5_IV-A_1" presence="mandatory">
-    <exchangeables>
-        <gene name="csf3gr5_IV-B_1"/>
-       <gene name="csf3gr5_IV-A_2"/>
-        <gene name="csf3gr5_IV-C_4"/>
- </exchangeables>
-</gene>
-
-<gene name="csf3-csf1_IV-E_1" presence="mandatory"> </gene>
-
-### csf5 - cas6 ###
-<gene name="csf5gr6_IV-A_1" presence="mandatory"> </gene>
-
-<gene name="cas6_I_II_III_IV_V_VI_15" presence="accessory">
-       <exchangeables>
-          <gene name="cas6e_I_II_III_IV_V_VI_2"/>
-          <gene name="cas6e_I_II_III_IV_V_VI_3"/>
-          <gene name="cas6_I_II_III_IV_V_VI_22"/>
-          <gene name="cas6_I_II_III_IV_V_VI_7"/>
-          <gene name="cas6_I_II_III_IV_V_VI_10"/>
-          <gene name="cas6_I_II_III_IV_V_VI_11"/>
-          <gene name="cas6_I_II_III_IV_V_VI_12"/>
-          <gene name="cas6_I_II_III_IV_V_VI_13"/>
-          <gene name="cas6_I_II_III_IV_V_VI_14"/>
-          <gene name="cas6_I_II_III_IV_V_VI_17"/>
-          <gene name="cas6_I_II_III_IV_V_VI_20"/>
-
-          <gene name="cas6_IV-D_1"/>
-          <gene name="cas6_IV-D_2"/>
-
-          <gene name="cas6_IV-E_1"/>
-      </exchangeables>
-</gene>
-
-### csf4gr11 - cas11 ###
-<gene name="csf4gr11_IV-B_2" presence="mandatory">
-    <exchangeables>
-       <gene name="csf4gr11_IV-B_4"/>
-        <gene name="csf4_IV-E_1"/>
- </exchangeables>
-</gene>
-
-
-### LS ###
-<gene name="LSIVC_IV-C_1" presence="mandatory"> </gene>
-
-### SS ###
-<gene name="SSIVC_IV-C_1" presence="mandatory"> </gene>
-
-### csf4 - dinG ###
-<gene name="csf4_IV-A_1" presence="accessory"> #IVA
-    <exchangeables>
-        <gene name="csf4_IV-A1_1"/> #IVA
-        <gene name="csf4_IV-A1_2"/> #IVA
-    </exchangeables>
-</gene>
-
-### cas10-like  ###
-<gene name="cas10-like_IV-C_1" presence="mandatory">
-    <exchangeables>
-        <gene name="cas10-like_IV-C_2"/>
-        <gene name="cas10-like_IV-C_3"/>
-        <gene name="cas10-like_IV-C_4"/>
-    </exchangeables>
-</gene>
-
-### cas11  ###
-<gene name="cas11_IV-C_1" presence="mandatory">
-    <exchangeables>
-        <gene name="cas11_IV-C_2"/>
-        <gene name="cas11_IV-C_3"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_3" presence="accessory">
-      <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_1"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_6"/>
-        <gene name="cas2_I_II_III_IV_V_VI_8"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_10"/>
-        <gene name="cas2_I_II_III_IV_V_VI_11"/>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-      </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory"> </gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory"> </gene>
-<gene name="recD_IV-D_1"  presence="accessory"> </gene>
-
-#########################
-# neutral genes
-#########################
-
-<gene name="csf1gr8_IV_1" presence="neutral"> </gene>
-
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_5" presence="neutral" inter_gene_max_space="1"> </gene>
-
-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral" inter_gene_max_space="1"> </gene>
-
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>
-
-<gene name="csm3gr7_III_IV" presence="neutral"> </gene>
-
-<gene name="cas1_I-F_1" presence="neutral"> </gene>
-<gene name="cas1_I-E_1" presence="neutral"> </gene>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-II-A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-II-A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,72 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_5" presence="accessory"></gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_6" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_3" />
-                <gene name="cas2_I_II_III_IV_V_VI_5" />
-                <gene name="cas2_I_II_III_IV_V_VI_1" />
-                <gene name="cas2_I_II_III_IV_V_VI_9" />
-                <gene name="cas2_I_II_III_IV_V_VI_10" />
-                <gene name="cas2_I_II_III_IV_V_VI_11" />
-                <gene name="cas2_I_II_III_IV_V_VI_13" />
-        </exchangeables>
-</gene>
-
-### cas9 ###
-<gene name="cas9_II-A_1" presence="mandatory"></gene>
-
-<gene name="cas9_II-A_II-B_II-C_3" presence="accessory">
-        <exchangeables>
-                <gene name="cas9_II-A_II-B_II-C_1"/>
-        </exchangeables>
-</gene>
-
-### csn2 ###
-<gene name="csn2_II-A_4" presence="mandatory">
-        <exchangeables>
-                <gene name="csn2_II-A_3"/>
-                <gene name="csn2_II-A_5"/>
-                <gene name="csn2_II-A_6"/>
-                <gene name="csn2_II-A_7"/>
-                <gene name="csn2_II-A_8"/>
-                <gene name="csn2_II-A_9"/>
-                <gene name="csn2_II-A_10"/>
-                <gene name="csn2_II-A_11"/>
-                <gene name="csn2_II-A_12"/>
-                <gene name="csn2_II-A_13"/>
-                <gene name="csn2_II-A_14"/>
-                <gene name="csn2_II-A_1"/>
-        </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-II-B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-II-B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,50 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory" multi_model="1"></gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_13" presence="accessory" multi_model="1">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_3" />
-                <gene name="cas2_I_II_III_IV_V_VI_5" />
-                <gene name="cas2_I_II_III_IV_V_VI_6" />
-                <gene name="cas2_I_II_III_IV_V_VI_9" />
-                <gene name="cas2_I_II_III_IV_V_VI_10" />
-                <gene name="cas2_I_II_III_IV_V_VI_11" />
-                <gene name="cas2_I_II_III_IV_V_VI_1" />
-        </exchangeables>
-</gene>
-
-### cas9 ###
-<gene name="cas9_II-B_2" presence="mandatory">
-        <exchangeables>
-                <gene name="cas9_II-B_3"/>
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory"  multi_model="1"></gene>
-
-#########################
-# neutral genes
-#########################
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-II-C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-II-C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,79 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="3" vers="2.0">
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_5" presence="accessory"></gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_6" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_5" />
-                <gene name="cas2_I_II_III_IV_V_VI_1" />
-                <gene name="cas2_I_II_III_IV_V_VI_9" />
-                <gene name="cas2_I_II_III_IV_V_VI_10" />
-                <gene name="cas2_I_II_III_IV_V_VI_11" />
-                <gene name="cas2_I_II_III_IV_V_VI_13" />
-        </exchangeables>
-</gene>
-
-### cas9 ###
-<gene name="cas9_II-A_II-B_II-C_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas9_II-A_II-B_II-C_3"/>
-                <gene name="cas9_II-C_4"/>
-        </exchangeables>
-</gene>
-
-### cas6 ###
-<gene name="cas6_I_II_III_IV_V_VI_20" presence="accessory">
-        <exchangeables>
-                <gene name="cas6_I_II_III_IV_V_VI_14" />
-        </exchangeables>
-</gene>
-
-#########################
-# forbidden genes
-#########################
-### csn2 ###
-<gene name="csn2_II-A_4" presence="forbidden">
-        <exchangeables>
-                <gene name="csn2_II-A_3"/>
-                <gene name="csn2_II-A_5"/>
-                <gene name="csn2_II-A_6"/>
-                <gene name="csn2_II-A_7"/>
-                <gene name="csn2_II-A_8"/>
-                <gene name="csn2_II-A_9"/>
-                <gene name="csn2_II-A_10"/>
-                <gene name="csn2_II-A_11"/>
-                <gene name="csn2_II-A_12"/>
-                <gene name="csn2_II-A_13"/>
-                <gene name="csn2_II-A_14"/>
-                <gene name="csn2_II-A_1"/>
-        </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,73 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### cas12 ###
-<gene name="cas12a_V-A_3" presence="mandatory">
-        <exchangeables>
-                <gene name="cas12a_V-A_1"/>
-                <gene name="cas12a_V-A_2"/>
-                <gene name="cas12a_V-A_4"/>
-        </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_2" />
-                <gene name="cas1_I_II_III_IV_V_VI_5" />
-                <gene name="cas1_I_II_III_IV_V_VI_6" />
-                <gene name="cas1_I_II_III_IV_V_VI_10" />
-                <gene name="cas1_I_II_III_IV_V_VI_8" />
-                <gene name="cas1_I_II_III_IV_V_VI_7" />
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_13" />
-                <gene name="cas2_I_II_III_IV_V_VI_5" />
-                <gene name="cas2_I_II_III_IV_V_VI_6" />
-                <gene name="cas2_I_II_III_IV_V_VI_8" />
-                <gene name="cas2_I_II_III_IV_V_VI_9" />
-                <gene name="cas2_I_II_III_IV_V_VI_10" />
-                <gene name="cas2_I_II_III_IV_V_VI_11" />
-                <gene name="cas2_I_II_III_IV_V_VI_3" />
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_V_1" presence="mandatory"></gene>
-
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas4_I_II_III_IV_V_VI_4"/>
-                <gene name="cas4_I_II_III_IV_V_VI_6"/>
-                <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,63 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="3" vers="2.0">
-
-### cas12 ###
-<gene name="cas12b1_V-B_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas12b2_V-B_2"/>
-                <gene name="cas12b2_V-B_1"/>
-        </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_2" />
-                <gene name="cas1_I_II_III_IV_V_VI_5" />
-                <gene name="cas1_I_II_III_IV_V_VI_6" />
-                <gene name="cas1_I_II_III_IV_V_VI_10" />
-                <gene name="cas1_I_II_III_IV_V_VI_8" />
-                <gene name="cas1_I_II_III_IV_V_VI_7" />
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_13" />
-                <gene name="cas2_I_II_III_IV_V_VI_5" />
-                <gene name="cas2_I_II_III_IV_V_VI_6" />
-                <gene name="cas2_I_II_III_IV_V_VI_8" />
-                <gene name="cas2_I_II_III_IV_V_VI_9" />
-                <gene name="cas2_I_II_III_IV_V_VI_10" />
-                <gene name="cas2_I_II_III_IV_V_VI_11" />
-                <gene name="cas2_I_II_III_IV_V_VI_3" />
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas4_V_1"/>
-                <gene name="cas4_I_II_III_IV_V_VI_4"/>
-                <gene name="cas4_I_II_III_IV_V_VI_6"/>
-                <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,38 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="2" vers="2.0">
-
-### cas12 ###
-<gene name="cas12c_V-C_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas12c_V-C_2"/>
-        </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-            <gene name="cas1_I_II_III_IV_V_VI_2" />
-            <gene name="cas1_I_II_III_IV_V_VI_5" />
-            <gene name="cas1_I_II_III_IV_V_VI_6" />
-            <gene name="cas1_I_II_III_IV_V_VI_10" />
-            <gene name="cas1_I_II_III_IV_V_VI_8" />
-            <gene name="cas1_I_II_III_IV_V_VI_7" />
-        </exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-D.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-D.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,34 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="2" vers="2.0">
-
-### cas12 ###
-<gene name="cas12d_V-D_1" presence="mandatory"></gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
- <exchangeables>
- <gene name="cas1_I_II_III_IV_V_VI_2" />
- <gene name="cas1_I_II_III_IV_V_VI_5" />
- <gene name="cas1_I_II_III_IV_V_VI_6" />
- <gene name="cas1_I_II_III_IV_V_VI_10" />
- <gene name="cas1_I_II_III_IV_V_VI_8" />
- <gene name="cas1_I_II_III_IV_V_VI_7" />
- </exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-E.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-E.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,62 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### cas12 ###
-<gene name="cas12e_V-E_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas12e_V-E_2"/>
-        </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_2"/>
-                <gene name="cas1_I_II_III_IV_V_VI_5"/>
-                <gene name="cas1_I_II_III_IV_V_VI_6"/>
-                <gene name="cas1_I_II_III_IV_V_VI_10"/>
-                <gene name="cas1_I_II_III_IV_V_VI_8"/>
-                <gene name="cas1_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_13"/>
-                <gene name="cas2_I_II_III_IV_V_VI_5"/>
-                <gene name="cas2_I_II_III_IV_V_VI_6"/>
-                <gene name="cas2_I_II_III_IV_V_VI_8"/>
-                <gene name="cas2_I_II_III_IV_V_VI_9"/>
-                <gene name="cas2_I_II_III_IV_V_VI_10"/>
-                <gene name="cas2_I_II_III_IV_V_VI_11"/>
-                <gene name="cas2_I_II_III_IV_V_VI_3"/>
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas4_V_1"/>
-                <gene name="cas4_I_II_III_IV_V_VI_4"/>
-                <gene name="cas4_I_II_III_IV_V_VI_6"/>
-                <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-F.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-F.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,83 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="4" vers="2.0">
-
-### cas12 ###
-<gene name="cas12f1_V-F_3" presence="mandatory"> # V_U2
-        <exchangeables>
-                <gene name="cas12f1_V-F_2"/>
-                <gene name="cas12f1_V-F_1"/>
-                <gene name="cas12f2_V-F_1"/>
-                <gene name="cas12f3_V-F_1"/> # V_U2
-                <gene name="cas12f6_V-F_1"/>
-                <gene name="cas12f7_V-F_1"/>
-                <gene name="cas12_x1_V-F_1"/>
-                <gene name="cas12_x2_V-F_1"/>
-        </exchangeables>
-</gene>
-
-<gene name="cas12f4_V-F_1" presence="accessory"></gene>  # V_U1
-
-<gene name="cas12f2_V-F_2" presence="neutral">
-        <exchangeables>
-                <gene name="cas12f2_V-F_3"/>
-        </exchangeables>
-</gene>
-
-<gene name="cas12f2_V-F_2" presence="neutral">
-        <exchangeables>
-                <gene name="cas12f2_V-F_3"/>
-        </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_2"/>
-                <gene name="cas1_I_II_III_IV_V_VI_5"/>
-                <gene name="cas1_I_II_III_IV_V_VI_6"/>
-                <gene name="cas1_I_II_III_IV_V_VI_10"/>
-                <gene name="cas1_I_II_III_IV_V_VI_8"/>
-                <gene name="cas1_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_13"/>
-                <gene name="cas2_I_II_III_IV_V_VI_5"/>
-                <gene name="cas2_I_II_III_IV_V_VI_6"/>
-                <gene name="cas2_I_II_III_IV_V_VI_8"/>
-                <gene name="cas2_I_II_III_IV_V_VI_9"/>
-                <gene name="cas2_I_II_III_IV_V_VI_10"/>
-                <gene name="cas2_I_II_III_IV_V_VI_11"/>
-                <gene name="cas2_I_II_III_IV_V_VI_3"/>
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas4_V_1"/>
-                <gene name="cas4_I_II_III_IV_V_VI_4"/>
-                <gene name="cas4_I_II_III_IV_V_VI_6"/>
-                <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-G.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-G.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,22 +0,0 @@
-
-
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="1" vers="2.0">
-
-### cas12 ###
-<gene name="cas12g_V-G_1" presence="mandatory"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-H.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-H.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,23 +0,0 @@
-
-
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="1" vers="2.0">
-
-### cas12 ###
-<gene name="cas12h_V-H_1" presence="mandatory"> </gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,22 +0,0 @@
-
-
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="1" vers="2.0">
-
-### cas12 ###
-<gene name="cas12i_V-I_1" presence="mandatory"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-K.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-V-K.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,25 +0,0 @@
-
-
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="1" vers="2.0">
-
-### cas12 ###
-<gene name="cas12k_V-K_1" presence="mandatory"> </gene> #V_U5 #V_J
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,57 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="3" vers="2.0">
-
-### cas13 ###
-<gene name="cas13a_VI-A_1" presence="mandatory"> </gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_2"/>
-                <gene name="cas1_I_II_III_IV_V_VI_5"/>
-                <gene name="cas1_I_II_III_IV_V_VI_6"/>
-                <gene name="cas1_I_II_III_IV_V_VI_10"/>
-                <gene name="cas1_I_II_III_IV_V_VI_8"/>
-                <gene name="cas1_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_13"/>
-                <gene name="cas2_I_II_III_IV_V_VI_5"/>
-                <gene name="cas2_I_II_III_IV_V_VI_6"/>
-                <gene name="cas2_I_II_III_IV_V_VI_8"/>
-                <gene name="cas2_I_II_III_IV_V_VI_9"/>
-                <gene name="cas2_I_II_III_IV_V_VI_10"/>
-                <gene name="cas2_I_II_III_IV_V_VI_11"/>
-                <gene name="cas2_I_II_III_IV_V_VI_3"/>
-        </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-# RT
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,74 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="2" vers="2.0">
-
-### cas13 ###
-<gene name="cas13b_VI-B_1" presence="mandatory">
-    <exchangeables>
-         <gene name="cas13b_VI-B_2"/>
-    </exchangeables>
-</gene>
-
-### csx28 ###
-<gene name="csx28_VI-B_1" presence="accessory"> </gene>
-
-### csx27 ###
-<gene name="csx27_VI-B_1" presence="accessory"> </gene>
-
-### tm ###
-<gene name="tm_4_VI-B_1" presence="accessory">
-    <exchangeables>
-         <gene name="tm_HEPN_VI-B_1"/>
-    </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-# cas1
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="neutral">
-       <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_5"/>
-        <gene name="cas1_I_II_III_IV_V_VI_6"/>
-        <gene name="cas1_I_II_III_IV_V_VI_10"/>
-        <gene name="cas1_I_II_III_IV_V_VI_8"/>
-        <gene name="cas1_I_II_III_IV_V_VI_7"/>
-    </exchangeables>
-</gene>
-
-# cas2
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="neutral">
-       <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_6"/>
-        <gene name="cas2_I_II_III_IV_V_VI_8"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_10"/>
-        <gene name="cas2_I_II_III_IV_V_VI_11"/>
-        <gene name="cas2_I_II_III_IV_V_VI_3"/>
-    </exchangeables>
-</gene>
-
-# other
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,22 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="1" vers="2.0">
-
-### cas13 ###
-<gene name="cas13c_VI-C_1" presence="mandatory"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-D.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-D.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,59 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="3" vers="2.0">
-
-### cas13 ###
-<gene name="cas13d_VI-D_1" presence="mandatory"> </gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_5"/>
-        <gene name="cas1_I_II_III_IV_V_VI_6"/>
-        <gene name="cas1_I_II_III_IV_V_VI_10"/>
-        <gene name="cas1_I_II_III_IV_V_VI_8"/>
-        <gene name="cas1_I_II_III_IV_V_VI_7"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_6"/>
-        <gene name="cas2_I_II_III_IV_V_VI_8"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_10"/>
-        <gene name="cas2_I_II_III_IV_V_VI_11"/>
-        <gene name="cas2_I_II_III_IV_V_VI_3"/>
-    </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-X.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-X.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,59 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="3" vers="2.0">
-
-### cas13 ###
-<gene name="cas13x_VI-X_1" presence="mandatory"> </gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_5"/>
-        <gene name="cas1_I_II_III_IV_V_VI_6"/>
-        <gene name="cas1_I_II_III_IV_V_VI_10"/>
-        <gene name="cas1_I_II_III_IV_V_VI_8"/>
-        <gene name="cas1_I_II_III_IV_V_VI_7"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_6"/>
-        <gene name="cas2_I_II_III_IV_V_VI_8"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_10"/>
-        <gene name="cas2_I_II_III_IV_V_VI_11"/>
-        <gene name="cas2_I_II_III_IV_V_VI_3"/>
-    </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-Y.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Subtype-VI-Y.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,59 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="3" vers="2.0">
-
-### cas13 ###
-<gene name="cas13y_VI-Y_1" presence="mandatory"> </gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas1_I_II_III_IV_V_VI_2"/>
-        <gene name="cas1_I_II_III_IV_V_VI_5"/>
-        <gene name="cas1_I_II_III_IV_V_VI_6"/>
-        <gene name="cas1_I_II_III_IV_V_VI_10"/>
-        <gene name="cas1_I_II_III_IV_V_VI_8"/>
-        <gene name="cas1_I_II_III_IV_V_VI_7"/>
-    </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-    <exchangeables>
-        <gene name="cas2_I_II_III_IV_V_VI_13"/>
-        <gene name="cas2_I_II_III_IV_V_VI_5"/>
-        <gene name="cas2_I_II_III_IV_V_VI_6"/>
-        <gene name="cas2_I_II_III_IV_V_VI_8"/>
-        <gene name="cas2_I_II_III_IV_V_VI_9"/>
-        <gene name="cas2_I_II_III_IV_V_VI_10"/>
-        <gene name="cas2_I_II_III_IV_V_VI_11"/>
-        <gene name="cas2_I_II_III_IV_V_VI_3"/>
-    </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Type-II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Type-II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,95 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="20" vers="2.0">
-
-### cas1 ##
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_5" />
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_3" />
-                <gene name="cas2_I_II_III_IV_V_VI_5" />
-                <gene name="cas2_I_II_III_IV_V_VI_6" />
-                <gene name="cas2_I_II_III_IV_V_VI_9" />
-                <gene name="cas2_I_II_III_IV_V_VI_10" />
-                <gene name="cas2_I_II_III_IV_V_VI_11" />
-                <gene name="cas2_I_II_III_IV_V_VI_13" />
-        </exchangeables>
-</gene>
-
-### cas9 ###
-<gene name="cas9_II-A_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas9_II-A_II-B_II-C_3"/>
-                <gene name="cas9_II-A_II-B_II-C_1"/>
-                <gene name="cas9_II-B_2"/>
-                <gene name="cas9_II-B_3"/>
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas4_I_II_III_IV_V_VI_4"/>
-                <gene name="cas4_I_II_III_IV_V_VI_6"/>
-                <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-### csn2 ###
-<gene name="csn2_II-A_3" presence="mandatory">
-        <exchangeables>
-                <gene name="csn2_II-A_4"/>
-                <gene name="csn2_II-A_5"/>
-                <gene name="csn2_II-A_6"/>
-                <gene name="csn2_II-A_7"/>
-                <gene name="csn2_II-A_8"/>
-                <gene name="csn2_II-A_9"/>
-                <gene name="csn2_II-A_10"/>
-                <gene name="csn2_II-A_11"/>
-                <gene name="csn2_II-A_12"/>
-                <gene name="csn2_II-A_13"/>
-                <gene name="csn2_II-A_14"/>
-                <gene name="csn2_II-A_1"/>
-        </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-<gene name="cas6_I_II_III_IV_V_VI_20" presence="neutral"> </gene>
-
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-<gene name="PD_DExK_I_II_III_IV_V_VI_5" presence="neutral"> </gene>
-
-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Type-V.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Type-V.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,108 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="20" vers="2.0">
-
-### cas1 ##
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-         <gene name="cas1_I_II_III_IV_V_VI_2" />
-         <gene name="cas1_I_II_III_IV_V_VI_5" />
-         <gene name="cas1_I_II_III_IV_V_VI_6" />
-         <gene name="cas1_I_II_III_IV_V_VI_10" />
-         <gene name="cas1_I_II_III_IV_V_VI_8" />
-         <gene name="cas1_I_II_III_IV_V_VI_7" />
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-         <gene name="cas2_I_II_III_IV_V_VI_13" />
-         <gene name="cas2_I_II_III_IV_V_VI_5" />
-         <gene name="cas2_I_II_III_IV_V_VI_6" />
-         <gene name="cas2_I_II_III_IV_V_VI_8" />
-         <gene name="cas2_I_II_III_IV_V_VI_9" />
-         <gene name="cas2_I_II_III_IV_V_VI_10" />
-        <gene name="cas2_I_II_III_IV_V_VI_11" />
-         <gene name="cas2_I_II_III_IV_V_VI_3" />
-        </exchangeables>
-</gene>
-
-### cas4 ###
-<gene name="cas4_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-             <gene name="cas4_I_II_III_IV_V_VI_4"/>
-             <gene name="cas4_I_II_III_IV_V_VI_6"/>
-             <gene name="cas4_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-<gene name="cas4_V_1" presence="mandatory"></gene>
-
-### cas12 ###
-<gene name="cas12a_V-A_3" presence="mandatory">
-        <exchangeables>
- <gene name="cas12a_V-A_1"/>
- <gene name="cas12a_V-A_2"/>
- <gene name="cas12a_V-A_4"/>
-
- <gene name="cas12b1_V-B_1"/>
- <gene name="cas12b2_V-B_2"/>
- <gene name="cas12b2_V-B_1"/>
-
- <gene name="cas12c_V-C_1"/>
- <gene name="cas12c_V-C_2"/>
-
-                <gene name="cas12d_V-D_1"/>
-
- <gene name="cas12e_V-E_1"/>
-         <gene name="cas12e_V-E_2"/>
-
-         <gene name="cas12f1_V-F_3"/>
-    <gene name="cas12f1_V-F_2"/>
-         <gene name="cas12f1_V-F_1"/>
-         <gene name="cas12f2_V-F_1"/>
-         <gene name="cas12f3_V-F_1"/>
-         <gene name="cas12f4_V-F_1"/>
-         <gene name="cas12f6_V-F_1"/>
-         <gene name="cas12f7_V-F_1"/>
-
-         <gene name="cas12_x1_V-F_1"/>
-         <gene name="cas12_x2_V-F_1"/>
-
-         <gene name="cas12k_V-K_1"/>
-
-                <gene name="cas12g_V-G_1"/>
-                <gene name="cas12h_V-H_1"/>
-                <gene name="cas12i_V-I_1"/>
-        </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-<gene name="cas12f2_V-F_2" presence="neutral">
-            <exchangeables>
-                <gene name="cas12f2_V-F_3"/>
-            </exchangeables>
-</gene>
-
-<gene name="PD_DExK_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-<gene name="WYL_I_II_III_IV_V_VI_4" presence="neutral"> </gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Type-VI.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Class2-Type-VI.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,86 +0,0 @@
-
-
-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="1" max_nb_genes="20" vers="2.0">
-
-### cas13 ###
-<gene name="cas13a_VI-A_1" presence="mandatory">
-        <exchangeables>
-                <gene name="cas13b_VI-B_1"/>
-                <gene name="cas13b_VI-B_2"/>
-                <gene name="cas13d_VI-D_1"/>
-        </exchangeables>
-</gene>
-
-<gene name="cas13c_VI-C_1" presence="mandatory"> </gene>
-
-### csx28 ###
-<gene name="csx28_VI-B_1" presence="accessory">
-        <exchangeables>
-                <gene name="csx28_VI-B_1"/>
-        </exchangeables>
-</gene>
-
-### tm ###
-<gene name="tm_4_VI-B_1" presence="accessory">
-        <exchangeables>
-                <gene name="tm_HEPN_VI-B_1"/>
-        </exchangeables>
-</gene>
-
-### cas1 ###
-<gene name="cas1_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas1_I_II_III_IV_V_VI_2"/>
-                <gene name="cas1_I_II_III_IV_V_VI_5"/>
-                <gene name="cas1_I_II_III_IV_V_VI_6"/>
-                <gene name="cas1_I_II_III_IV_V_VI_10"/>
-                <gene name="cas1_I_II_III_IV_V_VI_8"/>
-                <gene name="cas1_I_II_III_IV_V_VI_7"/>
-        </exchangeables>
-</gene>
-
-### cas2 ###
-<gene name="cas2_I_II_III_IV_V_VI_1" presence="accessory">
-        <exchangeables>
-                <gene name="cas2_I_II_III_IV_V_VI_13"/>
-                <gene name="cas2_I_II_III_IV_V_VI_5"/>
-                <gene name="cas2_I_II_III_IV_V_VI_6"/>
-                <gene name="cas2_I_II_III_IV_V_VI_8"/>
-                <gene name="cas2_I_II_III_IV_V_VI_9"/>
-                <gene name="cas2_I_II_III_IV_V_VI_10"/>
-                <gene name="cas2_I_II_III_IV_V_VI_11"/>
-                <gene name="cas2_I_II_III_IV_V_VI_3"/>
-        </exchangeables>
-</gene>
-
-#########################
-# neutral genes
-#########################
-
-# WYL
-<gene name="WYL_I_II_III_IV_V_VI_1" presence="neutral">
-    <exchangeables>
-        <gene name="WYL_I_II_III_IV_V_VI_4"/>
-    </exchangeables>
-</gene>
-
-# other
-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral"></gene>
-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral"> </gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Cluster.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/definitions/CAS_Cluster.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,815 +0,0 @@\n-\n-\n-<model inter_gene_max_space="3" min_mandatory_genes_required="1" min_genes_required="2" max_nb_genes="50" vers="2.0">\n-\n-### cas1 ###\n-<gene name="cas1_I_II_III_IV_V_VI_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas1_I_II_III_IV_V_VI_2"/>\n- <gene name="cas1_I-F_1"/>\n- <gene name="cas1_I-E_1"/>\n- <gene name="cas1_I_II_III_IV_V_VI_5"/>\n- <gene name="cas1_I_II_III_IV_V_VI_6"/>\n- <gene name="cas1_I_II_III_IV_V_VI_7"/>\n- <gene name="cas1_I_II_III_IV_V_VI_8"/>\n- <gene name="cas1_III_1"/>\n- <gene name="cas1_I_II_III_IV_V_VI_10"/>\n- </exchangeables>\n-</gene> \n-\n-### cas2 ###\n-<gene name="cas2_I_II_III_IV_V_VI_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas2_I-E_2"/>\n- <gene name="cas2_I_II_III_IV_V_VI_3"/>\n- <gene name="cas2_I_II_III_IV_V_VI_4"/>\n- <gene name="cas2_I_II_III_IV_V_VI_5"/>\n- <gene name="cas2_I_II_III_IV_V_VI_6"/>\n- <gene name="cas2_I_II_III_IV_V_VI_9"/>\n- <gene name="cas2_I_II_III_IV_V_VI_10"/>\n- <gene name="cas2_I_II_III_IV_V_VI_11"/>\n- <gene name="cas2_I-E_1"/>\n- <gene name="cas2_I_II_III_IV_V_VI_13"/>\n- <gene name="cas2_I_II_III_IV_V_VI_8"/>\n- </exchangeables>\n-</gene> \n-\n-### cas4 ###\n-<gene name="cas4_I_II_III_IV_V_VI_1" presence="neutral">\n- <exchangeables>\n- <gene name="cas4_I-A_2"/>\n- <gene name="cas4_I-D_1"/>\n- <gene name="cas4_I_II_III_IV_V_VI_4"/>\n- <gene name="cas4_I-A_1"/>\n- <gene name="cas4_I_II_III_IV_V_VI_6"/>\n- <gene name="cas4_I_II_III_IV_V_VI_7"/>\n- <gene name="cas4_V_1"/>\n- </exchangeables>\n-</gene> \n-\n-### cas5 ###\n-<gene name="cas5_I-A_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas5_I_9"/>\n- </exchangeables>\n-</gene>\n- \n-<gene name="cas5a_I-A_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas5_I-A_4"/>\n- <gene name="cas5_I-A_12"/>\n- <gene name="cas5_I-A_15"/>\n- </exchangeables>\n-</gene> \n-\n-<gene name="cas5_I-B_1" presence="mandatory">\n- <exchangeables>\n- <gene name="cas5_I-B_2"/>\n- <gene name="cas5_I-B_6"/>\n- <gene name="cas5_I-B_7"/>\n- <gene name="cas5_I-B_8"/>\n- <gene name="cas5_I-B_10"/>\n- <gene name="cas5_I-B_14"/>\n- <gene name="cas5_I-B_17"/>\n- <gene name="cas5_I-B_19"/>\n- <gene name="cas5_I-B_20"/>\n- <gene name="cas5_I-B_22"/>\n- </exchangeables>\n-</gene> \n-\n-<gene name="cas5_I-C_5" presence="mandatory">\n- <exchangeables>\n- <gene name="cas5_I-C_11"/>\n- </exchangeables>\n-</gene> \n-\n-<gene name="csc1gr5_I-D_2" presence="mandatory">\n- <exchangeables>\n- <gene name="csc1gr5_I-D_1"/>\n- <gene name="csc1gr5_I-D_3"/>\n- <gene name="csc1gr5_I-D_4"/>\n- <gene name="csc1gr5_I-D_5"/>\n- </exchangeables>\n-</gene> \n- \n-<gene name="cas5_I-E_3" presence="mandatory">\n- <exchangeables>\n- <gene name="cas5_I-E_13"/>\n- <gene name="cas5_I-E_2"/>\n- </exchangeables>\n-</gene> \n-\n-<gene name="cas5f_I-F_4" presence="mandatory">\n- <exchangeables>\n- <gene name="cas5f_I-F_1"/>\n- <gene name="cas5f_I-F_2"/>\n- <gene name="cas5f_I-F_3"/>\n- <gene name="cas5_I-F_16"/>\n- </exchangeables>\n-</gene> \n-\n-<gene name="cas5u_I-G_1" presence="neutral">\n- <exchangeables>\n- <gene na'..b'nce="accessory"> \n- <exchangeables>\n- <gene name="tm_HEPN_VI-B_1"/>\n- </exchangeables>\n-</gene>\n-\n-\n-\n-\n-#########################\n-# neutral genes\n-#########################\n-\n-### cas3 ###\n-<gene name="cas3_I_5" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="cas3_I_2"/>\n- <gene name="cas3_I_6"/>\n- <gene name="cas3_I_7"/>\n- <gene name="cas3HD_I_3"/>\n- <gene name="cas3d_I-D_1"/>\n- <gene name="cas3d_I-D_2"/>\n- <gene name="cas3f_I-F_1"/>\n- <gene name="cas3_I-G_3"/> \n- <gene name="cas3_I-D_4"/> \n- </exchangeables>\n-</gene> \n-\n-### csm6 ###\n-<gene name="csm6_III_2" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csm6_III_8"/>\n- <gene name="csm6_III_3"/>\n- <gene name="csm6_III_4"/>\n- <gene name="csm6_III_1"/>\n- <gene name="csm6_III_6"/>\n- <gene name="csm6_III_5"/>\n- <gene name="csm6_III_7"/>\n- </exchangeables>\n-</gene>\n-\n-\n-\n-\n-# csx\n-<gene name="csx16_III-A_1" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csx16_III_2"/>\n- <gene name="csx16_III_1"/>\n- <gene name="csx15_I_III_1"/>\n- <gene name="csx20_I_III_1"/>\n- <gene name="csx20_I_III_2"/>\n- <gene name="csx20_I_III_3"/>\n- <gene name="csx3_I_III_1"/>\n- <gene name="csx3_I_III_2"/>\n- <gene name="csx3_I_III_3"/>\n- <gene name="csx3_I_III_4"/>\n- <gene name="csx22_III-A_1"/>\n- <gene name="csx23_III-D_III-A_1"/>\n- <gene name="csx24_III-D_1"/>\n- <gene name="csx25_III-D_1"/>\n- <gene name="csx26_III_1"/>\n- <gene name="csx21_III-D_1"/> \n- <gene name="csx21_III-D_2"/>\n- <gene name="csx21_III-D_3"/>\n- </exchangeables>\n-</gene>\n-\n-### csx1 ###\n-<gene name="csx1_III_10" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="csx1_III_16"/>\n- <gene name="csx1_III_11"/>\n- <gene name="csx1_III_9"/>\n- <gene name="csx1_III_1"/>\n- <gene name="csx1_III_21"/>\n- <gene name="csx1_III_3"/>\n- <gene name="csx1_III_5"/>\n- <gene name="csx1_III_13"/>\n- <gene name="csx1_III_17"/>\n- <gene name="csx1_III_12"/>\n- <gene name="csx1_III_4"/>\n- <gene name="csx1_III_2"/>\n- <gene name="csx1_III_14"/>\n- <gene name="csx1_III_15"/>\n- <gene name="csx1_III_20"/>\n- </exchangeables>\n-</gene>\n-\n-# casR\n-<gene name="casR_I_1" presence="neutral"> \n- <exchangeables>\n- <gene name="casR_I_2"/>\n- <gene name="casR_III-B_9"/>\n- <gene name="casR_III_1"/>\n- <gene name="casR_III-D_10"/>\n- <gene name="casR_III-D_5"/>\n- <gene name="casR_III-D_8"/>\n- <gene name="casR_III-D_6"/>\n- </exchangeables>\n-</gene>\n-\n-# corA\n-<gene name="corA_III-B_2" presence="neutral" inter_gene_max_space="1">\n- <exchangeables>\n- <gene name="corA_III-B_III-D_1"/>\n- <gene name="corA_III-D_3"/>\n- <gene name="corA_III-D_5"/>\n- <gene name="DHH_CorA_III-B_III-D_1"/>\n- </exchangeables>\n-</gene>\n-\n-# others\n-<gene name="PEPT_D_III-A_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csf1gr8_IV_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="DEDDh_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="csb3_I-G_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="RT_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"></gene>\n-<gene name="PrimPol_I_II_III_IV_V_VI_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="Toprim_III-C_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="HEAT_CxxC_PDDEXK_I-C_1" presence="neutral" inter_gene_max_space="1"> </gene>\n-<gene name="HTH_I-D_2" presence="neutral" inter_gene_max_space="1"> </gene>\n-\n-\n-\n-\n-</model>\n\\ No newline at end of file\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/metadata.yml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/metadata.yml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,20 +0,0 @@
----
-maintainer:
-  name: Touchon Marie
-  email: mtouchon@pasteur.fr
-short_desc: CasFinder - Models for detection of CRISPR-Cas systems.
-vers: 3.1.0
-cite:
-- |
-  Abby SS, Néron B, Ménager H, Touchon M, Rocha EPC (2014).
-  MacSyFinder: A Program to Mine Genomes for Molecular Systems with an Application to CRISPR-Cas Systems.
-  In PLoS ONE 9(10): e110726.
-  https://doi.org/10.1371/journal.pone.0110726
-- |
-  Couvin, D., Bernheim, A., Toffano-Nioche, C., Touchon, M., Michalik, J., Néron, B., Rocha E.P.C, Vergnaud, G., Gautheret, D., Pourcel, C. (2018)
-  CRISPRCasFinder, an update of CRISRFinder, includes a portable version, enhanced performance and integrates search for Cas proteins.
-  Nucleic Acids Research, Volume 46, Issue W1, 2 July 2018, Pages W246–W251.
-  https://doi:10.1093/nar/gky425
-doc: https://github.com/macsy-models/CasFinder
-license: CC BY-NC-SA 4.0 (https://creativecommons.org/licenses/by-nc-sa/4.0/)
-copyright: 2014-2022, Institut Pasteur, CNRS

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/model_conf.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/model_conf.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,17 +0,0 @@
-<model_config>
-
-    <weights>
-        <mandatory>1</mandatory>
-        <accessory>1</accessory>
-        <exchangeable>1</exchangeable>
-        <redundancy_penalty>1</redundancy_penalty>
-    </weights>
-
-    <filtering>
-        <e_value_search>0.1</e_value_search>
-        <i_evalue_sel>0.01</i_evalue_sel>
-        <coverage_profile>0.4</coverage_profile>
-        <cut_ga>True</cut_ga>
-    </filtering>
-
-</model_config>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DEDDh_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DEDDh_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,503 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME DEDDh_I_II_III_IV_V_VI_1\n-LENG 160\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:31 2020\n-NSEQ 399\n-EFFN 8.130867\n-CKSUM 1140781171\n-GA 20.8 19.9;\n-STATS LOCAL MSV -9.8362 0.70840\n-STATS LOCAL VITERBI -10.9391 0.70840\n-STATS LOCAL FORWARD -4.3328 0.70840\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42813 4.15302 2.72861 2.61186 3.27142 2.96287 3.44580 2.81850 2.80738 2.39577 3.81194 3.16725 3.30931 3.15299 2.91191 2.76678 2.79523 2.70794 4.68244 3.61365\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.00000 *\n- 1 2.43562 2.98689 5.33550 4.71987 3.83389 4.21998 4.87128 1.69311 4.50378 1.65486 3.65522 4.43493 4.90114 4.63421 4.15124 3.59089 2.89316 1.43498 4.93636 3.94897 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 2 2.20933 3.88141 5.34158 4.72552 2.09602 3.75798 4.87234 1.86701 4.50810 2.68506 3.27505 4.70396 4.90185 4.63739 4.51269 3.02876 3.50281 1.26545 4.34943 3.92589 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 3 3.18439 4.39482 5.32561 4.71897 1.60540 4.53115 4.55501 1.86809 4.50311 1.47446 3.62228 4.69618 4.89046 4.63044 4.50654 3.71719 3.52583 1.76500 4.76300 3.99728 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 4 4.51170 6.97994 0.15343 3.57076 6.73885 4.09450 5.46182 6.44233 4.80386 5.87869 6.84829 4.15347 5.34036 4.68370 5.58947 3.88096 4.93009 5.81317 7.93169 6.34105 4 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 5 3.16734 3.37866 5.38159 4.76750 2.71184 4.58169 4.91917 2.13039 4.55194 1.58382 3.63488 4.74774 4.94259 4.68125 4.55732 3.89480 1.45733 1.86289 5.40667 4.05479 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 6 5.00977 7.34584 3.84749 0.10904 6.87833 4.93536 5.69637 6.62640 4.19516 6.00084 7.02758 4.51255 5.64814 4.92684 5.29512 4.85111 5.35783 6.14639 7.81090 6.51263 6 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 7 2.66431 5.09885 4.81762 4.28950 4.45208 4.06708 5.02778 3.79720 4.20276 3.31292 3.52381'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 153 2.82291 4.01315 3.60272 2.25374 3.62858 3.98282 4.07833 2.52800 2.67870 1.56855 3.43032 3.87596 4.64080 2.76627 2.61652 3.39359 3.16246 2.92785 4.59593 3.40928 279 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 154 1.13826 4.66271 4.04172 3.85569 3.89331 3.95842 3.80012 2.80844 3.53539 2.48360 2.70834 4.05668 4.78525 3.65829 4.05086 3.22665 2.32601 2.48144 4.99157 3.39786 280 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 155 2.42511 2.66718 4.88159 3.96183 3.91845 4.28266 4.56320 3.02213 4.16173 1.74800 3.58734 4.08079 4.83742 3.52934 4.32161 3.30474 1.12806 2.83499 5.42997 4.24070 281 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 156 1.23491 4.48526 4.61386 3.92928 3.46944 3.43559 4.38840 2.99532 3.42441 2.08432 3.47967 3.24996 4.78685 3.62770 3.14303 2.84964 3.20009 2.69038 3.98591 2.94060 282 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 157 2.71702 5.51449 2.77792 1.72385 4.45372 3.40942 3.53291 3.87548 2.03756 2.81270 3.83622 3.11450 4.36743 2.67217 2.47156 2.47849 3.37158 3.98517 4.86657 3.58999 283 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 158 2.88365 2.53085 5.34733 4.40353 3.66867 4.54586 4.54024 2.00593 4.51498 1.32541 3.39296 4.71118 4.90904 4.64465 4.36690 3.85777 3.43984 1.41278 5.37133 4.13934 284 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 159 2.78306 3.71435 5.34402 4.72786 1.61432 4.45706 4.87298 2.98930 4.51002 1.25199 3.45331 4.62321 4.90262 4.63887 4.51393 3.78862 3.47580 2.57540 3.79997 2.17986 285 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00462 5.77617 6.49851 0.61958 0.77255 0.48576 0.95510\n- 160 2.63244 4.51082 3.37018 2.58988 3.32683 3.69902 3.45195 3.13368 2.50775 2.14542 3.07115 3.04775 4.45530 2.27066 2.50661 3.05650 3.14549 2.71341 4.57679 4.11078 286 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00311 5.77466 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DHH_CorA_III-B_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DHH_CorA_III-B_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,776 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME DHH_CorA_III-B_1\n-LENG 251\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:31 2020\n-NSEQ 4\n-EFFN 0.511719\n-CKSUM 3576838888\n-GA 104.5 104.1;\n-STATS LOCAL MSV -10.5889 0.70288\n-STATS LOCAL VITERBI -11.6020 0.70288\n-STATS LOCAL FORWARD -5.2744 0.70288\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66146 4.59844 2.70100 2.44492 3.41999 2.78149 3.80018 2.72418 2.57221 2.43441 3.72471 3.01568 3.70794 3.13812 2.98797 2.75733 2.97656 2.65641 4.89569 3.32280\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24600 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.13574 2.14637 4.60289 0.38349 1.14406 0.00000 *\n- 1 2.71300 4.49333 3.41033 2.90003 3.55654 3.56579 3.82410 2.80590 2.19588 2.42723 2.04924 3.30032 3.98405 3.09079 2.82886 2.89882 2.95903 2.64404 5.04367 3.79682 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 2 2.75066 5.18003 2.05448 2.16987 4.48769 3.24680 3.63986 3.96598 2.09262 3.48882 4.30526 2.06763 3.78023 2.78736 2.96961 2.69182 3.01161 3.57042 5.65062 4.23027 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 3 3.25852 4.74424 3.85003 3.58081 2.29333 3.83944 3.62196 3.26658 3.43810 2.71846 3.94074 3.73322 4.31304 3.74221 3.62020 3.39445 3.54520 3.13750 3.93744 0.95248 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 4 3.15725 4.53825 4.55027 4.03326 3.11707 4.34354 4.67895 1.74508 3.84481 1.10136 2.97494 4.31800 4.60917 4.09636 4.02956 3.71269 3.40135 2.02688 5.13245 3.94572 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 5 3.26843 4.66778 4.24980 3.96571 0.99861 3.95654 3.88052 2.79099 3.87251 2.15913 3.51988 4.02818 4.41486 4.03823 3.99025 3.53802 3.56952 2.78231 4.12699 2.49290 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 6 3.16418 4.62398 4.20249 3.84224 3.13856 3.99248 4.49544 2.34289 3.60992 0.86532 3.15875 4.11695 4.42636 3.97632 3.78472 3.56409 3.45801 2.38235 5.02091 3.74614 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 7 3.16418 4.62398 4.20249 3.84224 3.13856 3.99248 4.49544 2.34289 3.60992 0.86532 3.15875 4.1169'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 244 3.01452 4.38328 4.57282 4.08416 3.43764 4.26467 4.82094 1.24205 3.95179 1.94696 3.26828 4.32672 4.61067 4.23616 4.16497 3.65136 3.28852 1.46141 5.38870 4.17718 252 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 245 2.69923 4.93820 2.44315 1.54084 4.35538 3.20935 3.72223 3.79311 2.58136 3.39777 4.25638 2.80866 3.78828 2.89942 3.02959 2.17140 3.00421 3.41800 5.59072 4.20953 253 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 246 2.76300 4.47672 3.45354 3.00019 1.85929 3.60595 3.75907 2.85883 2.25440 2.46216 3.53069 3.36572 4.03180 3.23062 3.09089 2.95407 3.01531 2.69215 4.59191 3.10648 254 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 247 2.60148 4.21310 3.80170 3.30013 3.45772 2.79947 4.13360 1.76610 3.20887 2.33353 3.39527 3.59185 4.06627 3.52037 3.49170 2.93751 2.89778 1.83003 5.05056 3.82188 255 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 248 2.47415 4.51807 2.70963 2.56121 4.29675 1.62490 3.91829 3.81753 2.84017 3.44718 4.30196 2.18187 3.72977 3.14532 3.23444 2.56696 2.88786 3.34547 5.57294 4.26033 256 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13574 3.88054 2.24157 0.61958 0.77255 0.48576 0.95510\n- 249 2.87713 4.96124 2.45728 1.16614 4.29663 3.21744 3.79997 3.73205 2.66904 3.36564 4.34681 2.88854 3.81850 3.01958 3.06584 2.87103 3.18169 3.42670 5.48615 4.21162 257 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03452 3.77932 4.50166 0.61958 0.77255 0.57067 0.83274\n- 250 2.59988 4.65100 2.78279 2.51058 4.19570 2.03033 3.73172 3.61947 1.92263 3.23648 4.10854 2.96464 3.76707 2.92794 2.76177 2.66540 2.92473 3.25209 5.39307 4.12620 258 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03452 3.77932 4.50166 0.61958 0.77255 0.57067 0.83274\n- 251 2.74213 5.08677 1.85727 2.12118 4.41329 3.13352 3.69013 3.95557 2.66243 3.52712 4.38896 1.84032 3.74469 2.87368 3.18895 2.69216 3.04964 3.55761 5.65942 4.21256 259 n - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72442 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.13981 2.03655 * 0.38394 1.14309 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DinG_IV-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DinG_IV-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1919 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME DinG_IV-A_1\n-LENG 632\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:31 2020\n-NSEQ 4\n-EFFN 0.933594\n-CKSUM 3855631096\n-GA 32.7 27.2;\n-STATS LOCAL MSV -12.2448 0.69702\n-STATS LOCAL VITERBI -12.9529 0.69702\n-STATS LOCAL FORWARD -6.3696 0.69702\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39370 4.36901 2.98735 2.74685 3.47510 2.87487 3.75265 2.80444 2.74296 2.33182 3.61977 3.20453 3.30314 3.09795 2.85131 2.62424 2.83916 2.58890 4.50394 3.71169\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.00000 *\n- 1 3.22573 5.36596 2.64619 0.68309 4.75233 3.47849 4.10248 4.26439 3.02126 3.84014 4.81209 3.13265 4.09950 3.31876 3.45209 3.18513 3.53543 3.92287 5.87007 4.60533 1 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 2 3.13939 5.11301 3.12345 2.89282 4.31780 3.57487 4.05000 4.00227 2.69604 3.47521 4.50491 3.35138 4.13853 0.80635 2.97035 3.17977 3.44073 3.71715 5.54332 4.26053 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 3 1.08012 4.21927 3.61417 3.33965 4.38664 3.01368 4.37304 3.74728 3.38085 3.49118 4.33376 3.43707 3.77867 3.66378 3.66893 1.68067 2.79008 3.20931 5.75062 4.54537 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 4 2.83171 4.86148 3.33097 2.73047 4.05469 3.61248 3.70353 3.45092 2.24120 2.10086 3.91293 3.18033 3.99009 2.13607 1.98131 2.89544 3.03994 3.19404 5.28637 4.02826 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 5 3.11415 4.51521 4.60438 4.12618 1.44090 4.20026 4.32889 2.31761 3.99803 1.97256 3.27882 4.23847 4.56094 4.15591 4.13362 3.56974 3.37919 1.65766 4.67336 3.18865 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 6 3.85793 5.03477 4.81031 4.54439 1.35898 4.55245 3.52845 3.52304 4.37872 2.81708 4.10671 4.20385 4.85145 4.28772 4.36868 3.93287 4.07600 3.45432 3.64857 0.92851 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 7 2.08684 4.56209 3.40959 2.84583 3.77430 3.54916 3.81985 3.06872 2.55636 2.08381 3.68905 3.26451 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 625 3.04098 4.88046 3.71985 3.07473 3.58541 3.76063 3.77891 3.52543 2.33614 3.05715 4.01994 3.43748 4.15028 3.07834 1.20541 3.14006 3.24932 3.29157 2.69160 3.55215 734 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 626 3.23073 4.55455 4.87534 4.34361 3.34232 4.52050 4.93614 1.09088 4.18398 1.77987 2.32942 4.56979 4.77607 4.38654 4.33238 3.88815 3.47481 1.94275 5.34689 4.20998 735 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 627 2.97801 4.77743 3.48087 3.04702 3.10606 3.72936 1.45657 3.25489 2.76830 2.11657 3.84720 3.42978 4.16474 3.27220 3.04700 3.10150 3.22779 3.07813 4.67092 3.12209 736 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 628 2.71790 4.55774 2.24945 2.80439 3.33683 3.59383 3.77761 3.03202 2.79525 2.04945 3.61486 3.24859 3.99404 3.11974 3.17995 2.86483 2.95454 2.81969 2.77653 3.42490 737 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 629 2.76618 4.45796 3.73253 3.36233 3.58304 2.36586 4.23143 2.85704 3.26330 1.12927 3.62447 3.65027 4.12648 3.62448 3.52092 3.02119 3.10323 2.69822 5.16204 3.91004 738 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 630 2.90796 5.27531 1.25105 2.34907 4.60234 3.37709 3.80599 4.11600 2.63930 3.63998 4.47874 2.90303 3.92489 2.96403 2.28653 2.85758 3.17953 3.72265 5.75836 4.36362 739 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 631 1.68969 4.31852 3.40866 3.04587 4.32665 3.07914 4.15715 3.73807 3.08870 3.40643 4.22673 3.29782 2.01017 3.39209 3.44930 1.73246 2.79433 3.23216 5.65044 4.41030 740 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 4.15302 4.87536 0.61958 0.77255 0.48576 0.95510\n- 632 3.04098 4.88046 3.71985 3.07473 3.58541 3.76063 3.77891 3.52543 2.33614 3.05715 4.01994 3.43748 4.15028 3.07834 1.20541 3.14006 3.24932 3.29157 2.69160 3.55215 741 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01596 4.14536 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DinG_IV-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/DinG_IV-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2057 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME DinG_IV-A_2\n-LENG 678\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:31 2020\n-NSEQ 62\n-EFFN 13.460327\n-CKSUM 2950845030\n-GA 100.9 66.5;\n-STATS LOCAL MSV -11.8613 0.69675\n-STATS LOCAL VITERBI -13.0290 0.69675\n-STATS LOCAL FORWARD -6.5467 0.69675\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48189 4.36308 2.84157 2.55163 3.26625 2.90106 3.81439 2.95626 2.69903 2.36593 3.85211 3.17536 3.23061 3.08468 2.74998 2.67491 2.91565 2.75208 4.72377 3.47068\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21672 6.18077 1.64621 0.61958 0.77255 0.00000 *\n- 1 1.89953 5.08159 3.69275 3.49992 2.62991 2.91598 4.76993 2.23694 2.63767 2.51377 2.38953 4.32150 4.87340 4.18551 3.05393 2.69181 3.10987 2.64579 5.67729 3.40126 1 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00381 5.96785 6.69020 0.61958 0.77255 1.50142 0.25207\n- 2 1.85478 5.90459 2.11462 2.41724 3.57580 3.08111 4.35264 3.38979 2.13349 4.21020 4.94506 3.29484 3.78527 2.26920 3.17547 2.15617 3.62332 4.29564 6.33683 4.92541 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00381 5.96785 6.69020 0.61958 0.77255 1.50142 0.25207\n- 3 2.44154 5.87253 2.03921 2.17087 3.90962 3.59824 2.86313 2.85767 2.18156 3.05076 4.91670 3.30944 3.87972 2.69544 3.59184 2.84764 3.46097 3.36917 3.49622 3.50118 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00381 5.96785 6.69020 0.61958 0.77255 1.50142 0.25207\n- 4 2.02938 5.75571 2.16185 2.93983 5.04117 3.38177 4.39640 2.82307 2.05508 2.98251 3.97165 3.22425 4.59356 3.21621 3.64026 2.24301 3.63271 2.65805 6.22583 2.70692 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00381 5.96785 6.69020 0.61958 0.77255 1.13170 0.38932\n- 5 3.15036 5.68403 2.66426 2.17564 2.65337 2.27657 4.45380 3.62879 2.20102 2.26665 3.42327 3.12400 4.64368 2.86084 3.71087 3.45319 3.66389 2.46103 6.17641 3.42932 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00367 6.00426 6.72661 0.61958 0.77255 1.39643 0.28433\n- 6 2.32688 5.83713 3.06147 2.51945 3.25791 3.33635 4.40245 3.87479 3.15386 2.31874 4.88792 2.91436 2.81551 3.13757 2.37513 2.41906 2.93158 3.50212 6.29312 2.38931 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00367 6.00426 6.72661 0.61958 0.77255 1.24988 0.33763\n- 7 2.82308 5.39401 3.63763 2.62751 3.85799 3.62501 4.60073 2.56587 2.45096 1.74296 3.33642 3.08914 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00384 5.95945 6.68180 0.61958 0.77255 0.72496 0.66231\n- 671 1.79734 5.32820 4.28687 2.43079 3.94658 4.47415 4.71598 2.32926 3.09975 1.88506 3.89865 3.69924 3.19556 2.71744 4.07160 2.52969 3.09619 2.55956 5.89888 3.92519 1063 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00340 6.08092 6.80327 0.61958 0.77255 1.31096 0.31411\n- 672 2.71028 5.91638 3.74661 1.92781 2.48827 2.96996 3.83168 3.92550 2.70831 2.26078 4.96410 3.45806 2.80764 2.63735 2.81026 2.83934 2.66614 3.03996 6.36528 4.97092 1064 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01114 6.08092 4.73354 0.61958 0.77255 1.31096 0.31411\n- 673 2.48454 5.41443 4.14944 3.58727 3.19098 3.34566 4.65119 2.54080 2.03072 2.41376 4.50685 3.81000 4.14125 3.49841 1.92539 2.13200 3.00410 2.85144 5.96970 3.51837 1065 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00343 6.07321 6.79555 0.61958 0.77255 1.33856 0.30411\n- 674 2.38600 5.96135 3.13541 1.95207 3.18728 3.72368 4.42595 3.20964 2.03888 2.43722 5.00334 3.34626 3.78850 2.54472 3.14027 2.44662 2.55203 4.34927 4.26435 4.98918 1066 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04475 6.07321 3.18297 0.61958 0.77255 1.23979 0.34171\n- 675 2.03698 4.18298 3.84142 2.80954 2.17250 3.88273 4.61063 3.46429 2.03765 2.10325 3.67258 3.09526 3.52503 3.83726 2.78228 2.99256 3.33193 2.94231 4.33092 4.69391 1067 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01037 6.04007 4.83598 0.61958 0.77255 1.44705 0.26822\n- 676 2.66892 5.94176 2.76038 2.41116 1.97391 3.60546 4.39720 4.29760 1.88045 3.58869 4.06958 2.57598 4.60339 2.72783 2.54242 2.86215 2.89848 3.35916 6.37555 4.96572 1068 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01911 6.03326 4.10249 0.61958 0.77255 1.46753 0.26201\n- 677 2.20760 5.91738 3.68276 1.86023 3.55025 3.92443 4.39096 3.35670 1.78505 3.35590 4.96019 3.67374 4.59637 2.73756 2.17256 2.17005 2.98455 4.30365 6.35494 4.94900 1069 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09860 6.01777 2.39186 0.61958 0.77255 1.51214 0.24902\n- 678 1.80458 5.47366 3.04816 2.78043 1.66352 3.26509 4.46421 2.89158 2.62162 2.84043 3.03694 3.43531 3.71865 3.64389 3.10090 3.05330 3.62287 3.78789 4.22031 4.69070 1070 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00268 5.92186 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/HEAT_CxxC_PDDEXK_I-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/HEAT_CxxC_PDDEXK_I-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,887 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME HEAT_CxxC_PDDEXK_I-C_1\n-LENG 288\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:32 2020\n-NSEQ 5\n-EFFN 0.463867\n-CKSUM 2630820657\n-GA 300 300;\n-STATS LOCAL MSV -10.9279 0.70170\n-STATS LOCAL VITERBI -11.8032 0.70170\n-STATS LOCAL FORWARD -5.4950 0.70170\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44891 4.05143 2.84366 2.66392 3.34319 2.92996 3.83708 2.85617 2.63837 2.39351 3.70631 3.18723 3.42190 3.05771 2.72537 2.76604 3.00755 2.67323 4.73184 3.30799\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40516 3.72451 3.29357 2.67728 2.69358 4.24614 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.12595 2.22612 4.56671 0.84930 0.55811 0.00000 *\n- 1 2.94760 4.50095 4.01945 3.61111 3.19621 3.81314 4.35277 2.36904 3.38060 1.79541 1.43287 3.89197 4.27386 3.76450 3.58915 3.29363 3.25250 2.37181 5.03310 3.79222 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 2 2.81893 5.23401 1.41544 2.09667 4.55184 3.14614 3.72444 4.10693 2.73797 3.65828 4.52461 2.20900 3.77427 2.90676 3.30023 2.74310 3.12819 3.69409 5.78506 4.30933 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 3 2.35840 4.87565 2.90065 2.47678 4.23444 3.38786 3.60835 3.61636 1.71243 3.18365 4.03741 2.95815 3.83888 2.45976 2.48868 2.74088 2.95761 3.29000 5.36956 4.08792 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 4 2.66947 4.86082 2.75232 2.40812 4.27271 3.30369 3.63367 3.70359 1.76777 3.26635 4.10225 2.53360 3.80073 2.79226 2.63208 2.32286 2.93682 3.34174 5.42973 4.11422 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 5 2.73016 4.36764 3.79489 3.35418 3.34958 3.65111 4.20111 2.33491 3.16689 1.41231 3.28933 3.65442 4.13540 3.55733 3.42248 3.04187 2.48007 2.23767 5.08749 3.84204 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 6 2.92888 5.03311 2.47696 1.06603 4.37593 3.25648 3.84136 3.82427 2.71840 3.44609 4.42178 2.91813 3.85985 3.05788 3.12402 2.91439 3.23304 3.51117 5.55283 4.27552 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 7 2.88456 5.03442 2.97682 2.55340 4.38221 3.46793 3.59426 3.79431 1.40487 3.29266 4.17480 3.01'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 281 3.12489 4.55816 4.40075 3.86773 3.03782 4.24244 4.53661 2.15460 3.65783 1.07266 2.38958 4.17682 4.51395 3.92929 3.85478 3.59555 3.36365 2.23149 5.03963 3.87076 284 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 282 2.78351 5.22619 1.98661 1.58832 4.55047 2.57096 3.67654 4.03142 2.63022 3.56729 4.40358 2.67312 3.76676 2.83921 3.17786 2.71028 3.06582 3.62977 5.74566 4.29751 285 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 283 2.94701 4.90890 3.12108 2.74830 4.28890 3.43909 3.74462 3.71650 1.07741 3.28791 4.25123 3.17388 3.94171 2.93796 2.42768 2.99105 3.20255 3.42600 5.35539 4.16425 286 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 284 3.12412 4.59494 4.14420 3.78432 3.12567 3.94613 4.44889 2.32865 3.55233 0.91060 3.15811 4.06248 4.38659 3.92739 3.73283 3.51428 3.41980 2.35861 4.99436 3.71106 287 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 285 2.22911 4.54639 3.08733 2.64137 4.11110 2.73587 3.72329 3.49478 2.37341 3.12063 3.97396 3.05166 3.77641 2.90920 1.89109 2.61096 2.83736 3.13242 5.33617 4.07612 288 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 286 2.89990 5.06274 3.20181 2.61727 4.45879 3.54391 3.54727 3.82735 1.51274 3.29819 4.15223 3.05723 3.92478 2.36403 1.90569 2.89404 3.08117 3.50338 5.38178 4.17047 289 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 287 2.68329 2.97294 3.83803 3.35222 2.73125 3.58432 3.77922 2.72062 3.19622 2.42841 3.46754 3.55950 4.04960 3.49470 3.42804 2.94848 2.97316 2.53294 4.33532 1.72970 290 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 288 2.91350 5.04735 3.24617 2.64819 4.44042 3.55725 3.55059 3.80609 1.73346 3.28154 4.14229 3.07831 3.93594 2.37932 1.61109 2.91390 3.09259 3.48966 5.36715 4.16473 291 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02186 3.83392 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/HTH_I-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/HTH_I-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,218 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME HTH_I-D_2\n-LENG 65\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:32 2020\n-NSEQ 8\n-EFFN 1.121094\n-CKSUM 3239954753\n-GA 43.8 43.6;\n-STATS LOCAL MSV -8.5770 0.71877\n-STATS LOCAL VITERBI -9.2040 0.71877\n-STATS LOCAL FORWARD -4.3981 0.71877\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57929 4.81959 2.89262 2.64512 3.40902 2.78518 3.44880 2.92564 2.42523 2.32181 3.70686 3.26076 3.91998 3.20919 2.72525 2.94773 2.95430 2.65613 3.84749 3.26714\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19575 4.25377 1.81052 0.61958 0.77255 0.00000 *\n- 1 3.14808 4.66621 4.28277 3.89723 3.31802 3.99530 4.58369 2.51551 3.65231 1.88515 1.02443 4.14714 4.46141 4.02275 3.83183 3.51688 3.45983 2.54512 5.18400 3.96207 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02535 4.08338 4.80572 0.61958 0.77255 0.38292 1.14528\n- 2 2.70856 4.77022 3.19522 2.64916 4.03772 3.51888 3.74191 3.41478 1.71947 3.04348 2.60787 3.12438 3.93197 2.91960 2.80704 2.19251 2.94862 3.12154 5.31204 4.02525 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 3 2.78849 5.01213 3.14457 2.57388 4.29741 2.88666 3.67364 3.72710 1.50415 3.27293 4.09108 3.06813 3.93693 2.81271 2.35358 2.80024 3.00438 3.39093 5.43344 3.04970 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 4 2.64507 4.74912 3.10661 2.54706 3.96664 3.48969 3.69257 3.37134 2.48771 2.58563 3.83172 2.67110 3.15380 2.86508 2.20647 2.70634 2.59167 3.07301 5.26284 3.31355 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 5 3.37195 5.31045 3.57086 3.14178 4.78690 3.79856 4.03764 4.24599 0.61251 3.73507 4.69213 3.54262 4.28514 3.21898 2.58806 3.39860 3.60430 3.93828 5.69488 4.57258 5 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10486 4.25377 2.46115 0.61958 0.77255 0.48576 0.95510\n- 6 2.86134 4.86584 3.34949 2.82151 4.18373 3.59477 3.81135 3.35116 1.23567 3.09299 4.04325 3.25178 4.03521 2.98629 2.60173 2.94292 3.10875 2.42274 5.41943 4.16140 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02317 4.17209 4.89443 0.61958 0.77255 0.58549 0.81381\n- 7 2.60526 4.44732 3.72899 3.50883 4.26821 3.27334 4.49878 3.43389 3.45790 3.28628 4.32566 3.65965 4.0046'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 58 2.93894 4.79575 3.48833 2.96414 2.81048 3.77487 2.03219 3.39195 2.89023 2.95201 3.90691 2.25263 4.15081 3.22461 3.26145 3.02431 3.16633 3.15235 3.07733 2.27898 60 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 59 2.97263 5.29158 3.24692 2.22687 4.72015 3.64483 3.66604 4.10926 1.72394 3.53838 4.34949 3.12372 4.01878 2.34023 1.58231 2.93917 3.16049 3.73538 5.59685 4.34237 61 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 60 3.84492 5.17695 4.42557 4.24104 2.41729 4.29345 3.86729 3.80802 4.08978 3.15892 4.44461 4.22597 4.76487 4.29908 4.18778 3.93652 4.13709 3.69829 4.07037 0.50999 62 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 61 3.08010 5.01697 3.61484 3.00873 3.69988 3.77840 3.77675 3.68360 2.29934 3.20178 4.15016 3.39598 4.17105 3.04563 1.10027 3.14142 3.28667 3.42945 5.06091 2.65759 63 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25377 4.97612 0.61958 0.77255 0.48576 0.95510\n- 62 3.56718 4.87870 5.11087 4.56470 3.13905 4.79684 5.07866 2.32806 4.35742 0.67944 2.33538 4.83225 4.94225 4.46627 4.44996 4.17839 3.78733 2.52271 5.29505 4.23896 64 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10389 4.25377 2.47147 0.61958 0.77255 0.48576 0.95510\n- 63 2.29524 4.22377 3.99529 3.42849 3.35336 3.79281 4.13470 2.10762 3.33700 1.87071 3.30379 3.71439 3.21897 3.59776 3.58761 3.08272 2.94695 1.81254 4.92230 3.72239 65 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02315 4.17304 4.89538 0.61958 0.77255 0.58443 0.81514\n- 64 1.96229 4.65821 3.14237 2.60662 3.93299 3.45460 3.73103 2.85445 2.06349 2.95530 3.80790 3.08560 3.03065 2.91913 2.93681 2.70587 2.86993 2.99274 5.25042 3.95824 66 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12927 4.17304 2.24565 0.61958 0.77255 0.42866 1.05377\n- 65 2.75628 4.23946 4.10274 3.53187 2.74335 3.86820 4.16606 1.85319 3.42274 2.12226 3.21420 3.79726 4.21939 2.84718 3.64429 3.15843 2.99041 1.72160 4.86882 3.66131 67 v - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67745 2.69359 4.24694 2.90351 2.73697 3.18151 2.89805 2.37891 2.77524 2.98492 4.58481 3.61507\n- 0.20903 1.66799 * 0.48400 0.95793 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/HTH_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/HTH_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,674 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME HTH_III-B_3\n-LENG 217\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:32 2020\n-NSEQ 4\n-EFFN 0.574219\n-CKSUM 2044980808\n-GA 18.1 17.7;\n-STATS LOCAL MSV -10.5842 0.70444\n-STATS LOCAL VITERBI -11.3826 0.70444\n-STATS LOCAL FORWARD -4.9627 0.70444\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68435 4.13948 2.86083 2.42205 3.22395 3.16005 3.88944 2.79069 2.47063 2.38798 3.65115 3.08352 3.60645 3.15140 2.86323 2.72564 3.03308 2.68642 4.68814 3.22752\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24597 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.31752 2.16416 1.85021 0.37863 1.15454 0.00000 *\n- 1 2.88984 4.45704 3.93644 3.52486 3.16856 3.75431 4.28482 2.33387 3.29753 1.78239 1.59872 3.81457 4.21707 3.68822 3.51475 3.22643 3.19451 2.32678 4.99333 3.74384 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03498 3.76617 4.48851 0.61958 0.77255 0.61872 0.77356\n- 2 2.88065 4.98218 1.08374 2.28132 4.34642 3.13478 3.84638 3.91158 2.91191 3.54076 4.52006 2.83074 3.78057 3.08804 3.41056 2.85773 3.21830 3.56343 5.53554 4.24153 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03498 3.76617 4.48851 0.61958 0.77255 0.41078 1.08806\n- 3 2.87632 4.42146 3.90848 3.40206 2.68906 3.83834 3.82530 2.64842 3.23123 2.14623 2.34322 3.66025 4.20752 3.53432 3.46847 3.15525 3.11671 2.55563 4.34916 1.79986 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 4 2.99141 5.09302 3.35540 2.74326 4.52087 3.60457 3.59795 3.88380 1.26408 3.35007 4.22638 3.15377 3.99146 2.73908 1.82568 2.99435 3.17131 3.56886 5.40973 4.22739 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 5 2.90561 5.43726 1.67792 1.40063 4.72502 3.19995 3.73467 4.23047 2.73603 3.74842 4.60426 2.67097 3.81484 2.90207 3.31563 2.79775 3.19245 3.81611 5.90322 4.41716 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 6 3.18622 4.54095 4.65567 4.13321 3.15541 4.41401 4.76183 1.59997 3.95696 1.14160 2.99542 4.40586 4.66353 4.18476 4.12948 3.78274 3.42763 1.98747 5.18382 4.01640 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 7 3.21516 4.66155 4.27524 3.91527 3.15612 4.04997 4.55423 2.36302 3.68249 0.81214 3.16228 4.18556 4.47'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 210 3.04364 4.38968 4.66145 4.16784 3.48751 4.33425 4.89629 1.25672 4.04553 1.99363 3.30642 4.40208 4.66575 4.31993 4.25369 3.71989 3.31385 1.34576 5.44388 4.23727 225 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 211 2.64734 0.83825 4.17898 3.93072 3.90969 3.25911 4.56604 3.06234 3.75790 2.97548 4.09847 3.90345 3.97029 4.10181 3.87286 2.91911 3.11858 2.80335 5.31468 4.19703 226 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 212 2.75053 5.18504 1.99888 2.21282 4.48872 3.29355 3.62758 3.95945 2.11679 3.46918 4.27655 2.76938 3.79666 2.11499 2.87554 2.69506 2.99871 3.56556 5.62365 4.21875 227 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 213 2.99141 5.09302 3.35540 2.74326 4.52087 3.60457 3.59795 3.88380 1.26408 3.35007 4.22638 3.15377 3.99146 2.73908 1.82568 2.99435 3.17131 3.56886 5.40973 4.22739 228 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 214 2.70164 4.89762 2.80067 2.00067 4.11584 3.39572 3.63036 3.52517 2.33930 2.62142 3.97065 2.92130 3.83619 2.18075 2.72498 2.71641 2.93485 3.22197 5.35448 4.02341 229 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 215 2.73179 4.50206 3.41652 3.32264 4.46420 0.65123 4.43976 4.07671 3.51119 3.72417 4.70027 3.58077 3.89492 3.83110 3.74148 2.90522 3.21718 3.59471 5.54536 4.56787 230 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 216 3.32438 4.79172 3.91709 3.65644 2.29542 3.89235 3.64374 3.32614 3.51242 2.76631 3.99561 3.78930 4.36493 3.80564 3.68521 3.45578 3.61130 3.19921 3.94125 0.88139 231 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 217 2.56248 4.25408 3.65557 3.22462 3.51801 3.46233 4.10366 1.66273 3.12740 2.46066 3.51885 3.50746 3.99952 3.47455 3.40921 2.14025 2.89527 2.26597 5.08846 3.82009 232 i - - -\n- 2.68637 4.42244 2.77471 2.73078 3.46372 2.40508 3.72513 3.29316 2.67729 2.69373 4.24708 2.90365 2.73758 3.18165 2.89782 2.37883 2.77538 2.98537 4.58495 3.61522\n- 0.18509 1.77804 * 1.78337 0.18401 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/LSIVC_IV-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/LSIVC_IV-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1814 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME LSIVC_IV-C_1\n-LENG 597\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:32 2020\n-NSEQ 4\n-EFFN 0.496094\n-CKSUM 2432640647\n-GA 600 600;\n-STATS LOCAL MSV -11.7773 0.69721\n-STATS LOCAL VITERBI -12.9630 0.69721\n-STATS LOCAL FORWARD -6.4856 0.69721\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62027 4.32445 2.96489 2.68408 3.19529 2.96942 3.67721 2.70491 2.60715 2.37154 3.69308 3.15716 3.38053 3.19342 2.94370 2.62913 2.92604 2.57630 4.57801 3.34288\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13202 3.86887 2.27499 0.61958 0.77255 0.00000 *\n- 1 2.89380 4.45997 3.94226 3.53082 3.17030 3.75849 4.28949 2.33612 3.30331 1.78299 1.58642 3.81994 4.22102 3.69346 3.51994 3.23109 3.19844 2.32975 4.99598 3.74716 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77163 4.49398 0.61958 0.77255 0.56670 0.83793\n- 2 2.89015 4.94989 3.25991 2.68282 4.33618 3.51672 3.55717 3.71068 1.64559 3.21666 4.10344 3.09394 3.91928 2.70995 1.61383 2.91226 3.08453 3.40815 5.31037 4.11467 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77163 4.49398 0.61958 0.77255 0.56670 0.83793\n- 3 2.62687 4.74777 2.58026 1.78232 4.14844 3.21675 3.70567 3.43127 2.52168 3.14011 4.04263 2.86379 3.77232 2.89353 2.92615 2.66718 2.32932 3.11691 5.43268 4.10100 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77163 4.49398 0.61958 0.77255 0.56670 0.83793\n- 4 2.95254 4.40368 4.18541 3.80010 3.30958 3.95161 4.54906 1.21284 3.62593 1.92041 3.26481 4.05966 4.39554 3.98669 3.83421 3.43989 3.25485 1.85346 5.17703 3.90425 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77163 4.49398 0.61958 0.77255 0.56670 0.83793\n- 5 2.64857 4.77544 2.46199 1.85686 4.28584 1.96031 3.75073 3.72093 2.63679 3.34499 4.22248 2.83201 3.74585 2.95197 3.06245 2.67485 2.97945 3.34576 5.51149 4.19626 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77163 4.49398 0.61958 0.77255 0.56670 0.83793\n- 6 2.88394 4.83720 3.05297 2.69761 4.20041 3.38090 3.71146 3.62408 1.18605 3.21301 4.18304 3.12541 3.89101 2.91105 2.42439 2.93443 3.14646 3.33864 5.29922 4.09852 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77163 4.49398 0.61958 0.77255 0.56670 0.83793\n- 7 2.63673 4.61794 2.83218 1.89678 3.86751 3.33985 3.76146 2.96054 2.58476 2.80493 3.79737 3.01047 3.84'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 590 2.31318 4.23355 3.20324 3.01881 4.07268 2.96350 4.12878 3.59479 3.09234 3.31528 4.24165 3.24419 3.70200 3.44193 3.37850 1.09649 2.79304 3.13068 5.44545 4.15618 597 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 591 3.00135 4.84079 3.49163 3.00341 4.19446 3.49008 3.82159 3.73590 2.23582 3.25248 4.25272 3.36343 3.99281 3.04207 0.98390 3.08568 3.26754 3.45999 5.27894 4.12257 598 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 592 1.01896 4.19021 3.45891 3.25001 4.04877 3.01485 4.27249 3.17373 3.26617 3.05552 4.08771 3.40054 3.75373 3.60766 3.51697 2.54052 2.81763 2.82876 5.47628 4.27612 599 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 593 3.00135 4.84079 3.49163 3.00341 4.19446 3.49008 3.82159 3.73590 2.23582 3.25248 4.25272 3.36343 3.99281 3.04207 0.98390 3.08568 3.26754 3.45999 5.27894 4.12257 600 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 594 2.96879 4.93248 3.14454 2.76664 4.31809 3.45866 3.75714 3.74713 1.04321 3.31298 4.27459 3.19128 3.95923 2.94880 2.43086 3.01099 3.22231 3.45511 5.37420 4.18644 601 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 595 2.67499 4.68215 3.14378 2.71350 4.22131 2.40892 3.74736 3.66836 2.30611 3.24676 4.12071 3.12200 3.84574 2.93620 1.54283 2.75429 2.98051 3.30899 5.35901 4.13656 602 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 596 2.96879 4.93248 3.14454 2.76664 4.31809 3.45866 3.75714 3.74713 1.04321 3.31298 4.27459 3.19128 3.95923 2.94880 2.43086 3.01099 3.22231 3.45511 5.37420 4.18644 603 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86887 4.59122 0.61958 0.77255 0.48576 0.95510\n- 597 2.22799 4.19033 3.08721 2.90655 4.27239 1.52023 4.10418 3.74398 3.08004 3.42285 4.26350 3.15079 3.64166 3.37295 3.40675 1.89143 2.71204 3.19317 5.59543 4.34903 604 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 3.85868 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PD_DExK_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PD_DExK_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,500 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME PD_DExK_I_II_III_IV_V_VI_1\n-LENG 159\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:33 2020\n-NSEQ 14\n-EFFN 2.286621\n-CKSUM 2899021864\n-GA 50 50;\n-STATS LOCAL MSV -10.1232 0.70851\n-STATS LOCAL VITERBI -10.7676 0.70851\n-STATS LOCAL FORWARD -4.5717 0.70851\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70601 4.58074 2.97531 2.52211 3.16144 3.15989 3.65268 2.80277 2.53639 2.32105 3.61715 2.98180 3.71935 2.91336 2.81881 2.71511 2.98616 2.79092 4.40321 3.29991\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18594 4.54683 1.83838 0.61958 0.77255 0.00000 *\n- 1 2.89588 4.43945 4.09186 3.50664 3.13587 3.89693 4.02646 2.81672 3.15991 2.37625 2.28764 3.76352 4.26578 3.57806 2.98031 3.20415 3.12764 2.67581 1.59389 3.33393 1 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01879 4.37968 5.10202 0.61958 0.77255 0.35893 1.19874\n- 2 2.65542 4.49333 3.69444 3.19100 3.93289 3.50913 4.16151 3.25717 3.13299 2.98003 2.31783 3.51544 4.06186 3.45639 3.47723 1.45022 1.96668 2.96846 5.35912 4.12374 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54683 5.26917 0.61958 0.77255 0.48576 0.95510\n- 3 2.54455 4.99351 3.04547 2.57919 4.37398 3.50256 1.82170 3.81395 2.61336 3.38865 4.18804 2.32483 3.95903 2.96842 3.07202 2.37924 2.46231 3.44068 5.59544 4.24467 3 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54683 5.26917 0.61958 0.77255 0.48576 0.95510\n- 4 2.76584 4.56084 3.50054 2.95261 2.56156 3.69819 3.89481 3.08525 2.91308 2.77124 3.66408 2.74982 4.08313 2.68772 3.28872 2.94220 2.30747 2.85013 4.96972 2.03619 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54683 5.26917 0.61958 0.77255 0.48576 0.95510\n- 5 2.88966 4.82677 3.51452 2.89925 4.03012 3.74158 3.86970 3.35630 1.69487 2.04120 3.90194 3.34406 4.11278 3.07126 2.21820 2.99842 3.10402 2.32901 5.32773 4.08370 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09931 4.54683 2.47772 0.61958 0.77255 0.48576 0.95510\n- 6 2.38051 4.59116 3.38179 2.82470 3.82049 3.57832 3.86980 3.18771 2.74525 1.94024 3.74027 3.27113 3.99502 3.10901 2.37179 2.20419 2.56418 2.92401 5.19851 3.93572 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01724 4.46476 5.18711 0.61958 0.77255 0.41123 1.08719\n- 7 2.80625 4.82015 3.23995 2.74098 4.03419 3.62593 3.85852 3.42091 2.28989 1.58877 3.92633 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 152 2.20548 4.85410 3.15211 2.59532 4.05863 3.55106 2.73191 3.49338 2.53243 3.10824 3.93612 3.10117 3.05554 2.91580 2.31975 2.76808 2.94831 3.18620 5.34547 2.60867 157 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 153 2.27816 5.16678 2.86062 1.94104 4.51214 3.47695 3.75421 3.97149 2.52988 3.49768 4.27572 2.98371 3.92401 2.26649 3.01015 1.79809 3.02228 3.57145 5.66785 4.27904 158 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 154 2.15909 4.75483 1.90256 2.70826 3.00702 3.59893 3.80817 3.33357 2.73936 2.98095 3.85371 3.19358 4.00599 3.06123 3.17371 2.84738 2.99548 3.06342 5.11391 2.52249 159 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 155 1.93567 4.70351 3.36812 2.80295 3.90693 3.64202 3.86542 2.71938 1.69826 2.53827 3.79639 3.26893 4.03464 3.07661 3.03767 2.88460 2.99738 2.90105 5.27625 4.00496 160 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 156 2.77050 4.82365 3.26583 2.83065 4.32299 1.38609 3.96894 3.67701 1.98193 3.33643 4.18857 3.27065 4.02909 3.15234 3.04216 2.85748 3.07954 2.67140 5.58200 4.29894 161 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 157 3.24076 5.46075 3.60344 2.92980 4.94404 3.86778 3.79472 4.28992 1.78141 3.68763 4.53049 3.35599 4.22277 1.28235 1.75225 3.21050 3.40114 3.94279 5.70698 4.52317 162 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 158 3.06089 4.44856 4.70181 4.11653 3.16934 4.22439 4.47169 2.19010 3.95882 1.66551 1.51691 4.26361 4.52653 4.10499 4.06130 3.53561 3.28680 2.48146 4.92711 2.38031 163 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.46756 5.18991 0.61958 0.77255 0.72940 0.65816\n- 159 2.85783 5.39617 2.37998 1.90936 4.72641 3.47108 3.76571 4.22101 2.00526 3.69172 4.45340 1.85765 3.94090 2.50021 3.06714 2.79523 3.10100 3.78130 5.82264 4.38806 164 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01161 4.46198 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PD_DExK_I_II_III_IV_V_VI_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PD_DExK_I_II_III_IV_V_VI_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,629 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME PD_DExK_I_II_III_IV_V_VI_4\n-LENG 202\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:34 2020\n-NSEQ 30\n-EFFN 3.262939\n-CKSUM 3654199311\n-GA 106 106;\n-STATS LOCAL MSV -10.4344 0.70523\n-STATS LOCAL VITERBI -11.2750 0.70523\n-STATS LOCAL FORWARD -5.0089 0.70523\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55261 4.33317 3.00333 2.57416 3.16153 3.03491 3.83860 2.69616 2.68301 2.36494 3.64505 3.05893 3.53405 2.95526 3.07309 2.69869 2.81825 2.63368 4.28448 3.56734\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31106 4.99325 1.34498 0.61958 0.77255 0.00000 *\n- 1 3.06719 4.91881 3.39748 2.59795 4.01883 3.83481 4.10598 3.37438 2.86861 2.94709 1.03490 3.48398 4.27751 2.83575 3.17357 3.20358 3.30601 3.18015 5.44230 4.18946 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01366 4.69586 5.41820 0.61958 0.77255 0.77721 0.61561\n- 2 2.03567 5.17305 2.77845 2.53737 4.46994 2.91286 3.77964 3.92240 2.53770 3.45845 3.50118 2.75154 3.52191 2.89503 2.73123 1.88077 3.02242 3.53797 5.63816 3.65527 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01259 4.77693 5.49927 0.61958 0.77255 0.92068 0.50791\n- 3 2.88156 4.67556 3.62317 3.06631 2.46609 3.81383 3.21956 3.20234 3.01480 2.88192 3.77773 2.65475 4.19426 3.33636 2.95444 3.05425 2.55920 2.96756 5.01057 1.66035 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04536 4.77693 3.32645 0.61958 0.77255 0.92068 0.50791\n- 4 2.79925 5.28600 3.01554 2.33443 4.62257 2.95307 3.75978 4.10169 2.06126 3.58812 4.33304 2.38133 3.32474 2.68915 2.99087 1.77621 2.80592 3.67294 5.72558 4.31994 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01301 4.74458 5.46692 0.61958 0.77255 0.96612 0.47894\n- 5 2.84397 5.36365 1.91361 1.99783 4.70257 3.56340 3.79000 4.19176 2.18516 3.66621 4.40971 2.60457 3.98416 2.66971 3.04996 2.24732 2.59456 3.75171 5.79622 4.37636 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05090 4.74458 3.19597 0.61958 0.77255 0.96612 0.47894\n- 6 2.50836 4.26326 4.32122 3.73856 1.47183 3.90512 4.19675 2.70174 3.60675 2.04899 3.37738 3.91347 4.27863 3.81567 3.76532 2.81259 2.67153 2.51176 4.82584 3.03291 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01351 4.70718 5.42953 0.61958 0.77255 1.01451 0.45032\n- 7 2.77284 5.21989 2.74168 2.29994 3.13217 3.18123 3.74503 4.00723 1.73949 3.51422 4.26865 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03184 4.97162 3.71279 0.61958 0.77255 0.54397 0.86855\n- 195 2.56281 4.21698 2.83642 2.03496 3.71392 3.27372 3.01341 3.27437 2.18106 2.96266 4.32378 3.12906 4.03800 2.61555 2.67762 2.51862 3.08758 3.07723 5.72881 4.34156 204 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07947 4.95035 2.66913 0.61958 0.77255 0.59696 0.79958\n- 196 2.10509 2.07881 3.87997 2.60197 3.10247 3.45649 4.13040 2.95531 3.24614 2.53679 3.58449 3.66687 3.63684 3.52808 3.55686 2.83637 2.62944 2.44002 5.06997 3.38390 205 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03961 4.88221 3.46547 0.61958 0.77255 0.74378 0.64495\n- 197 2.64778 5.33177 2.66884 1.81832 4.67603 3.28395 3.78215 4.16166 1.90762 3.63659 4.37290 2.66408 3.98796 2.45612 2.81903 2.48311 3.05353 3.22185 5.76463 4.35372 206 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04193 4.85425 3.40319 0.61958 0.77255 0.79581 0.60005\n- 198 2.80645 5.30122 2.68864 2.23919 4.63966 3.58267 3.77041 3.66418 2.13401 3.11657 4.34363 2.45534 3.50144 2.30527 2.71810 2.48918 2.66017 3.35152 5.73789 3.67294 207 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01200 4.82432 5.54667 0.61958 0.77255 0.84717 0.55972\n- 199 2.56715 5.18061 2.70085 2.41732 4.47258 3.25197 3.79800 3.48719 2.55776 3.13440 4.23565 2.61756 3.37022 2.31095 3.03972 2.40056 2.84647 2.55220 5.64647 3.26525 208 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04337 4.82432 3.36926 0.61958 0.77255 0.84717 0.55972\n- 200 2.60479 4.45588 3.08637 2.95480 3.58213 3.81447 3.57938 2.17085 3.17539 1.70184 3.56265 3.60369 4.19150 3.11330 3.49630 2.83378 2.78967 2.35687 3.98933 3.82509 209 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07864 4.79333 2.69795 0.61958 0.77255 0.89623 0.52443\n- 201 2.77467 4.81556 3.28751 2.55517 4.01327 2.75828 3.86169 2.74773 2.56586 2.79613 3.89889 2.94506 3.37133 2.79014 3.15370 2.50556 2.65483 2.08286 5.34829 4.04919 210 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09857 4.72792 2.46483 0.61958 0.77255 0.98819 0.46561\n- 202 2.22354 4.12317 3.05279 2.34953 4.40312 3.54071 3.21374 3.41188 2.22457 3.39413 4.16782 2.64375 3.93267 2.64519 2.79208 2.29996 2.56572 3.15732 5.57901 4.20364 211 a - - -\n- 2.68613 4.42188 2.77556 2.73112 3.46340 2.40549 3.72485 3.29364 2.67718 2.69344 4.24658 2.90338 2.73722 3.18133 2.89837 2.37894 2.77519 2.98491 4.58513 3.61481\n- 0.85719 0.55226 * 0.79602 0.59988 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PD_DExK_I_II_III_IV_V_VI_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PD_DExK_I_II_III_IV_V_VI_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,404 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME PD_DExK_I_II_III_IV_V_VI_5\n-LENG 127\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:34 2020\n-NSEQ 47\n-EFFN 3.135437\n-CKSUM 3283944451\n-GA 56 55;\n-STATS LOCAL MSV -9.7957 0.71237\n-STATS LOCAL VITERBI -10.1937 0.71237\n-STATS LOCAL FORWARD -4.8653 0.71237\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60746 4.54459 2.92366 2.52534 3.37259 3.00892 3.69887 2.65303 2.55549 2.43055 3.71438 3.03295 3.54485 3.01794 3.02985 2.58518 2.89475 2.60867 5.12997 3.55701\n- 2.68673 4.42133 2.77510 2.73132 3.46319 2.40557 3.72459 3.29359 2.67765 2.69394 4.24032 2.90289 2.73758 3.18193 2.89828 2.37869 2.77485 2.98553 4.58482 3.61526\n- 1.31136 0.96423 1.05191 1.66422 0.20991 0.00000 *\n- 1 2.47727 4.96082 2.92041 2.34393 4.21388 3.22838 3.72878 3.34999 2.51550 2.84361 2.77944 2.74009 3.91880 2.41587 2.79223 2.58438 2.70070 3.07560 5.45289 4.10555 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01603 4.53720 5.25954 0.61958 0.77255 0.91330 0.51282\n- 2 2.56162 5.16913 2.58290 2.18276 3.89352 3.52292 3.15841 3.94725 2.37809 3.22458 3.15966 2.65723 3.12121 2.67532 2.94879 2.47485 2.69563 3.30134 5.62106 4.22985 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01467 4.62480 5.34715 0.61958 0.77255 0.73828 0.64997\n- 3 2.77754 5.24512 2.64523 2.38970 4.57304 3.55740 3.74581 4.04654 1.86348 3.26062 2.82841 2.75519 3.95050 2.64123 2.64911 2.20064 3.00857 3.62655 5.68781 3.79744 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01309 4.73864 5.46099 0.61958 0.77255 0.50977 0.91787\n- 4 2.43922 4.77702 3.43093 2.86955 3.32286 3.21099 3.46570 2.93689 2.41384 2.85389 2.30088 2.42852 4.11636 2.98710 3.27043 2.57621 2.91883 2.77948 5.32586 4.04725 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01144 4.87259 5.59493 0.61958 0.77255 0.63348 0.75660\n- 5 2.83243 5.17105 2.34265 2.39060 3.96059 3.63564 3.48989 2.62461 2.49193 2.93118 3.52073 2.74608 3.07489 2.49364 2.87658 2.83131 2.95270 2.88449 5.64467 4.27667 12 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01126 4.88787 5.61022 0.61958 0.77255 0.59628 0.80042\n- 6 2.86068 3.63423 4.77349 3.64456 2.62068 4.02443 4.35524 1.92880 3.95769 1.55827 2.95176 4.17002 4.38861 3.72067 3.68590 3.10696 3.09284 2.40429 3.80808 2.64020 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01108 4.90437 5.62672 0.61958 0.77255 0.62644 0.76463\n- 7 2.48220 4.31321 2.57428 2.20510 4.68397 3.00760 3.31845 4.16814 2.15811 3.44355 4.38280 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 120 2.53586 5.32948 3.13890 2.58336 4.65652 3.38543 3.83716 4.12675 1.66751 3.37434 4.37637 1.76772 4.04373 2.79314 2.87796 2.62739 2.88228 3.71071 5.77207 3.96601 128 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 121 2.14974 3.47758 4.75765 4.14870 2.52934 3.45581 4.37570 1.89594 3.95409 1.77134 2.90188 4.17802 4.41167 4.10303 3.61642 3.08599 2.60591 2.43127 4.89830 3.72009 129 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 122 2.05434 5.29760 3.14041 2.00500 4.61292 3.64690 3.83711 3.66498 2.12218 3.22903 3.92368 2.98889 4.03958 2.50484 2.36669 2.72357 2.97706 3.16207 5.74841 3.86005 130 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 123 2.56533 5.31953 3.14328 2.37922 4.64690 3.37920 3.85570 4.11210 1.99181 3.62011 4.37757 2.98436 4.05743 2.96330 2.93630 1.35398 3.11738 3.35731 5.77434 4.38428 131 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 124 2.90350 3.66159 4.84438 4.23187 2.52557 4.07405 4.40822 1.78413 3.59196 2.09234 3.15686 4.22844 4.43671 4.15946 4.04074 3.16965 3.13589 1.41791 4.90787 3.45016 132 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 125 2.69715 5.36965 2.99121 2.57394 4.71275 3.64937 3.33906 3.85845 1.47731 3.67080 4.41216 2.80586 4.04197 2.69849 2.07292 2.48438 2.97688 3.75953 5.80049 4.39827 133 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 126 2.31817 4.49262 2.84407 2.30634 4.71225 3.26137 3.82121 4.19748 1.87043 3.67302 4.40914 2.42238 3.67753 2.63126 2.59960 2.40358 2.69933 3.75829 5.80146 4.39114 134 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96165 5.68399 0.61958 0.77255 0.48576 0.95510\n- 127 3.05905 4.43372 4.92216 4.31826 3.14889 4.23863 4.56997 2.05863 4.13217 0.97880 2.74535 3.71093 4.58060 4.26759 4.17522 3.55098 2.90186 2.35488 5.05949 3.89819 135 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00705 4.95824 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PEPT_D_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PEPT_D_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,338 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME PEPT_D_III-A_1\n-LENG 105\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:34 2020\n-NSEQ 4\n-EFFN 0.527344\n-CKSUM 3922656253\n-GA 108 108;\n-STATS LOCAL MSV -9.2901 0.71634\n-STATS LOCAL VITERBI -10.2580 0.71634\n-STATS LOCAL FORWARD -4.0807 0.71634\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73046 4.05682 2.84624 2.68350 3.19990 2.69138 3.92401 2.63165 2.64558 2.31493 3.58830 3.02545 3.47334 3.26590 3.08844 2.78764 2.96766 2.54965 5.07172 3.41708\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.00000 *\n- 1 2.98441 4.53004 4.07034 3.66515 3.21601 3.84865 4.39575 2.39355 3.43220 1.80762 1.34088 3.94026 4.30925 3.81272 3.63524 3.33563 3.29004 2.40197 5.05952 3.82309 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 2 2.73937 4.73690 2.71865 2.60600 4.10345 3.19687 3.93633 3.81786 2.84155 3.46245 4.41743 1.12382 3.84960 3.20896 3.19701 2.80571 3.12178 3.43809 5.40709 4.05026 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 3 3.17706 4.63341 4.22102 3.86077 3.14288 4.00715 4.51034 2.34778 3.62833 0.85144 3.15937 4.13436 4.43902 3.99197 3.80127 3.58002 3.47035 2.39024 5.02947 3.75738 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 4 3.01036 5.14212 0.89035 2.34666 4.52169 3.22525 3.94788 4.11426 3.03564 3.71901 4.69737 2.90409 3.87940 3.18693 3.55466 2.97037 3.34928 3.75129 5.68651 4.39112 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 5 3.17706 4.63341 4.22102 3.86077 3.14288 4.00715 4.51034 2.34778 3.62833 0.85144 3.15937 4.13436 4.43902 3.99197 3.80127 3.58002 3.47035 2.39024 5.02947 3.75738 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 6 2.82472 5.19438 2.29536 1.42828 4.50901 3.22569 3.70638 3.99850 2.58236 3.55264 4.41107 2.23184 3.81025 2.87732 3.05433 2.76510 3.10841 3.61511 5.70193 4.28018 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 7 3.07086 4.40911 4.64772 4.11363 3.33474 4.37482 4.80303 1.42857 3.99257 1.58993 3.14760 4.37603 4.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 98 2.98972 4.95467 3.16704 2.78460 4.34557 3.47728 3.76959 3.77602 1.01178 3.33673 4.29696 3.20827 3.97609 2.95983 2.43475 3.03032 3.24144 3.48264 5.39204 4.20755 98 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 99 2.81039 5.14259 2.32659 1.84031 4.46547 3.22846 3.71153 3.95533 2.57723 3.51939 4.38068 1.68762 3.81197 2.88612 3.03622 2.76230 3.09730 3.57711 5.66900 4.25783 99 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 100 2.66693 4.76468 2.87140 2.47199 3.92462 3.38528 3.64796 3.40299 2.38538 2.51199 3.89282 2.21157 3.83734 2.42064 2.75544 2.71432 2.91323 3.11139 5.23039 3.88627 100 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 101 2.74314 4.97623 2.81002 2.42068 4.34240 2.69860 3.61096 3.76017 1.74832 3.29279 4.12527 2.92151 3.83857 2.31835 2.53582 2.74036 2.98003 3.40829 5.44380 4.14074 101 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 102 2.82348 4.36046 4.15257 3.81612 3.56420 3.74431 4.61439 2.04877 3.68421 2.24770 3.52619 4.00286 4.30359 4.04251 3.89485 3.24893 3.18446 1.00054 5.35202 4.08493 102 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 103 2.85750 5.11315 2.72018 2.00962 4.46922 3.39971 3.62649 3.86436 1.50116 3.38819 4.24447 2.91503 3.87535 2.77467 2.49088 2.82931 3.08458 3.52139 5.51350 4.21934 103 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 104 3.01036 5.14212 0.89035 2.34666 4.52169 3.22525 3.94788 4.11426 3.03564 3.71901 4.69737 2.90409 3.87940 3.18693 3.55466 2.97037 3.34928 3.75129 5.68651 4.39112 104 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 105 2.77699 4.53131 3.38624 3.22794 4.22180 3.21771 4.30395 3.77204 3.28687 3.39684 4.44739 3.53277 0.79199 3.67506 3.53036 2.94505 3.22005 3.41521 5.40319 4.34267 105 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02082 3.88212 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PrimPol_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/PrimPol_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1106 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME PrimPol_I_II_III_IV_V_VI_1\n-LENG 361\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:34 2020\n-NSEQ 6\n-EFFN 0.735352\n-CKSUM 3596527579\n-GA 43 37;\n-STATS LOCAL MSV -11.1276 0.69991\n-STATS LOCAL VITERBI -11.9927 0.69991\n-STATS LOCAL FORWARD -5.6826 0.69991\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47149 4.35551 2.91378 2.67572 3.19412 2.97426 3.78720 2.80997 2.70609 2.43191 3.65611 3.12005 3.27326 3.06832 2.82025 2.67010 2.89426 2.65595 4.41242 3.53859\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15067 4.03415 2.10235 0.61958 0.77255 0.00000 *\n- 1 2.73335 4.52676 3.50588 2.93113 3.57219 3.58740 3.80680 2.89537 2.48286 2.44327 2.15274 3.32026 3.99349 3.06466 2.11556 2.90925 2.97418 2.73775 5.04277 3.79753 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 2 2.66533 4.44923 3.51138 2.97897 3.66212 3.51448 3.87715 2.75779 2.58926 2.59119 3.61934 3.34398 3.97719 3.14365 2.13995 2.86483 2.94405 1.77104 5.11590 3.86220 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 3 2.81537 4.61159 3.36201 2.90971 3.06438 3.60400 2.08333 3.05589 2.65791 1.96765 3.66017 3.30151 4.02975 3.14112 2.94696 2.95371 3.06176 2.88096 4.62172 3.10740 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 4 2.66469 4.77892 2.92650 2.54804 4.26079 3.31912 3.69563 3.67602 1.62933 3.26385 4.11731 3.00464 3.83437 2.86420 2.61290 2.04995 2.95435 3.31459 5.42585 4.13587 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 5 2.65315 4.84270 2.54140 1.82392 4.30645 3.21282 3.74625 3.74023 2.59999 3.35359 4.20656 2.85899 3.79027 2.92679 3.03828 1.77249 2.96844 3.36175 5.55593 4.19348 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 6 2.74026 4.80245 1.79278 2.46374 3.86907 3.37158 3.78442 3.20189 2.70537 2.11700 3.90834 2.98140 3.88499 3.00306 3.15339 2.79504 3.01458 2.97288 5.30284 3.92369 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 7 2.65315 4.84270 2.54140 1.82392 4.30645 3.21282 3.74625 3.74023 2.59999 3.35359 4.20656 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 354 3.02069 4.37561 4.62129 4.12670 3.49650 4.30058 4.86494 1.42305 4.00647 2.01794 3.31968 4.36418 4.64078 4.28679 4.22131 3.68376 3.29245 1.20151 5.43633 4.22390 382 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 355 3.03385 4.38350 4.64214 4.14785 3.48170 4.31940 4.87916 1.28551 4.02571 1.99102 3.30208 4.38425 4.65298 4.30154 4.23597 3.70382 3.30426 1.33098 5.43377 4.22632 383 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 356 2.51301 4.28768 3.46212 3.07802 3.65614 1.91195 4.05080 1.97900 3.03088 2.63892 3.65987 3.38489 3.90741 3.38054 3.33625 2.74063 2.87009 2.49621 5.16164 3.90147 384 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 357 2.54152 2.03857 3.61097 3.07844 3.71996 3.33797 3.91537 3.04433 2.67053 2.78029 3.72452 3.36622 3.88300 3.21374 2.03903 2.74132 2.87526 2.77682 5.10502 3.87966 385 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 358 1.71397 4.26784 3.71371 3.28005 2.22196 3.45822 4.02907 2.62414 3.22739 2.34718 3.45853 3.52985 3.99769 3.51179 3.50397 2.84142 2.91600 2.45110 4.81942 3.42575 386 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 359 2.00144 4.82625 2.57760 1.63889 4.26927 3.23972 3.75967 3.57955 2.61230 3.26948 4.15227 2.88422 3.80717 2.94127 3.04816 2.69411 2.97387 3.24074 5.54003 4.19290 387 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 360 2.76528 5.01417 2.56060 2.33787 4.30181 3.29447 3.68416 3.84939 2.42118 3.39319 4.25178 1.85588 3.83202 2.10519 2.80427 2.75121 3.04041 3.48369 5.50738 4.12668 388 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03011 3.91359 4.63594 0.61958 0.77255 0.60079 0.79491\n- 361 1.98511 4.37995 3.42419 3.01832 3.07562 3.45457 3.80768 2.91606 2.95079 2.61920 3.62427 3.34751 3.96208 3.29699 3.25511 2.82436 2.93601 2.69503 4.63817 1.94276 389 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02037 3.90385 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/RT_I-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/RT_I-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1265 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME RT_I-E_1\n-LENG 414\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:35 2020\n-NSEQ 8\n-EFFN 0.777344\n-CKSUM 3391441526\n-GA 506 506;\n-STATS LOCAL MSV -11.6601 0.69905\n-STATS LOCAL VITERBI -12.3020 0.69905\n-STATS LOCAL FORWARD -5.9616 0.69905\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30424 4.46135 2.93331 2.77280 3.56192 2.91057 3.66890 2.96280 2.83465 2.29725 3.71404 3.27527 3.12990 3.19377 2.70463 2.71797 2.85131 2.58395 4.14664 3.69930\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09621 4.06053 2.59716 0.61958 0.77255 0.00000 *\n- 1 3.06653 4.59721 4.17935 3.78315 3.26477 3.92406 4.49065 2.45252 3.54426 1.84262 1.16604 4.04547 4.38650 3.91897 3.73527 3.42752 3.37480 2.47222 5.12078 3.89241 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02781 3.99213 4.71448 0.61958 0.77255 0.55609 0.85201\n- 2 2.12796 4.43407 3.17011 2.71271 4.05495 2.23506 3.83451 3.44365 2.65909 3.09805 3.93467 3.10565 3.76599 3.03731 2.62137 2.54570 2.18069 3.06395 5.36142 4.09058 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09094 3.99213 2.68146 0.61958 0.77255 0.55609 0.85201\n- 3 2.35213 5.24530 1.55682 1.91494 4.57128 3.21610 3.70948 4.02174 2.66531 3.58195 4.42037 2.70842 3.79931 2.87073 3.21764 2.73564 3.08814 3.62676 5.77706 4.32486 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02959 3.93079 4.65314 0.61958 0.77255 0.61160 0.78194\n- 4 2.66502 4.98204 2.04950 1.92626 4.23873 3.31540 3.62915 3.65008 2.46395 3.23969 3.17243 2.81645 3.78677 2.77635 2.95180 2.65063 2.91183 3.30583 5.47156 4.08947 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02959 3.93079 4.65314 0.61958 0.77255 0.61160 0.78194\n- 5 2.09146 4.23819 3.39526 2.93729 3.85964 3.15941 3.96351 3.06143 2.90077 2.87647 3.77654 3.24107 2.26330 3.22840 3.25190 2.53262 2.36391 2.36337 5.26857 4.03121 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02959 3.93079 4.65314 0.61958 0.77255 0.61160 0.78194\n- 6 2.50230 4.30996 3.35713 2.90880 3.57933 3.34868 3.88503 2.90351 2.82774 1.79579 3.57554 3.26601 3.08798 3.19296 3.15270 2.32837 2.81793 2.66279 5.04544 3.77955 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02959 3.93079 4.65314 0.61958 0.77255 0.61160 0.78194\n- 7 2.63287 4.75005 2.98692 2.28290 4.00325 3.41418 3.62547 3.39630 2.33424 2.67174 3.85375 2.97825 2.62952 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 407 2.71813 4.51512 3.50051 3.11192 3.65057 3.48423 4.08680 2.96501 2.99610 1.94384 3.70921 3.46166 1.53523 3.40321 3.29572 2.91349 3.05475 2.78896 5.19397 3.90324 415 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 408 3.02014 4.74195 3.64830 3.51733 4.48995 3.41901 4.57609 4.08785 3.59154 3.69259 4.75301 3.80327 0.54197 3.97450 3.81246 3.19437 3.47724 3.71105 5.62099 4.61440 416 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 409 2.56419 3.59748 3.23063 2.68783 3.74142 3.43010 3.74813 3.11430 2.60187 2.49207 3.66868 3.13414 3.86392 2.13872 2.98670 2.26605 2.82510 2.84318 5.11377 3.83750 417 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 410 2.65905 4.28508 4.06251 3.63475 3.71931 3.60876 4.47083 2.20973 3.52521 2.48793 3.61461 3.82189 4.18263 3.85082 3.77549 3.01869 2.16095 1.22034 5.38597 4.16475 418 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 411 1.57479 4.53948 2.54442 2.62939 4.15922 3.21205 3.87941 3.48163 2.77814 3.19454 4.04269 3.06441 3.79985 3.07834 3.21040 2.59589 2.21224 3.10865 5.47992 4.17810 419 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 412 2.52470 4.36877 3.60674 3.37256 4.14647 3.20058 4.37403 3.29704 3.31926 3.15374 4.19537 3.54819 3.92066 3.70549 3.56613 2.72850 0.88875 2.97134 5.56744 4.36436 420 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 413 3.10149 4.56114 4.22043 3.73775 2.65835 4.08370 3.97844 2.61985 3.54046 1.19984 3.28655 3.93524 4.42132 3.80619 3.72846 3.42652 3.33677 2.60121 4.37605 2.06063 421 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 414 3.37228 4.78104 4.49071 4.13532 3.21745 4.21903 4.73239 2.43575 3.90127 0.67399 3.18862 4.39251 4.62454 4.22425 4.04497 3.81777 3.65936 2.52118 5.16089 3.92632 422 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01754 4.05212 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/RT_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/RT_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,914 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME RT_III-AM_III-B_2\n-LENG 297\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:35 2020\n-NSEQ 58\n-EFFN 2.658569\n-CKSUM 1928933743\n-GA 42 42;\n-STATS LOCAL MSV -10.7845 0.70137\n-STATS LOCAL VITERBI -11.5344 0.70137\n-STATS LOCAL FORWARD -5.7668 0.70137\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52566 4.47005 2.87029 2.65463 3.24338 2.98987 3.70325 2.81735 2.63072 2.39708 3.69232 3.08726 3.47923 2.96358 2.80334 2.70112 2.89785 2.69725 4.57264 3.46759\n- 2.68648 4.42255 2.77540 2.73130 3.46335 2.40542 3.72469 3.29384 2.67749 2.69343 4.24611 2.90291 2.73769 3.18113 2.89755 2.37900 2.77541 2.98522 4.58449 3.61397\n- 0.78199 1.17065 1.45955 1.16498 0.37386 0.00000 *\n- 1 2.67249 4.58822 3.29357 2.73641 3.33001 2.66105 3.80542 3.14225 2.62723 2.81856 2.13258 3.02352 3.96244 2.84953 2.94207 2.50545 2.90478 2.88491 5.14253 3.87075 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06623 4.40922 2.95806 0.61958 0.77255 0.65577 0.73197\n- 2 2.68288 5.08403 2.64008 2.32120 4.38616 3.19271 3.66652 3.48192 2.33567 3.37082 3.20071 2.38861 2.82475 2.77892 2.74166 2.54555 2.75389 3.35287 5.54339 4.16000 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01751 4.44982 5.17216 0.61958 0.77255 0.68206 0.70436\n- 3 2.47565 4.47147 2.62672 2.49603 3.89511 3.21011 3.71095 3.33455 2.30706 3.02380 3.60039 2.81085 3.54955 2.84527 2.66909 2.25632 2.63503 3.21931 5.45977 4.10683 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03594 4.50038 3.72150 0.61958 0.77255 0.74765 0.64146\n- 4 2.69260 4.28457 3.81881 3.24233 3.40136 3.72984 4.00277 2.07405 2.91848 1.74464 3.02375 3.57173 3.43084 3.14038 3.19829 2.99456 2.62243 2.54312 4.88209 3.67184 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01696 4.48139 5.20374 0.61958 0.77255 0.69745 0.68886\n- 5 2.54714 4.15669 4.20999 3.28667 2.57036 3.80497 4.11147 2.34329 3.12981 1.77938 2.93941 3.80673 3.72781 3.70325 3.65487 2.95976 2.85150 2.21510 4.76952 2.93197 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50940 5.23175 0.61958 0.77255 0.73564 0.65239\n- 6 2.64430 5.23548 2.51136 2.03447 4.57369 3.47676 3.68485 4.05846 2.30859 3.53784 4.28008 2.54398 3.52636 2.27727 2.92950 2.18371 2.73480 3.62285 5.67059 4.25760 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50940 5.23175 0.61958 0.77255 0.73564 0.65239\n- 7 2.64305 5.16567 2.43568 2.22340 4.49195 3.48223 3.67112 3.96441 2.18543 3.04023 4.21148 2.95737 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04838 4.34401 3.37433 0.61958 0.77255 1.02001 0.44721\n- 290 2.58849 4.50168 2.98984 2.75946 3.66530 3.36049 3.79799 2.26381 2.72931 2.48602 3.28982 3.21571 3.94625 3.05444 2.80575 2.25896 2.71826 2.78720 5.06555 3.80366 295 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02004 4.31567 5.03802 0.61958 0.77255 1.04369 0.43410\n- 291 2.55513 5.07054 2.94955 2.07968 4.38206 3.44593 3.34665 3.52581 1.92346 3.19273 4.12192 2.92992 3.83766 2.57434 2.63882 2.47215 2.69647 3.44339 5.52000 4.13991 296 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04256 4.31567 3.56459 0.61958 0.77255 1.04369 0.43410\n- 292 2.55449 4.73391 3.11553 2.55956 3.95353 3.49392 3.70936 3.00835 2.52783 2.98632 3.82108 2.84599 2.45369 2.54229 2.70660 2.63837 2.87599 2.59797 5.26146 3.95350 297 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29361 5.01595 0.61958 0.77255 1.02560 0.44407\n- 293 2.63485 4.51264 3.06615 2.74017 3.14837 3.39056 3.78763 2.69545 2.37007 2.57940 2.88759 3.20082 3.68007 2.91529 3.11902 2.42599 2.67554 2.80173 5.07199 3.65776 298 k - - -\n- 2.68628 4.42235 2.77530 2.73134 3.46364 2.40517 3.72505 3.29346 2.67739 2.69365 4.24700 2.90346 2.73676 3.18157 2.89803 2.37879 2.77523 2.98517 4.58487 3.61513\n- 0.89699 0.64619 2.68577 0.10426 2.31259 0.94345 0.49312\n- 294 2.56218 4.84945 3.03359 2.30708 4.09270 3.46918 3.67348 3.50932 2.24027 2.94360 3.92208 2.99956 3.60777 2.58334 2.92413 2.47440 2.31246 2.61545 5.35109 4.01594 300 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05077 4.29609 3.32745 0.61958 0.77255 0.81492 0.58461\n- 295 2.67145 5.02109 2.80579 2.01423 4.30649 2.78162 3.66224 3.75092 2.28752 2.56405 3.41664 2.89923 3.86068 2.78338 2.55478 2.66689 2.90244 3.37937 5.49010 4.12059 301 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01869 4.38490 5.10724 0.61958 0.77255 0.98356 0.46837\n- 296 2.57833 4.21086 3.17112 2.60957 4.06510 1.96367 3.74885 3.46445 2.33187 2.88413 3.91635 3.10301 3.92099 2.91689 2.34929 2.74389 2.73663 3.15383 5.34382 4.03832 302 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10747 4.38490 2.41424 0.61958 0.77255 0.86338 0.54772\n- 297 2.64805 4.78549 3.09266 2.53497 4.02093 3.48753 3.70050 3.14324 2.37805 3.04672 3.87211 2.76492 3.88089 2.86453 2.56963 2.03997 2.45019 2.78367 5.30675 3.98877 303 s - - -\n- 2.68560 4.42379 2.77604 2.73098 3.46508 2.40512 3.72501 3.29104 2.67739 2.69323 4.24774 2.90366 2.73709 3.18096 2.89863 2.37937 2.77577 2.98412 4.58282 3.61591\n- 0.81740 0.58264 * 2.65988 0.07252 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/SSIVC_IV-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/SSIVC_IV-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,410 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME SSIVC_IV-C_1\n-LENG 129\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:35 2020\n-NSEQ 4\n-EFFN 0.472656\n-CKSUM 260387527\n-GA 200 200;\n-STATS LOCAL MSV -9.9522 0.71211\n-STATS LOCAL VITERBI -10.6516 0.71211\n-STATS LOCAL FORWARD -4.4237 0.71211\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53101 4.56741 2.85422 2.60550 3.34851 2.83757 3.94164 2.84257 2.51561 2.38373 3.71384 3.05964 3.73141 3.18866 2.97824 2.57578 3.03803 2.54921 4.77908 3.31797\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13095 3.85111 2.28789 0.61958 0.77255 0.00000 *\n- 1 2.88217 4.45140 3.92508 3.51329 3.16526 3.74614 4.27575 2.32958 3.28629 1.78136 1.62298 3.80413 4.20940 3.67806 3.50465 3.21737 3.18693 2.32106 4.98823 3.73740 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03536 3.75552 4.47787 0.61958 0.77255 0.56409 0.84136\n- 2 2.79574 4.76983 2.83429 2.59192 3.92129 3.29263 3.74754 3.53817 2.42226 3.05185 4.08775 3.04880 3.84742 1.45880 2.70686 2.85069 3.09508 3.27664 5.21677 3.90392 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03536 3.75552 4.47787 0.61958 0.77255 0.56409 0.84136\n- 3 2.85883 4.93398 2.45184 1.20518 4.26680 3.20356 3.78601 3.69744 2.65218 3.33567 4.31946 2.87930 3.80395 3.00716 3.04523 2.85625 3.16376 3.39518 5.46106 4.18816 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03536 3.75552 4.47787 0.61958 0.77255 0.56409 0.84136\n- 4 2.71263 4.88306 2.60687 2.35962 4.22935 3.26017 3.63365 3.70012 1.96440 3.28104 4.15006 2.01733 3.79173 2.81090 2.63411 2.72053 2.98731 3.35254 5.41128 4.07797 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03536 3.75552 4.47787 0.61958 0.77255 0.56409 0.84136\n- 5 2.85883 4.93398 2.45184 1.20518 4.26680 3.20356 3.78601 3.69744 2.65218 3.33567 4.31946 2.87930 3.80395 3.00716 3.04523 2.85625 3.16376 3.39518 5.46106 4.18816 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03536 3.75552 4.47787 0.61958 0.77255 0.56409 0.84136\n- 6 2.87020 4.82079 3.03812 2.68716 4.18024 3.36785 3.70496 3.60311 1.21180 3.19617 4.16809 3.11532 3.87996 2.90625 2.42506 2.92235 3.13449 3.31893 5.28657 4.08384 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03536 3.75552 4.47787 0.61958 0.77255 0.56409 0.84136\n- 7 2.71632 4.29567 3.95911 3.62295 3.46891 3.59768 4.44615 2.07183 3.48865 2.17982 3.45661 3.83020 4.1677'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 122 2.67821 4.89391 1.58029 2.19847 4.41056 2.30964 3.74963 3.91047 2.75305 3.50731 4.37884 2.73794 3.71894 2.94798 3.26938 2.66792 3.01867 3.49739 5.62654 4.26156 123 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 123 2.63055 4.61582 2.65569 2.53128 3.96102 3.10839 3.83621 3.64963 2.73213 3.31177 4.27118 1.38989 3.75649 3.11248 3.07945 2.70475 3.01074 3.28411 5.28159 3.92080 124 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 124 2.56199 4.25588 3.64922 3.20313 3.52000 3.46888 4.12292 1.97169 3.07161 2.30141 3.44652 3.50228 3.99917 3.44737 3.36095 2.85189 2.05106 2.11746 5.15590 3.90677 125 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 125 2.77028 5.01465 2.48710 1.95865 4.28525 3.27277 3.61827 3.73504 2.32165 3.28331 4.16731 2.80195 3.79603 2.00015 2.68725 2.74616 3.02391 3.40544 5.46348 4.11751 126 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 126 2.72519 5.05334 1.87650 2.12019 4.38008 3.12295 3.68184 3.92162 2.65182 3.49986 4.36402 1.88028 3.73412 2.86764 3.17264 2.68017 3.03420 3.52722 5.63194 4.18937 127 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 127 2.85674 4.93080 2.45128 1.20977 4.26333 3.20197 3.78445 3.69342 2.65028 3.33219 4.31631 2.87829 3.80229 3.00579 3.04288 2.85459 3.16172 3.39152 5.45814 4.18545 128 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 128 2.17953 4.13977 3.02828 2.82640 4.15641 2.18185 4.00974 3.61789 2.96844 3.30316 4.14988 3.08314 3.58753 3.27633 3.29656 1.59259 2.65290 3.09645 5.48676 4.23292 129 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75279 4.47513 0.61958 0.77255 0.56615 0.83866\n- 129 2.26365 4.18000 3.10914 2.92368 3.95832 2.91239 4.03475 3.46664 2.98895 3.19797 4.13753 3.16514 3.64221 3.34894 3.27577 1.28754 2.73557 3.02850 5.34158 4.04216 130 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02401 3.74133 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/SSgr11_III-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/SSgr11_III-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,614 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME SSgr11_III-F_1\n-LENG 197\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:35 2020\n-NSEQ 5\n-EFFN 0.629883\n-CKSUM 1609003873\n-GA 100 100;\n-STATS LOCAL MSV -10.3626 0.70551\n-STATS LOCAL VITERBI -11.3877 0.70551\n-STATS LOCAL FORWARD -4.8185 0.70551\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.75629 4.59794 2.83872 2.48582 3.25360 3.15638 3.83501 2.71248 2.45801 2.36164 3.64395 3.01408 3.60138 3.13899 2.75796 2.79096 3.05370 2.62640 4.55281 3.35557\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.00000 *\n- 1 3.04324 4.57789 4.14899 3.75002 3.25038 3.90312 4.46387 2.43528 3.51286 1.83178 1.21188 4.01595 4.36480 3.88902 3.70724 3.40168 3.35065 2.45193 5.10312 3.87267 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 2 2.64276 4.32020 3.74952 3.26165 3.44456 3.56711 4.12022 2.51158 3.11000 2.20891 1.96945 3.56390 4.05748 3.46893 3.38639 2.92447 2.14050 2.37365 5.08042 3.86588 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 3 2.26020 4.22550 3.19992 2.98909 4.33588 2.23813 4.16229 3.80813 3.13308 3.47895 4.30916 3.21718 3.68714 3.42568 3.46192 1.21487 2.74530 3.24450 5.65557 4.41414 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 4 3.05747 5.02368 3.23952 2.84448 4.43118 3.53639 3.81226 3.86635 0.91889 3.41164 4.36869 3.26469 4.03070 2.99892 2.45196 3.09375 3.30418 3.56914 5.44842 4.27468 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 5 3.17699 4.54129 4.66184 4.09559 3.09420 4.40077 4.70174 1.87153 3.95234 1.27220 1.89027 4.37348 4.62002 4.11848 4.11261 3.73290 3.40164 2.16888 5.11607 4.02347 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 6 3.09017 5.23063 0.79437 2.39582 4.62039 3.28188 4.01451 4.22987 3.11643 3.82204 4.80270 2.95660 3.94125 3.25421 3.64474 3.04252 3.43090 3.85943 5.77096 4.47878 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 7 2.77508 5.27495 2.05790 1.80086 4.57402 2.71515 3.65998 4.06176 2.54049 3.56542 4.36783 2.72808 3.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 190 3.43927 4.77662 4.36973 3.98499 1.99322 4.19894 3.46055 3.31066 3.75650 2.70231 3.89358 3.90885 4.53707 3.90490 3.87129 3.57020 3.66490 3.18978 1.56492 1.50285 193 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 191 2.85869 5.19777 2.55576 1.50378 4.53152 3.35776 3.67123 3.95760 1.90317 3.48196 4.32753 2.85663 3.86771 2.82045 2.71895 2.81116 3.10219 3.59381 5.62117 4.27296 194 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 192 3.04766 4.39284 4.68025 4.18819 3.53743 4.34310 4.92207 1.46637 4.06937 2.05842 3.35727 4.41770 4.68166 4.34887 4.28052 3.72997 3.32001 1.10985 5.48218 4.26771 195 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 193 2.69219 4.34470 3.60255 3.09169 3.40215 3.67291 3.98008 1.85127 2.97779 2.08186 3.40190 2.61281 4.07382 3.33432 3.28883 2.97259 2.94229 2.26148 4.96831 3.69158 196 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 194 2.78629 5.28820 1.78305 1.94106 4.58938 2.70462 3.66581 4.07633 2.19836 3.57989 4.38524 2.72542 3.79920 2.80776 3.07962 2.71105 3.04687 3.66302 5.74275 4.29538 197 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19654 3.96463 1.83599 0.61958 0.77255 0.48576 0.95510\n- 195 2.62844 4.52183 3.04986 2.70197 3.53383 3.36652 3.77093 2.99315 2.62907 2.07924 3.72796 2.19001 3.87712 3.06074 2.96100 2.76112 2.92387 2.76749 5.01168 3.62102 198 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03374 3.80183 4.52418 0.61958 0.77255 0.62590 0.76524\n- 196 2.66708 4.50425 3.14367 2.31296 3.57503 3.48485 3.80145 2.79262 2.63604 2.44568 2.27266 3.17879 3.92506 3.05665 2.97313 2.82732 2.92041 2.62250 5.07403 3.80565 199 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03374 3.80183 4.52418 0.61958 0.77255 0.62590 0.76524\n- 197 2.37170 4.15485 3.53947 3.16666 3.65708 3.19245 4.09564 2.61736 3.09182 2.63894 3.66277 3.38822 3.82824 3.43944 3.37265 2.13059 2.77153 1.64968 5.18867 3.91912 200 v - - -\n- 2.68623 4.42231 2.77525 2.73100 3.46359 2.40518 3.72500 3.29360 2.67746 2.69360 4.24695 2.90352 2.73745 3.18152 2.89737 2.37892 2.77525 2.98524 4.58482 3.61509\n- 0.19422 1.73429 * 0.91076 0.51453 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/SSgr11_III-F_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/SSgr11_III-F_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,314 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME SSgr11_III-F_2\n-LENG 97\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:35 2020\n-NSEQ 15\n-EFFN 1.746826\n-CKSUM 3524956258\n-GA 80 80;\n-STATS LOCAL MSV -9.4539 0.71828\n-STATS LOCAL VITERBI -9.9855 0.71828\n-STATS LOCAL FORWARD -4.3057 0.71828\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73501 4.71805 2.96913 2.55340 3.27565 3.01812 3.84084 2.52478 2.51518 2.29428 3.55090 2.98482 3.91318 3.08878 2.73582 2.79069 2.96288 2.69545 5.01142 3.49840\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12277 4.53129 2.25601 0.61958 0.77255 0.00000 *\n- 1 2.82928 4.81049 3.27132 2.76234 4.01953 3.63566 3.82325 3.40212 2.26633 3.03691 1.57677 2.78337 4.03843 2.66601 2.84912 2.91950 3.05446 3.13383 5.31576 4.04873 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42645 5.14879 0.61958 0.77255 0.50966 0.91805\n- 2 2.70181 4.96696 1.93675 2.49678 4.22683 2.78652 3.21485 3.11566 2.50710 3.23828 3.34805 3.02458 3.90564 2.85689 2.97908 2.34778 2.93521 3.31256 5.46051 4.10865 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01694 4.48213 5.20447 0.61958 0.77255 0.56703 0.83749\n- 3 2.70619 5.16741 2.43897 2.11036 4.49081 3.47487 3.67308 3.41270 2.11321 3.03547 4.21498 2.30642 3.87433 2.77799 2.91005 2.32686 2.93825 3.54650 5.61239 4.21292 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01694 4.48213 5.20447 0.61958 0.77255 0.56703 0.83749\n- 4 3.36321 4.62583 5.30663 4.75883 2.87418 4.75764 5.18582 1.13341 4.63486 1.65034 3.35334 4.88485 4.98568 4.74520 4.70370 4.12296 3.60007 1.51215 5.50549 4.37094 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01694 4.48213 5.20447 0.61958 0.77255 0.56703 0.83749\n- 5 2.32183 5.20713 2.01595 2.00062 3.54134 3.47572 3.71438 3.99278 2.49052 3.50176 4.26462 2.43143 3.90128 2.82739 2.98868 2.46672 2.99143 3.58303 5.66011 4.25584 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01694 4.48213 5.20447 0.61958 0.77255 0.56703 0.83749\n- 6 2.73372 5.22094 2.62871 1.98285 4.56205 3.48499 3.67831 4.03906 1.81895 3.51954 4.26682 2.95486 3.88754 2.78028 2.28907 2.48770 2.71694 3.61032 5.65063 4.25001 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01694 4.48213 5.20447 0.61958 0.77255 0.56703 0.83749\n- 7 2.63607 4.45442 4.88432 4.29670 1.96637 4.31495 4.63991 2.09936 4.14124 1.22766 3.16874 4.41079 4.607'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01612 4.53129 5.25364 0.61958 0.77255 0.48576 0.95510\n- 90 2.70926 5.14391 2.54685 2.20367 4.45830 3.49317 3.22168 3.92324 2.26158 3.05617 3.48381 2.13696 3.88688 2.79233 2.91992 2.45966 2.94055 3.11095 5.59517 4.20337 90 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01612 4.53129 5.25364 0.61958 0.77255 0.48576 0.95510\n- 91 2.52238 5.03454 2.73771 2.30717 4.31166 3.10327 3.70904 2.96611 2.47881 3.31076 4.09486 2.58854 3.90388 2.83396 2.70353 2.49340 2.27500 2.96964 5.51142 4.14611 91 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01612 4.53129 5.25364 0.61958 0.77255 0.48576 0.95510\n- 92 2.92249 4.31603 4.63472 4.04166 2.79877 4.09056 4.40470 1.67205 3.88403 1.35152 2.78721 3.25038 4.42288 4.04137 3.97781 3.39840 3.15251 2.37593 4.92184 3.75396 92 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01612 4.53129 5.25364 0.61958 0.77255 0.48576 0.95510\n- 93 2.34654 4.55138 3.57840 3.01043 3.71502 3.74370 3.99064 2.56023 1.68871 2.26736 3.63953 3.44031 4.12308 3.27226 3.28186 2.98971 3.01671 2.20962 5.16992 3.92546 93 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01612 4.53129 5.25364 0.61958 0.77255 0.48576 0.95510\n- 94 2.71562 5.02876 3.05136 2.49429 3.60175 2.76476 3.71436 3.24424 2.16536 3.30347 4.09118 2.52379 3.91193 2.84139 2.15462 2.35605 2.94646 3.38254 5.50572 4.14611 94 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12041 4.53129 2.27618 0.61958 0.77255 0.48576 0.95510\n- 95 2.47502 4.49291 3.41423 2.18637 3.64057 3.61810 3.85870 3.00593 2.81706 2.25749 2.37253 3.29600 3.33801 3.13814 3.20251 2.85408 2.91011 2.77004 5.06050 3.20685 95 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13209 4.42877 2.19098 0.61958 0.77255 0.64444 0.74435\n- 96 2.85050 5.23087 3.07649 1.99457 4.60803 3.56042 3.67190 4.03579 1.84274 3.50189 4.28899 3.04005 3.19300 2.78482 1.77054 2.81952 3.06178 3.64441 5.60368 4.28457 96 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09297 4.31670 2.58443 0.61958 0.77255 0.77904 0.61406\n- 97 2.63665 4.74975 3.09790 2.54311 3.99091 2.99183 3.69537 3.39166 2.48968 2.70292 3.84835 2.70080 3.20061 2.86493 2.19042 2.69644 2.87245 2.61936 5.28120 3.97057 97 r - - -\n- 2.68623 4.42230 2.77503 2.73110 3.46359 2.40517 3.72499 3.29359 2.67745 2.69360 4.24694 2.90329 2.73744 3.18151 2.89785 2.37891 2.77524 2.98523 4.58482 3.61508\n- 0.31021 1.32159 * 0.18866 1.76064 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/TPR_III-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/TPR_III-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1328 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME TPR_III-A_2\n-LENG 435\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:36 2020\n-NSEQ 4\n-EFFN 0.699219\n-CKSUM 1780395027\n-GA 103 102;\n-STATS LOCAL MSV -11.8518 0.69876\n-STATS LOCAL VITERBI -12.5557 0.69876\n-STATS LOCAL FORWARD -5.7616 0.69876\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61034 4.21816 2.77894 2.57173 3.19044 3.23913 3.71021 2.74765 2.45772 2.43107 3.72816 2.90370 3.74259 3.08620 3.00675 2.73773 3.00665 2.76694 4.22047 3.18485\n- 2.68567 4.42125 2.77521 2.73189 3.46292 2.40534 3.72560 3.29259 2.67748 2.69362 4.24616 2.90267 2.73805 3.18164 2.89866 2.37888 2.77521 2.98466 4.58543 3.61495\n- 0.31916 1.90990 2.07826 2.96406 0.05299 0.00000 *\n- 1 2.98057 4.52697 4.06509 3.65954 3.21388 3.84501 4.39127 2.39093 3.42686 1.80623 1.35004 3.93526 4.30558 3.80770 3.63048 3.33127 3.28611 2.39878 5.05673 3.81986 34 m - - -\n- 2.68630 4.42237 2.77499 2.73104 3.46366 2.40502 3.72506 3.29258 2.67753 2.69367 4.24702 2.90358 2.73751 3.18158 2.89813 2.37899 2.77531 2.98530 4.58489 3.61441\n- 0.19547 1.78620 4.60952 1.43224 0.27282 0.41997 1.07023\n- 2 2.67994 4.34051 3.81777 3.33465 3.43854 3.60952 4.17210 2.50521 3.17311 2.17816 1.77024 3.62467 4.09945 3.53115 3.43825 2.97299 2.26201 2.37939 5.09727 3.88801 41 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 3 2.95329 5.50434 1.72598 1.26842 4.79363 3.23748 3.77597 4.30695 2.78243 3.81527 4.66975 2.70540 3.85518 2.94254 3.36809 2.84051 3.24077 3.88549 5.96522 4.47191 42 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 4 2.84541 5.38743 1.90833 1.59988 4.67918 3.26672 3.69859 4.18078 2.60331 3.67101 4.48298 2.72443 3.82500 2.19803 3.14377 2.75512 3.10973 3.75840 5.82499 4.35881 43 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 5 2.70882 4.27434 3.89447 3.35831 3.32090 3.74541 4.12042 1.95490 3.23475 1.67399 3.28173 3.66391 4.14716 3.54157 3.49861 2.43383 2.96786 2.19688 4.94638 3.71722 44 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 6 2.76000 5.19801 2.14200 2.26143 4.51373 3.33863 3.63723 3.98147 1.99387 3.48195 4.28008 2.81334 3.82193 2.00574 2.83580 2.70812 3.00236 3.58310 5.62713 4.23120 45 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 7 2.82515 5.35063 1.91723 1.62638 4.65269 3.28048 3.68373 4.14334 2.09229 3.63520 4.44113 2.74028 3.822'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 428 0.83133 4.26601 3.60746 3.40735 4.19436 3.08641 4.41244 3.34091 3.42727 3.21594 4.23417 3.52058 3.83893 3.75611 3.66696 2.61593 2.90298 2.97127 5.60766 4.42391 481 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 429 2.91830 4.42469 4.31522 3.98446 3.65446 3.86513 4.76328 2.05285 3.85434 2.31864 3.60036 4.15155 4.41925 4.20500 4.05323 3.37880 3.27732 0.86687 5.46167 4.20109 482 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 430 2.81022 5.23600 2.51399 1.70289 4.55989 3.33945 3.65873 4.01925 2.00822 3.52019 4.33164 2.22341 3.84233 2.79684 2.82727 2.75270 3.05504 3.62615 5.66257 4.27309 483 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 431 3.13976 4.52265 4.52820 4.15080 3.47053 4.21267 4.85491 0.92135 3.98158 2.03041 3.38655 4.37697 4.63236 4.31683 4.16256 3.72301 3.43721 1.85918 5.38860 4.13754 484 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 432 2.92665 5.09486 3.10002 2.61973 4.30388 3.54902 2.52455 3.86552 1.34905 3.35490 4.21691 3.08110 3.96618 2.79343 2.34531 2.92168 3.13068 3.53831 5.38107 4.08129 485 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 433 2.62932 4.46957 3.33109 2.79802 3.69591 3.51543 3.80638 2.32146 2.22018 2.67393 3.60875 3.22680 3.93544 3.05380 2.95882 2.79884 2.11460 2.61606 5.10707 3.85497 486 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 434 2.70728 4.99900 1.94283 1.94483 4.24931 3.34049 3.67513 2.73192 2.53238 3.24935 4.09065 2.84422 3.82309 2.82936 3.02579 2.69699 2.95684 3.27523 5.50367 4.12178 487 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17066 4.01087 1.97489 0.61958 0.77255 0.48576 0.95510\n- 435 2.47635 4.55669 2.69259 2.50101 4.21014 3.08318 3.83534 3.73828 2.71558 3.36774 4.21793 1.80301 3.72917 3.04760 3.11561 1.96715 2.86403 3.29534 5.51078 4.15365 488 n - - -\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40517 3.72498 3.29304 2.67745 2.69359 4.24694 2.90314 2.73743 3.18150 2.89805 2.37891 2.77523 2.98522 4.58481 3.61507\n- 0.18822 1.76276 * 0.66158 0.72574 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/TPR_III-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/TPR_III-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1418 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME TPR_III-A_4\n-LENG 465\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:37 2020\n-NSEQ 13\n-EFFN 1.088623\n-CKSUM 3901820593\n-GA 500 500;\n-STATS LOCAL MSV -11.6200 0.69840\n-STATS LOCAL VITERBI -12.4874 0.69840\n-STATS LOCAL FORWARD -6.0598 0.69840\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39175 4.37035 2.94221 2.56106 3.27979 3.18389 3.57461 2.96145 2.58411 2.42627 3.72089 3.10073 3.47913 2.98057 2.74482 2.72921 2.90900 2.76445 4.43571 3.39602\n- 2.68570 4.42243 2.77537 2.73141 3.46371 2.40510 3.72443 3.29352 2.67758 2.69372 4.24597 2.90320 2.73730 3.18164 2.89802 2.37904 2.77514 2.98518 4.58494 3.61521\n- 0.40285 1.49222 2.23758 1.30258 0.31722 0.00000 *\n- 1 2.87264 4.35257 4.19120 3.61314 3.19368 3.98510 4.27147 2.19951 3.48948 1.63997 1.87383 3.90004 4.30456 3.21266 3.70731 3.27572 3.10071 2.16454 4.93718 3.78590 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02413 4.13201 4.85435 0.61958 0.77255 0.50941 0.91842\n- 2 2.46362 4.78067 3.02116 2.18810 4.01979 3.44207 3.65715 3.43015 2.46303 3.04332 3.37160 2.98644 2.76577 2.63431 2.91996 2.48804 2.68266 2.88563 5.29648 3.96878 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18497 4.90732 0.61958 0.77255 0.55033 0.85981\n- 3 2.69252 4.98856 2.83909 2.41136 4.32093 3.40740 3.67905 3.75725 2.27880 3.31325 4.11405 1.98242 3.85296 2.62126 2.87128 2.46795 2.29709 3.38945 5.50585 4.15050 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18497 4.90732 0.61958 0.77255 0.55033 0.85981\n- 4 1.96484 4.35892 3.44560 2.88366 3.52913 3.55810 3.83943 2.65349 2.62486 2.28969 3.48219 3.29672 3.95355 3.14799 3.19189 2.60967 2.59970 2.45464 4.96738 3.72727 9 a - - -\n- 2.68566 4.42242 2.77522 2.73111 3.46371 2.40530 3.72512 3.29345 2.67716 2.69342 4.24643 2.90364 2.73757 3.18163 2.89782 2.37904 2.77537 2.98516 4.58494 3.61520\n- 0.32882 1.75928 2.22511 1.51418 0.24845 0.55033 0.85981\n- 5 2.46379 4.93934 2.83556 1.88459 4.21099 3.02834 3.14331 3.64683 2.38709 2.88545 4.01123 2.89762 3.80949 2.56729 2.84591 2.63985 2.87336 3.29343 5.41643 4.05785 16 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02547 4.07887 4.80122 0.61958 0.77255 0.56215 0.84393\n- 6 2.32419 4.90393 2.85300 2.23338 4.22003 3.38114 3.65602 3.65367 2.44753 3.22705 4.02710 2.66551 3.81757 2.59019 2.91573 2.13419 2.42962 3.29375 5.43959 4.08303 17 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02407 4.13465 4.85700 0.61958 0.77255 0.51126 0.91565\n- 7 2.23259 5.00015 2.89340 2.24602 4.30212 3.40757 3.61471 3.75137 2.36862 3.28969 4.06585 2.68087 3.31'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23703 4.95938 0.61958 0.77255 0.48576 0.95510\n- 458 2.85510 4.24944 4.49223 3.91413 2.86452 4.04739 4.38861 1.57601 3.78346 1.84829 3.20891 4.08421 3.42538 3.97374 3.92393 3.35780 3.09011 1.69030 4.95351 3.77629 470 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23703 4.95938 0.61958 0.77255 0.48576 0.95510\n- 459 2.33521 4.97095 2.94661 2.05844 4.29833 3.12547 3.66137 3.73211 2.39514 3.28629 4.07771 2.95902 3.84944 2.79058 2.10738 2.67001 2.48765 3.36298 5.47676 4.12381 471 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06744 4.23703 2.98061 0.61958 0.77255 0.48576 0.95510\n- 460 2.48086 5.11203 2.60072 2.33271 4.42996 2.77297 3.23465 3.89375 1.78485 3.40674 4.17788 2.62590 3.82574 2.75171 2.86954 2.65409 2.92102 3.49211 5.56646 4.17378 472 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06955 4.19230 2.95513 0.61958 0.77255 0.54169 0.87171\n- 461 2.04524 4.68254 3.05770 2.55790 4.14214 3.33232 3.74485 3.55726 2.20871 3.16724 3.98135 3.03227 3.19231 2.90715 2.97942 2.04663 2.57386 3.19074 5.40423 4.08824 473 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02378 4.14654 4.86888 0.61958 0.77255 0.59350 0.80383\n- 462 2.44833 4.87422 2.75111 2.12643 3.53213 3.41621 3.62071 3.55938 2.29575 2.87145 3.94027 2.93030 3.81089 2.55773 2.87465 2.62273 2.47870 3.21655 5.36307 4.01210 474 e - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40505 3.72497 3.29356 2.67733 2.69357 4.24692 2.90349 2.73742 3.18127 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.37190 1.83547 1.89024 0.28254 1.40189 0.59350 0.80383\n- 463 2.36010 4.78785 2.60591 2.39654 4.12579 3.33026 3.65083 3.54092 2.28238 3.14248 3.95708 2.91160 3.22893 2.80452 2.92038 2.61158 2.15463 3.19303 5.37605 4.03479 476 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15223 3.99181 2.09766 0.61958 0.77255 0.64841 0.73997\n- 464 2.38308 4.30930 3.37972 2.81995 2.99523 3.50621 3.24333 2.80438 2.73448 2.51122 3.41520 3.23147 3.89529 3.07414 2.77393 2.75942 2.79089 2.17565 4.85764 3.59122 477 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02956 3.93182 4.65416 0.61958 0.77255 0.78278 0.61089\n- 465 1.72393 4.45054 3.04051 2.66692 4.07734 3.17338 3.82895 3.44771 2.33888 3.11970 3.96838 3.06866 3.75973 3.03632 3.01089 2.07568 2.79914 3.07125 5.38094 4.10563 478 a - - -\n- 2.68607 4.42237 2.77532 2.73121 3.46366 2.40486 3.72507 3.29366 2.67753 2.69354 4.24702 2.90359 2.73709 3.18159 2.89813 2.37870 2.77532 2.98531 4.58489 3.61515\n- 0.51683 0.90736 * 0.79222 0.60302 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/TniQ_I-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/TniQ_I-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,440 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME TniQ_I-F_1\n-LENG 139\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:37 2020\n-NSEQ 100\n-EFFN 6.948853\n-CKSUM 395630130\n-GA 38 37;\n-STATS LOCAL MSV -10.0456 0.71070\n-STATS LOCAL VITERBI -11.0778 0.71070\n-STATS LOCAL FORWARD -3.5287 0.71070\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53228 3.50412 3.10565 2.68256 3.47551 2.95801 3.39821 3.09889 2.83181 2.32322 3.80856 3.21579 3.06369 3.05708 2.67976 2.60985 2.83909 2.85784 4.05892 3.58655\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.00000 *\n- 1 2.61203 4.80164 4.49207 3.91380 3.62865 3.80861 4.16538 2.98426 3.82678 2.25559 3.34724 3.63915 1.01843 4.08106 3.56770 3.10725 3.15702 2.77900 5.40499 3.72085 1 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 2 3.07512 4.26118 5.19085 4.57860 2.87808 3.87227 4.76778 1.39197 4.37340 1.88153 2.83115 3.89370 3.29689 3.71224 2.92106 3.38812 3.33719 2.21356 4.89831 3.12178 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02184 5.63480 4.01574 0.61958 0.77255 0.48576 0.95510\n- 3 2.72432 4.48941 3.84328 3.10515 2.36015 1.91308 2.52597 3.23007 3.05978 3.19250 4.03803 3.75083 4.08349 3.45174 2.06933 3.04992 2.50792 3.19468 5.02809 4.19071 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00541 5.61837 6.34071 0.61958 0.77255 0.56890 0.83505\n- 4 3.14283 4.10078 4.58155 4.51638 3.19846 4.41891 4.74718 2.20009 4.32281 1.90709 3.76952 4.08438 1.49777 3.76238 4.11700 3.72581 3.36754 1.65478 5.27142 3.60776 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00541 5.61837 6.34071 0.61958 0.77255 0.56890 0.83505\n- 5 2.35809 5.68717 3.17169 2.48628 5.03113 1.82813 3.82528 4.26854 2.31547 3.72139 4.72813 3.42126 2.57124 2.68499 2.78411 2.28649 2.94764 3.27987 6.12052 4.71025 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00541 5.61837 6.34071 0.61958 0.77255 0.43708 1.03824\n- 6 3.15072 4.71234 4.84283 4.25032 3.33606 4.38519 4.69599 2.62691 4.11150 2.18391 3.62602 4.41084 1.32396 3.89811 3.99398 2.51897 1.95448 2.58358 5.32674 3.83970 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 7 2.49947 3.98197 3.78649 3.07931 3.15912 2.87822 3.53286 3.02764 3.30183 2.25911 3.48423 4.01063 2.70324 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 132 5.61973 0.02769 6.77388 6.84307 7.04229 5.62559 7.30789 6.99027 6.90025 6.46779 7.67791 6.79311 6.34223 7.17255 6.71061 5.89293 6.15947 6.50273 7.72356 7.26655 309 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 133 2.67077 4.54309 3.08144 3.00175 3.86663 4.11677 2.80975 3.36673 3.12972 2.06112 4.25843 3.73029 1.61049 3.46810 3.36904 2.66148 3.03672 2.46385 5.71702 4.43738 310 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 134 3.14062 5.64289 3.10187 2.09132 4.66544 3.80113 3.04860 2.35323 2.01265 3.05675 4.49827 3.29464 4.36700 2.86032 2.05739 3.05408 3.27114 2.56633 6.09014 3.93004 311 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 135 5.26980 7.01750 4.63157 3.88570 5.75845 5.24993 0.09844 6.52942 4.80224 5.82203 6.93481 5.13252 5.90783 5.31769 5.04718 5.24578 5.61916 6.14511 7.02407 5.64201 312 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 136 2.87282 5.70225 3.03795 2.80045 5.04843 2.10999 2.86141 4.53510 2.06319 4.00793 4.74266 2.61735 4.35591 1.77989 2.38643 2.79652 3.14751 4.09350 6.13419 4.37176 313 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00961 5.63480 5.11687 0.61958 0.77255 0.48576 0.95510\n- 137 2.98549 1.75632 4.27411 3.49816 3.88094 3.68175 3.78824 2.41907 3.71966 2.32498 3.70979 4.25734 4.70382 2.50978 3.23155 3.49227 2.61349 2.05395 4.76473 3.11895 314 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00534 5.63053 6.35287 0.61958 0.77255 0.47200 0.97751\n- 138 2.57181 5.35374 3.48020 2.81212 3.68231 3.63531 4.25814 3.98560 2.44549 2.26187 3.60669 3.59593 2.61456 2.61734 1.97517 2.96986 3.43791 2.62867 3.55712 3.53240 315 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00532 5.63480 6.35714 0.61958 0.77255 0.48576 0.95510\n- 139 4.84036 6.00404 6.83354 6.25215 4.10739 6.29943 6.58574 2.73018 6.13006 0.25636 3.18147 6.49108 6.21659 5.87892 6.01433 5.72383 3.72673 3.15670 6.42809 5.54467 316 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00358 5.63306 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/Toprim_III-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/Toprim_III-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,731 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME Toprim_III-C_1\n-LENG 236\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:37 2020\n-NSEQ 4\n-EFFN 0.644531\n-CKSUM 464009023\n-GA 73 70;\n-STATS LOCAL MSV -10.4638 0.70349\n-STATS LOCAL VITERBI -11.5711 0.70349\n-STATS LOCAL FORWARD -4.8459 0.70349\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49397 4.46988 2.87035 2.70512 3.30056 3.05229 3.82979 2.63746 2.68359 2.36759 3.71343 2.95038 3.43668 3.03928 2.98262 2.71943 2.88342 2.51788 5.00182 3.63399\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67721 2.69358 4.24584 2.90350 2.73743 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.14277 2.08810 4.69693 0.65710 0.73054 0.00000 *\n- 1 3.09863 4.50786 4.50729 3.96992 3.16671 4.26286 4.62240 1.78960 3.79665 1.62367 1.64737 4.24592 4.55127 4.03869 3.98410 3.61178 3.34288 2.11373 5.13233 3.98585 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 2 2.13702 4.98522 2.67462 1.85133 4.31533 3.34581 3.65176 3.71816 2.08580 3.29627 4.12199 2.87368 3.82350 2.80028 2.80705 2.70168 2.95886 3.36569 5.49633 4.14722 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 3 3.11093 4.50243 4.47884 4.09917 3.44434 4.17519 4.80905 0.95980 3.92925 2.01046 3.36479 4.33028 4.59736 4.26756 4.11424 3.68106 3.40861 1.85336 5.35568 4.10222 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 4 2.71746 4.69686 3.14173 2.64014 3.61552 3.51239 2.48107 3.26683 2.40184 2.23917 3.76899 3.10200 3.91494 2.45473 2.73281 2.80043 2.94338 3.01652 5.00815 3.62524 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 5 3.04603 4.39657 4.67110 4.18183 3.54495 4.33203 4.91886 1.51759 4.06089 2.07038 3.36799 4.41048 4.67773 4.34451 4.27351 3.72068 3.32069 1.07220 5.48634 4.26809 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 6 3.39021 4.76231 4.37865 4.11326 0.85838 4.05463 3.92553 2.90212 4.01790 2.24902 3.61768 4.13518 4.51149 4.15793 4.11238 3.65442 3.69168 2.90019 4.14571 2.50048 8 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 7 1.26157 4.16798 3.38065 3.14444 4.29525 1.90044 4.23975 3.64600 3.24181 3.39143 4.24515 3.30347 3.6946'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 229 3.11093 4.50243 4.47884 4.09917 3.44434 4.17519 4.80905 0.95980 3.92925 2.01046 3.36479 4.33028 4.59736 4.26756 4.11424 3.68106 3.40861 1.85336 5.35568 4.10222 254 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 230 0.87608 4.24518 3.56811 3.36502 4.15580 3.06680 4.37475 3.29674 3.38394 3.17355 4.19486 3.48823 3.81576 3.71592 3.62690 2.59495 2.87942 2.93346 5.57276 4.38460 255 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 231 0.87608 4.24518 3.56811 3.36502 4.15580 3.06680 4.37475 3.29674 3.38394 3.17355 4.19486 3.48823 3.81576 3.71592 3.62690 2.59495 2.87942 2.93346 5.57276 4.38460 256 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 232 3.10895 4.46629 4.62521 4.11363 2.11924 4.29190 4.46621 1.39158 3.98663 1.74094 3.09032 4.29366 4.57987 4.14766 4.13049 3.64751 3.35152 2.05892 4.82623 3.44676 257 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 233 2.83148 5.09927 2.71098 1.47074 4.43117 3.39418 3.67175 3.86639 2.30738 3.39628 4.24696 2.92330 3.87885 2.82266 2.20135 2.80872 3.07205 3.51584 5.53534 4.21464 258 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 234 1.60422 4.32586 3.70006 3.27298 3.56295 3.47023 4.17824 2.54682 3.16114 1.81331 3.51882 3.55122 4.02791 3.51812 3.44445 2.86639 2.95220 2.37895 5.18929 3.94046 259 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 235 3.11121 4.42519 4.77103 4.23744 3.39603 4.45433 4.90118 1.42580 4.12394 1.61255 3.20045 4.47945 4.71545 4.34258 4.30778 3.81317 3.35736 1.39336 5.37275 4.21139 260 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 236 2.61897 4.65208 3.03787 2.57539 3.88298 3.39703 3.69991 3.30753 2.46092 2.47692 3.82146 3.04543 3.84992 2.18234 2.83063 2.15708 2.87969 3.02131 5.21216 3.89907 261 s - - -\n- 2.68625 4.42232 2.77526 2.73130 3.46361 2.40519 3.72501 3.29361 2.67747 2.69362 4.24696 2.90353 2.73711 3.18098 2.89807 2.37869 2.77526 2.98525 4.58484 3.61510\n- 0.19179 1.74573 * 0.93130 0.50094 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,962 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME WYL_I_II_III_IV_V_VI_1\n-LENG 313\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:38 2020\n-NSEQ 40\n-EFFN 8.540039\n-CKSUM 4286909925\n-GA 31.9 31;\n-STATS LOCAL MSV -10.7758 0.70094\n-STATS LOCAL VITERBI -11.6925 0.70094\n-STATS LOCAL FORWARD -5.1704 0.70094\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44039 4.51043 2.89552 2.57464 3.36578 3.03578 3.75025 2.86239 2.75502 2.35456 3.69472 3.25011 3.35151 3.02282 2.61049 2.68633 2.92038 2.73592 4.51924 3.50406\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.55478 5.82079 0.86077 0.61958 0.77255 0.00000 *\n- 1 2.99854 5.50335 2.86379 1.90346 4.84599 2.85717 3.96040 4.33022 2.29397 3.80756 3.39806 2.65290 4.16654 3.05754 2.18057 2.08141 2.89712 3.89269 3.54442 4.52802 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00764 5.27365 5.99600 0.61958 0.77255 1.56747 0.23392\n- 2 2.61434 5.49317 2.89218 2.20379 4.82296 3.79910 3.98780 4.29826 2.72857 2.93087 2.74004 2.77835 3.19652 2.79889 1.60600 2.79185 3.25075 3.87558 5.93507 3.77312 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00733 5.31500 6.03735 0.61958 0.77255 1.42604 0.27478\n- 3 2.65889 5.13301 3.55907 2.99937 4.33674 3.92987 2.66997 2.99557 2.26774 2.07717 2.86085 3.15621 4.31740 2.62981 2.55361 3.14127 2.86048 3.44528 5.66076 2.71667 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00691 5.37432 6.09667 0.61958 0.77255 0.63343 0.75666\n- 4 3.23360 4.89503 2.47894 3.64404 4.02274 4.23895 3.15990 2.24226 3.58784 3.10198 1.47141 4.01991 4.61633 3.87705 3.12723 2.47274 2.93803 2.37065 5.48462 3.42220 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00540 5.61970 6.34205 0.61958 0.77255 0.34977 1.22026\n- 5 3.00607 5.77786 2.67891 2.55885 5.11971 4.04986 4.23723 4.60336 2.49772 4.08173 2.18915 2.03118 4.44328 3.33462 1.84122 2.31410 2.80197 4.16678 3.82050 4.80351 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78020 6.50255 0.61958 0.77255 0.71280 0.67388\n- 6 3.50832 5.94261 2.71992 3.20389 5.31413 4.25295 4.37587 4.76239 1.27435 1.74710 4.98993 3.72599 3.15035 3.09690 1.76489 3.47437 3.72471 4.35048 6.32847 4.97999 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78020 6.50255 0.61958 0.77255 0.71280 0.67388\n- 7 1.32460 4.82071 3.77471 4.29859 3.92287 4.47309 4.78172 2.87779 4.16856 1.83132 3.93679 4.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00643 5.44509 6.16744 0.61958 0.77255 1.58661 0.22893\n- 306 1.78433 5.59387 2.94998 2.00799 4.93770 3.86055 3.32058 3.59778 1.94396 3.89838 4.63500 3.32856 4.25418 3.14456 2.27645 2.17157 3.31806 3.98388 6.02705 4.61731 350 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00643 5.44509 6.16744 0.61958 0.77255 1.58661 0.22893\n- 307 2.10611 3.44671 4.87333 4.27312 3.66216 2.62197 4.61052 2.39391 2.96861 1.71289 2.48100 4.37015 4.65667 4.28330 2.77431 3.59057 3.38175 2.27577 5.18336 3.17760 351 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00643 5.44509 6.16744 0.61958 0.77255 1.58661 0.22893\n- 308 2.77981 4.75836 4.19525 3.62181 3.88028 2.98133 4.42765 2.78572 3.54834 1.23879 3.86584 3.97310 4.53476 2.19828 2.44179 3.41811 3.36770 2.69932 5.35233 3.31471 352 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00643 5.44509 6.16744 0.61958 0.77255 1.58661 0.22893\n- 309 3.08540 5.59502 2.83972 2.37296 3.66954 3.20217 4.04618 4.42533 2.51797 3.32867 4.63583 2.52779 4.25255 2.50213 1.82374 1.75680 3.31656 3.98545 6.02787 4.61721 353 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00643 5.44509 6.16744 0.61958 0.77255 1.58661 0.22893\n- 310 1.66332 5.55318 3.36415 2.80940 4.87869 3.87654 3.19444 3.02175 1.69691 3.84916 4.60037 2.23120 4.26990 2.77480 3.28609 2.40750 3.32769 3.93357 5.99739 4.60174 354 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00643 5.44509 6.16744 0.61958 0.77255 1.58661 0.22893\n- 311 3.15392 4.67265 4.47084 3.89084 2.99067 3.33005 2.74331 3.12937 3.79129 2.11745 3.78577 4.15124 3.10953 3.05361 4.01688 3.50678 3.38583 2.39339 5.25363 1.30784 355 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06649 5.44509 2.81318 0.61958 0.77255 1.58661 0.22893\n- 312 2.20157 3.38709 2.82373 1.83856 4.83556 2.62927 4.02740 2.97405 2.77131 3.06708 4.55900 2.56308 4.23078 2.50013 3.26020 2.45754 3.28679 3.89125 5.95856 4.56122 356 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08108 5.38543 2.61329 0.61958 0.77255 1.66798 0.20903\n- 313 2.22998 3.72035 3.31528 2.75890 4.72172 2.21137 3.15422 3.39894 1.91099 3.70665 4.47245 2.61740 4.20434 2.76568 3.24278 2.41609 2.83256 3.26679 5.87969 4.49662 357 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00496 5.30931 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1412 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME WYL_I_II_III_IV_V_VI_2\n-LENG 463\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:38 2020\n-NSEQ 33\n-EFFN 1.776489\n-CKSUM 1310724157\n-GA 380 255;\n-STATS LOCAL MSV -11.6848 0.69841\n-STATS LOCAL VITERBI -12.6162 0.69841\n-STATS LOCAL FORWARD -5.7794 0.69841\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62873 4.37902 2.96219 2.61026 3.22166 3.27935 3.64601 2.91089 2.64752 2.35288 3.70666 3.09138 3.33382 2.86060 2.77585 2.74054 2.89190 2.76792 4.05536 3.19975\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.43706 4.54272 1.06879 0.61958 0.77255 0.00000 *\n- 1 2.59425 4.48385 3.03147 2.68620 3.66141 3.49732 3.74524 3.02971 2.55996 2.55000 2.26559 3.14728 3.26786 2.99085 3.05606 2.60027 2.70923 2.77710 5.05171 3.78544 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02419 4.12984 4.85219 0.61958 0.77255 0.62874 0.76199\n- 2 2.54446 3.46136 3.70233 3.12963 3.37010 3.42843 3.92914 2.48625 2.76702 2.26832 2.40211 3.23490 3.70893 3.34059 3.36300 2.58611 2.75538 2.43175 4.84385 3.62841 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02006 4.31481 5.03716 0.61958 0.77255 0.50640 0.92297\n- 3 2.68342 5.07828 2.77846 2.12954 4.37826 3.47554 3.47411 3.83338 2.42254 3.07534 2.92706 2.53079 3.55951 2.74136 2.41733 2.59719 2.70905 3.28303 5.53874 4.15712 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01749 4.45058 5.17293 0.61958 0.77255 0.57197 0.83107\n- 4 2.49019 5.03099 3.01124 2.20572 4.31258 3.49148 3.68699 3.75580 2.38714 2.98569 3.53341 2.73016 3.31786 2.45577 2.93131 2.20412 2.59093 3.18553 5.50396 4.13534 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01709 4.47357 5.19592 0.61958 0.77255 0.47210 0.97735\n- 5 2.50226 4.62855 2.95646 2.75600 3.17694 3.36542 3.83302 2.76549 2.59964 2.52997 3.15346 3.07978 3.51001 2.83938 2.81079 2.69479 2.62404 2.70286 5.18024 3.57285 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01627 4.52211 5.24446 0.61958 0.77255 0.52152 0.90046\n- 6 2.90362 4.35299 4.33207 3.34324 1.26866 3.97360 4.03771 2.79005 3.63266 2.11814 3.44872 3.92182 4.33531 3.83383 3.78912 2.98229 3.13485 2.61298 3.35211 3.06540 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01627 4.52211 5.24446 0.61958 0.77255 0.52152 0.90046\n- 7 2.62007 4.53274 2.55466 1.96498 4.52225 3.48205 3.48323 4.00042 2.23658 3.26240 3.77625 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 456 2.50984 4.17480 4.21253 3.62361 3.05066 3.81775 4.12020 2.62071 3.49548 1.68687 2.85783 3.81423 4.18652 3.40235 3.40880 2.71362 2.94120 2.42758 2.71512 2.92722 490 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 457 2.39646 5.13123 2.99716 2.38137 3.94631 3.20132 3.45404 3.90181 2.10267 3.13514 3.81664 2.61074 3.89182 2.21898 2.74207 2.55002 2.70023 3.50256 5.58569 4.19787 491 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 458 2.79945 4.27074 4.22323 3.64909 2.02225 3.88352 2.70710 2.72518 3.52931 1.99551 2.72695 2.91926 4.24936 3.73891 3.70821 3.17118 3.03067 2.53327 3.38982 3.02140 492 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 459 4.22751 5.47220 4.71255 4.52228 2.30437 4.73901 3.18628 4.17123 4.30359 3.41102 4.69885 4.37344 5.10523 4.44870 4.38018 4.20129 4.46175 4.06186 3.97325 0.45418 493 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 460 2.61968 5.20140 2.87288 2.06110 4.53724 3.00407 3.07052 4.01569 2.27744 3.30052 4.24493 2.96173 3.88436 2.09338 2.53078 2.51800 2.94636 3.41103 5.63880 4.23496 494 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19032 4.54272 1.81609 0.61958 0.77255 0.48576 0.95510\n- 461 2.55787 5.12466 2.51744 2.31812 4.44979 3.01096 3.16495 3.92201 2.28669 3.13124 4.17083 2.79991 3.18632 2.45429 2.77118 2.41418 2.89363 3.24203 5.56928 4.17050 495 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21732 4.37134 1.69994 0.61958 0.77255 0.73349 0.65437\n- 462 2.61792 4.79480 2.39310 2.34326 4.02964 3.22260 3.65856 2.76888 2.47234 2.76018 3.87331 2.86581 3.83694 2.81605 2.93433 2.49030 2.59438 3.12312 5.30692 3.97581 496 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05484 4.17708 3.26955 0.61958 0.77255 0.92184 0.50715\n- 463 2.59041 4.47139 2.90440 2.51577 3.38326 3.50949 3.37385 3.01120 2.66540 2.50210 3.18529 3.01204 3.89334 2.99085 3.07183 2.54624 2.82198 2.32267 4.37602 3.76331 497 v - - -\n- 2.68625 4.42181 2.77519 2.73130 3.46361 2.40508 3.72501 3.29361 2.67748 2.69346 4.24697 2.90334 2.73746 3.18136 2.89808 2.37879 2.77515 2.98525 4.58484 3.61510\n- 0.54931 0.86120 * 0.14328 2.01373 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1412 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME WYL_I_II_III_IV_V_VI_3\n-LENG 463\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:39 2020\n-NSEQ 33\n-EFFN 1.776489\n-CKSUM 1310724157\n-GA 468 352;\n-STATS LOCAL MSV -11.6848 0.69841\n-STATS LOCAL VITERBI -12.6162 0.69841\n-STATS LOCAL FORWARD -5.7794 0.69841\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62873 4.37902 2.96219 2.61026 3.22166 3.27935 3.64601 2.91089 2.64752 2.35288 3.70666 3.09138 3.33382 2.86060 2.77585 2.74054 2.89190 2.76792 4.05536 3.19975\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.43706 4.54272 1.06879 0.61958 0.77255 0.00000 *\n- 1 2.59425 4.48385 3.03147 2.68620 3.66141 3.49732 3.74524 3.02971 2.55996 2.55000 2.26559 3.14728 3.26786 2.99085 3.05606 2.60027 2.70923 2.77710 5.05171 3.78544 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02419 4.12984 4.85219 0.61958 0.77255 0.62874 0.76199\n- 2 2.54446 3.46136 3.70233 3.12963 3.37010 3.42843 3.92914 2.48625 2.76702 2.26832 2.40211 3.23490 3.70893 3.34059 3.36300 2.58611 2.75538 2.43175 4.84385 3.62841 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02006 4.31481 5.03716 0.61958 0.77255 0.50640 0.92297\n- 3 2.68342 5.07828 2.77846 2.12954 4.37826 3.47554 3.47411 3.83338 2.42254 3.07534 2.92706 2.53079 3.55951 2.74136 2.41733 2.59719 2.70905 3.28303 5.53874 4.15712 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01749 4.45058 5.17293 0.61958 0.77255 0.57197 0.83107\n- 4 2.49019 5.03099 3.01124 2.20572 4.31258 3.49148 3.68699 3.75580 2.38714 2.98569 3.53341 2.73016 3.31786 2.45577 2.93131 2.20412 2.59093 3.18553 5.50396 4.13534 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01709 4.47357 5.19592 0.61958 0.77255 0.47210 0.97735\n- 5 2.50226 4.62855 2.95646 2.75600 3.17694 3.36542 3.83302 2.76549 2.59964 2.52997 3.15346 3.07978 3.51001 2.83938 2.81079 2.69479 2.62404 2.70286 5.18024 3.57285 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01627 4.52211 5.24446 0.61958 0.77255 0.52152 0.90046\n- 6 2.90362 4.35299 4.33207 3.34324 1.26866 3.97360 4.03771 2.79005 3.63266 2.11814 3.44872 3.92182 4.33531 3.83383 3.78912 2.98229 3.13485 2.61298 3.35211 3.06540 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01627 4.52211 5.24446 0.61958 0.77255 0.52152 0.90046\n- 7 2.62007 4.53274 2.55466 1.96498 4.52225 3.48205 3.48323 4.00042 2.23658 3.26240 3.77625 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 456 2.50984 4.17480 4.21253 3.62361 3.05066 3.81775 4.12020 2.62071 3.49548 1.68687 2.85783 3.81423 4.18652 3.40235 3.40880 2.71362 2.94120 2.42758 2.71512 2.92722 490 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 457 2.39646 5.13123 2.99716 2.38137 3.94631 3.20132 3.45404 3.90181 2.10267 3.13514 3.81664 2.61074 3.89182 2.21898 2.74207 2.55002 2.70023 3.50256 5.58569 4.19787 491 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 458 2.79945 4.27074 4.22323 3.64909 2.02225 3.88352 2.70710 2.72518 3.52931 1.99551 2.72695 2.91926 4.24936 3.73891 3.70821 3.17118 3.03067 2.53327 3.38982 3.02140 492 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 459 4.22751 5.47220 4.71255 4.52228 2.30437 4.73901 3.18628 4.17123 4.30359 3.41102 4.69885 4.37344 5.10523 4.44870 4.38018 4.20129 4.46175 4.06186 3.97325 0.45418 493 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54272 5.26506 0.61958 0.77255 0.48576 0.95510\n- 460 2.61968 5.20140 2.87288 2.06110 4.53724 3.00407 3.07052 4.01569 2.27744 3.30052 4.24493 2.96173 3.88436 2.09338 2.53078 2.51800 2.94636 3.41103 5.63880 4.23496 494 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19032 4.54272 1.81609 0.61958 0.77255 0.48576 0.95510\n- 461 2.55787 5.12466 2.51744 2.31812 4.44979 3.01096 3.16495 3.92201 2.28669 3.13124 4.17083 2.79991 3.18632 2.45429 2.77118 2.41418 2.89363 3.24203 5.56928 4.17050 495 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21732 4.37134 1.69994 0.61958 0.77255 0.73349 0.65437\n- 462 2.61792 4.79480 2.39310 2.34326 4.02964 3.22260 3.65856 2.76888 2.47234 2.76018 3.87331 2.86581 3.83694 2.81605 2.93433 2.49030 2.59438 3.12312 5.30692 3.97581 496 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05484 4.17708 3.26955 0.61958 0.77255 0.92184 0.50715\n- 463 2.59041 4.47139 2.90440 2.51577 3.38326 3.50949 3.37385 3.01120 2.66540 2.50210 3.18529 3.01204 3.89334 2.99085 3.07183 2.54624 2.82198 2.32267 4.37602 3.76331 497 v - - -\n- 2.68625 4.42181 2.77519 2.73130 3.46361 2.40508 3.72501 3.29361 2.67748 2.69346 4.24697 2.90334 2.73746 3.18136 2.89808 2.37879 2.77515 2.98525 4.58484 3.61510\n- 0.54931 0.86120 * 0.14328 2.01373 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/WYL_I_II_III_IV_V_VI_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,539 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME WYL_I_II_III_IV_V_VI_4\n-LENG 172\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:39 2020\n-NSEQ 471\n-EFFN 11.057030\n-CKSUM 3968222378\n-GA 20 20;\n-STATS LOCAL MSV -10.1960 0.70734\n-STATS LOCAL VITERBI -11.0066 0.70734\n-STATS LOCAL FORWARD -4.4247 0.70734\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54447 4.58567 2.93964 2.51016 3.26837 3.00385 3.72924 2.87999 2.74488 2.41641 3.89548 3.26436 3.23129 3.08556 2.60052 2.78221 2.95094 2.63352 4.20156 3.30090\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00370 5.99652 6.71886 0.61958 0.77255 0.00000 *\n- 1 2.34051 5.92438 2.48936 1.70141 5.09152 3.13525 3.31077 4.70646 2.77505 3.90482 4.96471 3.24815 2.34982 2.46170 2.75466 2.78641 2.75814 3.84006 6.35631 3.93262 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00370 5.99652 6.71886 0.61958 0.77255 0.48576 0.95510\n- 2 2.62204 4.76309 3.43669 3.78584 3.23594 4.45003 2.46004 2.38737 2.89874 2.19135 3.84278 2.46053 4.78325 3.94880 2.90795 3.22531 2.57522 2.14105 4.66222 3.30038 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00352 6.04816 6.77051 0.61958 0.77255 0.48576 0.95510\n- 3 3.21049 4.85676 5.54278 4.87148 2.59630 4.73711 4.73592 1.98333 4.58583 0.94580 3.18365 4.78609 4.90324 4.03511 4.55968 4.02863 3.52622 1.87719 4.93655 3.94858 3 l - - -\n- 2.68620 4.42227 2.77497 2.73125 3.46355 2.40514 3.72496 3.29356 2.67742 2.69357 4.24691 2.90348 2.73741 3.18148 2.89797 2.37888 2.77521 2.98520 4.58479 3.61505\n- 0.01882 4.04526 6.77751 0.33475 1.25707 0.48576 0.95510\n- 4 2.23047 5.96263 2.18696 2.12691 4.58350 3.47982 3.77921 4.79426 2.79083 2.78751 4.04266 2.96425 2.88247 2.34814 2.64132 2.79338 2.80270 4.00453 4.11377 4.20012 5 e - - -\n- 2.68607 4.42248 2.77505 2.73111 3.46377 2.40536 3.72483 3.29311 2.67753 2.69356 4.24713 2.90340 2.73740 3.18169 2.89824 2.37910 2.77519 2.98466 4.58500 3.61440\n- 0.02988 3.56484 6.77951 1.72635 0.19593 0.48576 0.95510\n- 5 2.63021 5.32795 2.38970 2.45767 4.81157 3.98225 4.05956 2.95400 2.27781 2.81203 3.61548 3.25321 3.69227 2.55318 3.02860 2.96770 1.94428 2.84915 6.37388 4.12046 15 t - - -\n- 2.68633 4.42240 2.77523 2.73105 3.46322 2.40511 3.72481 3.29369 2.67746 2.69348 4.24705 2.90362 2.73709 3.18161 2.89789 2.37902 2.77523 2.98520 4.58424 3.61518\n- 0.02599 3.88141 5.29240 1.58068 0.23046 0.48576 0.95510\n- 6 3.39986 4.36703 6.28947 5.72747 3.85836 5.59707 6.03417 1.33073 5.56726 0.90403 4.18722 5.76666 5.88412 5.70002 5.60182 4.94977 4.42381 1.63689 6.42683 5.26640 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00349 6.05399 6.77634 0.61958 0.77255 0.46677 0.98624\n- 7 1.99916 5.31587 3.38580 2.12665 3.92593 3.70571 3.48830 3.10609 2.73723 2.40775 3.55467 3.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00348 6.05860 6.78095 0.61958 0.77255 0.48576 0.95510\n- 165 1.99298 4.75671 3.90483 3.19244 4.02846 4.01666 3.78093 2.37433 1.76823 2.72671 4.50077 3.71273 4.74998 3.05746 2.07375 3.33234 3.48315 2.53191 5.85490 3.20735 637 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00348 6.05860 6.78095 0.61958 0.77255 0.48576 0.95510\n- 166 1.91495 5.17205 2.29170 1.56574 5.31152 3.71946 4.15616 4.58890 2.51290 4.14296 4.78050 3.03227 4.61890 2.47669 2.63034 2.54796 3.07017 3.71761 5.06666 4.92781 638 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00348 6.05860 6.78095 0.61958 0.77255 0.48576 0.95510\n- 167 2.44755 5.70418 2.97571 1.83823 3.86596 4.00423 3.08109 2.74118 2.76636 2.94180 3.87995 3.60172 4.63998 2.98179 2.26975 2.66883 2.48230 3.48313 4.27272 3.66354 639 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00348 6.05860 6.78095 0.61958 0.77255 0.48576 0.95510\n- 168 1.39927 4.29827 5.53607 4.92039 3.51954 2.38095 4.30579 2.37816 4.70420 1.44746 3.37180 4.75688 5.10134 4.83454 4.65658 3.56570 3.50966 2.41765 3.66624 4.10228 640 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00348 6.05740 6.77975 0.61958 0.77255 0.48576 0.95510\n- 169 2.49024 5.96291 3.25913 1.71145 5.17138 3.52513 3.82135 4.11071 1.79514 2.88839 4.89616 3.23211 4.61680 2.41512 2.01753 2.92382 3.17006 4.19908 5.92404 4.86196 641 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00349 6.05539 6.77774 0.61958 0.77255 0.48576 0.95510\n- 170 2.31806 5.72906 2.71565 2.33882 5.30376 2.26550 4.04368 4.79055 1.98066 3.59908 4.79976 2.70050 4.61097 2.83750 1.94954 2.84634 2.98344 4.23439 4.14804 4.55179 642 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00352 6.04679 6.76914 0.61958 0.77255 0.48576 0.95510\n- 171 1.80579 4.76464 5.49022 4.87491 3.90001 3.23671 5.03001 1.73702 4.65990 1.66290 2.00421 4.77318 5.06021 4.53506 4.66831 3.23591 2.84345 2.57939 4.75161 3.79390 643 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00368 6.00231 6.72465 0.61958 0.77255 0.48576 0.95510\n- 172 1.49319 4.91124 5.41970 4.65691 3.80355 3.79126 4.81578 2.62872 4.37179 1.25514 3.44291 4.82655 5.05163 3.98988 3.37914 3.44303 3.26204 2.26273 4.59013 3.04064 644 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00248 6.00111 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1783 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME cas10-like_IV-C_1\n-LENG 587\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:32 2019\n-NSEQ 4\n-EFFN 0.738281\n-CKSUM 3611885442\n-STATS LOCAL MSV -11.9242 0.69730\n-STATS LOCAL VITERBI -12.9927 0.69730\n-STATS LOCAL FORWARD -6.3474 0.69730\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64467 4.30120 2.95879 2.66269 3.23510 2.96413 3.63858 2.68851 2.61281 2.36371 3.70631 3.14657 3.43172 3.18023 2.93695 2.63397 2.91939 2.57438 4.63247 3.35378\n- 2.68640 4.42247 2.77542 2.73072 3.46376 2.40517 3.72517 3.29290 2.67694 2.69377 4.24489 2.90369 2.73762 3.18168 2.89794 2.37909 2.77516 2.98509 4.58499 3.61525\n- 0.51400 1.51399 1.70445 1.67068 0.20840 0.00000 *\n- 1 2.71927 4.66034 3.24952 2.70914 3.81774 3.50668 3.69023 3.09891 1.70419 2.72592 2.78951 3.14542 3.91703 2.89064 2.57235 2.82421 2.95158 2.88472 5.16059 3.89888 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 2 2.60472 4.57465 3.10065 2.60501 3.65964 2.66286 3.64861 3.22622 2.41891 2.86252 3.73868 3.05786 3.83795 2.88474 2.31413 2.70259 2.85407 2.94711 5.02394 2.83478 9 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 3 3.16193 4.56145 4.43748 3.94567 2.15029 4.23521 4.26148 2.26788 3.80520 1.13997 2.96766 4.16143 4.51617 3.97914 3.97147 3.59754 3.40016 2.34295 4.59437 3.14648 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 4 2.87724 5.37932 1.44434 1.71143 4.66590 3.16075 3.71073 4.16371 2.72453 3.69929 4.56671 2.63967 3.78258 2.88401 3.30338 2.77284 3.16837 3.75957 5.85855 4.37869 11 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 5 2.79907 5.15206 2.29028 1.52318 4.46560 3.20933 3.68687 3.95082 2.55715 3.51130 4.37117 2.17692 3.79159 2.85914 3.02308 2.74445 3.08262 3.57222 5.66400 4.24779 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 6 3.22482 4.63458 4.20193 3.91163 1.05656 3.92026 3.86624 2.75214 3.81941 2.12854 3.48648 3.98924 4.37969 3.99485 3.94574 3.49593 3.52606 2.74081 4.12380 2.49440 13 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 7 2.57609 4.33393 3.41738 3.04719 3.51841 2.39826 3.99184 2.79501 2.95303 1.59734 3.59269 3.37331 3.91499 3.340'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 580 2.30243 4.22228 3.18375 2.99864 4.04983 2.95269 4.10906 3.56899 3.07059 3.29142 4.21999 3.22747 3.68936 3.42208 3.35720 1.13213 2.78062 3.10996 5.42454 4.13330 673 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 581 2.97591 4.81623 3.46390 2.98102 4.16404 3.46858 3.80595 3.70419 2.22814 3.22502 4.22623 3.34263 3.97277 3.02790 1.02008 3.06157 3.24389 3.42938 5.25814 4.09756 674 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 582 1.05304 4.17931 3.43593 3.22640 4.02621 3.00449 4.25154 3.14775 3.24198 3.03056 4.06563 3.38262 3.74122 3.58568 3.49413 2.52999 2.80552 2.80681 5.45605 4.25341 675 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 583 2.97591 4.81623 3.46390 2.98102 4.16404 3.46858 3.80595 3.70419 2.22814 3.22502 4.22623 3.34263 3.97277 3.02790 1.02008 3.06157 3.24389 3.42938 5.25814 4.09756 676 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 584 2.94819 4.91019 3.12236 2.74928 4.29050 3.44016 3.74529 3.71817 1.07551 3.28928 4.25250 3.17481 3.94266 2.93853 2.42783 2.99213 3.20362 3.42759 5.35642 4.16546 677 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 585 2.64311 4.64986 3.11141 2.69324 4.19261 2.30508 3.74383 3.64027 2.32670 3.22570 4.09847 3.10321 3.82480 2.93548 1.64904 2.72546 2.95440 3.27896 5.34667 4.11888 678 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 586 2.94819 4.91019 3.12236 2.74928 4.29050 3.44016 3.74529 3.71817 1.07551 3.28928 4.25250 3.17481 3.94266 2.93853 2.42783 2.99213 3.20362 3.42759 5.35642 4.16546 679 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 3.84571 4.56805 0.61958 0.77255 0.65665 0.73103\n- 587 2.21501 4.17883 3.07606 2.88617 4.25040 1.64134 4.08086 3.71837 3.05254 3.39610 4.23565 3.13407 3.62859 3.34691 3.38229 1.81027 2.69605 3.17258 5.57406 4.32637 680 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 3.83527 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1813 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Cas10-like_1_IVC\n-LENG 597\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 14 21:30:34 2021\n-NSEQ 3\n-EFFN 0.500977\n-CKSUM 2442045812\n-STATS LOCAL MSV -11.7924 0.69723\n-STATS LOCAL VITERBI -12.9796 0.69723\n-STATS LOCAL FORWARD -6.4822 0.69723\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61598 4.32347 2.96671 2.68580 3.19970 2.96891 3.68560 2.69406 2.61377 2.37022 3.70052 3.16303 3.38100 3.19541 2.94662 2.63046 2.91846 2.57336 4.58061 3.34122\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16216 3.87253 2.04879 0.61958 0.77255 0.00000 *\n- 1 2.87539 4.44646 3.91497 3.50304 3.16242 3.73882 4.26773 2.32587 3.27631 1.78062 1.64491 3.79487 4.20257 3.66907 3.49567 3.20932 3.18024 2.31607 4.98376 3.73169 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03571 3.74608 4.46842 0.61958 0.77255 0.58875 0.80973\n- 2 2.87011 4.93448 3.22242 2.65888 4.31499 3.49823 3.54949 3.69118 1.58987 3.20186 4.08774 3.07490 3.90402 2.70295 1.73266 2.89229 3.06713 3.38819 5.30089 4.09979 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03571 3.74608 4.46842 0.61958 0.77255 0.58875 0.80973\n- 3 2.59253 4.67024 2.63542 1.93625 4.08276 3.20860 3.71296 3.34744 2.52648 3.07627 3.98528 2.88993 3.76519 2.90882 2.91793 2.65186 2.19841 3.04032 5.38509 4.06723 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03571 3.74608 4.46842 0.61958 0.77255 0.58875 0.80973\n- 4 2.93231 4.39289 4.14513 3.76033 3.29394 3.92044 4.51504 1.25083 3.58543 1.91241 3.25552 4.02344 4.36847 3.94993 3.79667 3.40771 3.23584 1.85840 5.15468 3.87838 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03571 3.74608 4.46842 0.61958 0.77255 0.58875 0.80973\n- 5 2.65757 4.80736 2.42316 1.74736 4.28754 2.18495 3.72397 3.72228 2.60674 3.34166 4.21849 2.80276 3.73802 2.92093 3.03805 2.67315 2.97962 3.35134 5.50880 4.18422 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03571 3.74608 4.46842 0.61958 0.77255 0.58875 0.80973\n- 6 2.86215 4.81105 3.02944 2.68116 4.16828 3.36015 3.70130 3.59070 1.22723 3.18623 4.15933 3.10950 3.87349 2.90364 2.42572 2.91533 3.12754 3.30727 5.27910 4.07519 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03571 3.74608 4.46842 0.61958 0.77255 0.58875 0.80973\n- 7 2.62260 4.53754 2.92548 2.07504 3.77947 3.36258 3.79404 2.80929 2.62912 2.70261 3.71551 3.06938 3.86457 3.023'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 590 2.31492 4.23536 3.20636 3.02206 4.07630 2.96523 4.13195 3.59888 3.09583 3.31908 4.24511 3.24688 3.70402 3.44512 3.38191 1.09096 2.79504 3.13398 5.44876 4.15980 597 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 591 3.00541 4.84467 3.49605 3.00702 4.19926 3.49348 3.82412 3.74092 2.23713 3.25683 4.25695 3.36678 3.99600 3.04439 0.97829 3.08954 3.27132 3.46485 5.28224 4.12654 598 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 592 1.01367 4.19197 3.46257 3.25379 4.05236 3.01653 4.27584 3.17787 3.27005 3.05949 4.09125 3.40342 3.75574 3.61119 3.52062 2.54224 2.81959 2.83226 5.47951 4.27975 599 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 593 3.00541 4.84467 3.49605 3.00702 4.19926 3.49348 3.82412 3.74092 2.23713 3.25683 4.25695 3.36678 3.99600 3.04439 0.97829 3.08954 3.27132 3.46485 5.28224 4.12654 600 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 594 2.97207 4.93599 3.14807 2.76944 4.32243 3.46159 3.75907 3.75169 1.03819 3.31672 4.27811 3.19393 3.96188 2.95049 2.43142 3.01401 3.22530 3.45945 5.37701 4.18976 601 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 595 2.65674 4.66807 3.12553 2.70357 4.21554 2.26886 3.75384 3.66282 2.33292 3.24509 4.11580 3.11427 3.83767 2.94346 1.62149 2.73752 2.96718 3.29941 5.36428 4.13682 602 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 596 2.97207 4.93599 3.14807 2.76944 4.32243 3.46159 3.75907 3.75169 1.03819 3.31672 4.27811 3.19393 3.96188 2.95049 2.43142 3.01401 3.22530 3.45945 5.37701 4.18976 603 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 597 2.22485 4.18931 3.09715 2.90701 4.27442 1.59652 4.10106 3.74371 3.07503 3.41948 4.25673 3.15107 3.64107 3.36682 3.40488 1.79589 2.70762 3.19188 5.59677 4.35086 604 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02124 3.86238 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1756 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Cas10-like_2_IVC\n-LENG 578\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 14 21:30:35 2021\n-NSEQ 4\n-EFFN 0.527344\n-CKSUM 3832457692\n-STATS LOCAL MSV -11.8285 0.69739\n-STATS LOCAL VITERBI -12.8226 0.69739\n-STATS LOCAL FORWARD -6.4637 0.69739\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65017 4.26215 2.98990 2.68377 3.23914 2.85420 3.61643 2.73305 2.71146 2.30044 3.71522 3.16632 3.37015 3.21495 2.93272 2.69000 2.97321 2.51524 4.55446 3.30685\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11993 3.89207 2.37935 0.61958 0.77255 0.00000 *\n- 1 2.91873 4.47871 3.97849 3.56821 3.18181 3.78428 4.31888 2.35088 3.33942 1.78783 1.51220 3.85354 4.24569 3.72645 3.55232 3.26026 3.22335 2.34890 5.01294 3.76805 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80575 4.52810 0.61958 0.77255 0.55996 0.84684\n- 2 3.08181 4.56477 4.08151 3.72269 3.11298 3.89588 4.39940 2.31538 3.49102 0.96209 3.15976 4.00443 4.34383 3.87540 3.67736 3.46127 3.37974 2.33507 4.96642 3.67382 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80575 4.52810 0.61958 0.77255 0.55996 0.84684\n- 3 2.58257 4.39795 3.32303 2.93261 3.54470 3.34820 3.92648 2.85152 2.81771 2.00862 3.60684 3.29521 2.08887 3.23125 3.12470 2.76844 2.91471 2.66410 5.07193 3.77173 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80575 4.52810 0.61958 0.77255 0.55996 0.84684\n- 4 3.08181 4.56477 4.08151 3.72269 3.11298 3.89588 4.39940 2.31538 3.49102 0.96209 3.15976 4.00443 4.34383 3.87540 3.67736 3.46127 3.37974 2.33507 4.96642 3.67382 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80575 4.52810 0.61958 0.77255 0.55996 0.84684\n- 5 2.58629 4.36654 3.24621 3.13805 4.27821 0.83995 4.26097 3.86292 3.31005 3.52516 4.50159 3.41091 3.75553 3.63977 3.55201 2.75657 3.06241 3.40428 5.38954 4.37839 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80575 4.52810 0.61958 0.77255 0.55996 0.84684\n- 6 2.93886 4.34222 4.42468 3.93329 3.41953 4.14586 4.69931 1.52208 3.80366 1.96094 3.26366 4.19049 4.51488 4.10256 4.03508 3.52532 3.21730 1.29364 5.33221 4.10918 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80575 4.52810 0.61958 0.77255 0.55996 0.84684\n- 7 3.05712 4.44442 4.44976 3.94595 3.19912 4.25219 4.63360 1.40423 3.76185 1.50638 3.07744 4.22809 4.55443 4.055'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 571 2.82348 4.36046 4.15257 3.81612 3.56420 3.74431 4.61439 2.04877 3.68421 2.24770 3.52619 4.00286 4.30359 4.04251 3.89485 3.24893 3.18446 1.00054 5.35202 4.08493 582 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 572 2.82348 4.36046 4.15257 3.81612 3.56420 3.74431 4.61439 2.04877 3.68421 2.24770 3.52619 4.00286 4.30359 4.04251 3.89485 3.24893 3.18446 1.00054 5.35202 4.08493 583 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 573 2.57006 4.54391 3.07086 2.75121 4.19452 1.51834 3.87606 3.66661 2.59172 3.28144 4.15812 3.14039 3.80490 3.09664 2.26488 2.67837 2.93582 3.27227 5.40711 4.17876 584 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 574 3.17706 4.63341 4.22102 3.86077 3.14288 4.00715 4.51034 2.34778 3.62833 0.85144 3.15937 4.13436 4.43902 3.99197 3.80127 3.58002 3.47035 2.39024 5.02947 3.75738 585 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 575 3.27510 4.75616 3.86701 3.59991 2.29344 3.85284 3.62725 3.28155 3.45686 2.73047 3.95450 3.74737 4.32615 3.75821 3.63663 3.40991 3.56183 3.15300 3.93801 0.93381 586 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 576 2.68894 4.46266 3.36675 3.26853 4.41090 0.69949 4.38780 4.01510 3.45249 3.66682 4.64257 3.53100 3.85443 3.77507 3.68657 2.86138 3.17170 3.53963 5.50107 4.51339 587 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 577 3.17706 4.63341 4.22102 3.86077 3.14288 4.00715 4.51034 2.34778 3.62833 0.85144 3.15937 4.13436 4.43902 3.99197 3.80127 3.58002 3.47035 2.39024 5.02947 3.75738 588 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 578 2.59129 4.62683 3.13499 2.67959 4.13802 3.29358 3.72262 3.58135 2.31036 3.17853 4.04193 3.08554 3.82165 2.90782 1.82091 1.97364 2.90315 3.22040 5.34223 4.06952 589 r - - -\n- 2.68622 4.42230 2.77524 2.73128 3.46358 2.40517 3.72499 3.29359 2.67745 2.69359 4.24694 2.90351 2.73744 3.18151 2.89805 2.37866 2.77486 2.98523 4.58481 3.61508\n- 0.21655 1.63627 * 0.66453 0.72260 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10-like_IV-C_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2188 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Cas10-like_3_IVC\n-LENG 722\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 14 21:30:35 2021\n-NSEQ 5\n-EFFN 1.157227\n-CKSUM 2973565794\n-STATS LOCAL MSV -12.1976 0.69652\n-STATS LOCAL VITERBI -13.3359 0.69652\n-STATS LOCAL FORWARD -6.8813 0.69652\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52573 4.41398 2.88231 2.68428 3.23428 3.12122 3.59884 2.79132 2.67407 2.37445 3.69273 3.09184 3.23171 3.07996 2.91434 2.67729 2.83175 2.59841 4.57681 3.61036\n- 2.68655 4.42262 2.77556 2.73114 3.46296 2.40549 3.72531 3.29311 2.67734 2.69304 4.24341 2.90337 2.73776 3.18183 2.89791 2.37864 2.77509 2.98555 4.58514 3.61540\n- 0.35340 1.23469 4.99442 1.72773 0.19564 0.00000 *\n- 1 2.16088 4.65350 2.31157 2.67384 3.89793 3.48613 3.84802 3.18869 2.74612 2.89646 2.02134 3.15191 3.94463 3.06474 3.17332 2.78714 2.94324 2.92933 5.28776 3.99570 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 2 2.59820 4.51986 3.27451 2.76573 2.69398 3.45576 3.84144 3.19209 2.76041 2.87332 3.73907 2.49552 3.91643 3.08660 3.16439 2.14673 2.11371 2.91015 5.16989 3.88291 11 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 3 2.73915 5.01696 2.74298 1.44046 4.45679 3.37612 3.79941 3.88627 2.62510 3.46391 4.27458 2.96575 3.89513 2.94871 3.09546 2.27821 2.28585 3.49375 5.66467 4.29200 12 e - - -\n- 2.68569 4.42263 2.77510 2.73116 3.46298 2.40551 3.72533 3.29312 2.67779 2.69349 4.24728 2.90385 2.73686 3.18185 2.89785 2.37829 2.77558 2.98557 4.58515 3.61541\n- 0.18584 1.81513 4.99442 2.21640 0.11541 0.48576 0.95510\n- 4 3.57360 4.86963 4.98082 4.53978 1.10341 4.62467 4.30827 2.61707 4.37569 1.37338 3.23830 4.55535 4.86915 4.40957 4.42838 4.01168 3.80324 2.73555 4.47767 2.90511 26 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 5 2.79944 5.09180 2.15238 2.39504 4.32145 3.42195 3.77277 3.78186 2.63372 2.37148 4.21293 1.73126 3.91523 2.93264 3.12297 2.78827 3.05623 3.43745 5.58294 4.18648 27 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 6 3.56211 4.85393 5.05907 4.58041 1.42899 4.68154 4.50008 2.52186 4.42263 1.04907 3.11002 4.65238 4.88859 4.44300 4.46938 4.06116 3.78483 2.67678 4.66851 3.17670 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 7 2.65175 4.58489 3.46133 3.29741 4.72930 0.91546 4.50202 4.24130 3.49813 3.87659 4.72811 3.55219 1.94516 3.783'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 715 2.76031 4.91951 2.95968 1.74767 4.04686 3.50576 2.67451 3.54360 2.50578 2.22380 3.99335 3.04035 3.93122 2.90680 2.91907 2.79125 2.99367 3.24391 5.34746 3.98881 891 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 716 3.37190 4.66768 5.11175 4.55075 1.74107 4.62947 4.80378 1.72027 4.40746 1.21543 3.01293 4.69160 4.82225 4.44204 4.45346 3.97736 3.59143 2.36646 5.04145 3.80442 892 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 717 3.39572 4.69458 4.85655 4.40007 1.44605 4.40676 3.91547 2.88408 4.21964 1.50981 3.45545 4.28467 4.69363 4.23478 4.24370 3.74474 3.61564 2.88298 2.26886 2.46725 893 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 4.27207 4.99442 0.61958 0.77255 0.48576 0.95510\n- 718 1.86558 4.98246 3.13401 2.60082 4.34998 3.52049 3.71757 3.75725 2.31617 3.30847 4.13149 3.08706 3.94198 2.06965 2.07383 2.79972 3.01577 3.40991 5.48627 4.18881 894 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18584 4.27207 1.86022 0.61958 0.77255 0.48576 0.95510\n- 719 1.82688 4.79706 3.10852 2.67895 4.30937 3.40468 3.79198 3.63454 1.52312 3.27542 4.14117 3.12229 3.91392 2.95977 2.70985 2.77672 3.00598 3.29046 5.49123 4.21987 895 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02466 4.11089 4.83324 0.61958 0.77255 0.67034 0.71649\n- 720 2.69879 4.60653 3.33638 2.77833 3.78397 3.54143 3.77014 3.15106 2.48577 1.98843 3.70682 3.21321 2.69632 2.99459 2.18588 2.82622 2.93963 2.91483 5.14924 3.88844 896 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02466 4.11089 4.83324 0.61958 0.77255 0.67034 0.71649\n- 721 3.02543 5.16975 3.34884 2.76311 4.55460 3.65231 3.67165 3.96790 2.01564 3.42036 4.29149 3.19236 4.04464 1.84567 1.43756 3.02276 3.21364 3.64424 5.48650 4.27147 897 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02466 4.11089 4.83324 0.61958 0.77255 0.67034 0.71649\n- 722 3.14422 5.25574 3.57047 2.87824 4.73858 3.74218 3.66082 4.07646 1.12698 3.49568 4.36885 3.26990 4.10435 2.79304 1.66651 3.13322 3.30154 3.75646 5.51572 4.36412 898 k - - -\n- 2.68732 4.42366 2.77572 2.73152 3.46378 2.40613 3.72636 3.29396 2.67562 2.69306 4.24831 2.90320 2.73711 3.17758 2.89909 2.37909 2.77425 2.98478 4.58618 3.61576\n- 0.26745 1.44959 * 3.31805 0.03690 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1979 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_2\n-LENG 652\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:41 2020\n-NSEQ 29\n-EFFN 2.842651\n-CKSUM 3608346076\n-GA 150.4 78.4;\n-STATS LOCAL MSV -12.2551 0.69689\n-STATS LOCAL VITERBI -13.0364 0.69689\n-STATS LOCAL FORWARD -6.2267 0.69689\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51620 4.21932 2.88554 2.58021 3.22106 2.90565 3.67801 2.86159 2.53894 2.42669 3.77950 3.02531 3.59005 3.07186 2.93468 2.59654 2.88069 2.82953 4.84130 3.42448\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.00000 *\n- 1 2.70302 4.37550 4.88220 4.28362 3.45886 4.20014 4.54606 1.80724 4.09982 1.24895 3.43947 4.32892 4.54897 4.24996 4.14959 3.51481 2.89705 1.87106 5.05095 3.13945 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 2 1.91048 4.52824 3.78185 3.00770 3.36447 3.83861 4.09765 2.47107 2.42803 2.45273 3.16097 3.60122 4.21674 2.72628 3.49822 2.91851 3.07537 2.03484 5.11509 3.88741 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 3 2.87127 4.27383 4.65416 4.05138 2.91706 4.02305 4.34732 1.85977 2.74669 1.58915 3.38061 4.12328 4.38646 4.03982 3.94740 3.32685 2.70002 2.02203 4.89615 2.97390 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 4 1.13423 4.68664 4.50401 4.32145 5.31133 1.00020 5.25386 4.78965 4.40127 4.46603 5.23080 4.14059 4.30159 4.58408 4.60302 2.12487 3.31172 3.99037 6.63995 5.52568 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 5 0.81043 3.26459 4.75231 4.44675 5.08894 1.59906 5.21417 4.53207 4.37602 4.22863 5.02107 4.17951 4.29022 4.57330 4.55592 2.09473 3.27373 3.84414 6.45568 5.33938 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 6 4.30800 5.49210 6.11801 5.60264 3.53747 5.67674 5.97076 2.41503 5.40698 0.33525 3.29167 5.85831 5.65256 5.28489 5.35537 5.15093 4.51767 2.95976 5.84933 4.86781 6 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 7 4.38234 5.55554 6.09884 5.61856 2.94860 5.65633 5.68736 2.83173 5.46358 0.31730 3.31131 5.79754 5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 645 2.70705 5.31633 2.63938 1.33000 4.64866 3.61035 3.80158 4.12579 2.54234 3.33555 3.94392 2.72843 4.00564 2.90261 2.60033 2.56738 3.06751 3.44967 5.75665 4.35316 905 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 646 2.15156 4.91853 3.31724 2.24245 3.62083 3.17804 3.43118 3.52492 2.74416 1.78204 3.67979 2.98077 4.08403 3.08813 2.63435 2.90673 3.06786 3.23293 5.44352 4.13550 906 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 647 3.48645 5.37304 3.48795 1.21108 4.22627 4.12200 4.52144 3.50902 3.39948 1.07921 4.15122 3.76566 4.61302 3.76346 3.76399 3.59823 3.74687 3.44044 5.84540 4.57354 907 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 648 2.90806 5.43255 2.02858 1.61474 4.77274 3.22510 3.85193 4.26340 2.21577 3.73557 4.47862 2.63023 4.04542 2.95451 2.85814 2.26227 3.14384 3.82136 5.86395 4.44238 908 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 649 2.07974 5.29351 2.86748 2.10316 4.01751 3.61110 3.80027 4.09188 2.06940 2.87039 4.33929 2.63972 4.00412 2.76683 2.83571 2.48500 2.83161 3.38087 5.73791 3.89310 909 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 650 0.47382 4.67893 4.55748 4.39542 5.29986 2.41396 5.29280 4.77020 4.46682 4.45830 5.22903 4.16887 4.30753 4.64139 4.64325 2.29852 3.31531 3.97972 6.63925 5.53406 910 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 651 4.32646 6.07260 4.56634 4.10392 5.72579 4.55878 4.82255 5.27984 0.21627 4.64940 5.64286 4.44333 5.05798 4.02010 3.22922 4.35838 4.54162 4.96135 6.40674 5.44613 911 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01129 4.88505 5.60739 0.61958 0.77255 0.48576 0.95510\n- 652 2.52748 5.34449 2.54334 1.90754 4.68986 3.35046 3.08690 4.17625 2.34189 3.64984 4.38523 2.69167 3.99839 2.32910 2.60521 2.32796 2.92047 3.73532 5.77680 4.36529 912 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00762 4.88137 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2150 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_9\n-LENG 709\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:43 2020\n-NSEQ 6\n-EFFN 0.987305\n-CKSUM 1964781748\n-GA 368 363;\n-STATS LOCAL MSV -12.1787 0.69659\n-STATS LOCAL VITERBI -13.3264 0.69659\n-STATS LOCAL FORWARD -6.2750 0.69659\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68851 4.26753 2.85736 2.59583 3.21818 3.14704 3.80246 2.59605 2.58320 2.32056 3.66324 2.97082 3.53144 3.19396 3.00586 2.67942 2.94303 2.59182 4.92593 3.43486\n- 2.68657 4.42264 2.77558 2.73162 3.46322 2.40531 3.72533 3.29236 2.67747 2.69307 4.24447 2.90345 2.73778 3.18142 2.89799 2.37878 2.77523 2.98557 4.58516 3.61392\n- 0.62682 1.35784 1.56785 2.01299 0.14339 0.00000 *\n- 1 2.63137 4.28992 3.66093 3.12088 3.34094 3.60544 3.96256 2.58036 3.00123 1.92733 2.40115 3.46791 4.02204 3.33223 3.29896 2.27368 2.89198 2.42613 4.90947 3.67363 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97965 4.70199 0.61958 0.77255 0.69207 0.69423\n- 2 3.19244 4.52311 4.74357 4.22748 3.25413 4.46648 4.85434 1.28407 4.05791 1.38536 3.09045 4.48204 4.72051 4.29057 4.22716 3.84264 3.43779 1.87639 5.27443 4.09688 13 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97965 4.70199 0.61958 0.77255 0.69207 0.69423\n- 3 3.18391 4.51552 4.73326 4.22176 3.27441 4.45817 4.85601 1.23164 4.05007 1.46013 3.11555 4.47536 4.71989 4.29372 4.22339 3.83724 3.43164 1.85122 5.28767 4.09977 14 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97965 4.70199 0.61958 0.77255 0.69207 0.69423\n- 4 2.78180 4.62884 2.39800 2.75801 3.59769 3.52595 3.92457 2.86268 2.89146 1.48196 3.63737 3.22793 4.00806 3.20662 3.27762 2.93069 3.05246 2.70428 5.14748 3.81899 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97965 4.70199 0.61958 0.77255 0.69207 0.69423\n- 5 2.79104 4.98744 2.65920 2.41456 3.92527 3.35152 2.42515 3.80568 2.49854 3.34858 4.21969 1.73254 3.87611 2.91460 2.88672 2.78826 3.06364 3.45598 5.26960 3.79911 16 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97965 4.70199 0.61958 0.77255 0.69207 0.69423\n- 6 3.03629 4.38222 4.64673 4.09934 3.35335 4.32510 4.74258 1.59050 3.98612 1.86828 2.48962 4.33928 4.60762 4.20127 4.17093 3.66668 3.27992 1.35309 5.26224 4.10913 17 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97965 4.70199 0.61958 0.77255 0.69207 0.69423\n- 7 2.75762 5.06605 2.59136 1.99775 4.41743 2.15615 3.66889 3.85174 2.00337 3.39602 4.22100 2.85400 3.834'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 702 3.15947 5.23937 3.61439 2.90880 4.72097 3.75115 3.66164 4.05551 1.53787 3.47966 4.36061 3.28846 4.11286 2.79703 1.19502 3.15449 3.31428 3.74348 5.50053 4.35862 828 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09718 4.81952 0.61958 0.77255 0.48576 0.95510\n- 703 2.58935 4.63462 2.82598 2.70039 4.49577 1.22898 4.08110 4.03341 3.02372 3.65172 4.50139 2.18063 3.85065 3.31002 3.42182 2.68399 3.01873 3.52611 5.75966 4.45239 829 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09718 4.81952 0.61958 0.77255 0.48576 0.95510\n- 704 2.49604 4.43077 3.18201 2.80488 3.94832 2.11693 3.93485 3.26760 2.85437 3.01677 3.89051 2.43893 3.84567 3.18143 3.23444 2.64359 2.84864 1.97645 5.32690 4.05329 830 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09718 4.81952 0.61958 0.77255 0.48576 0.95510\n- 705 3.26495 4.66971 4.63302 4.09859 3.11967 4.39854 4.70465 2.27470 3.87946 1.31984 1.41224 4.37884 4.65763 4.11870 4.04517 3.76107 3.50257 2.37655 5.14012 3.99484 831 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09718 4.81952 0.61958 0.77255 0.48576 0.95510\n- 706 2.83991 5.07441 2.58850 1.64066 4.49029 3.33961 3.83721 3.93752 2.68735 3.51601 4.37838 2.94069 1.73982 3.01195 3.13391 2.83093 3.13539 3.56545 5.68813 4.33884 832 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09718 4.81952 0.61958 0.77255 0.48576 0.95510\n- 707 3.16228 4.45644 4.93148 4.44181 3.62993 4.54569 5.14756 1.15036 4.33276 2.11528 3.42489 4.64684 4.84669 4.59083 4.52075 3.94284 3.42858 1.21947 5.62339 4.42033 833 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09718 4.81952 0.61958 0.77255 0.48576 0.95510\n- 708 2.34631 4.28467 3.39361 3.17964 4.40946 1.17020 4.30539 3.77963 3.28004 3.51007 4.36784 3.36586 3.78586 3.58412 3.58183 2.52111 2.03561 3.25512 5.73847 4.53339 834 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09718 4.81952 0.61958 0.77255 0.48576 0.95510\n- 709 3.00872 5.58387 1.71418 1.17858 4.87325 3.27628 3.82265 4.39597 2.83988 3.89370 4.74836 2.74039 3.89929 2.98914 3.43530 2.88927 3.29775 3.96635 6.03928 4.53546 835 e - - -\n- 2.68669 4.42399 2.77506 2.72860 3.46314 2.40687 3.72599 3.29257 2.67598 2.68960 4.24864 2.90398 2.73758 3.18280 2.89853 2.37988 2.77640 2.98527 4.58651 3.61553\n- 0.24694 1.51956 * 3.58740 0.02806 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-B_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-B_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,386 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III-B_12\n-LENG 121\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:44 2020\n-NSEQ 60\n-EFFN 3.218994\n-CKSUM 113261875\n-GA 32.5 28.7;\n-STATS LOCAL MSV -9.9380 0.71333\n-STATS LOCAL VITERBI -10.5886 0.71333\n-STATS LOCAL FORWARD -4.1445 0.71333\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48362 4.57360 2.98813 2.68983 3.31963 2.97799 3.85648 2.73000 2.69959 2.40907 3.80770 3.14123 3.06625 3.09402 2.95020 2.53236 2.90811 2.66956 4.05306 3.61059\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.00000 *\n- 1 2.90493 4.36024 4.90417 4.29378 2.79014 4.15835 4.48621 2.48236 3.86480 1.22320 3.08656 4.30521 4.51090 4.22133 4.11335 3.47008 3.21702 1.90358 4.97272 2.34373 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 2 2.75989 4.59647 5.23227 4.65155 3.54015 4.54885 4.93903 1.89334 4.48010 1.42383 3.18081 4.69549 4.86926 4.62533 4.52546 3.88132 3.16318 1.19986 5.39605 4.22654 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 3 2.49664 4.91873 3.38963 2.67711 3.93638 2.69990 3.51872 3.01035 2.74667 2.53318 4.00181 3.15297 4.13478 2.72895 3.08417 2.16895 2.66490 2.23813 5.45120 4.15185 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 4 2.96476 4.33770 4.89419 4.28475 2.06981 2.89668 4.47726 1.87659 4.08161 2.14315 2.79390 4.29169 4.49887 4.21743 4.10420 3.45421 3.19711 1.55357 4.97194 3.65356 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 5 2.53810 5.44832 1.65769 2.46835 4.78655 3.49393 3.93204 4.26608 2.61467 3.76182 4.51910 3.09470 4.11252 3.04295 3.21194 1.77330 2.23532 3.84124 5.90950 4.49688 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 6 3.28836 4.61722 5.24244 4.65240 2.12859 4.53569 4.88563 1.01731 4.46964 1.95281 3.51863 4.68519 4.84700 4.58447 4.49428 3.86478 3.30673 2.02379 5.30681 3.77281 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 7 2.56532 4.85398 3.79055 3.28100 4.56366 1.44578 4.38378 3.63936 3.26762 3.62298 4.44437 3.55286 1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 114 2.65331 4.78023 2.52950 1.51473 4.70537 3.40129 3.83210 4.18740 2.39271 3.66882 4.40811 2.65494 4.03777 2.65493 2.96253 2.46147 3.01424 3.75355 4.14651 3.51496 299 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 115 1.74613 5.26284 3.16871 2.26529 3.91193 3.21001 3.85602 4.01651 2.46435 3.54824 4.31595 2.59582 4.05571 2.85547 2.40729 2.66744 2.70165 2.95031 5.04319 4.34290 300 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 116 2.85860 4.32531 4.67021 3.26674 2.63330 4.06136 4.36973 2.19843 3.89745 2.15904 3.43542 4.15007 4.42583 4.06577 3.97795 3.23198 3.14911 2.47314 1.42586 3.48386 301 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 117 2.50388 5.37257 2.33593 2.17336 4.71494 3.46817 3.83048 3.65313 1.82930 3.33847 4.23797 2.94012 4.03661 2.68667 2.43929 2.75312 2.60574 3.64426 5.80684 4.39760 302 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 118 2.56140 4.61424 2.62526 1.62010 4.72471 3.04368 3.68627 4.21050 1.92144 3.68504 4.42077 2.72406 4.03663 2.65676 2.83864 2.76596 3.05064 3.68064 5.81269 4.40183 303 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 119 2.31935 4.31480 4.24536 4.01505 3.03736 4.03763 4.35736 1.52181 3.85093 1.80985 3.43186 3.29606 4.40388 3.38976 3.94561 3.33747 3.04738 2.23078 3.66365 3.74994 304 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 120 1.86654 3.89725 4.67186 4.06894 3.16877 2.92096 4.36926 2.06346 3.89409 1.90572 3.42272 4.14339 3.44682 4.06072 3.96937 3.34842 2.72829 2.00428 4.92417 3.35394 305 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98247 5.70482 0.61958 0.77255 0.48576 0.95510\n- 121 2.72332 5.37878 2.39768 1.65301 4.72161 3.27685 3.74867 3.58414 1.90400 3.68306 4.42025 3.00311 4.03896 2.86387 2.98111 2.51112 2.67826 3.76826 5.81259 4.40247 306 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00690 4.97914 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-B_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-B_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,590 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III-B_8\n-LENG 189\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:43 2020\n-NSEQ 4\n-EFFN 0.730469\n-CKSUM 140298251\n-GA 395 303;\n-STATS LOCAL MSV -10.0386 0.70608\n-STATS LOCAL VITERBI -11.2974 0.70608\n-STATS LOCAL FORWARD -4.8678 0.70608\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74391 4.16374 2.91426 2.61974 3.34680 2.91105 3.89269 2.63485 2.45097 2.34494 3.62842 2.96824 3.51205 3.12339 2.97941 2.64011 3.02040 2.69298 4.89478 3.46251\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03711 3.70806 4.43041 0.61958 0.77255 0.00000 *\n- 1 2.84831 4.42711 3.87389 3.46193 3.15194 3.70873 4.23564 2.31200 3.23603 1.77935 1.73714 3.75757 4.17500 3.63320 3.45931 3.17688 3.15385 2.29677 4.96628 3.70880 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03711 3.70806 4.43041 0.61958 0.77255 0.48576 0.95510\n- 2 2.76366 4.72893 2.80995 2.57107 3.87237 3.26335 3.72469 3.48548 2.40636 3.00372 4.04543 3.02578 3.82028 1.56192 2.69024 2.82277 3.06521 3.22836 5.17913 3.86389 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03711 3.70806 4.43041 0.61958 0.77255 0.48576 0.95510\n- 3 2.76366 4.72893 2.80995 2.57107 3.87237 3.26335 3.72469 3.48548 2.40636 3.00372 4.04543 3.02578 3.82028 1.56192 2.69024 2.82277 3.06521 3.22836 5.17913 3.86389 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03711 3.70806 4.43041 0.61958 0.77255 0.48576 0.95510\n- 4 2.83081 4.66628 3.30576 2.86331 3.97883 3.33993 3.72820 3.51563 2.20715 3.06252 4.07522 3.23179 3.85785 2.96401 1.26581 2.92756 3.11300 3.24876 5.13387 3.94979 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03711 3.70806 4.43041 0.61958 0.77255 0.48576 0.95510\n- 5 2.90166 4.37743 4.08303 3.69975 3.27120 3.87188 4.46335 1.31095 3.52358 1.90247 3.24362 3.96804 4.32688 3.89424 3.73918 3.35840 3.20742 1.86852 5.12114 3.83891 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03711 3.70806 4.43041 0.61958 0.77255 0.48576 0.95510\n- 6 2.90166 4.37743 4.08303 3.69975 3.27120 3.87188 4.46335 1.31095 3.52358 1.90247 3.24362 3.96804 4.32688 3.89424 3.73918 3.35840 3.20742 1.86852 5.12114 3.83891 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03711 3.70806 4.43041 0.61958 0.77255 0.48576 0.95510\n- 7 2.97574 4.49149 3.91870 3.56677 3.08584 3.76242 4.27421 2.29271 3.33578 1.11028 3.17649 3.85673 4.232'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03313 3.81963 4.54198 0.61958 0.77255 0.67133 0.71545\n- 182 2.75407 5.09829 1.92899 2.21124 4.41230 3.24536 3.64177 3.87007 1.81198 3.42453 4.26766 2.76085 3.78140 2.79967 2.88387 2.71057 3.01770 3.49879 5.57766 4.19269 332 k - - -\n- 2.68622 4.42229 2.77524 2.73105 3.46358 2.40517 3.72499 3.29358 2.67745 2.69337 4.24694 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61452\n- 0.16250 1.97088 4.54198 0.88261 0.53392 0.67133 0.71545\n- 183 3.09697 4.57552 4.10412 3.74483 3.11741 3.91405 4.41717 2.31991 3.51305 0.94318 3.15887 4.02529 4.35925 3.89407 3.69732 3.48032 3.39406 2.34330 4.97642 3.68719 336 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03313 3.81963 4.54198 0.61958 0.77255 0.67133 0.71545\n- 184 2.76979 4.99298 2.54700 1.87020 4.08360 3.30767 2.28124 3.71722 2.39025 3.27145 4.14193 2.83854 3.81778 2.82014 2.77562 2.75356 3.02088 3.38720 5.34569 3.94524 337 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03313 3.81963 4.54198 0.61958 0.77255 0.67133 0.71545\n- 185 2.59743 4.61009 3.01260 2.61203 4.05831 3.29984 3.71257 3.34288 1.90394 3.03870 3.93713 3.04425 3.81628 2.90369 2.65652 2.68728 2.04386 3.03543 5.31161 4.04539 338 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03313 3.81963 4.54198 0.61958 0.77255 0.67133 0.71545\n- 186 2.71225 4.47958 3.39440 2.89505 3.60751 3.57647 3.84063 1.96934 2.07399 2.49105 3.54803 3.30153 3.99520 3.09985 2.83970 2.91315 2.95927 2.43939 5.08859 3.82877 339 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03313 3.81963 4.54198 0.61958 0.77255 0.67133 0.71545\n- 187 2.92533 4.88486 3.09769 2.73043 4.25918 3.41936 3.73267 3.68538 1.11309 3.26257 4.22787 3.15686 3.92428 2.92790 2.42548 2.97138 3.18307 3.39651 5.33639 4.14192 340 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03313 3.81963 4.54198 0.61958 0.77255 0.67133 0.71545\n- 188 2.81022 4.92732 2.93681 2.52422 4.02723 3.43603 2.28842 3.65989 1.75769 3.19347 4.07088 2.99366 3.87855 2.77448 2.40925 2.82411 3.03216 3.34952 5.22584 3.88270 341 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03313 3.81963 4.54198 0.61958 0.77255 0.67133 0.71545\n- 189 2.74126 4.72550 2.45123 1.51181 4.04371 3.11183 3.71189 3.44178 2.55908 3.11742 4.13130 2.84695 3.71132 2.95263 2.91668 2.77258 3.05375 3.16458 5.27264 4.02179 342 e - - -\n- 2.68621 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67718 2.69331 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61507\n- 0.23416 1.56655 * 0.65994 0.72750 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-C_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-C_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2900 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III-C_3\n-LENG 959\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:41 2020\n-NSEQ 11\n-EFFN 2.301514\n-CKSUM 1680191916\n-GA 185.8 165.7;\n-STATS LOCAL MSV -12.6073 0.69569\n-STATS LOCAL VITERBI -13.4387 0.69569\n-STATS LOCAL FORWARD -6.7649 0.69569\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64925 4.32756 2.86410 2.51611 3.33685 3.13161 3.77319 2.77187 2.49287 2.43008 3.77553 2.93172 3.43633 3.04593 2.87289 2.66488 2.85827 2.80210 4.28150 3.54441\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.00000 *\n- 1 2.77120 4.64003 3.57912 3.08142 3.98310 3.62933 4.11430 3.35146 3.05151 3.04783 1.48742 2.71927 4.12523 3.38229 3.42499 1.95895 2.52608 3.06885 5.38253 4.13065 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 2 2.49665 4.81014 3.30069 2.74962 4.02857 3.63843 3.88233 3.42480 2.73622 3.07426 3.07370 2.68457 3.25297 3.07636 3.17346 1.52764 3.01462 3.13833 5.36505 3.09881 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 3 2.77614 3.43015 2.14468 2.64785 4.15279 2.71464 3.82667 2.56319 2.64228 2.69208 4.00342 2.65840 4.00712 2.55010 3.09970 2.82470 3.00809 3.25127 5.44088 4.11695 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 4 3.88385 5.09687 5.81088 5.26269 3.54023 5.32339 5.71253 1.94870 5.13833 0.59286 3.28193 5.46768 5.39573 5.09567 5.14502 4.72692 4.10487 2.02750 5.76442 4.77132 4 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 5 3.04049 5.60406 2.27954 1.67237 4.93070 3.59157 3.92877 4.43410 1.59664 3.89851 4.66824 1.98160 4.08971 3.04968 3.27453 2.96553 3.28963 3.98840 6.02793 4.57724 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 6 2.78384 4.72394 3.38794 2.82398 3.90208 3.68199 3.90291 2.48210 2.05739 2.95286 3.03314 2.72277 4.06645 3.12710 2.50289 2.90480 2.59626 2.32742 5.27200 3.99584 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 7 3.78247 4.99296 5.77009 5.23671 3.65068 5.26511 5.72107 1.32038 5.12640 0.88531 3.39542 5.41517'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 952 2.88022 5.38326 2.97354 1.62028 4.73054 3.58915 2.96405 4.21070 2.08208 3.67959 4.43084 2.24294 4.00859 2.21530 2.98175 2.83444 3.11192 3.77684 5.80112 4.39775 1152 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 953 3.27598 4.60614 5.16825 4.57293 3.36992 4.50717 4.82435 1.95611 4.39268 0.97298 3.25872 4.64087 4.78343 4.47332 4.41459 3.83624 3.50206 1.85365 3.09157 4.05971 1153 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 954 2.83709 4.72593 3.47986 2.91769 2.46890 3.74151 2.97803 3.27597 2.86346 2.33527 3.82044 2.46649 4.12328 3.20571 2.00673 2.97072 3.06717 3.02505 5.10571 3.07128 1154 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 955 2.80854 4.78149 3.37763 2.81406 3.97011 3.68850 3.89984 3.34548 1.93884 2.32483 2.19155 2.53565 4.07470 3.10989 3.13470 2.91526 2.55757 3.07968 5.32053 4.04114 1155 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 956 2.81250 5.28332 3.05054 1.62770 4.61998 3.57616 2.96980 4.09318 2.19794 3.57880 4.32895 2.44215 3.97199 2.86040 2.54494 2.77941 3.04150 3.67105 5.71220 2.93611 1156 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 957 2.25744 4.42993 4.05306 3.48372 3.59378 3.93197 4.24361 1.61885 2.37685 2.61210 3.56122 3.80201 4.31032 3.67579 3.66683 3.20952 2.58679 1.88027 5.10773 3.89617 1157 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 958 2.43515 4.55085 3.64435 3.07040 3.69583 3.76597 4.00387 2.60118 2.35447 1.58072 3.65085 3.48314 4.14518 3.31434 2.72710 3.01253 2.54347 2.81757 5.12726 3.89169 1158 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72589 5.44824 0.61958 0.77255 0.48576 0.95510\n- 959 2.45782 5.28673 3.01349 2.23683 4.63701 2.46694 3.80588 4.10406 1.50384 3.60377 4.36515 3.06979 2.78732 2.91649 3.00742 2.81895 3.08555 3.68838 5.74993 4.35902 1159 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00894 4.72158 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1802 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_4\n-LENG 593\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:42 2020\n-NSEQ 2\n-EFFN 0.402344\n-CKSUM 1082122978\n-GA 238 238; \n-STATS LOCAL MSV -12.0472 0.69723\n-STATS LOCAL VITERBI -13.0986 0.69723\n-STATS LOCAL FORWARD -6.5387 0.69723\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41454 4.05042 2.94654 2.79519 3.25395 2.87494 3.82560 2.84626 2.81376 2.33308 3.70375 3.19530 3.34787 3.05066 2.93713 2.58433 2.86645 2.61991 4.69784 3.43245\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.00000 *\n- 1 2.91144 4.47319 3.96799 3.55732 3.17835 3.77684 4.31030 2.34647 3.32892 1.78624 1.53332 3.84376 4.23852 3.71682 3.54291 3.25177 3.21604 2.34324 5.00794 3.76195 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 2 2.91040 5.02118 1.03459 2.29415 4.38876 3.15538 3.86864 3.96018 2.93912 3.58318 4.56156 2.84580 3.80303 3.10913 3.44324 2.88288 3.24807 3.60825 5.57214 4.27689 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 3 2.91144 4.47319 3.96799 3.55732 3.17835 3.77684 4.31030 2.34647 3.32892 1.78624 1.53332 3.84376 4.23852 3.71682 3.54291 3.25177 3.21604 2.34324 5.00794 3.76195 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 4 3.14008 4.66011 3.72657 3.44335 2.30224 3.74197 3.58859 3.16031 3.30306 2.63360 3.84391 3.63166 4.21853 3.62755 3.50176 3.28379 3.42693 3.02751 3.94245 1.10351 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 5 3.14008 4.66011 3.72657 3.44335 2.30224 3.74197 3.58859 3.16031 3.30306 2.63360 3.84391 3.63166 4.21853 3.62755 3.50176 3.28379 3.42693 3.02751 3.94245 1.10351 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 6 2.50529 1.11030 4.00376 3.72743 3.73826 3.14268 4.39159 2.87105 3.55442 2.78917 3.90878 3.73489 3.84355 3.90392 3.69174 2.77646 2.96590 2.62041 5.16861 4.02596 6 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 7 3.14008 4.66011 3.72657 3.44335 2.30224 3.74197 3.58859 3.16031 3.30306 2.63360 3.84391 3.63166 4.21'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 586 2.82391 4.80348 2.85654 2.61232 3.96119 3.31750 3.76918 3.58217 2.43905 3.09197 4.12421 3.07053 3.87128 1.37714 2.72383 2.87594 3.12199 3.31731 5.24801 3.93728 586 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 587 2.74801 4.31390 4.01740 3.68015 3.49623 3.64235 4.49576 2.06134 3.54665 2.19812 3.47515 3.88167 4.20856 3.91289 3.76614 3.14265 3.11235 1.12783 5.26699 3.99291 587 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 588 1.13028 4.15731 3.38741 3.17741 3.97841 2.98341 4.20816 3.09276 3.19172 2.97759 4.01968 3.34558 3.71559 3.54047 3.44632 2.50918 2.78132 2.76062 5.41337 4.20549 588 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 589 2.82391 4.80348 2.85654 2.61232 3.96119 3.31750 3.76918 3.58217 2.43905 3.09197 4.12421 3.07053 3.87128 1.37714 2.72383 2.87594 3.12199 3.31731 5.24801 3.93728 589 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 590 2.89002 4.97982 2.46164 1.13983 4.31705 3.22719 3.81005 3.75576 2.68114 3.38625 4.36581 2.89548 3.82878 3.02872 3.08035 2.88163 3.19441 3.44836 5.50331 4.22786 590 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 591 2.89002 4.97982 2.46164 1.13983 4.31705 3.22719 3.81005 3.75576 2.68114 3.38625 4.36581 2.89548 3.82878 3.02872 3.08035 2.88163 3.19441 3.44836 5.50331 4.22786 591 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 592 2.74801 4.31390 4.01740 3.68015 3.49623 3.64235 4.49576 2.06134 3.54665 2.19812 3.47515 3.88167 4.20856 3.91289 3.76614 3.14265 3.11235 1.12783 5.26699 3.99291 592 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 593 2.89002 4.97982 2.46164 1.13983 4.31705 3.22719 3.81005 3.75576 2.68114 3.38625 4.36581 2.89548 3.82878 3.02872 3.08035 2.88163 3.19441 3.44836 5.50331 4.22786 593 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02297 3.78488 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1676 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_5\n-LENG 551\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:42 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 632825469\n-GA 85 81;\n-STATS LOCAL MSV -11.6379 0.69754\n-STATS LOCAL VITERBI -12.8178 0.69754\n-STATS LOCAL FORWARD -6.4833 0.69754\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41141 4.16547 2.86464 2.78101 3.40825 2.60566 3.84105 2.88560 2.79297 2.35729 3.70816 3.16887 3.11462 3.17048 2.92450 2.72539 2.91357 2.66305 4.53696 3.54870\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 3.19506 4.60025 3.95953 3.64530 2.58598 3.63407 3.79869 3.21704 3.37022 2.62631 3.85478 3.81293 4.14504 3.76277 3.51358 3.39944 3.49153 3.10493 1.08678 2.59319 5 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 544 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 544 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 545 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 545 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 546 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 546 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 547 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 547 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 548 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 548 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 549 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 549 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 550 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 550 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 551 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 551 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1253 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_10\n-LENG 410\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:44 2020\n-NSEQ 49\n-EFFN 4.483093\n-CKSUM 1283929233\n-GA 90.0 89.2;\n-STATS LOCAL MSV -11.3604 0.69910\n-STATS LOCAL VITERBI -12.4749 0.69910\n-STATS LOCAL FORWARD -5.7512 0.69910\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40378 4.29636 2.89743 2.58087 3.32033 2.83475 3.73945 2.87581 2.57928 2.52276 3.79093 3.07938 3.42508 3.01183 2.90651 2.65442 2.85970 2.74612 4.85164 3.52467\n- 2.68635 4.42257 2.77538 2.73112 3.46362 2.40523 3.72473 3.29386 2.67740 2.69387 4.23933 2.90365 2.73725 3.18179 2.89815 2.37886 2.77537 2.98525 4.58509 3.61535\n- 1.27005 0.94178 1.11094 0.47130 0.97867 0.00000 *\n- 1 2.47481 5.19699 2.58519 2.33832 4.48955 3.34043 3.81254 3.94003 2.41903 3.17953 2.18812 2.90291 4.01056 2.92940 3.05483 2.32334 2.40460 3.55918 5.66284 4.28594 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01160 4.85829 5.58064 0.61958 0.77255 0.93323 0.49969\n- 2 2.66720 5.32845 3.12209 2.09143 4.00002 3.11839 3.50881 4.13183 1.88643 3.62670 3.00571 3.11146 4.03053 2.62676 2.70629 2.30534 2.51925 3.71036 5.77087 4.37015 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01054 4.95373 5.67608 0.61958 0.77255 0.49432 0.94157\n- 3 2.55729 3.93679 3.24677 3.31390 3.46168 3.95460 4.21177 2.61553 2.50997 2.39998 2.16814 3.42515 4.33316 3.56133 2.88859 2.78731 2.63727 2.93255 5.24645 2.50799 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00869 5.14566 5.86800 0.61958 0.77255 0.80262 0.59449\n- 4 2.72991 3.75854 4.72849 4.12690 2.25328 4.12428 2.97043 2.32734 3.95681 2.43449 3.50913 4.21280 4.49023 3.53654 3.55791 3.42563 2.48697 2.18172 5.00955 1.82709 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00869 5.14566 5.86800 0.61958 0.77255 0.80262 0.59449\n- 5 2.13028 4.41244 4.62806 4.03172 3.51020 4.11103 4.42608 2.50577 3.14327 1.12579 3.28690 4.16258 4.47803 4.06895 3.46336 3.10227 3.21270 2.32878 4.04984 3.84384 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00869 5.14566 5.86800 0.61958 0.77255 0.80262 0.59449\n- 6 2.32991 4.39668 4.71259 4.11226 3.49321 4.12381 3.79817 2.64424 3.94539 1.95778 3.51428 4.20623 4.49012 4.12009 4.03561 3.17092 2.38131 1.40206 5.01520 2.43583 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00869 5.14566 5.86800 0.61958 0.77255 0.71164 0.67499\n- 7 2.62161 4.73561 3.42112 2.79666 3.45324 2.70041 3.02554 2.68753 2.96124 1.90178 2.52163 3.63945 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00807 5.21890 5.94125 0.61958 0.77255 0.50080 0.93151\n- 403 3.03133 4.46278 4.68008 4.08354 2.34459 4.16167 4.47553 2.73604 3.47593 0.98994 3.25926 3.77480 4.52859 4.11962 3.27703 2.92338 3.26335 2.71303 5.07680 3.40677 460 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00792 5.23768 5.96002 0.61958 0.77255 0.54251 0.87057\n- 404 2.98615 4.42656 2.97737 2.45134 4.05601 3.44410 3.19088 3.32847 2.65913 3.09097 4.36463 2.91352 4.18464 2.97509 3.03236 2.22318 1.72430 3.36217 5.78248 2.93787 461 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00792 5.23768 5.96002 0.61958 0.77255 0.54251 0.87057\n- 405 1.97429 4.79338 3.21537 3.22303 2.82907 3.50908 4.20453 3.30756 3.18685 2.51920 2.55265 2.82395 4.34192 2.47478 3.28062 3.19713 2.53595 2.76188 4.34145 3.16461 462 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00792 5.23768 5.96002 0.61958 0.77255 0.45184 1.01185\n- 406 3.03342 5.42748 3.33340 2.77030 4.73850 2.48224 3.99540 4.19030 2.36531 3.33070 4.48029 3.12644 4.20865 2.78489 1.20381 2.87234 3.03815 3.43012 5.87502 3.81376 463 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00780 5.25387 5.97622 0.61958 0.77255 0.48576 0.95510\n- 407 2.89051 5.18863 4.00434 3.80041 5.12263 3.45332 4.96445 4.54354 3.83771 3.41281 5.06681 4.08065 0.44547 3.63087 4.13701 3.39758 3.69269 4.07409 6.45185 5.21458 464 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00780 5.25387 5.97622 0.61958 0.77255 0.48576 0.95510\n- 408 3.05233 4.44226 3.92474 4.30573 2.50026 4.20971 4.52898 2.60561 4.11260 2.33669 3.29987 4.33663 4.57375 4.26139 4.15600 3.51679 2.69139 2.31035 4.17425 1.16792 465 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02255 5.25387 4.07057 0.61958 0.77255 0.48576 0.95510\n- 409 3.02390 3.98345 3.69614 3.78311 2.92370 4.10524 4.39893 2.39923 3.68181 1.79793 3.64972 3.50247 3.81631 3.51453 2.32024 2.91824 2.47480 2.11044 5.14375 3.00160 466 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23924 5.96158 0.61958 0.77255 0.53723 0.87795\n- 410 2.83562 4.41943 3.98693 3.80020 3.21047 4.19684 4.52706 1.85738 4.12056 1.31485 3.27530 4.33714 4.56106 4.26437 4.15237 3.25856 3.03012 1.80425 4.02511 3.86329 467 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00533 5.23666 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1778 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III-F_1\n-LENG 585\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:44 2020\n-NSEQ 3\n-EFFN 0.571289\n-CKSUM 2149589688\n-GA 300 300;\n-STATS LOCAL MSV -11.9231 0.69732\n-STATS LOCAL VITERBI -12.9826 0.69732\n-STATS LOCAL FORWARD -5.9972 0.69732\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70483 4.30966 2.87351 2.55322 3.11316 3.09025 3.69917 2.71890 2.57071 2.41258 3.76675 3.01056 3.40030 3.13733 2.90754 2.74621 2.99377 2.63517 4.34429 3.32639\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40517 3.72498 3.29358 2.67745 2.69359 4.24553 2.90314 2.73743 3.18150 2.89805 2.37891 2.77523 2.98522 4.58481 3.61507\n- 0.18879 1.81744 4.64616 0.66174 0.72557 0.00000 *\n- 1 2.75035 4.60103 3.46073 2.86941 3.68578 3.57642 3.76025 3.01864 2.37039 2.57274 2.45183 3.27078 3.97882 2.99028 1.84417 2.89483 2.98484 2.84012 5.09716 3.84876 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 2 2.79439 5.02511 2.69828 2.40927 4.38669 3.35322 3.66375 3.84827 1.77965 3.39020 4.24047 1.88731 3.85846 2.82266 2.61899 2.78426 3.05103 3.48800 5.50695 4.17986 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 3 2.82021 5.22995 1.56972 2.19170 4.54147 3.25537 3.69427 4.02015 1.97742 3.55754 4.39825 2.75449 3.81508 2.85229 3.03681 2.75595 3.09066 3.63068 5.70553 4.28847 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 4 3.09052 4.46729 4.52752 4.02390 1.80002 4.22355 4.30947 1.67746 3.89569 1.72595 3.07518 4.19668 4.52194 4.05596 4.04505 3.57602 3.33314 2.15758 4.65636 3.21656 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 5 2.69078 4.51583 3.35204 2.86968 3.76461 3.51930 3.85424 2.76373 1.97585 2.68358 3.68812 3.27563 3.97493 3.09459 2.84636 2.86751 2.95911 1.79184 5.18906 3.93088 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 6 2.81982 4.56877 3.43251 3.27886 4.26985 3.25337 4.35220 3.82832 3.34052 3.44965 4.50161 3.58045 0.73748 3.72774 3.58035 2.98889 3.26540 3.46786 5.44247 4.39117 8 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 7 2.99641 5.11812 2.50926 0.95456 4.47076 3.30713 3.89824 3.93485 2.78522 3.54368 4.51534 2.96204 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 578 3.03901 4.46042 4.45017 3.94933 3.25155 4.18960 4.64161 1.99297 3.78296 1.28410 3.11824 4.21269 4.53187 4.06064 3.98759 3.56463 3.30634 1.53417 5.19606 3.99293 722 l - - -\n- 2.68622 4.42230 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67745 2.69325 4.24694 2.90351 2.73744 3.18151 2.89805 2.37891 2.77487 2.98523 4.58481 3.61508\n- 0.21693 1.68515 4.64616 0.66439 0.72275 0.48576 0.95510\n- 579 3.32132 4.78951 3.91400 3.65294 2.29523 3.88991 3.64269 3.32336 3.50898 2.76408 3.99305 3.78670 4.36253 3.80270 3.68221 3.45294 3.60822 3.19633 3.94098 0.88452 725 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 580 1.93208 4.58535 3.24228 2.76171 4.10421 3.31938 3.77032 3.44175 2.36094 3.09160 3.98827 3.14947 3.84826 2.96311 1.75167 2.70230 2.91191 3.11408 5.33917 4.09264 726 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 581 2.80294 4.63786 3.37840 2.86714 3.67582 3.60010 3.79462 2.94102 1.87964 1.77489 3.64014 3.28064 4.01223 3.03278 2.68154 2.95038 3.03679 2.77414 5.11604 3.84768 727 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 582 3.17949 4.53200 4.65758 4.13530 3.16588 4.41298 4.76557 1.55370 3.96095 1.17902 3.00558 4.40633 4.66388 4.19002 4.13423 3.78166 3.42135 1.96606 5.19093 4.02201 728 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 583 2.75035 4.60103 3.46073 2.86941 3.68578 3.57642 3.76025 3.01864 2.37039 2.57274 2.45183 3.27078 3.97882 2.99028 1.84417 2.89483 2.98484 2.84012 5.09716 3.84876 729 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 584 2.72912 4.49961 3.41342 3.31927 4.46090 0.65410 4.43653 4.07289 3.50754 3.72061 4.69668 3.57766 3.89240 3.82761 3.73807 2.90248 3.21434 3.59129 5.54262 4.56449 730 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 585 2.72912 4.49961 3.41342 3.31927 4.46090 0.65410 4.43653 4.07289 3.50754 3.72061 4.69668 3.57766 3.89240 3.82761 3.73807 2.90248 3.21434 3.59129 5.54262 4.56449 731 G - - -\n- 2.68624 4.42064 2.77525 2.73067 3.46360 2.40519 3.72500 3.29360 2.67747 2.69361 4.24696 2.90353 2.73745 3.18152 2.89807 2.37893 2.77525 2.98524 4.58483 3.61509\n- 0.17914 1.80780 * 0.91717 0.51024 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1556 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_1\n-LENG 511\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:41 2020\n-NSEQ 25\n-EFFN 5.288696\n-CKSUM 562899129\n-GA 53.9 53.9;\n-STATS LOCAL MSV -11.6899 0.69792\n-STATS LOCAL VITERBI -12.7623 0.69792\n-STATS LOCAL FORWARD -5.9581 0.69792\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55774 4.46747 2.91073 2.49796 3.36835 2.88924 3.75752 2.89884 2.48084 2.42903 3.87311 3.02691 3.28578 3.14169 2.90668 2.60940 2.94968 2.79266 4.61399 3.42881\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.00000 *\n- 1 2.12048 4.86237 3.89635 3.33065 2.54571 3.04049 3.05820 2.94745 2.76303 2.38892 3.96285 3.75675 4.43314 3.16551 3.12552 2.20635 2.73247 2.45494 5.43754 3.50742 1 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 2 3.49500 4.84342 5.43576 4.82962 2.29883 4.68717 4.97921 2.64285 4.62788 0.73159 3.63823 4.83907 5.00011 4.71097 4.62667 4.00764 3.10860 2.65910 5.37702 2.60813 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 3 2.94581 4.86127 5.51744 4.93286 3.93619 4.80712 5.19277 2.47346 4.75366 1.19586 2.76234 4.96378 5.12600 4.88678 4.78567 4.13980 3.09215 1.10386 5.63545 4.47249 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 4 2.22928 4.58811 4.59022 4.00247 3.69115 2.57767 4.52282 2.48086 3.35905 1.70349 3.70314 4.20512 4.58852 4.09847 2.96325 3.02224 3.03739 1.76435 5.19978 2.99349 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 5 3.41959 4.76613 5.38174 4.78129 1.23960 3.07645 4.97602 1.78241 4.58405 1.70685 3.72107 4.79158 4.96427 4.70003 4.59808 3.95584 3.65211 2.11241 5.41939 4.25042 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 6 2.45777 5.56795 2.13823 2.75414 4.91155 3.00191 3.22513 4.39642 2.15618 3.87258 4.60924 3.30218 4.22813 2.87156 2.91452 2.21107 1.77284 3.95785 6.00153 4.59149 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 7 2.59983 4.59098 5.01977 3.55914 2.92833 4.37071 4.70660 0.81495 4.24196 2.34777 3.70027 4.48206 3.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00777 5.25745 5.97980 0.61958 0.77255 0.28802 1.38528\n- 504 3.07178 5.37609 3.41385 1.84720 3.82005 3.88051 4.07568 4.08140 1.99076 1.84517 4.43753 3.38638 4.27137 2.65403 2.73379 3.07859 2.70198 2.72785 5.85549 4.49696 966 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 505 2.80883 4.88069 3.86859 2.47018 4.02850 4.04383 3.55300 2.47033 3.26717 1.73078 3.43886 3.73662 3.22068 3.19608 3.06087 2.79308 3.32327 3.16059 5.45310 2.00023 967 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 506 3.08269 5.57369 2.77995 2.77742 4.91533 2.39992 4.03814 3.30452 1.18647 3.87503 4.61739 2.72150 4.24733 3.13745 2.46601 3.04753 2.98701 3.96293 6.00655 4.60380 968 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 507 3.69233 6.02452 3.94540 2.39446 5.50020 4.33301 2.59017 4.87741 2.26652 4.26526 5.07942 2.80056 4.70340 3.43377 0.75529 3.64718 3.86990 4.49470 6.28726 5.05320 969 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 508 2.82145 5.48090 3.35983 2.82906 4.78118 3.44717 3.29866 4.23853 2.57724 3.77191 4.54370 1.89784 4.27657 3.19785 3.31852 1.51391 3.33043 3.85188 5.94700 2.11379 970 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 509 1.78028 5.39677 3.47975 2.96345 3.33422 1.48357 4.18892 4.19274 1.81660 3.76154 4.55489 2.77206 4.34376 3.32444 3.41756 3.15086 3.38659 3.82136 5.96408 4.61195 971 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 510 3.06313 5.44294 3.36763 2.26093 2.24034 2.94374 4.05183 4.18906 1.73492 2.99229 4.49730 3.34920 3.51191 2.89133 2.97535 2.32812 3.29433 3.41273 5.90713 3.24129 972 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39492 6.11726 0.61958 0.77255 0.48576 0.95510\n- 511 3.08094 2.24780 2.12666 2.27889 4.34340 3.94407 4.16180 2.49689 3.00815 3.38357 4.22385 3.51724 4.33347 3.34822 3.45218 2.14986 2.90430 3.45208 5.67119 2.49437 973 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00456 5.39271 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2339 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_6\n-LENG 772\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:42 2020\n-NSEQ 15\n-EFFN 6.507568\n-CKSUM 1914476620\n-GA 119 83;\n-STATS LOCAL MSV -12.2386 0.69631\n-STATS LOCAL VITERBI -12.7898 0.69631\n-STATS LOCAL FORWARD -6.7457 0.69631\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56288 4.58927 2.92262 2.44818 3.34419 2.98528 3.74523 2.91712 2.48355 2.39527 3.79332 3.08191 3.30612 3.18676 2.84783 2.63039 2.96764 2.77607 4.52172 3.39823\n- 2.69319 4.43166 2.78074 2.72676 3.44658 2.42000 3.71585 3.26973 2.65238 2.68223 4.24476 2.90603 2.74865 3.19390 2.89641 2.37916 2.78949 2.99032 4.58286 3.60678\n- 1.57944 0.89437 0.95440 4.28737 0.01384 0.00000 *\n- 1 2.94359 4.68819 3.86682 3.31618 3.88290 1.60977 4.24247 3.25348 3.27076 2.96505 2.51924 3.70052 4.31634 3.57396 3.62045 2.22916 2.30309 3.01483 5.32553 2.48953 87 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00916 5.09322 5.81556 0.61958 0.77255 1.55839 0.23632\n- 2 2.94439 4.56667 4.00309 2.42809 2.43786 3.96795 4.23735 2.32123 3.36378 2.08515 3.03053 3.78217 4.34369 2.55486 2.50845 3.22660 3.17616 2.83098 5.15997 2.75712 88 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00916 5.09322 5.81556 0.61958 0.77255 1.55839 0.23632\n- 3 2.21892 5.40141 3.21331 2.10984 4.73203 3.72213 3.90248 4.19996 1.96778 3.69560 4.44843 3.19799 2.26492 3.00647 2.27820 2.91856 3.17616 3.78489 5.83832 2.76766 89 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00916 5.09322 5.81556 0.61958 0.77255 1.55839 0.23632\n- 4 2.92937 4.99335 3.42450 2.21613 2.61617 3.79340 4.00625 2.58274 2.25327 3.23542 4.07484 3.36429 4.18082 3.19084 2.41474 2.05488 3.16056 2.55388 5.52117 4.21746 90 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00916 5.09322 5.81556 0.61958 0.77255 1.55839 0.23632\n- 5 2.93699 4.70354 3.74519 2.34393 2.74516 3.89780 2.57077 2.40307 2.27182 2.22160 3.11080 3.60408 4.27846 3.44970 3.51049 3.13668 2.39570 2.98087 5.27896 4.03601 91 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00916 5.09322 5.81556 0.61958 0.77255 1.55839 0.23632\n- 6 3.04087 5.15622 3.50375 2.92226 2.59041 3.86699 4.02555 2.69653 2.10168 3.39807 4.23309 2.34123 4.24856 3.19047 1.47572 3.09279 3.26293 3.48843 5.63455 4.33401 92 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00916 5.09322 5.81556 0.61958 0.77255 1.55839 0.23632\n- 7 2.93409 5.12550 2.37882 2.77769 4.36095 2.66137 2.05105 2.51903 2.76524 2.45770 4.19760 3.29585 4.154'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 765 2.30903 2.71724 4.47152 3.88206 3.49790 4.04855 4.36347 2.05937 2.53132 1.55723 3.50798 4.06056 4.41869 3.95900 3.90339 3.34074 2.42727 2.60816 5.01482 3.82595 953 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 766 2.89691 4.99729 2.58668 2.80490 4.20893 3.75149 3.96235 2.57282 2.25521 1.88950 3.24794 3.31072 4.13981 2.40046 3.24031 2.38162 3.12822 3.31350 5.51887 4.20686 954 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 767 2.32608 4.64854 2.70968 3.18355 2.62175 2.49070 2.77783 3.15150 3.14235 1.79684 3.06507 3.59864 4.25692 3.44768 3.50483 3.11888 3.13840 2.92384 5.22650 3.98717 955 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 768 1.97486 4.73011 3.62998 2.38705 2.57526 3.84078 4.07945 3.25449 2.40313 2.94979 3.82749 3.51230 4.22340 3.35338 3.42557 3.07317 2.45523 2.31928 5.29698 2.67572 956 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 769 3.01416 5.49542 2.36994 1.33484 4.81780 3.70487 3.96222 4.29436 2.74672 3.79371 4.55438 2.40396 4.14398 3.07482 3.25115 2.97210 2.39205 2.52076 5.94406 4.52899 957 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 770 2.28786 5.28810 3.18611 2.08921 4.59427 2.73358 3.88661 2.81034 2.04898 3.58044 4.34927 3.17821 4.08317 3.00121 3.12377 1.79840 3.13224 3.65944 5.75611 4.37554 958 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 771 2.19958 4.72985 3.65383 3.09257 3.89148 3.85137 4.09895 1.87289 2.33047 2.95268 3.83428 2.62759 2.80455 3.37632 3.43927 3.08861 3.14665 2.15291 5.30755 4.05499 959 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02540 5.74774 0.61958 0.77255 1.62552 0.21916\n- 772 2.95518 5.38883 3.22626 2.04196 4.72468 3.72405 3.89353 4.18382 2.08634 3.67964 4.43980 3.20301 4.11583 3.00002 1.95984 1.75684 3.18196 2.69346 5.81956 4.44298 960 s - - -\n- 2.68654 4.42261 2.77556 2.73090 3.46390 2.40445 3.72531 3.29390 2.67711 2.69391 4.24726 2.90383 2.73697 3.18060 2.89837 2.37881 2.77493 2.98555 4.58513 3.61539\n- 0.57700 0.82458 * 0.68757 0.69876 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10_III_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2534 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10_III_7\n-LENG 837\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:43 2020\n-NSEQ 19\n-EFFN 8.938721\n-CKSUM 3580980888\n-GA 218 215;\n-STATS LOCAL MSV -12.2022 0.69606\n-STATS LOCAL VITERBI -13.3297 0.69606\n-STATS LOCAL FORWARD -6.6315 0.69606\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62055 4.46530 2.85445 2.46912 3.22564 2.93344 3.73882 2.86996 2.49855 2.39600 3.88117 3.04821 3.41146 3.30549 2.81786 2.64267 2.99607 2.77537 4.62920 3.32270\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.42046 5.81633 1.07799 0.61958 0.77255 0.00000 *\n- 1 2.20788 5.32090 3.45365 2.89551 3.05672 3.89887 4.09884 3.99697 2.30898 3.58549 2.24096 2.64743 4.28939 3.23960 2.31311 1.81281 3.30897 3.66093 5.81437 4.47019 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00672 5.40258 6.12493 0.61958 0.77255 1.30404 0.31667\n- 2 3.09509 3.21961 2.03925 2.80543 4.88818 3.87551 4.06409 4.36129 2.11192 3.85839 3.24664 2.56932 4.26854 3.16662 1.80246 2.46895 3.32616 3.94205 6.00433 3.10531 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00635 5.45857 6.18092 0.61958 0.77255 1.55683 0.23674\n- 3 3.10454 5.40298 3.44609 1.75668 4.67063 3.91393 4.11169 4.10389 2.46230 2.74725 3.05945 1.71815 2.88731 3.24178 3.35886 3.11288 3.33574 2.46459 5.88493 4.52700 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00635 5.45857 6.18092 0.61958 0.77255 1.55683 0.23674\n- 4 3.41162 5.96701 2.11525 1.09521 5.29196 3.99811 4.31820 4.79377 3.14223 2.41695 5.02664 2.59269 4.48207 2.03227 3.66811 3.34324 3.65871 4.34953 6.39668 4.94902 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00635 5.45857 6.18092 0.61958 0.77255 1.02483 0.44450\n- 5 3.28558 4.69882 4.99310 2.97354 1.45118 4.42208 4.70266 3.11745 4.22449 1.55327 2.52649 4.49139 4.78363 4.40072 3.08976 3.72353 3.51692 2.94294 5.24576 2.29634 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00579 5.55104 6.27338 0.61958 0.77255 0.95432 0.48625\n- 6 3.25841 4.67825 4.96295 1.93271 2.83047 4.39668 4.71517 2.43979 4.20204 2.01642 2.74005 4.46938 4.76304 4.38092 2.93993 3.69585 2.69131 2.92783 2.20693 2.54012 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00541 5.61865 6.34099 0.61958 0.77255 1.24852 0.33817\n- 7 2.59645 5.67206 2.74956 1.79151 5.00911 3.95731 4.14523 4.48940 2.36945 2.60248 4.71487 2.30280 4.35'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00466 5.76760 6.48995 0.61958 0.77255 0.75074 0.63870\n- 830 1.61251 3.09669 4.63396 4.05371 2.29566 4.41447 4.70439 3.32960 2.97170 2.27934 2.87346 4.32657 4.78662 4.20579 2.46048 2.51614 2.34177 3.12912 5.47716 4.27669 1103 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00466 5.76760 6.48995 0.61958 0.77255 0.75074 0.63870\n- 831 3.31027 5.15442 2.75572 3.45363 2.70344 3.15757 4.47880 2.21061 2.67351 2.01441 4.25058 2.93335 3.08164 3.74459 3.82072 2.87097 1.95859 2.84421 5.71889 4.46077 1104 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00466 5.76760 6.48995 0.61958 0.77255 0.75074 0.63870\n- 832 2.63561 5.58077 2.84293 3.13304 4.85229 4.13215 4.33980 4.27297 3.10690 3.85758 3.16452 2.82623 4.53019 3.47804 0.85958 3.34476 3.55983 2.73700 6.07857 4.73379 1105 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00466 5.76760 6.48995 0.61958 0.77255 0.75074 0.63870\n- 833 2.17864 5.60750 3.60695 2.53899 4.88499 1.75153 4.28133 2.06091 2.00908 2.93969 4.66791 2.86014 4.47644 3.40621 3.52716 2.70057 3.51178 3.96144 6.08415 4.71901 1106 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00466 5.76760 6.48995 0.61958 0.77255 0.75074 0.63870\n- 834 3.35083 4.83553 4.78457 2.38900 3.94067 1.40978 4.75024 2.24169 4.08410 2.02958 2.58500 4.41840 4.81869 4.30883 4.27420 2.98053 2.76955 2.58670 5.44746 4.25423 1107 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08925 5.76760 2.49788 0.61958 0.77255 0.75074 0.63870\n- 835 2.37180 5.70051 2.35822 2.02351 5.03389 3.99605 3.02158 2.87806 2.92378 2.97280 4.74425 2.35390 4.38929 3.28459 2.45213 2.55694 3.44911 4.08485 6.14024 2.60593 1108 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05923 5.68341 2.91681 0.61958 0.77255 1.07017 0.41999\n- 836 3.20513 5.54760 3.52640 2.97024 4.83423 1.64953 4.19947 3.07686 1.94794 2.86478 4.60840 3.50391 2.81444 2.60116 3.43109 1.94264 3.43651 3.90725 6.02039 4.65299 1109 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24486 5.62953 1.54368 0.61958 0.77255 1.22143 0.34928\n- 837 3.09426 5.30274 3.45253 2.31140 4.54493 1.93345 1.80646 3.96333 2.92349 3.56434 2.92017 2.61837 4.30758 3.27353 3.38666 3.12495 3.32703 2.38563 5.80544 4.46776 1110 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00458 5.38925 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2444 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_1\n-LENG 807\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:44 2020\n-NSEQ 20\n-EFFN 1.000977\n-CKSUM 1561546581\n-GA 1200 1200;\n-STATS LOCAL MSV -12.6191 0.69617\n-STATS LOCAL VITERBI -13.3067 0.69617\n-STATS LOCAL FORWARD -6.6984 0.69617\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56352 4.33155 2.75764 2.53700 3.21476 3.00616 3.69322 2.88879 2.63924 2.45561 3.71629 3.05284 3.61500 3.01819 2.95255 2.68620 2.88434 2.65283 4.95387 3.25019\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25206 4.19040 1.57185 0.61958 0.77255 0.00000 *\n- 1 2.69816 4.34787 3.83605 3.36207 3.40425 3.62815 4.19281 2.45915 3.18643 2.10627 1.71125 3.64901 4.11575 3.55237 3.44385 2.99927 2.46881 2.35000 5.09569 3.88701 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02853 3.96688 4.68922 0.61958 0.77255 0.71000 0.67657\n- 2 2.62732 4.77963 2.83028 2.17800 4.04320 3.36964 3.65488 3.42467 2.45190 2.64527 3.90396 2.25961 3.81544 2.82362 2.88196 2.66625 2.52284 3.11302 5.31946 3.99109 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02853 3.96688 4.68922 0.61958 0.77255 0.71000 0.67657\n- 3 2.78616 5.24160 2.04488 1.67459 4.55285 3.25343 3.68748 4.03137 2.59428 3.55759 4.37464 2.73628 2.46683 2.83721 3.12865 2.71996 3.05467 3.62872 5.73228 4.29255 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02853 3.96688 4.68922 0.61958 0.77255 0.71000 0.67657\n- 4 2.90315 5.46110 1.40310 1.77190 4.74266 3.22353 3.72723 4.24650 2.51112 3.74744 4.58739 2.68140 3.82515 2.88721 3.26933 2.79472 3.18187 3.82680 5.90974 4.41940 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05607 3.96688 3.33560 0.61958 0.77255 0.71000 0.67657\n- 5 1.74972 4.22466 3.24912 2.91518 4.17161 2.99055 4.03625 3.56052 2.96668 3.24888 4.08560 3.18203 2.10600 3.27914 3.31976 2.02510 2.70468 3.08684 5.50840 4.26538 5 a - - -\n- 2.68644 4.42166 2.77524 2.72996 3.46359 2.40557 3.72539 3.29265 2.67749 2.69271 4.24647 2.90368 2.73765 3.18161 2.89845 2.37918 2.77505 2.98538 4.58521 3.61547\n- 0.33999 1.27733 4.66247 2.19818 0.11766 0.73095 0.65672\n- 6 1.69945 4.22643 3.24357 2.88732 4.19803 2.36936 4.01845 3.61772 2.95357 3.27575 4.09433 3.16300 2.68663 3.25038 3.32491 2.01911 2.68891 3.12153 5.52061 4.27609 18 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94012 4.66247 0.61958 0.77255 0.73095 0.65672\n- 7 2.68012 5.11223 2.37422 2.02118 4.43636 3.34334 3.57716 3.89448 2.07386 3.39218 4.17353 2.81706 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17057 4.89291 0.61958 0.77255 0.51011 0.91736\n- 800 2.82808 4.89305 3.26881 2.69753 4.07702 3.59587 3.70828 3.49272 2.26697 2.31314 3.94689 3.15849 3.98350 1.72841 2.28237 2.88121 3.04169 3.22915 5.31274 4.03592 842 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17057 4.89291 0.61958 0.77255 0.51011 0.91736\n- 801 1.98547 4.28326 3.54205 2.97635 3.42659 3.58599 3.58859 2.64649 2.80951 2.21911 3.39776 3.36056 3.97193 3.21552 3.24129 2.74988 2.75059 2.17333 4.88373 3.65625 843 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17057 4.89291 0.61958 0.77255 0.51011 0.91736\n- 802 2.92019 4.43593 4.19582 3.66384 3.01910 3.98027 4.34874 2.38266 3.54032 1.17562 3.18604 3.94281 4.35377 3.80064 3.77029 3.30648 2.28871 2.33223 5.01817 3.79746 844 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04360 4.17057 3.60369 0.61958 0.77255 0.51011 0.91736\n- 803 2.70175 5.00291 2.92313 2.34904 4.27854 3.44836 3.63238 3.72163 1.96722 3.26775 4.06898 2.51983 3.85475 2.36902 2.73283 2.69792 2.92765 3.36685 5.44258 2.72307 845 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09841 4.15065 2.55147 0.61958 0.77255 0.53352 0.88319\n- 804 2.78312 5.29624 2.26431 1.62301 4.60601 3.31811 3.67249 4.09437 2.14877 3.58496 4.37237 2.41686 3.82662 2.80289 3.02636 2.57433 3.03471 3.67286 5.73496 4.29620 846 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07177 4.07774 2.95065 0.61958 0.77255 0.61126 0.78234\n- 805 2.68747 5.02462 1.89796 2.29784 4.26185 3.35067 3.38703 3.73930 2.45364 2.69566 4.10343 2.71160 3.81069 2.54096 2.93371 2.66873 2.92967 3.37892 5.48005 4.09039 847 d - - -\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40502 3.72498 3.29357 2.67744 2.69358 4.24693 2.90350 2.73743 3.18149 2.89782 2.37890 2.77509 2.98521 4.58480 3.61506\n- 0.38283 1.47715 2.41037 0.24237 1.53604 0.61416 0.77891\n- 806 2.86897 5.39230 1.40992 2.03714 4.67445 3.24600 3.70628 4.17020 2.46609 3.67187 4.50145 2.70579 3.82342 2.53823 3.16705 2.77453 3.13840 3.75952 5.83541 4.36940 849 d - - -\n- 2.68615 4.42228 2.77523 2.73089 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24693 2.90344 2.73743 3.18150 2.89804 2.37886 2.77523 2.98522 4.58480 3.61507\n- 0.43860 1.33229 2.39484 0.22902 1.58626 0.70504 0.68140\n- 807 2.32847 5.20475 1.77491 1.78976 4.52297 3.20973 3.67937 3.97280 2.61616 3.53095 4.36327 2.70027 3.77942 2.83722 3.15962 2.70646 3.04848 3.58097 5.72574 4.28182 851 d - - -\n- 2.68589 4.42247 2.77515 2.73057 3.46376 2.40535 3.72517 3.29376 2.67763 2.69377 4.24712 2.90339 2.73756 3.18168 2.89823 2.37847 2.77485 2.98540 4.58499 3.61525\n- 0.35166 1.21578 * 1.56387 0.23487 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2681 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_2\n-LENG 886\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:45 2020\n-NSEQ 10\n-EFFN 0.971680\n-CKSUM 2025472266\n-GA 1040 1040;\n-STATS LOCAL MSV -12.5782 0.69591\n-STATS LOCAL VITERBI -13.4723 0.69591\n-STATS LOCAL FORWARD -6.7587 0.69591\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50714 4.31799 2.96619 2.61966 3.29615 3.08546 3.67530 2.75335 2.62948 2.38277 3.59146 3.10901 3.44748 3.03623 2.92253 2.66658 2.87257 2.64119 4.50188 3.49344\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20309 4.17432 1.78137 0.61958 0.77255 0.00000 *\n- 1 2.66730 4.41447 3.44005 3.02698 3.47158 3.50857 3.95205 2.80436 2.87722 2.47783 1.66561 2.83208 4.00178 3.29493 3.16595 2.88310 2.96298 2.62397 5.00920 3.70332 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02762 3.99885 4.72120 0.61958 0.77255 0.38711 1.13637\n- 2 2.66170 5.02138 2.37911 2.18333 4.29932 3.39855 3.10477 3.75003 2.42281 3.29835 2.77525 2.35580 3.82169 2.76418 2.90693 2.64810 2.89755 3.37819 5.48926 4.10964 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 3 2.67013 4.32399 3.62983 3.06522 2.37833 3.65787 3.81172 2.81554 2.98683 2.28271 3.43075 2.73166 4.03151 3.28191 2.58865 2.91441 2.90063 2.60260 3.54264 2.97057 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 4 2.72169 5.16991 1.85949 2.01403 4.47658 3.37172 3.66136 3.94469 2.24329 3.46132 4.23982 2.84753 3.83250 2.78498 2.96927 2.42231 2.96497 3.09334 5.62731 4.21693 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 5 2.61382 4.81651 2.70974 2.28693 3.41962 3.43402 3.64598 3.47237 2.44880 2.71411 3.88944 2.96445 3.82969 2.55498 2.91273 2.18526 2.64391 3.14890 5.31962 3.98301 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 6 2.56337 4.33603 4.59412 4.02263 2.27871 4.15861 4.47595 1.59410 3.89080 1.61085 3.12027 4.19669 4.46537 4.05758 4.02100 3.47755 3.19097 2.10798 4.96924 3.77996 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 7 2.88998 4.98829 3.36723 2.72556 4.28820 3.63913 3.67221 3.66082 1.97593 2.25334 4.06092 3.17314 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 879 2.79023 5.29345 2.24309 1.50471 4.61009 3.36823 3.68448 4.09440 2.48533 3.58117 4.36137 2.83146 3.85466 2.40581 2.66850 2.72826 3.03575 3.67325 5.72428 4.29846 915 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 880 2.24327 4.44805 3.35281 2.78636 3.62307 3.54632 3.78844 2.23592 2.39474 2.67103 3.55672 3.22598 3.93479 3.05474 2.74086 2.78916 2.60224 2.58147 5.02867 3.77730 916 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 881 3.27094 4.57390 4.99309 4.43711 2.29659 4.54971 4.79402 1.33099 4.30361 1.38334 3.03389 4.60377 4.76318 4.38661 4.38502 3.89750 3.49700 2.15436 5.08587 3.87070 917 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 882 2.71534 5.15706 2.77201 1.89449 4.48669 3.01765 3.63282 3.94928 1.91628 3.44582 4.21802 2.88268 3.20048 2.41389 2.80428 2.67813 2.94849 3.54278 5.58922 4.20248 918 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09238 4.17432 2.61929 0.61958 0.77255 0.48576 0.95510\n- 883 2.92896 5.22813 2.45347 1.05495 4.68032 2.59894 3.88340 4.16260 2.79723 3.71939 4.58192 2.90153 3.92598 3.06182 3.28071 2.88785 3.23677 3.75800 5.84341 4.46876 919 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02476 4.10670 4.82905 0.61958 0.77255 0.56341 0.84226\n- 884 3.03903 4.43897 4.57928 4.09612 2.66374 4.19875 4.60883 2.02876 3.98461 2.05076 3.33503 4.27736 4.57552 4.20794 4.16581 3.57838 3.31489 1.03418 5.08787 3.73484 920 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02476 4.10670 4.82905 0.61958 0.77255 0.56341 0.84226\n- 885 2.83148 4.40681 3.89663 3.33985 3.14291 3.84373 3.15650 2.60275 3.13285 1.29214 2.80535 3.66657 4.19601 3.48543 3.38480 3.13659 3.06199 2.53333 4.80204 3.50071 921 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09008 4.10670 2.66380 0.61958 0.77255 0.56341 0.84226\n- 886 2.04715 4.30178 3.42632 2.86609 3.12133 3.52767 3.37905 2.79479 2.81535 2.33941 3.41223 3.27222 3.34985 3.12570 3.17082 2.77985 2.80230 2.35901 4.88409 3.63717 922 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01785 4.03447 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2768 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_3\n-LENG 915\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:45 2020\n-NSEQ 5\n-EFFN 1.284180\n-CKSUM 2240054165\n-GA 143.0 104.0;\n-STATS LOCAL MSV -12.4028 0.69582\n-STATS LOCAL VITERBI -13.4347 0.69582\n-STATS LOCAL FORWARD -6.9204 0.69582\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54983 4.48631 2.86487 2.60321 3.22789 2.99446 3.67911 2.85557 2.67067 2.39822 3.69984 3.06162 3.45481 3.04397 2.89867 2.63953 2.84527 2.67949 4.70287 3.38135\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.00000 *\n- 1 2.05406 4.99933 3.25710 2.80450 4.55015 3.55018 3.87710 3.88413 1.11634 3.47889 4.34018 3.24297 4.04754 3.03189 2.68045 2.93183 3.16667 3.52573 5.64432 4.38908 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 2 1.84305 4.33276 3.72594 3.25002 3.99022 2.07036 4.20313 3.26561 3.21482 3.05202 3.92848 3.48660 3.93279 3.50692 3.54554 2.68119 1.95906 2.09836 5.40741 4.18874 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 3 3.56514 5.68713 0.43324 2.75018 5.14485 3.63390 4.43704 4.85562 3.62191 4.38661 5.39875 3.32152 4.31945 3.69293 4.18314 3.49094 3.92090 4.45201 6.21179 4.97209 3 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 4 3.35913 5.30105 3.31692 3.10661 4.53181 3.74760 4.25874 4.26520 2.90002 3.71619 4.75721 3.56062 4.32397 0.59359 3.16309 3.39953 3.66819 3.97242 5.72720 4.46799 4 Q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 5 2.45395 4.44559 3.48689 3.10407 4.44218 3.19187 4.22412 3.86273 3.13153 3.51742 4.33195 3.37682 2.15533 3.44642 3.50077 1.29249 2.15382 3.35408 5.75169 4.50334 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 6 3.59527 4.90091 5.18507 4.63004 3.17314 4.83383 5.11575 2.37844 4.43211 0.90867 1.52164 4.88328 4.97521 4.51580 4.50980 4.20963 3.81279 2.57924 5.32179 4.27886 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 7 2.05533 4.35851 3.67113 3.12438 3.51441 3.68965 4.00587 2.06417 3.05876 2.06344 3.47514 2.51682 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02197 4.22466 4.94701 0.61958 0.77255 0.40743 1.09470\n- 908 2.02872 2.67821 4.20058 3.62818 2.35231 3.77630 4.04066 2.59764 3.49796 2.34090 3.28601 3.78999 4.16180 3.70316 3.65841 3.07746 2.93409 2.40798 4.62975 2.33655 1165 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 909 2.81663 5.15416 2.64222 1.44349 4.64509 2.34151 3.86277 4.11755 2.73191 3.65531 4.45874 2.95729 3.93279 3.01164 3.23253 1.98797 3.11620 3.68562 5.82971 4.42569 1166 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 910 1.48517 4.43292 4.11191 3.69232 1.53633 3.67691 4.24048 2.85839 3.62504 2.53538 3.64797 3.84400 4.23266 3.86569 3.84552 3.07692 3.14125 2.68696 4.86320 3.41668 1167 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 911 2.11739 4.37628 3.79161 3.30005 3.73655 3.53127 4.19532 2.81347 3.21406 1.99636 3.67396 3.58490 4.07328 3.53593 3.51791 2.88704 1.51008 2.59139 5.25081 4.03235 1168 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 912 3.40523 4.78943 4.57788 4.13367 2.56084 4.35435 4.00030 2.90842 3.92033 1.26620 3.55105 4.19645 4.67961 4.11249 4.05001 3.71288 3.63740 2.89401 4.26678 1.34491 1169 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 913 3.23958 5.35559 3.61201 2.96885 4.79547 3.83118 3.78442 4.18643 2.05220 3.59991 4.48026 3.36873 4.20873 1.95997 1.06811 3.22986 3.40766 3.86547 5.62323 4.44918 1170 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 914 2.08825 4.55025 4.29371 3.86161 3.49234 3.93238 4.59546 2.51983 3.71207 0.95142 3.38684 4.07622 4.42537 4.01214 3.91860 3.33880 3.29950 2.46153 5.30391 4.11976 1171 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 915 2.82151 5.07274 3.06984 1.59132 4.35099 3.55644 3.71878 3.75826 2.34496 2.58929 4.14089 3.06921 3.96140 2.85652 2.06646 2.82554 3.04340 3.42747 5.50520 4.18647 1172 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01329 4.32745 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2525 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_4\n-LENG 834\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:45 2020\n-NSEQ 4\n-EFFN 0.542969\n-CKSUM 26682775\n-GA 798 798;\n-STATS LOCAL MSV -12.3943 0.69608\n-STATS LOCAL VITERBI -13.5356 0.69608\n-STATS LOCAL FORWARD -6.6939 0.69608\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63353 4.23243 2.87437 2.70334 3.20068 2.99058 3.88608 2.67215 2.67817 2.33555 3.62306 3.08045 3.42324 3.22562 3.03127 2.58664 2.95029 2.56611 4.69609 3.28709\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24588 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.14685 2.06526 4.62582 0.36512 1.18455 0.00000 *\n- 1 2.72898 4.48177 3.54992 2.99138 3.49405 3.59874 3.85034 2.80886 2.57569 2.34697 1.99476 3.36769 4.01061 3.13122 2.32809 2.92880 2.97628 2.66875 5.00931 3.76480 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 2 2.86411 5.42537 1.64852 1.74348 4.70939 3.19054 3.69810 4.22353 2.68253 3.72103 4.55650 2.15228 3.79237 2.85754 3.26330 2.75693 3.14453 3.79851 5.88248 4.38654 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14052 3.90347 2.19892 0.61958 0.77255 0.48576 0.95510\n- 3 2.76469 4.68394 3.23178 2.73318 3.78702 3.50683 3.69266 3.08052 1.71154 2.21930 3.75567 3.15936 3.93240 2.90403 2.52102 2.86964 2.99931 2.87630 5.13977 3.85678 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03391 3.79686 4.51921 0.61958 0.77255 0.57675 0.82490\n- 4 2.76394 5.12485 1.70120 2.16266 4.43078 3.20699 3.65347 3.89774 2.05036 3.45909 4.31109 2.72074 3.76844 2.81834 2.98757 2.71117 3.03741 3.52356 5.61719 4.21231 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03391 3.79686 4.51921 0.61958 0.77255 0.57675 0.82490\n- 5 2.57397 4.57014 3.00629 2.61910 4.02510 3.27771 3.72277 3.30034 1.98635 3.01084 3.91574 3.04538 3.80496 2.92091 2.68664 2.67235 2.00705 2.99543 5.29708 4.03112 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03391 3.79686 4.51921 0.61958 0.77255 0.57675 0.82490\n- 6 2.69289 4.25351 3.95335 3.44078 3.47127 3.74328 4.29001 1.74802 3.33061 2.18026 3.34678 3.73749 4.18772 3.65256 3.61291 3.08862 2.36243 1.69336 5.17515 3.95762 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03391 3.79686 4.51921 0.61958 0.77255 0.57675 0.82490\n- 7 2.93360 4.34015 4.41153 3.92029 3.41275 4.13605 4.68800 1.52138 3.78998 1.95476 3.25815 4.17899 4.5064'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 827 3.07739 4.58101 3.98670 3.54342 2.37376 3.95186 3.67582 2.81167 3.34516 1.87453 3.50893 3.72758 4.32215 3.63879 3.55588 3.30389 3.31944 2.72521 4.04453 1.46239 880 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 828 2.98076 4.43304 4.31931 3.84859 1.65180 4.01437 4.15517 2.28269 3.73176 1.86890 3.18208 4.01473 4.39508 3.92636 3.91059 3.38240 3.25263 1.86506 4.54716 3.05121 881 f - - -\n- 2.68619 4.42226 2.77521 2.73101 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.15364 2.02026 4.62582 0.35715 1.20286 0.48576 0.95510\n- 829 2.83858 4.72300 3.47668 2.88323 3.77697 3.58886 3.72852 3.17267 2.23352 2.21079 3.77910 3.27321 3.99981 2.94716 1.58731 2.95249 3.06803 2.98295 5.12949 3.85200 883 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 830 2.69633 4.87172 2.96828 2.49340 4.22788 3.39966 3.61242 3.65232 2.19505 3.20309 4.03831 2.97439 3.83919 2.11018 2.17897 2.28105 2.93625 3.31109 5.36723 4.07355 884 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 831 2.70323 4.47583 3.38337 3.28659 4.42878 0.68283 4.40518 4.03574 3.47210 3.68604 4.66187 3.54761 3.86797 3.79377 3.70495 2.87599 3.18687 3.55807 5.51595 4.53165 885 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 832 2.81120 5.32782 1.91745 1.64334 4.61257 3.22557 3.66420 4.10757 2.57250 3.60970 4.43030 2.68705 3.78808 2.31104 3.10754 2.72393 3.07680 3.69622 5.77160 4.31189 886 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 833 3.00013 4.96553 3.17821 2.79364 4.35904 3.48646 3.77593 3.79020 0.99666 3.34843 4.30804 3.21681 3.98447 2.96552 2.43695 3.03998 3.25100 3.49618 5.40082 4.21797 887 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14052 3.90347 2.19892 0.61958 0.77255 0.48576 0.95510\n- 834 2.56151 4.62369 2.85546 2.52833 4.12737 3.21719 3.70496 3.54358 1.96016 3.17111 4.03710 2.97201 3.77057 2.89509 2.70850 1.89730 2.88026 3.18422 5.36134 4.06518 888 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02295 3.78590 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2579 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_5\n-LENG 852\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:46 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 2078101955\n-GA 51 51;\n-STATS LOCAL MSV -12.3670 0.69600\n-STATS LOCAL VITERBI -13.6120 0.69600\n-STATS LOCAL FORWARD -6.8403 0.69600\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60516 4.35562 2.81619 2.66135 3.22094 2.95537 3.84756 2.61788 2.64452 2.41897 3.58344 2.94794 3.47256 3.32488 2.93498 2.70487 2.93639 2.60910 4.82868 3.34221\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 2.89761 5.00462 1.05533 2.28844 4.37075 3.14652 3.85898 3.93947 2.92732 3.56508 4.54379 2.83917 3.79336 3.09992 3.42916 2.87201 3.23525 3.58914 5.55658 4.26178 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.91983 4.31695 3.91799 3.86633 3.42132 3.45025 2.66908 4.12393 2.50391 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 3.12282 4.64800 3.70817 3.42312 2.30521 3.72744 3.58448 3.14490 3.28320 2.62135 3.83004 3.61676 4.20459 3.61078 3.48429 3.26762 3.40977 3.01159 3.94473 1.12856 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.8208'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 845 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 845 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 846 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 846 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 847 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 847 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 848 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 848 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 849 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 849 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 850 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 850 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 851 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 851 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 852 2.65336 4.64266 2.66692 2.54469 3.99250 3.12706 3.85602 3.68605 2.75358 3.34399 4.30178 1.32693 3.77577 3.13079 3.10330 2.72538 3.03360 3.31735 5.30916 3.94892 852 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2075 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_7\n-LENG 684\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:46 2020\n-NSEQ 4\n-EFFN 0.527344\n-CKSUM 2677315676\n-GA 483 265;\n-STATS LOCAL MSV -12.3100 0.69674\n-STATS LOCAL VITERBI -13.1357 0.69674\n-STATS LOCAL FORWARD -6.6036 0.69674\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48058 4.25602 2.93703 2.68061 3.15275 2.81402 3.83041 2.80876 2.76736 2.30766 3.69347 3.15977 3.39543 3.15160 2.84111 2.71732 2.97719 2.60886 4.78651 3.42211\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17160 3.89207 1.98572 0.61958 0.77255 0.00000 *\n- 1 2.88239 4.45156 3.92541 3.51362 3.16535 3.74637 4.27601 2.32970 3.28661 1.78139 1.62229 3.80443 4.20961 3.67835 3.50493 3.21762 3.18714 2.32122 4.98838 3.73758 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03535 3.75582 4.47817 0.61958 0.77255 0.59785 0.79849\n- 2 2.42914 4.48801 2.65616 2.47369 4.10969 3.03431 3.79385 3.64383 2.67244 3.28972 4.15187 1.96139 3.68455 3.01718 3.05749 2.05691 2.81964 3.21399 5.42703 4.06836 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03535 3.75582 4.47817 0.61958 0.77255 0.42155 1.06719\n- 3 2.49840 4.44748 3.06747 2.63947 3.78686 2.39316 3.75698 3.17101 2.62744 2.85812 2.73390 2.57797 3.79839 2.99112 3.00963 2.62532 2.79874 2.87501 5.15772 3.86987 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 4 2.64652 4.85915 2.67917 2.37126 4.27761 3.27501 3.66443 3.72058 2.09680 3.29133 4.12025 2.16250 3.79046 2.82498 2.79476 2.16745 2.92660 3.34770 5.47145 4.13161 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 5 2.22999 4.74839 2.66704 1.98411 4.18507 3.23814 3.70868 3.56918 2.54720 3.20164 4.04694 2.88629 2.49643 2.88332 2.98638 2.62896 2.88844 3.21470 5.44924 4.11275 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 6 3.39593 4.71459 4.39267 4.02722 1.24224 4.20508 3.46500 3.09078 3.88904 2.45761 3.70831 3.92734 4.53075 3.94273 3.98485 3.56433 3.62487 3.01772 3.64354 1.52410 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 7 1.83893 4.12917 3.36962 3.02999 4.13453 2.93447 4.08963 3.45911 3.04466 3.20530 4.05328 3.22600 3.65'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 677 3.17706 4.63341 4.22102 3.86077 3.14288 4.00715 4.51034 2.34778 3.62833 0.85144 3.15937 4.13436 4.43902 3.99197 3.80127 3.58002 3.47035 2.39024 5.02947 3.75738 698 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 678 3.04632 4.45937 4.36384 3.98023 3.38721 4.08793 4.70458 1.05397 3.80875 1.96904 3.31931 4.22281 4.51710 4.15491 4.00306 3.58497 3.34507 1.84613 5.28222 4.02233 699 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 679 2.96879 5.08435 2.49534 0.99783 4.43296 3.28644 3.87468 3.89074 2.75765 3.50461 4.47757 2.94351 3.89189 3.08979 3.16868 2.94907 3.27310 3.57248 5.60083 4.32284 700 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 680 2.77791 4.70007 3.18370 2.74195 3.61593 3.53063 3.76350 3.06413 2.46268 2.07206 3.66401 3.18707 3.96733 1.90835 2.76309 2.88596 3.02469 2.90790 5.09552 3.75938 701 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 681 3.17706 4.63341 4.22102 3.86077 3.14288 4.00715 4.51034 2.34778 3.62833 0.85144 3.15937 4.13436 4.43902 3.99197 3.80127 3.58002 3.47035 2.39024 5.02947 3.75738 702 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 682 2.98972 4.95467 3.16704 2.78460 4.34557 3.47728 3.76959 3.77602 1.01178 3.33673 4.29696 3.20827 3.97609 2.95983 2.43475 3.03032 3.24144 3.48264 5.39204 4.20755 703 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 683 2.71144 4.88289 2.99176 2.50555 4.23886 3.41198 3.60456 3.65997 2.16207 3.20530 4.04277 2.98232 3.84578 2.13688 2.07541 2.35621 2.94651 3.32123 5.36268 4.07634 704 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 684 3.17706 4.63341 4.22102 3.86077 3.14288 4.00715 4.51034 2.34778 3.62833 0.85144 3.15937 4.13436 4.43902 3.99197 3.80127 3.58002 3.47035 2.39024 5.02947 3.75738 705 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02082 3.88212 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2888 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_8\n-LENG 955\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:47 2020\n-NSEQ 12\n-EFFN 1.028320\n-CKSUM 1528349297\n-GA 960 960;\n-STATS LOCAL MSV -12.4626 0.69570\n-STATS LOCAL VITERBI -13.5774 0.69570\n-STATS LOCAL FORWARD -6.7558 0.69570\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45718 4.44891 2.93038 2.64176 3.38458 2.90287 3.67031 2.88048 2.69620 2.30370 3.60340 3.15897 3.37590 3.02842 2.79935 2.69490 2.88172 2.68316 4.61482 3.67422\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40517 3.72499 3.29358 2.67745 2.69359 4.24397 2.90351 2.73744 3.18150 2.89805 2.37891 2.77524 2.98522 4.58481 3.61507\n- 0.52462 1.41480 1.80031 0.20656 1.67865 0.00000 *\n- 1 2.55813 4.52458 3.10657 2.65035 3.81881 3.36670 3.76848 3.21040 2.62875 2.88903 2.55478 2.20935 3.84635 2.99367 3.02054 2.27636 2.84196 2.92025 5.18520 3.89009 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03321 4.75555 0.61958 0.77255 0.66911 0.71778\n- 2 2.68048 4.93202 2.21776 2.34946 4.27971 3.32090 3.70001 3.68619 2.30593 3.29121 4.11830 2.88057 3.82233 2.85740 2.99163 2.68584 1.84664 3.33085 5.51394 4.15071 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03321 4.75555 0.61958 0.77255 0.66911 0.71778\n- 3 2.39626 4.54268 3.10448 2.40402 3.25083 3.40687 3.70406 3.17226 2.57810 2.83793 3.69075 3.05618 2.99336 2.91335 3.00433 2.47807 2.32649 2.88878 5.14235 3.85484 4 t - - -\n- 2.68628 4.42235 2.77529 2.73119 3.46336 2.40512 3.72504 3.29364 2.67736 2.69339 4.24699 2.90356 2.73749 3.18156 2.89810 2.37887 2.77514 2.98510 4.58325 3.61513\n- 0.36188 1.22067 4.75555 0.76643 0.62487 0.66911 0.71778\n- 4 2.58103 4.21948 3.60327 3.02552 3.32454 3.59235 3.84550 2.31100 2.66336 2.23716 2.63186 3.38653 3.96554 3.23060 2.89845 2.85214 2.81118 2.46533 4.80208 3.14943 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03321 4.75555 0.61958 0.77255 0.66911 0.71778\n- 5 2.42632 4.78013 2.97626 2.30375 4.01941 3.41162 3.18687 3.43378 2.26062 3.03654 3.85252 2.94358 3.80345 2.48362 2.84059 2.62391 2.63372 2.87547 5.27850 3.45064 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03321 4.75555 0.61958 0.77255 0.66911 0.71778\n- 6 2.44001 4.79371 3.01442 2.45509 4.04615 3.42748 3.22910 3.45670 2.35073 2.81201 3.87241 2.96395 3.29344 2.57532 2.31737 2.64729 2.64943 3.13659 5.28642 3.96728 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03321 4.75555 0.61958 0.77255 0.38613 1.13845\n- 7 1.33867 4.35719 3.83202 3.36761 3.65339 3.51146 4.23957 2.73037 3.26161 2.48621 2.26390 3.62283 4.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20519 4.92753 0.61958 0.77255 0.48576 0.95510\n- 948 1.98553 4.87962 2.93307 2.18285 4.19134 3.40889 3.67203 3.61865 2.30765 3.20120 4.00373 2.95870 3.37577 2.81380 2.92192 2.45780 2.46350 3.26617 5.42140 4.07355 973 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20519 4.92753 0.61958 0.77255 0.48576 0.95510\n- 949 2.32735 4.89883 2.96680 2.27867 4.16267 3.43208 3.63265 3.59169 2.27686 2.92522 3.96554 2.75365 3.82574 2.35357 2.87161 2.49701 2.66095 2.94939 5.38535 4.03415 974 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20519 4.92753 0.61958 0.77255 0.48576 0.95510\n- 950 2.22149 5.10550 2.61057 1.91117 4.41867 3.39472 3.62424 3.88581 2.25670 3.39767 4.16213 2.87280 3.29631 2.54835 2.88230 2.63364 2.69265 3.48026 5.55788 4.15935 975 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06749 4.20519 2.98893 0.61958 0.77255 0.48576 0.95510\n- 951 2.44701 5.02123 2.64440 2.04397 4.32246 3.39308 3.60132 3.38643 2.36428 3.30869 4.07774 2.69300 3.37349 2.54216 2.85047 2.43559 2.65558 3.38884 5.48319 4.09803 976 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 4.16113 4.88348 0.61958 0.77255 0.53920 0.87519\n- 952 2.32573 5.04168 2.62397 2.20302 4.34672 3.03326 3.61165 3.80513 2.23236 3.33251 4.10322 2.87533 3.80216 2.53064 2.86716 2.38345 2.49797 3.41266 5.50560 4.11754 977 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07152 4.16113 2.92926 0.61958 0.77255 0.53920 0.87519\n- 953 2.25664 4.81061 2.93410 1.99550 4.08940 3.40494 3.66021 3.48649 2.45576 3.10230 3.92251 2.95880 3.82659 2.58239 2.90758 2.65127 2.43118 2.88157 5.34895 4.01501 978 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14137 4.11418 2.15858 0.61958 0.77255 0.59083 0.80714\n- 954 2.41667 4.84075 2.96041 2.41019 4.10719 3.09188 3.59378 3.52628 2.19528 3.10628 3.34991 2.69481 3.79937 2.43271 2.55453 2.62435 2.83277 3.19050 5.32315 3.99042 979 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08852 4.00039 2.71189 0.61958 0.77255 0.69752 0.68879\n- 955 2.25784 5.01469 2.34905 2.08273 4.31694 3.30270 3.61871 3.76518 2.23429 3.31626 4.11654 2.80323 3.77581 2.75736 2.92890 2.30419 2.90518 3.38986 5.51124 4.12331 980 e - - -\n- 2.68568 4.42245 2.77524 2.73114 3.46374 2.40532 3.72514 3.29374 2.67746 2.69375 4.24647 2.90366 2.73744 3.18119 2.89820 2.37886 2.77462 2.98520 4.58497 3.61523\n- 0.43319 1.04536 * 1.29194 0.32122 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas10d_I-D_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2723 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas10d_I-D_9\n-LENG 900\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:47 2020\n-NSEQ 15\n-EFFN 1.417236\n-CKSUM 2353943651\n-GA 108.0 67.0;\n-STATS LOCAL MSV -12.5200 0.69586\n-STATS LOCAL VITERBI -13.3806 0.69586\n-STATS LOCAL FORWARD -6.7350 0.69586\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55192 4.45342 2.92886 2.57481 3.32881 3.08386 3.69420 2.76440 2.58593 2.35624 3.69943 3.02494 3.49486 2.99896 2.91806 2.69040 2.87898 2.68102 4.78687 3.41748\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12838 4.39473 2.22437 0.61958 0.77255 0.00000 *\n- 1 2.78031 4.88400 2.36272 2.22162 4.07981 3.48200 3.80847 3.44416 2.68855 3.09003 1.70765 3.03598 3.94933 2.99968 3.14277 2.82652 3.02815 3.16564 5.41721 4.08846 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02063 4.28699 5.00933 0.61958 0.77255 0.63180 0.75851\n- 2 2.64241 4.58351 3.24692 2.69293 3.77867 3.52937 3.77195 2.79069 2.37748 2.37720 3.69047 3.16280 2.84485 2.99554 3.04621 2.05435 2.87970 2.88345 5.14769 3.87193 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02063 4.28699 5.00933 0.61958 0.77255 0.63180 0.75851\n- 3 2.67572 5.07857 2.95014 2.14774 4.39466 3.45041 3.62862 3.84783 1.88684 2.90476 4.13132 2.77649 3.84372 2.57193 2.63888 2.35948 2.74679 3.45446 5.52116 4.14790 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02063 4.28699 5.00933 0.61958 0.77255 0.54468 0.86756\n- 4 2.65171 4.56232 3.28583 2.72000 2.98913 3.55799 3.42294 2.67207 2.30872 2.78777 3.28356 3.18687 3.94132 2.84216 2.25707 2.78401 2.88201 2.85653 5.10924 3.44976 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05379 4.32670 3.24016 0.61958 0.77255 0.58220 0.81796\n- 5 2.65225 4.53138 3.31679 2.76117 3.71348 3.27168 3.31614 3.08974 2.67275 1.83622 3.64220 3.21330 3.94859 3.04257 2.70015 2.51885 2.53624 2.83678 5.09706 3.83595 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29341 5.01576 0.61958 0.77255 0.62407 0.76735\n- 6 2.65366 5.03787 2.55244 2.16411 4.33653 3.43920 3.63131 3.78888 2.37732 3.10017 4.09267 2.72364 3.83390 2.74689 2.03307 2.64050 2.72499 3.40406 4.35187 4.11946 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29341 5.01576 0.61958 0.77255 0.62407 0.76735\n- 7 3.66647 5.01537 4.86623 4.52800 3.35574 4.51337 5.05560 2.60012 4.29400 0.48854 3.28171 4.76474 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02090 4.27424 4.99658 0.61958 0.77255 0.64682 0.74173\n- 893 2.80482 5.29418 2.44905 1.56707 4.61450 3.40142 3.71644 4.09566 2.10166 3.59035 4.36872 2.87020 3.88328 2.84052 3.02425 2.12612 3.05148 3.67670 5.73972 4.31609 958 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02090 4.27424 4.99658 0.61958 0.77255 0.64682 0.74173\n- 894 2.69707 5.16805 2.37851 1.73063 4.48639 3.40886 3.64745 3.44420 2.30769 3.46142 4.22131 2.72544 3.83647 2.61273 2.91578 2.36529 2.93357 3.54527 5.61249 4.20423 959 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02090 4.27424 4.99658 0.61958 0.77255 0.64682 0.74173\n- 895 2.23980 5.06438 2.32240 2.36947 4.38591 3.41548 3.64790 3.84413 2.02440 3.37139 4.14147 2.73433 3.83335 2.76460 2.89986 2.30117 2.90329 3.18504 5.54293 4.15572 960 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18281 4.27424 1.87635 0.61958 0.77255 0.64682 0.74173\n- 896 2.50164 4.99734 2.84531 2.12734 4.29937 3.38951 3.60742 3.74740 2.25127 3.28629 4.06641 2.88544 3.31732 2.29344 2.83142 2.38877 2.56137 3.36793 5.46775 4.09403 961 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06684 4.11596 3.02941 0.61958 0.77255 0.80386 0.59348\n- 897 2.27457 4.81877 2.35084 2.19639 4.07931 3.39948 3.63707 3.10539 2.44339 3.08904 3.90677 2.93307 3.81048 2.78585 2.91160 2.63156 2.67806 2.93062 5.33999 3.99716 962 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02558 4.07470 4.79704 0.61958 0.77255 0.83755 0.56699\n- 898 2.47898 4.95890 2.64029 1.56595 4.38113 3.30024 3.71868 3.82132 2.55385 3.38968 4.19941 2.87765 3.16399 2.86843 3.03100 2.30016 2.95407 3.42965 5.59027 4.21431 963 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02558 4.07470 4.79704 0.61958 0.77255 0.83755 0.56699\n- 899 2.60570 4.78846 2.95185 2.31772 4.06081 2.75885 3.64429 3.47282 2.21179 2.81667 3.89604 2.95668 3.81758 2.79956 2.87167 2.37138 2.42434 3.14675 5.31876 3.99054 964 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06756 4.07470 3.02974 0.61958 0.77255 0.83755 0.56699\n- 900 2.57255 4.61649 2.76066 2.52812 3.89076 3.38050 3.70556 3.27401 2.56536 2.44381 3.78294 2.81151 3.82643 2.90112 2.99985 2.44626 2.13845 2.97619 5.22297 3.91985 965 t - - -\n- 2.68631 4.42247 2.77482 2.73088 3.46376 2.40514 3.72486 3.29356 2.67763 2.69377 4.24712 2.90323 2.73761 3.18168 2.89823 2.37879 2.77488 2.98499 4.58499 3.61525\n- 0.51399 0.91156 * 1.19652 0.35989 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,464 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas11_III-D_1\n-LENG 147\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:47 2020\n-NSEQ 4\n-EFFN 0.511719\n-CKSUM 3289138107\n-GA 17.4 16.8;\n-STATS LOCAL MSV -10.2197 0.70973\n-STATS LOCAL VITERBI -10.9617 0.70973\n-STATS LOCAL FORWARD -4.7830 0.70973\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.27628 4.13804 2.89481 2.79131 3.46852 2.69298 3.57753 3.06234 2.88537 2.43781 3.82946 3.26610 2.92578 3.24078 2.79626 2.76199 2.74619 2.71983 3.96218 3.81382\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24601 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.26475 2.15261 2.15053 0.38459 1.14171 0.00000 *\n- 1 2.59836 4.28884 3.65191 3.17657 3.39342 3.50950 4.06098 2.42460 3.01199 2.12962 2.22075 3.49130 4.00236 3.39198 3.29196 2.87369 2.37294 2.29423 5.04882 3.82353 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76804 4.49039 0.61958 0.77255 0.57920 0.82176\n- 2 2.36261 4.20624 3.34090 3.09218 3.88179 3.04787 4.11673 2.99647 3.03302 2.86345 3.92375 3.31612 3.74466 3.43407 3.29469 2.56310 1.36264 2.70275 5.32915 4.09946 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76804 4.49039 0.61958 0.77255 0.57920 0.82176\n- 3 1.17589 4.14593 3.36081 3.15113 3.95206 2.97240 4.18493 3.06254 3.16471 2.94836 3.99493 3.32583 3.70209 3.51648 3.42037 2.49874 2.76902 2.73544 5.38995 4.17919 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76804 4.49039 0.61958 0.77255 0.43147 1.04854\n- 4 1.87904 4.22949 3.40905 2.93221 3.66090 3.24657 3.90876 2.90220 2.86566 2.67934 2.72918 3.25551 3.80445 3.20420 3.20051 2.20311 2.74503 2.63048 5.10517 3.86512 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 5 2.43387 4.41788 3.02295 2.65153 3.92549 3.18265 3.81187 3.28648 2.68604 3.01095 3.87878 2.15870 3.75632 3.03777 3.07135 2.17897 2.78196 2.40464 5.28205 3.98082 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 6 2.76180 4.51797 3.36981 3.20989 4.20464 3.20501 4.28680 3.75198 3.26785 3.37800 4.42809 3.51585 0.81277 3.65638 3.51259 2.92950 3.20396 3.39645 5.38912 4.32536 7 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 7 2.58002 4.56568 3.05096 2.66556 4.03714 3.29141 3.77040 3.31400 2.08523 3.03084 3.93414 3.08517 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 140 2.41682 4.26195 3.43500 3.18722 3.97576 3.10101 4.20396 3.10386 3.13036 2.96707 4.01697 3.39541 3.80535 3.52474 3.38874 2.61816 1.15831 2.79798 5.41285 4.19235 147 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 141 3.26843 4.66778 4.24980 3.96571 0.99861 3.95654 3.88052 2.79099 3.87251 2.15913 3.51988 4.02818 4.41486 4.03823 3.99025 3.53802 3.56952 2.78231 4.12699 2.49290 148 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 142 2.81440 4.35463 4.13658 3.79983 3.55583 3.73235 4.60011 2.04946 3.66774 2.24136 3.51961 3.98840 4.29231 4.02690 3.87949 3.23628 3.17569 1.01478 5.34167 4.07385 149 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 143 3.01431 4.85315 3.50576 3.01497 4.20977 3.50095 3.82973 3.75192 2.24008 3.26638 4.26621 3.37415 4.00302 3.04954 0.96613 3.09802 3.27964 3.47549 5.28947 4.13524 150 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 144 1.00220 4.19586 3.47060 3.26211 4.06024 3.02021 4.28323 3.18694 3.27858 3.06820 4.09902 3.40975 3.76018 3.61897 3.52864 2.54602 2.82393 2.83994 5.48658 4.28770 151 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 145 2.44630 4.21186 3.67257 3.25967 3.72011 3.29232 4.19001 2.51472 3.15740 2.56608 3.64632 3.48473 3.91296 3.51047 3.44248 2.70480 1.70642 1.90611 5.29376 4.05845 152 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 146 1.89278 4.20751 3.26969 2.90212 4.05072 3.01578 3.99117 3.34651 2.90884 3.09235 3.96118 3.17811 2.25150 3.23927 3.25473 2.43170 2.14466 2.93854 5.41298 4.17485 153 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13491 3.88054 2.24844 0.61958 0.77255 0.48576 0.95510\n- 147 2.78687 4.82546 3.09688 2.61467 3.80956 3.45265 2.27668 3.55938 2.12051 3.09563 3.99155 3.05442 3.88324 2.79226 1.98828 2.82708 3.01156 3.26468 5.07506 3.70561 154 r - - -\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29317 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.15319 1.95169 * 0.36882 1.17619 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_IV-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_IV-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,382 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Cas11_1_IVC\n-LENG 120\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 14 21:30:36 2021\n-NSEQ 4\n-EFFN 0.558594\n-CKSUM 1969805334\n-STATS LOCAL MSV -9.3517 0.71356\n-STATS LOCAL VITERBI -10.5042 0.71356\n-STATS LOCAL FORWARD -4.1949 0.71356\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53623 4.61266 2.84875 2.61125 3.43536 2.95619 3.92380 2.77800 2.48336 2.31174 3.68946 3.11874 3.68483 3.18169 2.97322 2.59190 3.04187 2.50529 4.96624 3.42213\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17100 3.91475 1.98609 0.61958 0.77255 0.00000 *\n- 1 2.89863 4.46357 3.94936 3.53810 3.17246 3.76356 4.29520 2.33891 3.31035 1.78379 1.57158 3.82649 4.22583 3.69987 3.52627 3.23678 3.20325 2.33341 4.99924 3.75121 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 3.77830 4.50065 0.61958 0.77255 0.60043 0.79535\n- 2 2.81153 4.78892 2.84669 2.60316 3.94397 3.30665 3.75952 3.56307 2.43140 3.07456 4.10827 3.06083 3.86079 1.41206 2.71615 2.86477 3.11010 3.29962 5.23447 3.92280 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 3.77830 4.50065 0.61958 0.77255 0.60043 0.79535\n- 3 2.87634 4.96009 2.45703 1.16777 4.29537 3.21684 3.79937 3.73059 2.66831 3.36437 4.34565 2.88813 3.81788 3.01903 3.06495 2.87038 3.18092 3.42537 5.48509 4.21063 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 3.77830 4.50065 0.61958 0.77255 0.42021 1.06976\n- 4 2.65479 4.71943 3.05615 2.54161 3.95663 3.43858 3.63504 3.33602 1.88625 2.96503 2.84683 2.59736 3.84955 2.81328 2.65180 2.71809 2.88609 3.04921 5.21975 3.93015 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 5 2.83967 5.16301 2.54445 1.56325 4.49375 3.34068 3.65410 3.91488 1.90391 3.44653 4.29602 2.84332 3.85064 2.80538 2.69517 2.79570 3.08338 3.55650 5.59034 4.24636 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 6 2.86055 5.13285 2.71086 1.95571 4.48859 3.40203 3.63284 3.88856 1.51401 3.40779 4.25982 2.91263 3.87857 2.77933 2.51375 2.82889 3.08823 3.54086 5.53190 4.23139 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 7 2.84138 4.37212 4.18388 3.84817 3.58086 3.76768 4.64254 2.04802 3.71660 2.26046 3.53945 4.03125 4.32573 4.07329 3.'..b'.68608 4.42241 2.77535 2.73003 3.46370 2.40529 3.72510 3.29370 2.67757 2.69371 4.24706 2.90298 2.73755 3.18162 2.89817 2.37903 2.77535 2.98534 4.58493 3.61453\n- 0.17100 1.91399 4.63709 1.73559 0.19394 0.48576 0.95510\n- 113 2.98843 5.10848 2.50515 0.96676 4.45996 3.30115 3.89140 3.92224 2.77722 3.53250 4.50449 2.95661 3.90769 3.10606 3.19057 2.96642 3.29292 3.60166 5.62357 4.34563 122 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 114 2.21866 4.18167 3.26254 2.94369 4.19952 2.31095 4.05971 3.60497 3.00357 3.28602 4.11285 3.18327 3.65738 3.30766 3.34885 1.67727 2.00551 3.10077 5.53179 4.29761 123 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 115 3.15655 4.50652 4.64733 4.12838 3.19846 4.40010 4.76795 1.42818 3.95613 1.30520 3.04172 4.39619 4.65974 4.19629 4.13450 3.77024 3.40099 1.90466 5.21039 4.03046 124 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 116 2.24842 4.21023 3.12102 2.94622 4.31510 1.41085 4.14439 3.79068 3.12594 3.46812 4.30685 3.18291 3.66548 3.41490 3.45031 1.91949 2.73651 3.22940 5.63639 4.39317 125 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 117 2.71751 4.48897 3.39996 3.30463 4.44655 0.66676 4.42250 4.05628 3.49167 3.70516 4.68110 3.56420 3.88147 3.81245 3.72325 2.89061 3.20203 3.57643 5.53071 4.54981 126 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 118 2.76533 5.02491 1.52305 2.25121 4.56446 1.93904 3.82396 4.07520 2.83190 3.64628 4.50618 2.79665 3.79860 3.01409 3.36581 2.74332 3.10528 3.64180 5.76612 4.38264 127 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17100 3.91475 1.98609 0.61958 0.77255 0.48576 0.95510\n- 119 2.65468 4.72856 2.82005 2.50773 4.22971 2.44472 3.68877 3.64634 1.64909 3.24350 4.11365 2.96742 3.79091 2.87175 2.62946 2.70495 2.95353 3.28981 5.38552 4.12359 128 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 3.77830 4.50065 0.61958 0.77255 0.60043 0.79535\n- 120 2.75190 4.92008 2.72748 2.41948 4.27795 3.32114 3.61469 3.72764 1.65088 3.28700 4.15215 2.35883 3.82216 2.78123 2.49619 2.75789 3.00762 3.38435 5.40376 4.09813 129 k - - -\n- 2.68623 4.42249 2.77503 2.73069 3.46378 2.40508 3.72519 3.29343 2.67765 2.69379 4.24714 2.90278 2.73764 3.18140 2.89825 2.37870 2.77523 2.98542 4.58501 3.61527\n- 0.26826 1.44692 * 1.88914 0.16393 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_IV-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_IV-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,484 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Cas11_2_IVC\n-LENG 154\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 14 21:30:36 2021\n-NSEQ 4\n-EFFN 0.816406\n-CKSUM 633262521\n-STATS LOCAL MSV -10.3607 0.70904\n-STATS LOCAL VITERBI -10.9129 0.70904\n-STATS LOCAL FORWARD -4.8217 0.70904\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41781 4.66380 2.91778 2.52290 3.61722 3.14841 3.92429 2.77663 2.57390 2.34279 3.66333 3.12935 3.40311 2.99879 2.92490 2.68279 2.84721 2.59962 5.10826 3.50038\n- 2.68620 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29356 2.67742 2.69356 4.24571 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.31802 2.11369 1.88639 0.34166 1.23991 0.00000 *\n- 1 3.07053 4.48137 4.47263 3.93430 3.15914 4.23712 4.59571 1.73819 3.76561 1.62175 1.76833 4.21374 4.52679 4.01040 3.95789 3.58347 3.31446 2.07715 5.11765 3.96882 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 2 2.58172 4.59296 2.98681 2.63070 4.02122 3.28579 3.78637 3.38141 2.52872 3.03304 3.94578 3.06615 3.82925 2.31269 2.86804 2.67889 1.76635 3.06938 5.33770 4.04621 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.40220 1.10517\n- 3 2.66882 4.78509 2.99962 2.51627 3.99814 3.44811 3.67678 3.41997 2.42232 3.02416 2.75025 2.38640 3.86761 2.11258 2.81580 2.71885 2.90612 3.12353 5.28345 3.96427 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 4 2.76274 5.00006 2.99565 2.50528 4.34689 3.47041 3.64538 3.74930 1.85772 3.28951 4.11374 3.00191 3.89053 2.01736 2.56726 2.76719 2.31065 3.40334 5.45522 4.15452 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 5 2.68612 4.92840 2.77782 2.41738 4.30268 3.35670 3.70006 3.74001 2.45292 3.31136 4.13134 2.06124 3.84273 2.22454 2.87273 2.69732 2.27243 3.37325 5.50446 4.15570 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 6 3.01984 5.23311 3.38234 2.72449 4.68352 3.66551 3.61602 4.03853 1.46550 3.46285 4.30408 3.15865 4.02476 2.09449 1.74787 2.99727 3.18792 3.69627 5.50608 4.30839 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13915 4.08447 2.17975 0.61958 0.77255 0.48576 0.95510\n- 7 2.33534 4.31003 3.15069 2.88997 4.23017 3.02361 4.06040 3.68551 2.97514 3.35265 4.20489 3.18329 1.72306 3.30750 3.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 147 1.92680 4.31389 3.36170 2.90038 3.68411 3.31020 3.91257 2.90055 2.83966 2.16059 3.62690 3.25654 2.71739 3.19156 3.18329 2.66117 2.80334 2.65100 5.14300 3.89248 158 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 148 2.76878 4.65801 3.04438 2.02829 3.68448 3.51919 3.83724 2.91186 2.66053 1.76423 3.64904 3.16917 3.97411 3.07874 3.01110 2.89630 3.02037 2.74418 5.17852 3.88028 159 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 149 2.63654 4.71829 2.86833 2.00392 3.94153 3.38176 3.68299 3.29591 2.48830 2.41057 3.83492 2.97162 2.84126 2.86950 2.89919 2.69675 2.88721 3.01757 5.26625 3.95028 160 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 150 3.00156 5.12429 2.51194 0.94680 4.47769 3.31099 3.90268 3.94294 2.79040 3.55086 4.52232 2.96557 3.91826 3.11712 3.20519 2.97813 3.30622 3.62086 5.63850 4.36071 161 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 151 1.55651 4.16221 3.29923 3.07980 4.28339 1.58302 4.20178 3.63766 3.19706 3.38052 4.23746 3.26007 3.67297 3.48322 3.50373 2.40354 2.71721 3.11977 5.62261 4.41725 162 a - - -\n- 2.68571 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.31886 1.33377 4.65198 0.23600 1.55960 0.63583 0.75395\n- 152 2.34331 4.26449 3.25627 3.07462 4.13327 2.99332 4.18293 3.66358 3.15223 3.37938 4.30067 3.29031 3.73682 3.49708 3.43655 1.00805 2.82771 3.18618 5.50119 4.21708 164 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 153 2.80737 5.10317 2.52438 1.62082 4.23911 3.32801 2.38832 3.84768 2.44201 3.38500 4.23954 2.83904 3.84319 2.83987 2.85391 2.77327 3.05918 3.49739 5.46995 4.06231 165 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02963 3.92963 4.65198 0.61958 0.77255 0.63583 0.75395\n- 154 1.55651 4.16221 3.29923 3.07980 4.28339 1.58302 4.20178 3.63766 3.19706 3.38052 4.23746 3.26007 3.67297 3.48322 3.50373 2.40354 2.71721 3.11977 5.62261 4.41725 166 a - - -\n- 2.68574 4.42232 2.77526 2.73077 3.46361 2.40519 3.72501 3.29361 2.67747 2.69362 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58484 3.61510\n- 0.30927 1.32418 * 0.67090 0.71590 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_IV-C_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11_IV-C_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,370 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Cas11_3_IVC\n-LENG 116\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 14 21:30:36 2021\n-NSEQ 6\n-EFFN 0.524414\n-CKSUM 1592708543\n-STATS LOCAL MSV -9.6982 0.71425\n-STATS LOCAL VITERBI -10.7248 0.71425\n-STATS LOCAL FORWARD -4.2840 0.71425\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53470 4.61001 2.86413 2.56697 3.45435 2.85951 3.79536 2.77603 2.62083 2.36064 3.70674 3.17613 3.44831 3.15110 2.68633 2.75948 3.05345 2.54586 4.48563 3.61344\n- 2.68575 4.42259 2.77451 2.73122 3.46351 2.40547 3.72528 3.29362 2.67713 2.69309 4.24575 2.90381 2.73773 3.18180 2.89835 2.37875 2.77538 2.98552 4.58511 3.61501\n- 0.44252 1.73225 1.71094 2.30622 0.10496 0.00000 *\n- 1 2.99124 4.48267 4.15141 3.63337 3.03425 4.05102 4.35621 2.12695 3.40663 1.25394 2.52673 3.95754 4.37272 3.74152 3.63320 3.40685 3.24178 2.15812 4.97099 3.74170 17 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03732 3.70267 4.42501 0.61958 0.77255 0.63304 0.75710\n- 2 2.83113 4.88619 3.14172 2.62357 4.24978 3.45402 3.54908 3.63535 1.55554 3.16405 4.05649 3.04627 3.87671 2.70911 1.90928 2.85924 3.03968 3.33498 5.27748 4.06398 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03732 3.70267 4.42501 0.61958 0.77255 0.63304 0.75710\n- 3 2.96986 4.48752 3.90942 3.55810 3.08454 3.75463 4.26724 2.29200 3.32715 1.11938 3.17803 3.84846 4.22595 3.73712 3.52737 3.31872 3.27580 2.28319 4.89281 3.57432 19 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03732 3.70267 4.42501 0.61958 0.77255 0.63304 0.75710\n- 4 2.88019 4.32995 4.25679 3.77644 3.32590 4.01727 4.55925 1.48329 3.62899 1.87627 3.19527 4.04863 4.40985 3.94818 3.86822 3.40007 3.16589 1.54870 5.22920 3.99235 20 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03732 3.70267 4.42501 0.61958 0.77255 0.63304 0.75710\n- 5 2.84339 4.65712 3.20831 2.81517 2.58715 3.56046 2.23529 3.26560 2.64617 2.77975 3.80112 3.19379 3.98843 3.08277 2.94701 2.92056 3.08519 3.04584 4.17694 2.23080 21 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03732 3.70267 4.42501 0.61958 0.77255 0.63304 0.75710\n- 6 2.81804 4.89392 1.19819 2.26039 4.25161 3.09157 3.80242 3.80375 2.85804 3.44745 4.43063 2.80394 3.73375 3.04825 3.34290 2.80667 3.15644 3.46449 5.45323 4.16423 22 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03732 3.70267 4.42501 0.61958 0.77255 0.63304 0.75710\n- 7 2.07132 4.11499 3.56000 3.15533 3.71411 3.16536 4.10913 2.48160 3.07332 2.56902 3.61770 3.37480 3.80132 3.41766 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 109 2.69889 4.74540 3.15052 2.59553 3.94817 3.47995 3.62679 2.86812 2.22697 2.92186 3.82391 3.05869 3.87650 2.05088 2.25880 2.76317 2.92064 3.06630 5.20511 3.92643 146 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 110 2.98619 4.41682 4.38868 3.89439 3.30178 4.13312 4.61231 1.94114 3.73124 1.49606 3.18101 4.15793 4.49667 4.03003 3.94859 3.51036 3.25977 1.37536 5.21397 3.98869 147 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 111 2.41200 4.35022 3.15657 2.71247 3.82045 2.66451 3.80640 3.20397 2.70436 2.34718 3.75218 3.10520 3.04115 3.04680 3.08459 2.14964 2.74695 2.87847 5.18951 3.92115 148 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 112 2.96695 5.08205 2.49445 1.00082 4.43040 3.28506 3.87312 3.88775 2.75582 3.50197 4.47503 2.94230 3.89041 3.08829 3.16662 2.94745 3.27125 3.56971 5.59867 4.32069 149 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 113 2.73387 5.00004 2.91353 2.17405 4.34092 3.42422 3.57090 3.74820 1.87343 3.26813 4.08632 2.93087 3.83710 2.70469 2.12661 2.44235 2.95069 3.39776 5.41349 4.11491 150 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 114 2.77677 5.02061 2.39892 1.36528 4.46464 2.48313 3.76447 3.92125 2.65737 3.50604 4.37231 2.81443 3.80834 2.94718 3.11923 2.75668 3.08431 3.53661 5.65482 4.29767 151 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 115 2.72406 4.90780 2.46237 1.72676 4.40634 1.84333 3.78660 3.85556 2.68078 3.45580 4.32180 2.85054 3.80031 2.97681 3.12951 2.73029 3.04680 3.46854 5.61623 4.27901 152 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03085 3.88992 4.61227 0.61958 0.77255 0.48576 0.95510\n- 116 2.76275 5.00250 2.40763 1.43206 4.45415 2.33445 3.76272 3.90985 2.65578 3.49493 4.35809 2.81606 3.80446 2.94492 3.11836 2.74632 3.07161 3.52358 5.64836 4.29137 153 e - - -\n- 2.68622 4.42229 2.77524 2.73095 3.46358 2.40493 3.72499 3.29358 2.67745 2.69359 4.24694 2.90351 2.73744 3.18150 2.89805 2.37891 2.77524 2.98522 4.58481 3.61507\n- 0.19682 1.72227 * 0.66278 0.72446 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11b_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11b_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,533 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas11b_I-B_1\n-LENG 170\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:47 2020\n-NSEQ 23\n-EFFN 1.692993\n-CKSUM 4221563719\n-GA 18.7 18.6;\n-STATS LOCAL MSV -9.9556 0.70751\n-STATS LOCAL VITERBI -10.8874 0.70751\n-STATS LOCAL FORWARD -4.7064 0.70751\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64513 4.68865 2.95464 2.45946 3.03370 3.19176 3.83166 2.85246 2.44506 2.36208 3.64015 3.01763 3.65804 2.98075 2.81128 2.69051 2.97615 2.79832 4.78789 3.41851\n- 2.68622 4.42238 2.77533 2.73104 3.46345 2.40526 3.72508 3.29367 2.67738 2.69368 4.24588 2.90347 2.73727 3.18144 2.89803 2.37893 2.77483 2.98532 4.58490 3.61516\n- 0.53749 1.62241 1.52158 0.96284 0.48095 0.00000 *\n- 1 2.51782 4.46722 3.39486 2.69387 3.61504 3.59373 3.84392 2.93783 2.76741 2.63305 1.98571 3.28425 3.98418 2.55028 3.12956 2.84724 2.90010 2.45041 5.04556 3.80035 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02098 4.27066 4.99301 0.61958 0.77255 0.79917 0.59730\n- 2 2.68267 4.97346 2.51969 2.43287 4.42331 3.36176 3.76863 3.87589 2.59762 3.43471 4.22834 2.25928 3.86447 2.90996 3.08442 1.84207 2.19270 3.46989 5.62819 4.25254 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02098 4.27066 4.99301 0.61958 0.77255 0.79917 0.59730\n- 3 2.66305 5.05820 2.29205 1.81247 3.83595 3.42175 3.63981 3.80906 2.41025 3.00775 4.11562 2.90820 3.83173 2.61306 2.89765 2.52896 2.74391 3.42221 5.52027 4.13451 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02098 4.27066 4.99301 0.61958 0.77255 0.37646 1.15928\n- 4 2.69693 4.90056 3.09405 2.26310 4.14107 3.27168 3.72707 3.15541 2.04667 3.15913 2.49053 2.69065 3.91551 2.87625 2.85322 2.62665 2.92781 2.96587 5.40086 4.06632 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01691 4.48419 5.20653 0.61958 0.77255 0.52922 0.88932\n- 5 2.57851 4.70814 3.22315 2.66355 2.75103 3.15727 3.78649 3.29281 2.64636 2.63359 3.79443 2.68011 3.95443 2.73348 2.77500 2.24911 2.64571 2.84547 5.24596 3.95197 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01691 4.48419 5.20653 0.61958 0.77255 0.52922 0.88932\n- 6 2.50690 4.89874 2.73373 2.53167 4.13847 3.52170 3.72824 2.58543 2.52845 3.15841 3.97040 2.15211 3.32331 2.66884 2.99265 2.50848 2.92615 3.23179 4.06955 4.06521 9 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01691 4.48419 5.20653 0.61958 0.77255 0.45952 0.99855\n- 7 2.71838 4.21543 4.09754 3.51558 2.29200 3.80406 3.32788 2.66440 2.75835 1.89158 3.08598 3.74909 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44233 5.16468 0.61958 0.77255 0.59320 0.80421\n- 163 2.54159 5.13589 2.95134 1.68629 3.97579 3.48255 3.67827 3.90934 1.90343 3.42438 4.18991 2.96492 3.88368 2.57344 2.88024 2.69523 2.72355 3.51093 5.58402 4.20053 183 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44233 5.16468 0.61958 0.77255 0.59320 0.80421\n- 164 2.69865 5.14674 2.96669 1.80889 4.47278 3.47575 3.65844 3.93942 2.05789 3.43978 3.84801 2.80569 3.86848 2.56126 2.54069 2.44078 2.92821 3.52754 5.58690 3.44863 184 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05989 4.44233 3.07119 0.61958 0.77255 0.59320 0.80421\n- 165 2.74780 5.24731 2.41301 1.78401 4.58178 3.07151 3.68443 4.06378 1.81963 3.54523 4.29822 2.91853 3.87915 2.79163 2.76202 2.70322 2.81780 3.63370 5.68009 4.26778 185 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01839 4.40083 5.12318 0.61958 0.77255 0.65047 0.73773\n- 166 2.67637 5.07641 2.95275 2.23652 4.38161 2.84302 3.65822 3.30475 2.05828 3.36565 4.13237 2.50714 3.04408 2.77139 2.89390 2.48705 2.62143 3.44637 5.53764 4.15457 186 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01839 4.40083 5.12318 0.61958 0.77255 0.65047 0.73773\n- 167 2.71165 5.20411 2.58324 1.87095 4.53714 3.44817 3.66258 4.01754 1.91313 3.50294 4.25144 2.48629 3.86107 2.64034 2.90376 2.67255 2.72322 3.29169 5.64047 4.23124 187 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11063 4.40083 2.38095 0.61958 0.77255 0.65047 0.73773\n- 168 2.74955 5.26335 2.43922 1.70772 4.59247 3.41423 3.67752 4.07960 2.19708 3.55980 4.31692 2.54849 3.86136 2.33893 2.95730 2.69787 2.71998 3.64707 5.69621 4.27329 188 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10387 4.31035 2.46246 0.61958 0.77255 0.75810 0.63216\n- 169 2.49703 5.35010 1.98530 1.69770 4.66839 3.36193 3.73186 4.16316 2.59569 3.65348 4.43645 2.37158 3.87514 2.86151 3.13195 2.34231 3.08268 3.73369 5.80538 4.35629 189 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05734 4.22838 3.19056 0.61958 0.77255 0.83950 0.56551\n- 170 2.44288 4.87698 2.98867 2.28672 4.13879 2.94762 3.63565 3.56260 2.10718 2.96151 3.94767 2.95749 3.83047 2.77437 2.58611 2.44571 2.85670 2.81789 5.36702 4.02384 190 k - - -\n- 2.68636 4.42244 2.77520 2.73071 3.46372 2.40510 3.72513 3.29372 2.67742 2.69363 4.24708 2.90297 2.73758 3.18098 2.89807 2.37898 2.77538 2.98537 4.58495 3.61475\n- 0.47529 0.97208 * 0.96671 0.47857 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11b_I-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11b_I-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,554 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas11b_I-B_2\n-LENG 177\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:48 2020\n-NSEQ 9\n-EFFN 0.909668\n-CKSUM 3144308469\n-GA 26 24.4;\n-STATS LOCAL MSV -10.4461 0.70691\n-STATS LOCAL VITERBI -11.1484 0.70691\n-STATS LOCAL FORWARD -4.5144 0.70691\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68639 4.60440 2.92873 2.47557 3.01304 3.12952 3.80470 2.79534 2.45742 2.31995 3.64716 2.99839 3.70153 3.13228 2.84077 2.77481 3.04285 2.67354 4.82848 3.36895\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19152 4.13940 1.84284 0.61958 0.77255 0.00000 *\n- 1 3.05292 4.58589 4.16165 3.76382 3.25631 3.91186 4.47501 2.44239 3.52594 1.83620 1.19251 4.02825 4.37383 3.90148 3.71891 3.41243 3.36067 2.46033 5.11043 3.88086 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02826 3.97614 4.69848 0.61958 0.77255 0.65096 0.73719\n- 2 2.65146 4.83892 2.92012 2.48600 4.26431 3.34962 3.66316 3.70500 2.31393 3.26475 4.08724 2.28067 3.82605 2.81537 2.04156 2.23356 2.92000 3.33564 5.42976 4.11557 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02826 3.97614 4.69848 0.61958 0.77255 0.65096 0.73719\n- 3 2.78697 5.05440 2.50025 1.39906 4.44233 3.28278 3.75796 3.88754 2.60752 3.46162 4.32049 2.85822 2.55429 2.92774 3.06223 2.76768 3.07468 3.51668 5.63728 4.27470 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02826 3.97614 4.69848 0.61958 0.77255 0.39480 1.12030\n- 4 2.63830 4.82237 3.02856 2.47528 4.06748 3.45310 2.93118 3.48090 2.26353 3.07858 2.80822 2.47682 3.84414 2.79281 2.62444 2.49037 2.86620 3.16134 5.31171 3.98974 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32339 4.13940 1.34563 0.61958 0.77255 0.48576 0.95510\n- 5 3.22791 4.63691 4.20535 3.91548 1.05231 3.92285 3.86721 2.75487 3.82319 2.13067 3.48881 3.99201 4.38219 3.99793 3.94890 3.49892 3.52913 2.74373 4.12396 2.49421 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03218 3.84819 4.57054 0.61958 0.77255 0.74911 0.64015\n- 6 2.76400 5.08853 1.99086 2.16786 4.42587 3.16297 3.72628 3.97604 2.69201 3.55039 4.41375 1.61687 3.77549 2.91219 3.20895 2.72050 3.07531 3.57698 5.67420 4.23299 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03218 3.84819 4.57054 0.61958 0.77255 0.74911 0.64015\n- 7 3.22791 4.63691 4.20535 3.91548 1.05231 3.92285 3.86721 2.75487 3.82319 2.13067 3.48881 3.99201 4.382'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98511 4.70746 0.61958 0.77255 0.64319 0.74573\n- 170 2.86465 5.19689 2.63718 1.65499 4.54337 3.39133 3.66156 3.96393 1.69354 3.47595 4.31596 2.88879 3.88176 2.80537 2.64063 2.82065 3.09973 3.59966 5.60357 4.27116 184 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98511 4.70746 0.61958 0.77255 0.64319 0.74573\n- 171 2.67118 4.95433 2.88325 2.16797 4.24801 3.40814 3.59495 3.66735 1.81850 3.22053 3.43412 2.53177 3.81898 2.72955 2.66441 2.67008 2.89744 3.31806 5.40425 4.07060 185 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98511 4.70746 0.61958 0.77255 0.64319 0.74573\n- 172 2.81917 5.13267 2.89365 1.79345 4.49622 3.46088 3.59972 3.90619 1.83139 3.39224 4.20998 2.95035 3.88212 2.72814 2.13544 2.79079 3.03089 3.54226 5.50510 4.20688 186 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98511 4.70746 0.61958 0.77255 0.64319 0.74573\n- 173 2.66794 4.63040 3.22493 2.68253 3.88734 3.49442 3.72609 2.59230 1.75776 2.84160 3.75916 3.13562 3.90941 2.92225 2.74069 2.77751 2.51711 2.82388 5.21466 3.94872 187 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98511 4.70746 0.61958 0.77255 0.64319 0.74573\n- 174 2.81493 5.23872 2.46449 1.60041 4.55697 3.31942 3.66261 4.01796 2.11612 3.52488 4.34260 2.29198 3.83575 2.80527 2.86020 2.75473 3.06402 3.62715 5.67237 4.27701 188 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98511 4.70746 0.61958 0.77255 0.64319 0.74573\n- 175 2.74380 5.20431 2.04038 2.19675 4.52661 2.69993 3.65603 4.00657 2.13195 3.51753 4.31499 2.20780 3.79729 2.79346 3.01832 2.68604 3.00219 3.59662 5.68139 4.25342 189 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98511 4.70746 0.61958 0.77255 0.64319 0.74573\n- 176 2.85056 5.40129 1.74451 1.80329 4.70246 2.59628 3.70932 4.21007 2.66401 3.70333 4.52117 2.24687 3.81455 2.86004 3.23629 2.75483 3.12465 3.78155 5.86536 4.38247 190 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12693 3.98511 2.29649 0.61958 0.77255 0.64319 0.74573\n- 177 2.68558 4.90132 2.75901 2.09984 4.26552 2.40978 3.63217 3.68575 2.31071 3.24837 4.07898 2.90169 3.81166 2.78578 2.18473 2.69477 2.93799 3.33426 5.42852 4.11103 191 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02089 3.87907 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11b_I-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11b_I-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,323 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas11b_I-B_3\n-LENG 100\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:48 2020\n-NSEQ 4\n-EFFN 0.574219\n-CKSUM 1022891361\n-GA 50 50;\n-STATS LOCAL MSV -9.5066 0.71763\n-STATS LOCAL VITERBI -10.2758 0.71763\n-STATS LOCAL FORWARD -4.1289 0.71763\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55167 4.49734 2.97227 2.66842 3.20965 2.93047 3.90280 2.79083 2.62378 2.31680 3.65003 2.97291 3.63382 3.13470 2.83308 2.60832 3.03809 2.61854 4.61681 3.39131\n- 2.68628 4.42235 2.77529 2.73133 3.46363 2.40522 3.72504 3.29364 2.67693 2.69365 4.24426 2.90356 2.73749 3.18156 2.89810 2.37896 2.77529 2.98528 4.58487 3.61440\n- 0.30362 1.84067 2.27161 1.28416 0.32418 0.00000 *\n- 1 2.69487 4.54907 3.30922 2.78363 3.65645 3.52070 3.74283 2.92010 1.97195 2.55167 2.40316 3.20485 3.93409 2.97628 2.69898 2.84180 2.93408 2.73319 5.07994 3.82534 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55000 0.61958 0.77255 0.43535 1.04140\n- 2 2.71946 4.34476 3.74774 3.20234 3.26377 3.71748 4.03658 2.48629 3.07285 1.70668 2.32219 3.55858 3.02579 3.39821 3.36222 3.01307 2.96769 2.40198 4.92881 3.72051 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 3 3.00191 4.42133 4.43604 3.94311 3.33857 4.16417 4.65590 1.92592 3.78201 1.55274 3.21485 4.19921 4.52719 4.07915 3.99629 3.54382 3.27600 1.29007 5.25050 4.02444 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 4 2.54125 4.65954 2.83334 2.48230 4.15360 3.23466 3.72738 3.59215 2.51915 3.19515 4.03003 2.95464 2.45283 2.42477 2.92241 2.08596 2.85465 3.21686 5.41286 4.09208 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 5 2.89900 5.40313 1.83902 1.30750 4.69417 3.20619 3.73594 4.19233 2.72555 3.72011 4.57796 2.68362 3.81712 2.90433 3.29284 2.79789 3.18523 3.78535 5.87530 4.40176 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 6 2.86017 4.69936 3.53349 2.91944 3.43698 3.61501 3.67470 3.31277 2.29880 2.86795 3.82850 3.29685 4.00994 2.98061 1.52289 2.97193 3.07794 3.08208 2.97227 3.42961 11 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 7 2.79522 5.27169 1.69687 2.14721 4.57579 3.24220 3.66878 4.06728 2.16039 3.57872 4.39676 2.28204 3.79574'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 93 2.73179 4.50206 3.41652 3.32264 4.46420 0.65123 4.43976 4.07671 3.51119 3.72417 4.70027 3.58077 3.89492 3.83110 3.74148 2.90522 3.21718 3.59471 5.54536 4.56787 98 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 94 3.07268 4.47653 4.41152 4.02930 3.41023 4.12411 4.74749 1.01414 3.85847 1.98532 3.33725 4.26715 4.55017 4.20124 4.04893 3.62454 3.37089 1.84803 5.31213 4.05505 99 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 95 3.01138 4.55179 4.10677 3.70428 3.23139 3.87393 4.42706 2.41233 3.46943 1.81806 1.27922 3.97517 4.33486 3.84782 3.66848 3.36606 3.31775 2.42463 5.07932 3.84578 100 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 96 0.93945 4.21881 3.51687 3.31054 4.10559 3.04193 4.32627 3.23911 3.32817 3.11826 4.14418 3.44664 3.78619 3.66443 3.57506 2.56862 2.84967 2.88427 5.52742 4.33359 101 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 97 1.63744 4.16617 3.28240 3.07132 4.28859 1.50565 4.20107 3.64411 3.19580 3.38713 4.24606 3.25569 3.67297 3.48269 3.50215 2.40607 2.72120 3.12541 5.62587 4.42009 102 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 98 2.73179 4.50206 3.41652 3.32264 4.46420 0.65123 4.43976 4.07671 3.51119 3.72417 4.70027 3.58077 3.89492 3.83110 3.74148 2.90522 3.21718 3.59471 5.54536 4.56787 103 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 99 2.79198 5.04726 2.40882 1.34441 4.49481 2.41750 3.77879 3.95539 2.67476 3.53437 4.39694 2.82547 3.82330 2.95946 3.14197 2.76933 3.09935 3.56607 5.68222 4.32041 104 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 100 2.59318 4.76567 2.56912 2.01121 4.32037 2.03219 3.76644 3.75899 2.65022 3.35957 4.19439 2.86841 3.76905 2.94689 3.10496 2.20014 2.92516 3.35528 5.57289 4.22087 105 e - - -\n- 2.68620 4.42227 2.77521 2.73095 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.17465 1.83105 * 0.32151 1.29117 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11d_I-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas11d_I-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,644 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas11d_I-D_1\n-LENG 207\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:48 2020\n-NSEQ 4\n-EFFN 0.558594\n-CKSUM 760713299\n-GA 350 350;\n-STATS LOCAL MSV -10.3010 0.70499\n-STATS LOCAL VITERBI -11.4240 0.70499\n-STATS LOCAL FORWARD -4.8921 0.70499\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57910 4.39833 2.86100 2.48627 3.23423 3.03591 3.73568 2.96926 2.65866 2.32407 3.76055 3.02575 3.38213 3.11323 2.68957 2.79432 2.98501 2.76466 4.46756 3.30802\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.00000 *\n- 1 3.00241 4.54451 4.09472 3.69130 3.22620 3.86558 4.41666 2.40601 3.45710 1.81446 1.29923 3.96360 4.32637 3.83616 3.65747 3.35596 3.30851 2.41704 5.07269 3.83822 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 2 2.01206 4.54508 2.96542 2.56644 3.94307 3.25794 2.94677 3.39095 2.56897 3.03042 3.88454 3.01662 2.52998 2.94606 2.96232 2.60502 2.82108 3.05396 5.26752 3.95452 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 3 2.68763 4.54603 3.44081 2.88874 3.77878 3.49419 3.80221 2.96538 2.42418 2.71726 3.72279 3.27166 3.95115 3.03295 1.80988 2.84250 2.95854 2.09725 5.16454 3.90720 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 4 2.91408 4.90137 2.93064 2.68581 4.07557 3.39380 3.84456 3.71260 2.50363 3.21078 4.23724 3.14599 3.94773 1.16076 2.78707 2.95995 3.21092 3.43958 5.34001 4.03648 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 5 3.02024 4.37575 4.62009 4.12574 3.49787 4.29924 4.86447 1.43237 4.00540 2.02012 3.32141 4.36316 4.64026 4.28623 4.22051 3.68255 3.29224 1.19333 5.43702 4.22408 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 6 2.86802 5.43426 1.69002 1.65193 4.71844 3.19583 3.70111 4.23331 2.68363 3.72841 4.56239 2.21424 3.79652 2.85962 3.26456 2.76020 3.14779 3.80668 5.88866 4.39189 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91475 4.63709 0.61958 0.77255 0.48576 0.95510\n- 7 2.58802 4.56144 3.24231 2.75544 4.03153 3.32903 3.76419 3.36397 2.38165 3.02571 3.92627 3.14762 3.8472'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55001 0.61958 0.77255 0.56221 0.84385\n- 200 1.43227 4.10050 3.42194 3.11827 4.02109 2.95801 4.14181 3.09400 3.10039 3.00542 3.95192 3.28339 3.67957 3.43279 3.38813 2.41228 2.11631 2.72818 5.45333 4.23789 222 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55001 0.61958 0.77255 0.56221 0.84385\n- 201 2.66381 4.82334 2.55388 1.64363 4.21944 3.23411 3.71431 3.52026 2.53465 3.21034 4.10519 2.85715 3.78960 2.89561 2.95132 2.68894 2.40100 3.19711 5.48735 4.14366 223 e - - -\n- 2.68641 4.42248 2.77543 2.72951 3.46309 2.40536 3.72518 3.29377 2.67764 2.69347 4.24565 2.90370 2.73697 3.18170 2.89824 2.37910 2.77543 2.98542 4.58500 3.61526\n- 0.22140 1.67110 4.55001 1.96600 0.15084 0.56221 0.84385\n- 202 2.91532 5.01494 2.47128 1.09089 4.35580 3.24628 3.83029 3.80083 2.70528 3.42557 4.40245 2.90996 3.84900 3.04746 3.10880 2.90283 3.21951 3.48964 5.53590 4.25909 235 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55001 0.61958 0.77255 0.56221 0.84385\n- 203 2.91532 5.01494 2.47128 1.09089 4.35580 3.24628 3.83029 3.80083 2.70528 3.42557 4.40245 2.90996 3.84900 3.04746 3.10880 2.90283 3.21951 3.48964 5.53590 4.25909 236 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55001 0.61958 0.77255 0.56221 0.84385\n- 204 2.63480 4.71714 1.77875 2.41052 4.01051 3.25893 3.77445 3.18530 2.69840 3.02088 3.98070 2.91946 3.81213 2.97773 3.15987 2.69562 2.94049 2.37442 5.39977 4.03048 237 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55001 0.61958 0.77255 0.56221 0.84385\n- 205 2.42331 4.19501 3.63264 3.22579 3.70339 3.26328 4.16316 2.50709 3.12158 2.54736 3.63189 3.45359 3.88646 3.48002 3.40691 2.67811 1.77993 1.92993 5.27726 4.03900 238 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55001 0.61958 0.77255 0.56221 0.84385\n- 206 2.72828 4.93939 2.52265 2.32048 4.21725 3.24903 3.66999 3.78006 2.42344 3.33869 4.21057 1.84026 3.80110 2.32622 2.80198 2.72422 3.01355 3.42125 5.45193 4.06868 239 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82766 4.55001 0.61958 0.77255 0.56221 0.84385\n- 207 2.94279 5.06191 0.98451 2.30977 4.43326 3.17790 3.89366 4.01152 2.96965 3.62823 4.60614 2.86354 3.82763 3.13332 3.47911 2.91079 3.28070 3.65577 5.61051 4.31459 240 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02224 3.81704 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12_x1_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12_x1_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1268 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12_x1_V-F_1\n-LENG 415\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:48 2020\n-NSEQ 4\n-EFFN 0.597656\n-CKSUM 4255857690\n-GA 300 300;\n-STATS LOCAL MSV -11.3947 0.69901\n-STATS LOCAL VITERBI -12.4425 0.69901\n-STATS LOCAL FORWARD -5.5369 0.69901\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56080 4.51105 2.99803 2.60105 3.28307 2.85515 3.74661 2.88738 2.53035 2.45653 3.75355 3.11801 3.41294 3.03414 2.70423 2.63509 2.94827 2.70169 4.42212 3.53907\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.00000 *\n- 1 3.13880 4.57565 4.43251 3.89940 3.07671 4.24833 4.55315 2.21466 3.68684 1.32439 1.67041 4.19741 4.53025 3.95712 3.87836 3.60216 3.37932 2.29008 5.06065 3.89376 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 2 0.91754 4.22754 3.53403 3.32871 4.12241 3.05017 4.34243 3.25843 3.34677 3.13680 4.16109 3.46050 3.79602 3.68156 3.59239 2.57730 2.85950 2.90074 5.54260 4.35065 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 3 3.03631 5.00253 3.21694 2.82552 4.40493 3.51809 3.79858 3.83861 0.94655 3.38853 4.34638 3.24686 4.01363 2.98621 2.44590 3.07380 3.28446 3.54251 5.43100 4.25388 3 k - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46311 2.40517 3.72499 3.29358 2.67745 2.69359 4.24694 2.90324 2.73744 3.18151 2.89778 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.14239 2.09317 4.66474 0.88268 0.53388 0.48576 0.95510\n- 4 2.50418 4.54979 2.73994 2.59660 4.35105 1.49947 3.96028 3.87559 2.88732 3.50153 4.35425 2.18070 3.76146 3.18705 3.28356 2.59711 2.92176 3.39404 5.62353 4.31199 7 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 5 2.79466 5.29584 1.98157 1.69800 4.59664 3.26212 3.65616 4.07903 2.05503 3.57926 4.38810 2.72546 3.79932 2.79779 3.01945 2.71736 3.05212 3.66819 5.73406 4.29378 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 6 2.88101 5.14630 2.75118 2.01550 4.50953 3.42466 3.64110 3.90635 1.43790 3.42064 4.27369 2.93651 3.89637 2.78665 2.49236 2.85013 3.10573 3.55951 5.53821 4.24585 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 7 2.71947 4.84030 2.96295 2.57292 4.31550 3.36093 3.69367 3.72735 1.45477 3.30136 4.15841 3.02723 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 408 3.01299 5.13783 2.51799 0.92997 4.49290 3.31953 3.91255 3.96069 2.80190 3.56665 4.53772 2.97346 3.92747 3.12683 3.21789 2.98836 3.31780 3.63737 5.65132 4.37374 449 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 409 2.73633 5.06673 2.59299 1.77389 4.40048 3.32700 3.63785 3.83592 2.02855 3.37576 4.19492 2.83553 3.81625 2.78225 2.78275 2.28131 2.98478 3.46543 5.54618 4.18373 450 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 410 3.46152 4.75977 4.46681 4.11458 1.13711 4.26109 3.48512 3.13803 3.97153 2.49169 3.75154 3.98034 4.58294 4.00480 4.05016 3.62488 3.68959 3.07015 3.65262 1.56187 451 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 411 3.23392 4.67554 4.30164 3.94194 3.16289 4.07076 4.57574 2.37092 3.70900 0.79371 3.16427 4.21063 4.49419 4.06060 3.87358 3.64996 3.52505 2.42638 5.06741 3.80683 452 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 412 2.22193 4.98735 2.65594 1.83897 4.31724 3.33718 3.64265 3.71851 2.06074 3.29528 4.12295 2.86273 3.81697 2.79148 2.78685 2.69993 2.95859 3.36659 5.49320 4.14488 453 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 413 2.81467 5.29766 1.66455 1.81967 4.61468 3.21938 3.70177 4.10468 2.65248 3.62677 4.45330 2.69986 3.79943 2.85817 3.21004 2.20478 3.09374 3.69228 5.80148 4.33775 454 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 414 2.68324 4.64198 3.13021 2.70739 3.80612 3.43726 3.79284 3.10065 2.52021 2.75533 3.78037 3.15037 3.91751 1.78235 2.84717 2.79392 2.96189 2.34815 5.22425 3.91169 455 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14239 3.94239 2.17758 0.61958 0.77255 0.48576 0.95510\n- 415 2.59892 4.61130 3.01880 2.61707 4.06072 3.30302 3.71799 3.34639 1.91374 3.04218 3.93963 3.04908 3.81972 2.90934 2.66599 2.68934 2.00962 3.03835 5.31528 4.04894 456 k - - -\n- 2.68623 4.42230 2.77524 2.73128 3.46358 2.40517 3.72499 3.29316 2.67745 2.69359 4.24694 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98460 4.58482 3.61508\n- 0.15876 1.91870 * 0.89021 0.52860 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12_x2_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12_x2_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2156 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12_x2_V-F_1\n-LENG 711\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:48 2020\n-NSEQ 3\n-EFFN 0.530273\n-CKSUM 631360148\n-GA 300 300;\n-STATS LOCAL MSV -12.3781 0.69660\n-STATS LOCAL VITERBI -13.3978 0.69660\n-STATS LOCAL FORWARD -6.5615 0.69660\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38785 4.03101 2.95073 2.72921 3.51327 2.80732 3.73201 2.90691 2.55668 2.48480 3.67699 3.14828 3.24538 3.13573 2.68202 2.76385 2.88672 2.70799 4.37153 3.64950\n- 2.68632 4.42239 2.77534 2.73106 3.46368 2.40527 3.72509 3.29313 2.67755 2.69339 4.24562 2.90324 2.73722 3.18160 2.89815 2.37901 2.77534 2.98492 4.58491 3.61517\n- 0.19696 1.77853 4.61657 1.56272 0.23517 0.00000 *\n- 1 2.60159 4.35793 3.49242 3.02886 3.47415 3.46116 3.96688 2.73527 2.90487 2.32198 2.06529 3.38267 2.55425 3.28248 3.21071 2.82279 2.90602 2.57940 5.04126 3.79666 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 2 0.98287 4.20261 3.48442 3.27649 4.07379 3.02662 4.29600 3.20253 3.29330 3.08316 4.11244 3.42069 3.76787 3.63243 3.54246 2.55264 2.83149 2.85317 5.49877 4.30138 9 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 3 2.69445 4.60988 3.25028 2.75804 3.87677 3.47670 3.76693 2.98124 1.72722 2.80487 3.78326 3.18274 3.92938 2.97480 2.68812 2.82201 2.95601 2.13964 5.22896 3.96307 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 4 2.66041 4.67554 3.13000 2.70935 4.23028 2.18389 3.76532 3.67786 2.34974 3.25951 4.12794 3.12092 3.84458 2.95418 1.63573 2.74094 2.97256 3.31132 5.37954 4.15077 11 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 5 2.97063 5.08664 2.49624 0.99485 4.43552 3.28782 3.87624 3.89372 2.75947 3.50725 4.48011 2.94473 3.89337 3.09130 3.17073 2.95069 3.27496 3.57524 5.60298 4.32499 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 6 2.78025 5.14668 1.92833 2.23603 4.46672 3.27820 3.66009 3.92884 1.70764 3.46935 4.30458 2.78645 3.80768 2.81273 2.88826 2.73259 3.04045 3.54984 5.61499 4.22806 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 7 2.03658 4.69502 3.00534 2.60701 4.18000 3.32219 3.72294 3.48102 1.64975 3.14951 4.03489 3.04750 3.8'..b'.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98480 4.58479 3.61505\n- 0.19696 1.77853 4.61657 0.31618 1.30536 0.48576 0.95510\n- 704 2.98702 5.06420 3.39058 2.75862 4.48799 3.60386 3.58647 3.84724 1.58943 3.31881 4.19965 3.15959 3.98705 2.73002 1.44188 2.99621 3.16464 3.53884 5.38214 4.20691 729 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 705 2.80793 4.61006 3.34456 2.89453 3.06090 3.59197 2.09628 3.06072 2.64259 2.00225 3.66428 3.28774 4.01945 3.12791 2.93219 2.94309 3.05487 2.88304 4.61618 3.09988 730 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 706 1.98609 4.57920 3.23057 2.75251 4.09110 3.31257 3.75799 3.42716 2.34288 3.07721 3.97771 3.14005 3.84053 2.95128 1.75066 2.69826 2.90681 3.10249 5.32578 4.07960 731 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 707 2.97063 5.08664 2.49624 0.99485 4.43552 3.28782 3.87624 3.89372 2.75947 3.50725 4.48011 2.94473 3.89337 3.09130 3.17073 2.95069 3.27496 3.57524 5.60298 4.32499 732 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 708 1.70560 4.49047 3.22070 2.77034 4.03202 3.25817 3.80212 3.36217 2.46514 3.03925 3.93908 3.14617 3.81332 3.01057 2.06917 2.64718 2.86053 3.03236 5.31495 4.06372 733 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 709 2.80840 4.94799 2.84427 2.49135 3.86013 3.42445 2.12682 3.67781 2.27691 3.20164 4.09135 2.97871 3.88813 2.15345 2.59396 2.81681 3.04446 3.36713 5.16577 3.74134 734 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 710 2.77956 5.00122 2.67626 2.39698 4.35938 3.33520 3.65875 3.82306 1.82801 3.37208 4.22536 1.88966 3.84588 2.82080 2.62686 2.77206 3.03963 3.46480 5.49214 4.16283 735 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 711 0.98287 4.20261 3.48442 3.27649 4.07379 3.02662 4.29600 3.20253 3.29330 3.08316 4.11244 3.42069 3.76787 3.63243 3.54246 2.55264 2.83149 2.85317 5.49877 4.30138 736 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 3.88428 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3755 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12a_V-A_1\n-LENG 1244\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:49 2020\n-NSEQ 73\n-EFFN 2.062927\n-CKSUM 3540380171\n-GA 300 300;\n-STATS LOCAL MSV -13.2636 0.69511\n-STATS LOCAL VITERBI -14.1282 0.69511\n-STATS LOCAL FORWARD -7.0540 0.69511\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65476 4.61183 2.91014 2.53556 3.12976 3.17462 3.73236 2.80370 2.39826 2.51281 3.75097 2.83570 3.69301 2.94769 2.93066 2.68468 2.84594 2.84438 4.71208 3.27759\n- 2.68613 4.42245 2.77536 2.73109 3.46360 2.40533 3.72515 3.29343 2.67746 2.69371 4.24306 2.90333 2.73750 3.18154 2.89821 2.37884 2.77520 2.98515 4.58497 3.61523\n- 0.62440 1.03476 2.21540 0.70426 0.68216 0.00000 *\n- 1 2.63038 4.80460 3.18103 2.52574 3.66585 3.01061 3.77665 3.41608 2.22024 3.05029 2.07510 3.07290 3.75586 2.81277 2.95412 2.70225 2.68443 3.12108 5.32692 3.90972 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 4.53646 5.25881 0.61958 0.77255 0.59343 0.80392\n- 2 2.71801 5.02569 3.05790 2.45987 4.29609 2.88671 3.58847 3.40939 2.12049 3.02299 3.39876 2.40530 3.91805 2.78770 2.91955 2.20615 2.69190 3.23257 5.50577 4.14552 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03108 4.56508 3.90235 0.61958 0.77255 0.50895 0.91911\n- 3 2.66574 4.62648 2.95903 2.80673 3.45000 3.63859 3.74748 2.36375 2.57264 2.41680 3.33789 2.67834 3.71368 2.94905 3.06352 2.63497 2.82139 2.63051 5.18231 3.48734 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01515 4.59300 5.31534 0.61958 0.77255 0.45457 1.00709\n- 4 2.70428 4.17430 4.49466 3.89511 1.71172 3.90439 4.21557 2.45035 3.51076 1.99890 2.76859 3.98617 4.26858 3.89895 3.81461 3.10575 2.87020 2.41524 4.77462 2.49869 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01449 4.63745 5.35980 0.61958 0.77255 0.50399 0.92663\n- 5 2.64551 5.26365 2.29529 1.91960 4.60577 3.14279 3.57009 4.09129 2.06409 3.56760 4.30588 2.68768 3.91653 2.57439 2.94779 2.44571 2.83515 3.65285 5.69719 3.98828 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02817 4.63745 4.01188 0.61958 0.77255 0.50399 0.92663\n- 6 2.76328 5.27531 2.42906 2.02378 4.61673 2.87624 3.35798 4.10330 2.20270 3.57890 4.31848 2.21549 3.91912 2.50650 2.95921 2.50282 2.99624 3.47128 5.70842 4.29437 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62397 5.34631 0.61958 0.77255 0.48763 0.95212\n- 7 4.09490 5.26909 5.33609 5.02916 0.62828 4.94401 4.02385 3.45458 4.83233 2.02901 4.02015 4.67521 5.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01451 4.63580 5.35814 0.61958 0.77255 0.50718 0.92179\n- 1237 4.44972 5.47774 5.45483 5.30391 0.96652 5.06597 3.15977 4.11584 5.09023 2.79423 4.66678 4.66024 5.33270 4.80894 4.93141 4.45106 4.64942 4.02381 2.53999 1.18726 1286 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01451 4.63580 5.35814 0.61958 0.77255 0.50718 0.92179\n- 1238 2.02776 4.22595 4.46494 3.87326 3.33799 3.95527 4.28183 2.07694 3.51392 2.01215 2.67272 4.00795 4.31730 3.91737 3.84746 3.25538 2.53675 1.75890 4.87949 3.69425 1287 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01451 4.63580 5.35814 0.61958 0.77255 0.50718 0.92179\n- 1239 2.48982 4.74316 3.30660 2.74409 3.92691 3.63333 3.84883 3.18097 2.63664 2.88444 3.59138 3.22955 4.01909 1.41940 3.12926 2.76392 2.98207 2.95727 4.74176 3.65669 1288 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02817 4.63580 4.01319 0.61958 0.77255 0.50718 0.92179\n- 1240 2.57691 4.77568 2.75468 2.06487 4.57483 3.16822 3.69962 4.05709 2.05396 3.32130 4.27703 2.41798 3.90540 2.65736 2.58402 2.49041 2.65198 3.62280 5.67059 4.26288 1289 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11882 4.62234 2.28078 0.61958 0.77255 0.53248 0.88466\n- 1241 2.70341 4.53869 2.87530 2.31533 4.07716 3.28922 3.56024 3.93164 2.08755 3.07099 4.19453 2.60427 3.64895 2.45679 2.32506 2.53777 2.88064 3.23662 5.59582 4.02502 1290 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04359 4.51983 3.44933 0.61958 0.77255 0.69776 0.68855\n- 1242 2.65211 5.14375 2.59630 2.25420 4.01369 3.35020 3.66855 3.34756 2.23446 3.34192 4.19111 2.51606 3.27291 2.50410 2.48891 2.56880 2.92626 3.40242 4.52900 4.19654 1291 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06380 4.49299 2.98349 0.61958 0.77255 0.69834 0.68798\n- 1243 2.68163 4.62114 3.07880 2.52334 3.10270 3.15785 3.80786 2.78166 2.52603 2.54068 3.37866 2.68477 3.96722 3.03373 3.12330 2.43805 2.91316 2.78893 5.17081 3.14816 1292 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21647 4.46061 1.69777 0.61958 0.77255 0.77579 0.61682\n- 1244 2.38401 4.99244 2.83755 2.11554 4.27944 3.43162 3.48480 3.72570 2.16529 2.80465 4.04943 2.75571 3.82489 2.65534 2.80167 2.53516 2.80824 2.96924 5.46089 4.08900 1293 e - - -\n- 2.68626 4.42234 2.77528 2.73123 3.46348 2.40518 3.72503 3.29354 2.67698 2.69358 4.24698 2.90331 2.73748 3.18155 2.89799 2.37895 2.77524 2.98508 4.58485 3.61512\n- 0.60579 0.78887 * 0.12262 2.15934 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3281 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12a_V-A_2\n-LENG 1086\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:50 2020\n-NSEQ 10\n-EFFN 1.694336\n-CKSUM 1687187028\n-GA 300 300;\n-STATS LOCAL MSV -13.2049 0.69540\n-STATS LOCAL VITERBI -14.3683 0.69540\n-STATS LOCAL FORWARD -6.9383 0.69540\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69129 4.36953 2.91047 2.48782 3.23004 3.12175 3.73093 2.81707 2.35832 2.49905 3.84562 2.82652 3.65172 2.97942 2.93424 2.67870 2.86260 2.83135 4.78655 3.37259\n- 2.68668 4.42275 2.77570 2.73104 3.46404 2.40545 3.72545 3.29337 2.67697 2.69375 4.24334 2.90352 2.73790 3.18077 2.89806 2.37888 2.77426 2.98487 4.58527 3.61553\n- 0.77056 1.18785 1.45942 1.78028 0.18463 0.00000 *\n- 1 2.22201 4.54692 2.75448 2.43665 2.91786 3.52870 3.76774 3.08320 2.67767 2.76527 2.50533 3.15758 3.92017 3.00397 3.09313 2.76272 2.86527 2.82980 5.10244 3.82750 11 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02135 4.25323 4.97558 0.61958 0.77255 0.32341 1.28620\n- 2 2.99309 4.46016 4.37570 3.78770 3.33861 4.10693 4.38806 2.28599 2.74844 1.47264 1.66825 4.04523 4.43188 3.87019 3.79730 3.40194 3.22015 2.49707 5.04531 3.89188 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01646 4.51076 5.23310 0.61958 0.77255 0.48576 0.95510\n- 3 2.92364 5.47436 2.04550 1.54095 4.79337 3.48670 2.60820 4.29534 2.64962 3.76756 4.53799 2.94344 3.98085 2.12425 3.17248 2.85255 3.17231 3.85540 5.90217 4.45414 13 e - - -\n- 2.68597 4.42247 2.77542 2.73125 3.46240 2.40535 3.72517 3.29376 2.67725 2.69358 4.24712 2.90267 2.73762 3.18168 2.89799 2.37909 2.77494 2.98540 4.58499 3.61525\n- 0.26941 1.46605 5.23310 1.26212 0.33275 0.48576 0.95510\n- 4 2.80925 4.95690 3.22827 2.66128 4.21035 3.61503 3.77794 3.60232 1.84480 2.21179 4.03362 3.15722 4.00302 2.33640 2.82960 2.85016 2.16839 3.29533 5.43751 4.13817 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01646 4.51076 5.23310 0.61958 0.77255 0.48576 0.95510\n- 5 3.57435 4.93708 4.73632 4.34113 2.57597 4.48396 4.02996 2.18363 4.13039 2.65116 3.89440 4.32358 4.83691 4.29971 4.24105 3.86011 3.81977 2.98142 4.26015 0.77385 19 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01646 4.51076 5.23310 0.61958 0.77255 0.48576 0.95510\n- 6 2.85942 5.33679 2.87356 1.76017 4.68395 2.68390 3.75352 4.15403 1.86038 3.62735 4.39400 2.99849 3.96504 2.05023 2.89691 2.81222 3.09140 3.73227 5.75057 4.35918 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01646 4.51076 5.23310 0.61958 0.77255 0.48576 0.95510\n- 7 2.97023 4.37378 4.53543 3.97183 3.53453 4.17145 4.53829 1.68725 3.85018 1.93047 3.46672 2.80237 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01646 4.51076 5.23310 0.61958 0.77255 0.48576 0.95510\n- 1079 3.35990 4.65441 5.24571 4.66817 1.68195 4.65053 4.96623 1.87293 4.51555 1.33023 3.17028 4.77397 4.87550 4.56643 4.54252 3.99577 3.58498 1.81425 5.25828 4.12814 1355 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01646 4.51076 5.23310 0.61958 0.77255 0.48576 0.95510\n- 1080 3.06252 5.57116 2.64516 1.07864 4.90593 3.53800 3.89250 4.38983 2.12258 3.85915 4.66322 2.40554 4.06238 3.02757 3.12222 2.98301 3.31292 3.96775 5.98273 4.56105 1356 e - - -\n- 2.68624 4.42232 2.77507 2.73130 3.46360 2.40519 3.72501 3.29268 2.67747 2.69361 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58483 3.61435\n- 0.32885 1.29130 5.23310 0.14996 1.97145 0.48576 0.95510\n- 1081 2.73296 4.90541 3.10664 2.58389 4.15898 3.54174 3.77454 3.57135 2.56440 2.66753 4.00576 1.72903 3.95062 2.44151 3.00814 2.46639 2.97167 2.86677 5.42831 4.09885 1358 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08387 4.51076 2.66696 0.61958 0.77255 0.48576 0.95510\n- 1082 2.68102 4.62628 3.27550 2.37227 3.01401 3.57776 3.80186 2.59415 2.18121 2.33328 3.71609 2.85485 3.96335 3.02530 3.10758 2.54631 2.91236 2.92187 5.17392 3.89526 1359 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44448 5.16683 0.61958 0.77255 0.59090 0.80705\n- 1083 2.93975 4.30515 4.71228 4.13530 2.73285 4.13096 4.38131 1.42151 3.97253 2.19341 3.29784 4.21002 4.46467 4.12268 4.04991 3.44827 3.17321 1.74834 4.83530 2.40020 1360 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13715 4.44448 2.15060 0.61958 0.77255 0.59090 0.80705\n- 1084 2.71043 5.13292 2.43125 2.41278 4.46113 3.46887 3.64365 3.91763 1.86524 2.78345 4.18419 2.94811 3.86543 2.24418 2.52526 2.68453 2.93716 3.51608 5.56250 4.18866 1361 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08018 4.32715 2.75133 0.61958 0.77255 0.74039 0.64803\n- 1085 2.65683 4.86665 2.97569 2.16740 4.12382 2.68526 3.68475 3.54236 2.48009 3.14072 2.77227 2.98947 3.86295 2.56626 2.93763 2.20921 2.89357 3.21341 5.37897 4.04141 1362 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08639 4.26800 2.67728 0.61958 0.77255 0.80248 0.59460\n- 1086 2.85897 5.01215 3.11426 2.69256 4.52768 3.49451 3.78768 3.94413 1.17020 3.47970 4.32602 3.14478 3.98696 2.93971 2.58111 2.23286 3.12946 3.56881 5.59176 4.32110 1363 k - - -\n- 2.68644 4.42251 2.77481 2.73149 3.46380 2.40539 3.72520 3.29380 2.67665 2.69344 4.24716 2.90254 2.73765 3.18075 2.89827 2.37913 2.77513 2.98544 4.58503 3.61529\n- 0.45658 1.00361 * 1.27736 0.32680 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3722 +0,0 @@\n-HMMER3/f [3.1b1 | May 2013]\n-NAME cpf1_V_maka\n-LENG 1233\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 1 12:24:42 2016\n-NSEQ 25\n-EFFN 2.798462\n-CKSUM 3807061344\n-GA 300 300;\n-STATS LOCAL MSV -13.4225 0.69513\n-STATS LOCAL VITERBI -14.2747 0.69513\n-STATS LOCAL FORWARD -7.0999 0.69513\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69704 4.63968 2.84989 2.52112 3.14048 3.20288 3.76133 2.79657 2.38317 2.51749 3.76104 2.80934 3.65412 2.98694 2.96429 2.66646 2.87382 2.86798 4.69993 3.21142\n- 2.68613 4.42257 2.77531 2.73132 3.46357 2.40533 3.72500 3.29386 2.67740 2.69386 4.24148 2.90274 2.73760 3.18178 2.89782 2.37918 2.77501 2.98550 4.58508 3.61488\n- 0.69145 1.45343 1.32657 1.26574 0.33133 0.00000 *\n- 1 2.56589 4.32164 3.81583 3.02184 3.11922 3.00761 4.02369 2.79431 3.17167 2.52470 1.75025 3.58139 4.12515 3.09253 3.46420 2.76793 2.94947 2.37151 4.07649 3.70500 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01551 4.56960 5.29194 0.61958 0.77255 0.49790 0.93600\n- 2 2.56332 4.75186 3.36752 2.39008 3.27481 3.21730 3.44715 2.87736 2.67264 2.63920 2.30916 2.90102 4.06605 3.12045 3.03589 2.48045 2.74847 3.05093 5.29750 4.01477 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01279 4.76134 5.48369 0.61958 0.77255 0.51512 0.90989\n- 3 2.81208 4.72522 2.80074 2.88037 3.05621 3.72092 3.94944 2.84560 2.48800 2.48822 2.52188 2.65222 4.10543 2.87695 3.27167 2.41924 3.04363 2.80659 5.27909 3.33254 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01203 4.82200 5.54435 0.61958 0.77255 0.50001 0.93274\n- 4 2.54752 4.24246 4.63795 4.03382 2.30787 3.26092 4.31422 2.45391 3.85404 2.08109 2.31485 4.09705 4.35610 4.01573 3.92068 3.29527 2.84565 2.48722 4.85848 1.93327 13 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.84964 5.57198 0.61958 0.77255 0.54143 0.87207\n- 5 2.82396 5.33270 2.24860 1.85976 4.67629 3.59246 3.78326 4.16165 2.14294 3.63713 4.37416 2.75141 3.98864 2.33526 2.81647 2.64700 2.79283 3.72263 5.76568 3.10664 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.84964 5.57198 0.61958 0.77255 0.54143 0.87207\n- 6 2.60298 5.40838 2.40323 1.55767 4.74860 2.94818 3.83126 4.23888 2.16582 3.71162 4.45395 2.45114 4.02555 2.72936 3.09169 2.57387 3.12069 3.79711 5.84030 4.41946 15 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.84964 5.57198 0.61958 0.77255 0.54143 0.87207\n- 7 3.40334 4.84579 4.59345 2.65823 0.87548 4.39348 4.15429 3.25132 3.98870 2.22430 3.88175 4.22771 4.74'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.84964 5.57198 0.61958 0.77255 0.54143 0.87207\n- 1226 2.23386 4.35792 4.90303 4.30592 2.61020 4.20241 4.55723 1.79887 4.12042 2.44064 2.30362 4.34018 4.55170 4.27032 4.16450 3.51967 3.00448 1.46013 5.05793 3.88083 1720 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.84964 5.57198 0.61958 0.77255 0.54143 0.87207\n- 1227 2.90439 4.81043 3.54640 2.96768 3.95532 3.79727 3.98920 3.00933 2.80160 3.00256 3.89036 3.42444 4.17744 1.21343 2.73892 3.03444 3.13086 2.49822 4.16398 4.05658 1721 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.84964 5.57198 0.61958 0.77255 0.54143 0.87207\n- 1228 2.55159 5.34675 2.87265 1.89938 4.68902 3.59555 3.79396 4.17482 2.16318 3.65073 4.38940 2.06994 3.99690 2.43007 3.02964 2.29958 2.77486 3.73614 5.78010 4.36771 1722 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04416 4.84964 3.34206 0.61958 0.77255 0.54143 0.87207\n- 1229 2.89236 5.35430 3.16000 2.59080 4.71099 3.02310 3.51193 4.17428 1.97408 3.18278 4.39931 2.06462 4.04051 2.27210 1.97594 2.85821 3.11549 3.75287 5.76260 4.38829 1723 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03843 4.81757 3.51947 0.61958 0.77255 0.61136 0.78223\n- 1230 2.79556 5.28447 2.71156 2.33701 4.62079 3.57230 3.76003 3.17356 2.29395 3.58580 3.76630 2.67271 3.08833 2.34553 1.99908 2.64739 2.86129 3.67042 5.72221 4.31705 1724 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04036 4.79154 3.46554 0.61958 0.77255 0.66322 0.72400\n- 1231 2.78882 4.75117 3.37063 2.63493 2.78063 3.20136 3.90553 2.70934 2.62771 2.84558 3.83979 2.72548 3.67178 2.53736 2.99045 2.90161 3.02030 2.82984 5.29702 2.35940 1725 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20490 4.76394 1.73306 0.61958 0.77255 0.71409 0.67263\n- 1232 2.43925 4.94216 2.91283 2.07227 4.18606 3.54707 3.75012 3.60626 2.36049 2.49209 4.01127 3.07266 3.26387 2.89578 3.01137 2.62392 2.75966 2.92403 5.44077 2.94492 1726 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14462 4.57447 2.08472 0.61958 0.77255 0.98098 0.46991\n- 1233 2.68323 4.80666 3.13320 2.09559 3.57219 3.53145 3.73905 3.42867 2.09734 2.61452 3.88344 2.49352 3.92001 2.90779 3.00823 2.74001 2.91432 2.70890 4.09414 4.00347 1727 e - - -\n- 2.68652 4.42259 2.77516 2.73134 3.46388 2.40533 3.72529 3.29140 2.67717 2.69366 4.24724 2.90285 2.73726 3.18107 2.89835 2.37921 2.77529 2.98522 4.58511 3.61537\n- 0.31592 1.30607 * 1.58193 0.23014 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12a_V-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3889 +0,0 @@\n-HMMER3/b [3.0 | March 2010]\n-NAME TIGR04330\n-ACC TIGR04330\n-DESC cas_Cpf1: CRISPR-associated protein Cpf1, subtype PREFRAN\n-LENG 1288\n-ALPH amino\n-RF no\n-CS no\n-MAP yes\n-DATE Wed May 16 17:35:58 2012\n-NSEQ 6\n-EFFN 1.086914\n-CKSUM 1136277696\n-GA 300.00 300.00;\n-TC 300.00 300.00;\n-NC 30.00 30.00;\n-STATS LOCAL MSV -13.3129 0.69504\n-STATS LOCAL VITERBI -14.3206 0.69504\n-STATS LOCAL FORWARD -7.2137 0.69504\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67591 4.60022 2.81097 2.56406 3.13868 3.17158 3.74620 2.77260 2.45297 2.47819 3.71188 2.85870 3.66156 2.99922 2.95456 2.69792 2.88087 2.76808 4.75327 3.25929\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.00000 *\n- 1 3.07421 4.56522 4.17133 3.69161 2.11765 4.01297 3.77575 2.99660 3.58208 2.58644 3.65865 3.83593 4.38864 3.77962 3.78592 3.32810 2.52794 2.83786 4.13781 1.22708 1 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 2 2.71049 5.13411 2.87789 2.05184 4.46538 3.44081 3.63328 3.92178 2.32734 3.42090 4.19107 2.53287 3.85096 2.09137 2.39422 2.68089 2.58809 3.52007 5.56388 4.18901 2 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 3 2.88434 5.44585 2.13731 1.47615 4.75599 3.36623 3.75430 4.25991 2.22329 3.73449 4.52331 2.20503 3.89668 2.88669 3.15785 2.80000 3.14115 3.82290 5.87566 4.41390 3 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 4 3.93125 5.09174 4.91730 4.66697 0.80241 4.62943 3.59830 3.54961 4.49332 2.82702 4.13094 4.29086 4.92507 4.37973 4.46033 4.01635 4.14952 3.49620 3.71243 1.49880 4 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 5 2.63960 4.34215 4.01907 3.59148 3.84438 3.52936 4.45099 2.51641 3.49029 2.68011 3.76013 3.77088 4.14135 3.81314 3.75277 2.94098 1.37844 1.62737 5.44569 4.22691 5 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 6 2.80411 5.12345 2.72351 2.42851 4.55269 2.26020 3.77189 4.01037 2.02679 3.53790 4.34673 1.76518 3.91231 2.91508 2.93604 2.78734 3.07538 3.60778 5.69234 4.32609 6 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 7 2.72490 4.75127 3.25755 '..b' 1.56411 1511 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1281 3.56039 4.85922 5.07304 4.57086 2.26406 4.72889 4.74588 2.41139 4.41931 0.72225 2.99595 4.73770 4.90604 4.45665 4.48453 4.11548 3.78226 2.59563 4.92138 3.56318 1512 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1282 2.72314 5.18601 2.02283 2.05502 4.49334 3.39345 3.66424 3.15498 2.45928 3.47484 4.24572 2.34841 3.84238 2.41909 2.96195 2.68139 2.96340 3.55756 5.63423 4.22241 1513 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1283 3.93125 5.09174 4.91730 4.66697 0.80241 4.62943 3.59830 3.54961 4.49332 2.82702 4.13094 4.29086 4.92507 4.37973 4.46033 4.01635 4.14952 3.49620 3.71243 1.49880 1514 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1284 2.48649 4.33132 4.60834 4.05028 3.47017 4.20783 4.62048 1.73963 3.93530 2.18659 2.45188 4.24549 4.53747 4.15495 4.10645 3.53526 3.20554 1.28505 5.20559 4.02434 1515 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1285 3.05359 5.21303 3.29337 2.77469 4.57418 3.66892 3.74857 4.02142 2.13994 3.48148 4.35461 3.22016 4.08460 1.27228 1.93557 3.05060 3.25725 3.69207 5.55454 4.31447 1516 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1286 2.25239 5.19402 2.69207 1.83259 4.51757 3.40695 3.69065 3.97967 2.16249 3.49251 4.27670 2.12000 3.86955 2.81602 2.93273 2.72559 3.00789 3.57908 5.65173 4.25481 1517 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1287 2.93413 5.26028 3.20576 2.61630 4.67595 3.61655 3.65653 4.07423 1.46436 3.51372 4.32072 2.54763 3.99422 2.21124 2.05681 2.90287 3.12749 3.69815 5.58219 4.31519 1518 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.23615 4.95849 0.61958 0.77255 0.48576 0.95510\n- 1288 2.69500 5.15568 2.33517 2.33762 4.48429 3.41044 3.63541 3.95512 2.13785 3.45097 4.21273 2.49444 2.58308 2.74633 2.45813 2.65854 2.92954 3.54013 5.59577 4.19749 1519 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01467 4.22910 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12b1_V-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12b1_V-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3395 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12b1_V-B_1\n-LENG 1124\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:50 2020\n-NSEQ 24\n-EFFN 2.727539\n-CKSUM 4020750854\n-GA 300 300;\n-STATS LOCAL MSV -13.1341 0.69532\n-STATS LOCAL VITERBI -13.8721 0.69532\n-STATS LOCAL FORWARD -6.9975 0.69532\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50015 4.53589 2.93353 2.50526 3.43122 3.00075 3.64810 3.03490 2.51797 2.50544 3.77750 3.03162 3.45238 2.90876 2.68241 2.64737 2.90793 2.82627 4.11485 3.60637\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19619 4.85325 1.76996 0.61958 0.77255 0.00000 *\n- 1 3.14943 4.60594 4.77234 4.24676 3.62728 4.25733 4.81982 2.44262 4.07984 2.25647 1.02385 4.40391 4.67296 4.31805 4.23893 3.62137 2.84963 1.86299 5.41243 4.25664 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01401 4.67107 5.39341 0.61958 0.77255 0.82618 0.57575\n- 2 1.28111 4.59710 3.85043 3.40263 4.61863 3.38076 4.46427 4.04241 3.39469 3.69790 4.50600 3.63042 2.46153 3.69435 3.76066 1.84076 1.86050 3.52669 5.93960 4.70616 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01401 4.67107 5.39341 0.61958 0.77255 0.51697 0.90714\n- 3 2.81032 4.34663 4.07717 3.49741 3.45549 3.87888 4.16639 2.26087 3.40092 2.29221 2.60249 3.77985 4.25030 2.60928 3.03125 3.15277 2.12960 1.90996 4.95396 3.75271 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01261 4.77529 5.49764 0.61958 0.77255 0.65349 0.73445\n- 4 2.87016 5.31828 2.73061 2.56626 4.66172 3.62712 3.79405 3.34077 1.92855 3.60842 4.36687 2.25297 4.02115 2.89918 1.63461 2.83895 3.09586 3.70965 5.73839 4.36131 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01261 4.77529 5.49764 0.61958 0.77255 0.65349 0.73445\n- 5 2.23410 5.15303 2.72090 2.60328 4.55526 3.57488 3.85485 4.01017 2.61625 3.54565 4.31643 3.12813 4.01001 2.97458 2.22504 1.48781 2.75250 3.60319 5.71999 4.34618 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01261 4.77529 5.49764 0.61958 0.77255 0.65349 0.73445\n- 6 3.18394 4.53043 5.04105 4.45818 2.27763 4.36316 4.54098 1.22009 4.26978 1.94453 3.05015 4.46967 4.67616 4.35864 4.28856 3.68445 3.41148 2.58924 4.90594 2.15108 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06619 4.77529 2.88932 0.61958 0.77255 0.65349 0.73445\n- 7 2.51571 5.11092 3.12353 2.56473 4.39548 3.59062 3.78136 2.96075 1.56785 3.38866 4.17477 2.79471 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05476 4.64497 3.13085 0.61958 0.77255 0.62314 0.76843\n- 1117 2.37005 5.29167 2.47873 1.65971 4.63013 2.84248 3.74482 4.11434 2.49270 3.59458 4.33684 3.00634 3.22612 2.63307 2.73705 2.52799 3.02156 3.67931 5.72790 4.31570 1161 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14286 4.68919 2.08802 0.61958 0.77255 0.63876 0.75066\n- 1118 2.22410 3.70613 2.51017 2.55546 4.22706 3.18774 3.76048 3.65075 2.55044 2.96395 4.04480 2.46971 3.40895 2.90197 2.73736 2.75825 2.71955 2.67222 5.47204 4.12757 1162 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05291 4.61922 3.17797 0.61958 0.77255 0.77196 0.62010\n- 1119 2.02160 5.12819 2.69465 2.29254 4.41774 2.35575 3.27737 3.86816 2.51341 3.41039 4.18676 2.67965 3.93849 2.86472 2.99701 2.74744 2.99092 3.48955 3.12910 4.21825 1163 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01468 4.62471 5.34705 0.61958 0.77255 0.88954 0.52906\n- 1120 2.77611 5.27920 2.68925 1.99589 4.61694 3.51914 3.24535 4.10062 2.47473 3.58044 4.32434 2.67647 3.92831 2.52282 2.63158 1.73690 3.00939 3.66642 5.71333 4.30169 1164 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01468 4.62471 5.34705 0.61958 0.77255 0.88954 0.52906\n- 1121 2.74218 5.02242 3.09597 2.53936 4.28793 3.16051 3.75313 3.71883 1.89373 3.29376 3.42148 2.24883 3.94617 2.88645 2.99499 2.23738 2.67665 3.37046 3.71035 4.15627 1165 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07247 4.62471 2.81168 0.61958 0.77255 0.88954 0.52906\n- 1122 2.72488 5.16914 2.71553 2.10962 4.48817 2.68670 3.69644 3.95533 1.89578 3.13009 4.21757 2.98342 3.89950 2.80254 2.71304 2.51323 2.95611 2.81052 5.61730 4.22363 1166 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06192 4.56777 3.00255 0.61958 0.77255 0.95869 0.48352\n- 1123 2.45112 5.25136 2.43987 1.93392 4.59188 3.49030 3.69569 4.07410 2.27444 3.55163 4.29663 2.95774 3.89919 2.04199 2.44889 2.70933 2.98232 3.64024 5.68184 4.27329 1167 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05804 4.52213 3.08957 0.61958 0.77255 1.00833 0.45386\n- 1124 2.41834 4.94582 3.05831 1.97692 4.20196 2.57290 3.71539 3.09604 2.28452 3.21345 3.35845 3.03125 3.90435 2.85485 2.96873 2.39246 2.92676 3.28777 5.44034 4.09357 1168 e - - -\n- 2.68610 4.42267 2.77472 2.73165 3.46362 2.40524 3.72536 3.29321 2.67733 2.69364 4.24512 2.90369 2.73692 3.18069 2.89843 2.37910 2.77544 2.98527 4.58519 3.61496\n- 0.66888 0.71802 * 1.22408 0.34818 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12b2_V-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12b2_V-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2264 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12b2_V-B_1\n-LENG 747\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:50 2020\n-NSEQ 3\n-EFFN 0.594727\n-CKSUM 881411277\n-GA 300 300;\n-STATS LOCAL MSV -12.1419 0.69642\n-STATS LOCAL VITERBI -13.5216 0.69642\n-STATS LOCAL FORWARD -6.4127 0.69642\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56365 4.19377 2.85288 2.68326 3.28748 2.90582 3.63533 2.94813 2.51786 2.53771 3.74009 2.99390 3.23362 3.09441 2.73899 2.71040 2.89209 2.79617 4.15710 3.52459\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.00000 *\n- 1 3.02314 4.56137 4.12245 3.72122 3.23830 3.88478 4.44067 2.42071 3.48552 1.82296 1.25372 3.99028 4.34594 3.86305 3.68284 3.37924 3.32987 2.43464 5.08805 3.85569 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 2 1.37979 4.13230 3.39770 3.12121 4.20547 2.92382 4.18509 3.54356 3.16658 3.30047 4.15796 3.27650 3.66992 3.46701 3.46893 1.66363 2.68587 3.04809 5.57430 4.35138 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 3 2.51239 4.23300 3.78458 3.35617 3.70251 3.39347 4.25726 2.40736 3.25478 2.52927 3.61827 3.57788 3.99315 3.59542 3.53385 2.79879 1.79479 1.67597 5.30039 4.07176 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 4 3.02446 5.10719 3.43960 2.78836 4.54540 3.63685 3.59972 3.89850 1.55836 3.35732 4.23658 3.18544 4.01355 2.74036 1.39562 3.02907 3.19609 3.58813 5.40970 4.24197 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 5 2.34890 4.27015 3.26591 3.08489 4.14409 2.99880 4.19285 3.67590 3.16323 3.39093 4.31141 3.29878 3.74321 3.50727 3.44713 0.99317 2.83413 3.19616 5.51117 4.22799 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 6 3.49760 4.78564 4.47106 4.12548 1.40164 4.27512 3.45169 3.20954 3.98298 2.56658 3.81818 3.97293 4.59487 4.00605 4.05917 3.63710 3.72353 3.12950 3.61373 1.20843 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 7 2.91956 5.04303 3.22825 2.67553 4.39151 3.55569 3.61226 3.81777 1.99109 3.29558 4.17395 3.11016 3.96'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 740 2.86907 4.81943 3.03690 2.68631 4.17857 3.36677 3.70444 3.60138 1.21395 3.19478 4.16686 3.11450 3.87905 2.90587 2.42514 2.92136 3.13351 3.31730 5.28553 4.08263 818 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 741 2.79484 4.76871 2.83359 2.59129 3.91996 3.29181 3.74686 3.53672 2.42176 3.05053 4.08656 3.04812 3.84665 1.46157 2.70635 2.84989 3.09422 3.27530 5.21574 3.90282 819 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 742 3.02581 4.52566 3.99660 3.64054 3.09778 3.82692 4.33346 2.30125 3.40924 1.03670 3.16612 3.92681 4.28584 3.80624 3.60287 3.39040 3.32731 2.30692 4.92957 3.62420 820 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 743 2.52992 4.31207 3.17883 3.06574 4.20080 0.93771 4.18934 3.77512 3.23024 3.44356 4.42180 3.34425 3.69940 3.56465 3.47544 2.69923 3.00215 3.32688 5.32337 4.30015 821 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 744 2.60825 4.38051 3.20345 3.02896 4.02634 3.07492 4.11296 3.54491 3.07671 3.18338 4.23131 3.34546 1.08048 3.46940 3.33222 2.77308 3.04157 3.20355 5.24189 4.14689 822 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 745 2.86876 4.96611 1.10429 2.27666 4.32905 3.12656 3.83771 3.89172 2.90130 3.52349 4.50330 2.82509 3.77163 3.07996 3.39759 2.84782 3.20646 3.54515 5.52051 4.22718 823 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 746 2.60825 4.38051 3.20345 3.02896 4.02634 3.07492 4.11296 3.54491 3.07671 3.18338 4.23131 3.34546 1.08048 3.46940 3.33222 2.77308 3.04157 3.20355 5.24189 4.14689 824 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03541 3.75420 4.47654 0.61958 0.77255 0.63933 0.75003\n- 747 3.11333 4.55184 4.07416 3.76988 1.22794 3.82348 3.83538 2.65592 3.68066 2.05585 3.40677 3.88777 4.28790 3.88275 3.82962 3.38704 3.41605 2.63706 4.12685 2.51168 825 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02397 3.74276 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12b2_V-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12b2_V-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2330 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12b2_V-B_2\n-LENG 769\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:51 2020\n-NSEQ 3\n-EFFN 0.512695\n-CKSUM 87391320\n-GA 300 300;\n-STATS LOCAL MSV -12.7457 0.69631\n-STATS LOCAL VITERBI -13.3228 0.69631\n-STATS LOCAL FORWARD -6.6650 0.69631\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51072 4.25009 2.89254 2.65506 3.32071 2.83687 3.63839 2.94471 2.58170 2.49546 3.77955 3.07527 3.24513 3.15052 2.65741 2.73336 2.94655 2.70598 4.36309 3.53876\n- 2.68622 4.42096 2.77521 2.73126 3.46325 2.40546 3.72527 3.29387 2.67745 2.69388 4.24451 2.90380 2.73773 3.18085 2.89763 2.37878 2.77521 2.98474 4.58510 3.61536\n- 0.19250 1.80126 4.60361 2.33085 0.10227 0.00000 *\n- 1 2.68400 4.56479 3.09742 2.15525 3.65256 3.48703 3.79448 2.89117 2.62396 2.53620 2.24285 3.15201 3.92693 3.03434 2.97760 2.82287 2.93452 2.70880 5.12581 3.85105 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 2 3.00411 4.82022 3.13394 2.89464 3.29061 3.45469 1.12409 3.70840 2.73744 3.20132 4.24485 3.30367 4.00763 3.26095 3.00269 3.07468 3.30772 3.44335 4.75557 3.24119 19 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 3 3.16499 4.62457 4.20366 3.84341 3.13883 3.99340 4.49638 2.34320 3.61107 0.86444 3.15878 4.11804 4.42716 3.97730 3.78576 3.56509 3.45879 2.38284 5.02145 3.74684 20 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 4 3.34987 4.72150 4.10440 3.81256 2.67484 3.73982 3.91029 3.37371 3.53452 2.76714 4.00712 3.95981 4.25825 3.92167 3.66137 3.55350 3.65068 3.26428 0.86775 2.67645 21 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 5 3.01512 4.85392 3.50664 3.01569 4.21072 3.50162 3.83024 3.75292 2.24036 3.26724 4.26705 3.37482 4.00365 3.05001 0.96504 3.09879 3.28040 3.47645 5.29012 4.13603 22 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 6 2.41720 4.26234 3.43564 3.18788 3.97639 3.10137 4.20457 3.10458 3.13104 2.96777 4.01761 3.39596 3.80576 3.52538 3.38939 2.61855 1.15709 2.79863 5.41341 4.19298 23 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 7 3.00411 4.82022 3.13394 2.89464 3.29061 3.45469 1.12409 3.70840 2.73744 3.20132 4.24485 3.30367 4.007'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 762 2.73888 5.03927 1.74830 2.28605 4.35282 3.28238 3.66464 3.83969 2.45306 3.38994 4.23084 2.82552 3.80164 2.82318 2.17406 2.71353 3.00341 3.47006 5.53067 4.16074 785 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 763 1.68173 4.15100 3.23628 3.02790 4.25188 1.55311 4.16432 3.60243 3.15375 3.34911 4.21300 3.22346 3.65200 3.44515 3.46161 2.38995 2.70330 3.09368 5.59002 4.38087 786 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 764 2.22619 4.19190 3.10818 2.91252 4.28092 1.64073 4.10419 3.74943 3.07734 3.42320 4.25828 3.15569 3.64421 3.36826 3.40885 1.73138 2.70857 3.19594 5.60251 4.35719 787 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 765 2.99591 4.36464 4.56222 4.06813 3.47302 4.25423 4.81446 1.45640 3.94527 2.00049 3.30217 4.31173 4.60289 4.23086 4.16525 3.63591 3.26944 1.22293 5.40433 4.18915 788 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 766 2.67609 4.94692 1.59905 2.22634 4.43392 3.14255 3.75927 3.92618 2.73083 3.52070 4.37121 2.76449 3.76260 2.94179 3.25186 2.00799 3.01014 3.50723 5.69044 4.26820 789 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 767 2.59722 4.68119 2.89196 2.54531 4.18928 3.25814 3.72090 3.60849 1.90302 3.22123 4.07812 2.99472 3.80106 2.90244 2.71794 1.80993 2.90939 3.24306 5.40476 4.10813 790 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19250 3.88126 1.86768 0.61958 0.77255 0.48576 0.95510\n- 768 2.57645 4.35105 3.16890 2.99210 3.98769 3.04720 4.07689 3.50047 3.03759 3.14157 4.18998 3.31043 1.15422 3.43139 3.29464 2.74091 3.00807 3.16241 5.20960 4.10863 791 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03647 3.72523 4.44758 0.61958 0.77255 0.61070 0.78300\n- 769 3.07867 4.52689 4.03252 3.72469 1.28911 3.79181 3.82777 2.62723 3.63656 2.03543 3.38424 3.85557 4.25864 3.84759 3.79272 3.35271 3.38229 2.60570 4.13182 2.52193 792 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 3.71346 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12c_V-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12c_V-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3827 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12c_V-C_1\n-LENG 1268\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:51 2020\n-NSEQ 8\n-EFFN 1.175781\n-CKSUM 595508541\n-GA 300 300;\n-STATS LOCAL MSV -13.1153 0.69507\n-STATS LOCAL VITERBI -14.2471 0.69507\n-STATS LOCAL FORWARD -7.3253 0.69507\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56165 4.32241 2.90162 2.64443 3.27657 3.04682 3.71516 2.80243 2.57871 2.43945 3.73528 2.96303 3.43620 3.00897 2.89040 2.60958 2.87535 2.71177 4.56046 3.48143\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18860 4.28134 1.84478 0.61958 0.77255 0.00000 *\n- 1 2.82504 4.56019 3.58021 3.07450 3.59698 3.68467 3.95488 2.85167 2.28367 2.44297 1.55982 3.45386 4.10510 3.24079 2.94435 3.03364 3.07332 2.70728 5.11229 3.87686 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11724 4.83958 0.61958 0.77255 0.67474 0.71190\n- 2 2.80508 4.90979 3.16502 2.69433 4.37931 3.48284 3.75178 3.70198 1.30949 3.30852 4.17888 3.13877 3.95567 2.90868 2.54844 2.85047 2.27236 3.36964 5.49365 4.23770 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11724 4.83958 0.61958 0.77255 0.67474 0.71190\n- 3 2.68903 4.97751 2.30410 2.39612 4.25294 3.41536 3.65326 2.98132 1.71491 3.24073 4.06022 2.92617 3.84475 2.79177 2.83879 2.68928 2.92550 3.29791 5.45744 4.10036 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11724 4.83958 0.61958 0.77255 0.67474 0.71190\n- 4 2.76154 4.25124 4.08482 3.50900 2.51809 3.86052 4.12835 1.98357 2.77985 1.63676 3.15645 3.77747 4.20424 3.63164 3.59580 3.14867 2.99197 2.29323 4.81596 3.59890 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17443 4.11724 1.93949 0.61958 0.77255 0.67474 0.71190\n- 5 2.88503 5.07240 2.98102 2.02694 4.43725 3.48945 3.64581 3.84017 2.12674 3.35233 4.21242 3.03188 3.92884 2.79294 1.52761 2.87914 3.10164 3.50811 5.46475 4.20662 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02840 3.97121 4.69355 0.61958 0.77255 0.79800 0.59825\n- 6 2.66695 4.79016 2.44363 2.44163 3.78550 3.40214 2.41064 3.40815 2.50373 2.42875 3.88652 2.95369 3.84393 2.85909 2.93609 2.70623 2.90884 3.11494 5.15418 3.74546 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02840 3.97121 4.69355 0.61958 0.77255 0.79800 0.59825\n- 7 2.82206 5.00039 3.14513 2.59585 4.40889 2.74817 3.61155 3.79527 1.74587 3.30403 4.14093 3.05498 3.91'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02075 4.28134 5.00369 0.61958 0.77255 0.48576 0.95510\n- 1261 2.37793 4.29639 3.02598 3.03734 2.51492 3.63620 3.09048 2.32062 2.98232 2.18771 3.39707 3.41409 4.01391 3.27235 3.30920 2.89039 2.86587 2.55342 4.86835 3.63013 1327 l - - -\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40517 3.72499 3.29314 2.67745 2.69339 4.24596 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.27471 1.45459 5.00369 0.20131 1.70189 0.48576 0.95510\n- 1262 2.76050 5.25622 2.26925 1.70282 4.57288 3.39959 2.73066 4.05744 2.49658 3.55151 4.31904 2.86687 3.09610 2.80870 3.00798 2.40323 3.00392 3.63501 5.70070 4.27586 1329 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02075 4.28134 5.00369 0.61958 0.77255 0.48576 0.95510\n- 1263 2.16321 5.07020 2.39044 2.16169 4.35606 3.42283 3.68237 3.80219 2.48217 2.65960 4.14283 2.25258 3.85863 2.81187 2.97283 2.69071 2.94645 3.42877 5.54796 4.16454 1330 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28210 4.28134 1.46110 0.61958 0.77255 0.48576 0.95510\n- 1264 2.47783 4.53508 2.86422 2.65060 4.30329 3.11440 3.95154 3.82235 2.84180 3.45122 4.28938 2.20586 3.77840 3.16631 3.23627 1.37893 2.88687 3.34813 5.60325 4.26704 1331 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02611 4.74845 0.61958 0.77255 0.75549 0.63447\n- 1265 3.06927 5.17833 3.46044 2.81064 4.63384 3.67454 3.63107 3.98556 1.16668 3.42767 4.30179 3.21256 4.04938 2.76731 1.77789 3.06466 3.23820 3.66723 5.46655 4.29909 1332 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02611 4.74845 0.61958 0.77255 0.75549 0.63447\n- 1266 2.73517 5.19830 2.18303 1.77545 4.50051 3.30893 3.64864 3.97367 2.48419 3.48755 4.27900 2.78078 3.80449 2.32789 2.99380 2.68085 2.51809 3.56975 5.65441 4.23167 1333 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02611 4.74845 0.61958 0.77255 0.75549 0.63447\n- 1267 2.20738 4.83475 3.07969 2.65604 4.32878 3.41043 3.74560 3.64278 1.36286 3.27234 4.15070 3.09919 3.90962 2.90985 2.58171 2.79930 3.02599 3.30810 5.47199 4.21043 1334 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02611 4.74845 0.61958 0.77255 0.75549 0.63447\n- 1268 1.88156 4.64264 2.36031 2.54342 3.93868 3.36734 3.77037 3.19867 2.65026 2.43273 3.84407 3.03100 3.85243 2.96973 3.08911 2.69304 2.88436 2.92003 5.30424 3.98719 1335 a - - -\n- 2.68606 4.42234 2.77528 2.73132 3.46363 2.40506 3.72503 3.29363 2.67749 2.69364 4.24698 2.90355 2.73748 3.18155 2.89809 2.37878 2.77502 2.98472 4.58486 3.61512\n- 0.36244 1.19065 * 0.67455 0.71210 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12c_V-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12c_V-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3839 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12c_V-C_2\n-LENG 1272\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:52 2020\n-NSEQ 31\n-EFFN 2.516479\n-CKSUM 4039934935\n-GA 300 300;\n-STATS LOCAL MSV -13.1491 0.69507\n-STATS LOCAL VITERBI -13.8974 0.69507\n-STATS LOCAL FORWARD -7.2873 0.69507\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49454 4.36366 2.97437 2.59897 3.34277 3.02766 3.69462 2.92165 2.59606 2.42180 3.75948 3.02676 3.34284 2.97617 2.81216 2.59549 2.84767 2.74656 4.54169 3.57745\n- 2.68635 4.42242 2.77537 2.73141 3.46371 2.40530 3.72512 3.29371 2.67666 2.69372 4.24293 2.90364 2.73757 3.18164 2.89818 2.37887 2.77479 2.98536 4.58494 3.61520\n- 1.02473 1.31176 0.98951 0.68241 0.70400 0.00000 *\n- 1 2.86744 4.33703 4.25105 3.66695 3.29617 3.98519 4.27691 1.86190 2.82163 1.79383 1.90447 3.92340 4.32163 3.76734 3.70236 3.27859 3.09715 2.32937 4.95871 3.78984 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33374 5.05609 0.61958 0.77255 0.81583 0.58389\n- 2 2.69732 4.74058 3.20831 2.43579 3.22173 3.56324 3.77189 3.33368 2.25796 2.97915 2.80201 3.14037 3.94976 2.96145 2.57777 2.77950 2.04530 3.05089 5.26840 3.97156 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46285 5.18519 0.61958 0.77255 0.82807 0.57428\n- 3 2.40749 5.11057 3.01838 2.14866 4.41439 3.50948 2.98370 3.86668 1.83971 3.39465 3.37556 2.99734 3.90113 2.80863 2.74310 2.70679 2.44312 3.47920 5.56570 4.18981 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01626 4.52317 5.24552 0.61958 0.77255 0.91773 0.50987\n- 4 2.24494 5.10925 2.84720 2.47354 4.41055 3.51834 2.15059 3.85927 2.30000 2.93230 4.16439 3.00814 3.91092 2.54119 2.50330 2.72081 2.96205 3.47693 5.56360 4.19308 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01626 4.52317 5.24552 0.61958 0.77255 0.91773 0.50987\n- 5 2.74837 5.15159 3.02584 2.47572 4.47989 3.23337 3.70500 3.93422 1.99992 3.44690 4.21393 3.00983 3.91733 2.21401 2.69227 2.16887 2.18207 3.53689 5.60219 4.22887 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01626 4.52317 5.24552 0.61958 0.77255 0.91773 0.50987\n- 6 2.80778 5.06262 3.18691 2.60171 4.34996 3.59982 2.96839 2.94681 1.95056 3.32149 4.12715 3.11037 3.98125 2.54698 1.87472 2.81888 3.02742 2.86342 5.50984 4.19050 8 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01626 4.52317 5.24552 0.61958 0.77255 0.91773 0.50987\n- 7 2.54068 4.89163 3.11840 2.56488 3.16201 3.54264 3.74966 3.54189 1.90797 3.15050 3.96779 2.72558 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08069 4.74517 2.67610 0.61958 0.77255 0.58579 0.81343\n- 1265 2.76179 4.84289 3.24366 2.37085 4.05132 3.62056 3.83051 2.75111 2.29688 2.53478 3.92311 2.48768 4.00809 3.00994 2.62969 2.83201 2.78156 2.28531 5.36691 4.06002 1343 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01390 4.67838 5.40072 0.61958 0.77255 0.70602 0.68044\n- 1266 2.76171 5.25892 2.29268 1.99658 4.59868 3.53301 3.72240 4.08045 2.07112 2.95218 4.30149 3.00241 3.92822 2.50160 2.66370 2.49437 2.57812 3.64681 5.69398 4.28677 1344 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12279 4.67838 2.24191 0.61958 0.77255 0.70602 0.68044\n- 1267 1.92374 5.08156 3.04811 2.29442 4.36970 3.53088 2.75065 3.81270 2.47143 2.99293 4.14081 2.74302 3.92374 2.84374 2.34854 2.73192 2.70399 3.44191 5.54911 4.18285 1345 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01549 4.57108 5.29343 0.61958 0.77255 0.86035 0.54994\n- 1268 2.38409 4.55052 3.45824 2.63168 3.72458 3.65235 3.91574 2.40723 2.86747 2.78372 3.14333 3.34183 4.04636 3.18843 3.25700 1.68742 2.67747 2.82649 5.13829 3.88395 1346 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01549 4.57108 5.29343 0.61958 0.77255 0.86035 0.54994\n- 1269 2.50851 4.86191 2.79535 2.40651 3.19631 3.56403 3.77190 3.49195 2.37026 2.43508 3.93737 3.11077 3.95299 2.93569 2.71034 2.10877 2.95070 3.18483 3.88161 4.05400 1347 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14509 4.57108 2.08176 0.61958 0.77255 0.86035 0.54994\n- 1270 2.69023 5.14781 2.34745 2.05515 3.49870 3.46614 3.65684 3.94272 2.00168 3.04348 4.19469 2.94198 3.86134 2.49633 2.65837 2.66206 2.92129 3.52748 5.59145 4.19490 1348 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07296 4.44360 2.83680 0.61958 0.77255 1.00108 0.45805\n- 1271 2.42189 5.03586 2.98584 2.42987 4.33243 2.75075 3.66124 3.77931 2.07924 3.32050 4.09637 2.96445 3.20710 2.43832 2.59492 2.66732 2.67084 2.99391 5.50371 4.13299 1349 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07075 4.38925 2.88426 0.61958 0.77255 1.05090 0.43020\n- 1272 2.12666 4.41650 3.45956 2.89210 3.56094 3.60675 3.85138 2.63216 2.22304 2.36113 3.51861 3.31468 3.98862 3.15549 3.19307 2.52850 2.88149 2.69263 3.34731 3.74734 1350 a - - -\n- 2.68604 4.42256 2.77498 2.73154 3.46385 2.40527 3.72525 3.29385 2.67750 2.69336 4.24721 2.90327 2.73770 3.18177 2.89804 2.37867 2.77469 2.98465 4.58508 3.61534\n- 0.78639 0.60786 * 0.97380 0.47425 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12d_V-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12d_V-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3512 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12d_V-D_1\n-LENG 1163\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:53 2020\n-NSEQ 12\n-EFFN 1.573242\n-CKSUM 3118443121\n-GA 300 300;\n-STATS LOCAL MSV -12.9814 0.69525\n-STATS LOCAL VITERBI -14.0672 0.69525\n-STATS LOCAL FORWARD -7.0810 0.69525\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62074 4.37352 2.89451 2.57720 3.24671 2.97409 3.79807 2.86327 2.47323 2.46263 3.73956 2.99964 3.51313 2.98863 2.85729 2.62347 2.91536 2.75211 4.48014 3.46402\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.36899 4.46170 1.21394 0.61958 0.77255 0.00000 *\n- 1 3.18008 4.69375 4.32229 3.94124 3.33996 4.02252 4.61989 2.54120 3.69402 1.90347 0.97567 4.18639 4.49040 4.06305 3.86915 3.55154 3.49335 2.57444 5.20931 3.98964 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11721 4.83955 0.61958 0.77255 0.87759 0.53748\n- 2 2.49525 2.14352 3.38034 2.90101 3.84003 3.31281 3.91590 3.22283 2.79349 2.91696 3.79187 3.25744 3.86254 2.28180 3.13385 2.18090 2.83304 2.90953 5.22220 3.96709 2 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11721 4.83955 0.61958 0.77255 0.87759 0.53748\n- 3 2.83917 4.98577 3.05416 2.63977 4.44164 3.47161 3.76471 3.85658 1.42188 3.40185 4.25692 3.10827 2.12936 2.92093 2.62310 2.86378 3.10063 3.50116 5.53326 4.26758 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13894 4.11721 2.17660 0.61958 0.77255 0.57041 0.83308\n- 4 2.63102 4.27601 3.80838 3.28437 3.47705 2.27953 4.09380 2.61135 3.19359 2.42811 2.14658 3.57875 4.06675 3.49175 3.47575 2.92485 2.91996 1.95231 5.01416 3.80008 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02257 4.19801 4.92036 0.61958 0.77255 0.80895 0.58937\n- 5 2.96358 5.21623 3.19911 2.65317 4.62799 3.61656 3.67476 4.02120 1.87944 3.48255 4.31082 2.08075 4.01194 2.80197 1.54465 2.94422 3.16054 3.66513 5.55914 4.30956 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09689 4.19801 2.55978 0.61958 0.77255 0.80895 0.58937\n- 6 2.97954 5.15989 3.15570 2.66712 4.36728 3.60131 2.14477 3.93934 1.36600 3.41968 4.27857 3.12876 4.01526 2.83486 2.38277 2.97065 3.18151 3.60788 5.43412 4.13262 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02430 4.12541 4.84776 0.61958 0.77255 0.87107 0.54215\n- 7 2.68689 4.69705 3.15974 2.75114 4.18495 3.39798 3.84998 3.48819 2.02083 3.17577 4.06312 3.17487 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02166 4.23897 4.96132 0.61958 0.77255 0.76993 0.62184\n- 1156 2.69750 4.51739 3.46453 2.91556 3.74234 2.72761 3.86887 1.90958 2.65920 2.76673 3.67920 3.32117 4.00315 3.13175 2.07943 2.87161 2.95097 2.78358 5.13419 3.89133 1373 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02166 4.23897 4.96132 0.61958 0.77255 0.76993 0.62184\n- 1157 2.24236 4.71797 3.09127 2.57276 4.06099 2.58242 3.74246 3.46516 2.22323 2.69956 3.91660 3.05908 3.86319 2.91287 2.98224 2.08255 2.87390 3.13608 5.34710 4.03617 1374 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02166 4.23897 4.96132 0.61958 0.77255 0.76993 0.62184\n- 1158 3.21174 4.55061 4.87038 4.38058 3.54257 4.48653 5.02665 1.93824 4.22769 1.62644 3.38405 4.58539 4.81315 4.48708 4.40214 3.88205 3.48096 0.96164 5.50596 4.29913 1375 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02166 4.23897 4.96132 0.61958 0.77255 0.76993 0.62184\n- 1159 2.74313 4.65713 3.13556 2.16757 3.80216 3.55184 3.85460 3.12582 2.71978 1.60724 3.72691 3.19651 3.13110 3.09083 3.10060 2.86713 2.99041 2.90386 5.22135 3.94593 1376 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16726 4.23897 1.96898 0.61958 0.77255 0.76993 0.62184\n- 1160 2.56683 4.58461 3.15700 2.62757 3.91157 2.70535 3.73690 2.79766 2.54396 2.95171 3.79911 3.08716 3.84622 2.93373 2.42192 2.03211 2.83750 2.99325 5.23186 3.94583 1377 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02501 4.09672 4.81907 0.61958 0.77255 0.89344 0.52635\n- 1161 2.60528 4.59983 3.12503 2.64754 3.87726 3.41283 3.76514 2.74081 2.58025 2.92137 3.80205 3.10637 3.87465 2.44319 2.96611 1.76380 2.87748 2.96723 5.22762 3.93056 1378 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02501 4.09672 4.81907 0.61958 0.77255 0.89344 0.52635\n- 1162 1.64332 4.40981 3.31511 2.83636 3.75148 3.38186 3.87910 3.04645 2.79207 2.78975 2.75039 2.69400 3.88589 3.14163 3.15827 2.70381 2.84255 2.77651 5.16381 3.90284 1379 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02501 4.09672 4.81907 0.61958 0.77255 0.89344 0.52635\n- 1163 3.00705 5.21722 3.14272 2.65649 4.61627 3.60034 3.66508 4.01477 1.26366 3.46868 4.32732 3.11552 4.01386 2.06214 2.29919 2.98569 3.20140 3.67588 5.53721 4.30247 1380 k - - -\n- 2.68628 4.42235 2.77529 2.73133 3.46302 2.40523 3.72504 3.29315 2.67724 2.69317 4.24700 2.90333 2.73749 3.18156 2.89811 2.37897 2.77529 2.98528 4.58487 3.61513\n- 0.38673 1.13718 * 0.67632 0.71026 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12e_V-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12e_V-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2588 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12e_V-E_1\n-LENG 855\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:53 2020\n-NSEQ 3\n-EFFN 0.624023\n-CKSUM 3423606024\n-GA 300 300;\n-STATS LOCAL MSV -11.9498 0.69600\n-STATS LOCAL VITERBI -13.5301 0.69600\n-STATS LOCAL FORWARD -6.7017 0.69600\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57390 4.29597 2.87574 2.64757 3.19074 2.93984 3.76817 2.80337 2.56908 2.45393 3.74825 3.02378 3.31462 3.13826 2.77717 2.74667 2.92568 2.71206 4.53022 3.39259\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02871 3.96062 4.68297 0.61958 0.77255 0.00000 *\n- 1 3.03989 4.57513 4.14460 3.74524 3.24835 3.90008 4.46001 2.43283 3.50832 1.83027 1.21870 4.01169 4.36167 3.88470 3.70319 3.39795 3.34719 2.44904 5.10060 3.86984 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02871 3.96062 4.68297 0.61958 0.77255 0.48576 0.95510\n- 2 2.67678 4.89410 1.64453 2.32500 4.36723 3.21419 3.78767 3.73129 2.71719 3.40071 4.26641 2.85199 3.80462 2.96642 3.21265 2.68904 2.05800 3.35968 5.63772 4.25333 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22952 3.96062 1.68183 0.61958 0.77255 0.48576 0.95510\n- 3 2.64050 4.62764 2.66042 2.53694 3.97488 3.11654 3.84475 3.66561 2.74137 3.32587 4.28452 1.36191 3.76488 3.12031 3.08979 2.71370 3.02068 3.29868 5.29371 3.93315 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.39616 1.11748\n- 4 2.05068 4.69506 2.89955 2.57201 4.14410 3.28868 3.77835 3.52843 2.50589 3.15140 4.05484 3.02859 3.83589 1.74874 2.85696 2.69327 2.93828 3.19635 5.42323 4.11443 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02871 3.96062 4.68297 0.61958 0.77255 0.48576 0.95510\n- 5 2.79787 4.79653 2.75950 2.65410 4.17400 3.24416 3.99429 3.90383 2.90562 3.54085 4.49593 1.01101 3.90055 3.26758 3.26294 2.86194 3.18288 3.51712 5.46986 4.11630 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02871 3.96062 4.68297 0.61958 0.77255 0.48576 0.95510\n- 6 3.05363 5.01987 3.23543 2.84103 4.42645 3.53308 3.80975 3.86135 0.92382 3.40746 4.36465 3.26144 4.02760 2.99658 2.45082 3.09012 3.30059 3.56433 5.44527 4.27092 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02871 3.96062 4.68297 0.61958 0.77255 0.48576 0.95510\n- 7 2.76325 5.00873 1.71768 2.30767 4.46713 3.22370 3.81075 3.95633 2.76230 3.53842 4.39854 2.84808 1.87'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 848 2.88057 4.98207 1.08387 2.28129 4.34631 3.13472 3.84633 3.91145 2.91184 3.54065 4.51995 2.83070 3.78051 3.08799 3.41048 2.85766 3.21822 3.56331 5.53545 4.24144 924 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 849 2.36176 4.20534 3.33933 3.09067 3.88022 3.04700 4.11534 2.99467 3.03146 2.86170 3.92224 3.31485 3.74367 3.43265 3.29315 2.56224 1.36650 2.70117 5.32776 4.09792 925 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 850 2.88057 4.98207 1.08387 2.28129 4.34631 3.13472 3.84633 3.91145 2.91184 3.54065 4.51995 2.83070 3.78051 3.08799 3.41048 2.85766 3.21822 3.56331 5.53545 4.24144 926 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 851 2.36176 4.20534 3.33933 3.09067 3.88022 3.04700 4.11534 2.99467 3.03146 2.86170 3.92224 3.31485 3.74367 3.43265 3.29315 2.56224 1.36650 2.70117 5.32776 4.09792 927 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 852 2.62168 4.39280 3.21802 3.04461 4.04242 3.08651 4.12819 3.56346 3.09330 3.20082 4.24869 3.36029 1.05172 3.48556 3.34805 2.78669 3.05574 3.22075 5.25527 4.16286 928 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 853 2.62168 4.39280 3.21802 3.04461 4.04242 3.08651 4.12819 3.56346 3.09330 3.20082 4.24869 3.36029 1.05172 3.48556 3.34805 2.78669 3.05574 3.22075 5.25527 4.16286 929 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 854 2.36176 4.20534 3.33933 3.09067 3.88022 3.04700 4.11534 2.99467 3.03146 2.86170 3.92224 3.31485 3.74367 3.43265 3.29315 2.56224 1.36650 2.70117 5.32776 4.09792 930 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03499 3.76609 4.48844 0.61958 0.77255 0.64814 0.74028\n- 855 2.62168 4.39280 3.21802 3.04461 4.04242 3.08651 4.12819 3.56346 3.09330 3.20082 4.24869 3.36029 1.05172 3.48556 3.34805 2.78669 3.05574 3.22075 5.25527 4.16286 931 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 3.75479 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12e_V-E_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12e_V-E_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2981 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12e_V-E_2\n-LENG 986\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:53 2020\n-NSEQ 3\n-EFFN 0.442383\n-CKSUM 1617885706\n-GA 300 300;\n-STATS LOCAL MSV -13.1232 0.69562\n-STATS LOCAL VITERBI -13.8201 0.69562\n-STATS LOCAL FORWARD -7.0752 0.69562\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55179 4.23665 2.87627 2.65593 3.30122 2.84113 3.80004 2.87624 2.55832 2.43341 3.74761 3.03467 3.40216 3.11971 2.83316 2.70572 2.90694 2.69401 4.36247 3.43718\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.00000 *\n- 1 2.93504 4.49121 4.00175 3.59250 3.18981 3.80071 4.33804 2.36101 3.36276 1.79187 1.46656 3.87532 4.26166 3.74796 3.57321 3.27916 3.23978 2.36176 5.02426 3.78170 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 2 2.79806 5.11693 2.42347 1.64311 4.39525 3.27206 3.64291 3.85504 2.39502 3.38992 4.25785 2.77927 3.80680 2.21381 2.79721 2.75399 3.05450 3.50480 5.56189 4.18923 2 e - - -\n- 2.68621 4.42228 2.77523 2.73102 3.46357 2.40516 3.72498 3.29314 2.67744 2.69358 4.24693 2.90350 2.73743 3.18149 2.89804 2.37890 2.77523 2.98521 4.58480 3.61506\n- 0.17119 1.91886 4.55004 0.65758 0.73002 0.48576 0.95510\n- 3 2.93236 4.89272 3.10528 2.73618 4.26889 3.42579 3.73649 3.69554 1.10133 3.27084 4.23546 3.16234 3.92993 2.93108 2.42608 2.97774 3.18937 3.40613 5.34259 4.14920 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 4 2.95637 4.79708 3.44260 2.96411 4.14034 3.45192 3.79428 3.67961 2.22290 3.20376 4.20588 3.32688 3.95738 3.01751 1.04912 3.04316 3.22584 3.40569 5.24200 4.07820 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 5 2.99632 4.42857 4.27044 3.88520 3.34488 4.01684 4.62219 1.13519 3.71240 1.94104 3.28818 4.13686 4.45308 4.06580 3.91415 3.50848 3.29660 1.84706 5.22586 3.95973 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 6 2.68764 4.68139 2.68602 2.56739 4.03802 3.15496 3.88712 3.73952 2.78750 3.39174 4.34787 1.23990 3.80501 3.16047 3.14006 2.75698 3.06844 3.36626 5.34920 3.99009 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 7 2.93236 4.89272 3.10528 2.73618 4.26889 3.42579 3.73649 3.69554 1.10133 3.27084 4.23546 3.16234 3.92'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 979 2.93236 4.89272 3.10528 2.73618 4.26889 3.42579 3.73649 3.69554 1.10133 3.27084 4.23546 3.16234 3.92993 2.93108 2.42608 2.97774 3.18937 3.40613 5.34259 4.14920 990 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 980 2.91534 5.01497 2.47129 1.09085 4.35583 3.24629 3.83031 3.80087 2.70530 3.42560 4.40248 2.90997 3.84901 3.04747 3.10882 2.90285 3.21953 3.48967 5.53592 4.25912 991 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 981 2.77295 4.32880 4.06263 3.72518 3.51826 3.67670 4.53492 2.05538 3.59224 2.21366 3.49104 3.92196 4.24028 3.95564 3.80891 3.17805 3.13596 1.08343 5.29485 4.02332 992 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 982 3.26362 4.65383 4.02423 3.71982 2.62383 3.68124 3.84744 3.28603 3.44327 2.68831 3.92183 3.87809 4.19544 3.83329 3.57927 3.46769 3.56193 3.17513 0.98069 2.62840 993 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 983 2.93236 4.89272 3.10528 2.73618 4.26889 3.42579 3.73649 3.69554 1.10133 3.27084 4.23546 3.16234 3.92993 2.93108 2.42608 2.97774 3.18937 3.40613 5.34259 4.14920 994 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 984 2.69466 4.45856 3.29715 3.13037 4.12795 3.14865 4.21089 3.66257 3.18397 3.29401 4.34251 3.44118 0.91525 3.57415 3.43392 2.86093 3.13288 3.31298 5.32608 4.24827 995 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 985 1.92291 4.45513 2.78373 2.57137 4.13868 3.06633 3.85818 3.52405 2.73756 3.24010 4.11802 1.87726 3.71569 3.08044 3.11824 2.53240 2.82198 3.12243 5.46337 4.14086 996 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 986 1.64469 4.15855 3.69098 3.30659 3.73142 3.23047 4.23293 2.47031 3.23407 2.56539 3.65382 3.49171 3.87910 3.56351 3.51118 2.65779 2.80498 1.81154 5.32030 4.08987 997 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02224 3.81707 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f1_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f1_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1559 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f1_V-F_1\n-LENG 512\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:54 2020\n-NSEQ 7\n-EFFN 1.028809\n-CKSUM 1231724408\n-GA 300 300;\n-STATS LOCAL MSV -11.7516 0.69792\n-STATS LOCAL VITERBI -12.8353 0.69792\n-STATS LOCAL FORWARD -5.9619 0.69792\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64006 4.26403 2.98116 2.58468 3.24143 3.00694 3.80497 2.76710 2.40770 2.51934 3.71298 2.91583 3.50777 3.02841 2.83534 2.67917 2.88585 2.76947 4.59994 3.45970\n- 2.68634 4.42241 2.77505 2.73106 3.46370 2.40529 3.72510 3.29370 2.67729 2.69371 4.24427 2.90362 2.73755 3.18111 2.89778 2.37882 2.77535 2.98534 4.58493 3.61519\n- 0.36992 1.47417 2.52266 1.22391 0.34825 0.00000 *\n- 1 2.67016 4.50949 3.37875 2.83117 3.69892 3.55346 3.81363 2.98029 2.17001 2.67755 2.11336 3.25600 3.96383 3.06447 2.93177 2.83357 2.41138 2.75515 5.10286 3.85975 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02419 4.12964 4.85199 0.61958 0.77255 0.43392 1.04403\n- 2 2.65893 4.57800 3.24631 2.27975 3.76192 3.54659 3.76847 3.04579 2.27249 2.77889 3.05417 3.16866 3.93556 2.99330 2.99771 2.78765 2.88992 1.98097 5.13903 3.86901 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20545 4.92779 0.61958 0.77255 0.48576 0.95510\n- 3 2.38596 4.96869 2.38669 2.20250 4.27212 3.39652 3.68404 3.69795 2.49668 3.27848 4.08031 2.92171 2.27303 2.82371 2.98042 2.67355 2.91971 2.91722 5.49369 4.12570 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20545 4.92779 0.61958 0.77255 0.48576 0.95510\n- 4 2.46818 5.01159 3.00012 2.48410 4.35351 3.47051 3.66211 3.77069 1.85860 3.31311 4.11640 2.99496 3.88380 2.01634 2.69325 2.72904 2.46976 3.40914 5.48576 4.15859 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20545 4.92779 0.61958 0.77255 0.48576 0.95510\n- 5 2.85709 5.22920 3.03001 2.13821 4.61558 3.53842 3.64482 4.03691 1.55328 3.49398 4.28889 2.58133 3.93691 2.76013 2.08436 2.82202 3.06503 3.64881 5.58553 4.27768 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20545 4.92779 0.61958 0.77255 0.48576 0.95510\n- 6 2.67542 4.42545 3.49876 2.93345 3.57735 3.63127 3.88310 2.35557 2.33391 2.21818 3.51120 3.34915 4.01578 3.17695 3.14242 2.88851 2.04079 2.55517 5.03429 3.79637 10 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02241 4.20545 4.92779 0.61958 0.77255 0.48576 0.95510\n- 7 3.24395 4.52416 5.05879 4.57896 3.68871 4.64919 5.27973 0.95006 4.46793 2.15079 3.47584 4.77244 4.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02493 4.09994 4.82229 0.61958 0.77255 0.60582 0.78884\n- 505 2.21464 4.97017 2.76648 1.90931 4.26578 3.37562 2.82456 3.70804 2.43717 3.27112 4.07350 2.89274 3.07311 2.78980 2.90199 2.66135 2.90933 3.34637 5.47180 4.10544 551 e - - -\n- 2.68626 4.42234 2.77528 2.73099 3.46362 2.40521 3.72503 3.29362 2.67686 2.69363 4.24698 2.90355 2.73748 3.18155 2.89809 2.37895 2.77493 2.98527 4.58485 3.61512\n- 0.45311 1.29034 2.41715 0.67429 0.71237 0.60582 0.78884\n- 506 2.62526 4.39418 3.52261 3.16996 2.14675 1.51536 3.99664 3.12352 3.18842 2.78746 3.79895 3.45452 3.96863 3.48162 3.48999 2.82472 2.98779 2.87245 4.84266 3.39347 554 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02716 4.01533 4.73768 0.61958 0.77255 0.68508 0.70128\n- 507 2.85794 2.41857 4.47291 3.91704 3.29845 4.04429 4.46892 1.66950 3.77255 1.70744 3.20507 4.10422 4.39870 4.00096 3.93994 3.37991 3.11238 1.89432 5.04749 3.85498 555 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02716 4.01533 4.73768 0.61958 0.77255 0.68508 0.70128\n- 508 2.71354 4.67237 3.03041 2.70059 3.71218 3.41871 3.82963 3.21416 2.67510 2.23142 3.90083 1.65790 3.93660 3.09410 3.02798 2.81713 3.01013 2.96729 5.16032 3.76054 556 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02716 4.01533 4.73768 0.61958 0.77255 0.68508 0.70128\n- 509 2.81837 4.42987 3.78995 3.23903 3.29753 3.82982 4.07640 2.01554 3.05569 1.58632 3.21234 3.61306 4.18037 2.58981 3.33870 3.11809 3.04998 2.39401 4.98102 3.76629 557 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02716 4.01533 4.73768 0.61958 0.77255 0.68508 0.70128\n- 510 2.66514 4.63048 3.24331 2.69674 3.84565 3.48005 3.72025 3.22601 2.41142 2.32471 3.76143 3.14144 2.45591 2.92641 2.20387 2.76972 2.91140 2.96796 5.17512 3.90122 558 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02716 4.01533 4.73768 0.61958 0.77255 0.68508 0.70128\n- 511 2.80116 5.24646 2.21818 2.02418 4.56501 3.33189 3.65888 4.02669 1.58446 3.52889 4.33589 2.80425 3.83547 2.79524 2.86951 2.74090 3.04712 3.62910 5.67429 4.27444 559 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02716 4.01533 4.73768 0.61958 0.77255 0.68508 0.70128\n- 512 2.79561 4.93573 3.01120 2.59618 4.37893 3.42990 3.71660 3.78889 1.40057 3.33972 4.19829 3.06393 2.50333 2.87420 2.57086 2.82162 3.05512 3.43944 5.47732 4.21190 560 k - - -\n- 2.68640 4.42247 2.77508 2.73079 3.46376 2.40535 3.72517 3.29289 2.67670 2.69361 4.24712 2.90329 2.73762 3.18169 2.89823 2.37886 2.77542 2.98519 4.58499 3.61526\n- 0.26096 1.47105 * 1.67379 0.20768 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f1_V-F_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f1_V-F_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1694 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f1_V-F_2\n-LENG 557\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:54 2020\n-NSEQ 17\n-EFFN 1.780518\n-CKSUM 4246254811\n-GA 300 300;\n-STATS LOCAL MSV -12.2095 0.69753\n-STATS LOCAL VITERBI -12.8643 0.69753\n-STATS LOCAL FORWARD -6.1774 0.69753\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61752 4.25720 3.01327 2.57066 3.32344 3.15593 3.72178 2.80129 2.28402 2.51494 3.75956 2.90846 3.59344 2.98689 2.79454 2.64552 2.90781 2.86050 4.85998 3.39776\n- 2.68576 4.42282 2.77501 2.73081 3.46384 2.40560 3.72420 3.29305 2.67698 2.69391 4.24378 2.90336 2.73746 3.18175 2.89818 2.37874 2.77576 2.98575 4.58533 3.61560\n- 1.04651 1.13607 1.11548 1.81842 0.17707 0.00000 *\n- 1 2.63207 4.81258 3.04206 2.03650 4.05128 3.45652 3.64224 3.46325 2.12192 2.71046 3.45492 2.98990 3.84392 2.79492 2.59828 2.66896 2.85969 3.14609 5.30334 3.33720 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 4.15477 4.87711 0.61958 0.77255 0.81299 0.58614\n- 2 2.63492 4.76997 3.05412 2.22336 3.99485 3.46907 3.68018 3.39035 2.48264 3.01411 3.24241 3.01902 3.24464 2.17028 2.92554 2.68693 2.86682 2.52996 5.28534 3.96742 10 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22190 4.94425 0.61958 0.77255 0.88629 0.53134\n- 3 2.67400 5.14004 2.59470 2.11850 4.45978 3.39646 2.82969 3.93335 2.21752 3.43379 4.19295 2.48691 3.81869 2.73694 2.88338 2.20320 2.72758 3.51814 5.58457 4.17958 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22190 4.94425 0.61958 0.77255 0.66237 0.72490\n- 4 2.47085 4.73564 3.12373 2.35445 3.94638 3.50584 3.71933 3.34481 2.35605 2.53922 2.94362 2.88523 3.89533 2.89790 2.99425 2.22677 2.63711 3.05167 5.26088 3.95260 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01967 4.33454 5.05688 0.61958 0.77255 0.77709 0.61570\n- 5 2.42557 4.45376 2.94584 2.58957 3.61246 3.60387 3.85029 2.45235 2.81774 2.29498 3.55532 3.28884 3.98648 3.13387 3.20274 2.84103 2.40556 2.26408 5.03922 3.78818 13 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01967 4.33454 5.05688 0.61958 0.77255 0.44535 1.02332\n- 6 2.70627 4.38402 3.66164 3.09380 3.52060 3.69981 3.96916 2.30198 2.68411 2.57918 2.50594 3.47537 3.35640 3.32767 3.34518 2.95632 1.83723 2.62631 4.98273 3.75784 14 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01683 4.48896 5.21130 0.61958 0.77255 0.43234 1.04693\n- 7 2.75422 4.33218 3.91036 3.32767 3.44451 3.79385 4.06253 2.13466 2.85721 1.61152 3.42561 3.64538 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54426 5.26660 0.61958 0.77255 0.48576 0.95510\n- 550 2.71729 5.08112 2.17746 2.16934 4.36979 3.51020 3.70789 2.64333 2.47057 3.36175 3.50801 2.50228 3.90485 2.82695 2.69505 2.70963 2.71615 3.44048 5.54906 4.17460 634 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54426 5.26660 0.61958 0.77255 0.48576 0.95510\n- 551 2.72104 4.74802 3.26698 2.73139 4.02021 3.56461 3.85645 3.40785 2.45199 2.42969 3.90536 3.20823 1.94178 3.05142 3.10470 2.30787 2.45995 3.11306 5.34819 4.05697 635 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54426 5.26660 0.61958 0.77255 0.48576 0.95510\n- 552 2.59131 5.15675 2.72317 2.12302 4.47417 3.49582 3.19580 3.10295 2.43472 3.45009 3.56109 2.40026 3.88991 2.19197 2.92245 2.50494 2.94517 3.53249 5.60611 4.21213 636 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54426 5.26660 0.61958 0.77255 0.48576 0.95510\n- 553 2.49291 4.28091 3.88784 3.31236 2.95556 3.75835 4.04220 2.28310 3.23323 2.17090 3.39301 3.02704 2.68636 3.49659 3.50332 2.48681 2.94225 2.13031 4.88467 3.67690 637 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17167 4.54426 1.91654 0.61958 0.77255 0.48576 0.95510\n- 554 2.40678 4.23704 3.81122 3.23647 2.21745 3.69967 3.97861 2.70420 2.77704 2.43883 3.34833 3.09705 4.07508 3.42510 3.43108 2.96640 2.56345 2.12859 3.54663 3.62254 638 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11722 4.39116 2.32052 0.61958 0.77255 0.71192 0.67472\n- 555 2.71740 5.03802 2.98403 2.45988 4.34881 2.04959 3.14802 3.78318 2.15137 3.32277 4.11427 2.79023 3.88209 2.79261 2.50748 2.71293 2.63706 3.41629 5.49898 4.15202 639 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13183 4.29442 2.20851 0.61958 0.77255 0.81880 0.58153\n- 556 2.65721 4.86733 2.81400 1.86151 4.31287 3.34283 3.77087 3.72965 2.59341 3.32945 4.14606 2.97330 3.85433 2.92798 3.04979 2.03990 2.05976 3.35239 5.54998 4.20101 640 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02286 4.18546 4.90780 0.61958 0.77255 0.91687 0.51044\n- 557 2.81494 4.95403 3.25070 2.64329 4.19964 3.58459 3.05806 3.62889 2.20339 2.42286 4.02642 3.11479 3.95821 2.30111 1.82317 2.84486 3.02068 3.32114 5.35261 4.07149 641 r - - -\n- 2.68649 4.42256 2.77551 2.73155 3.46199 2.40544 3.72526 3.29385 2.67586 2.69368 4.24721 2.90378 2.73753 3.18149 2.89748 2.37882 2.77551 2.98523 4.58508 3.61534\n- 0.64034 0.74889 * 1.25250 0.33658 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f1_V-F_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f1_V-F_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1310 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f1_V-F_3\n-LENG 429\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:54 2020\n-NSEQ 164\n-EFFN 2.394836\n-CKSUM 3425711916\n-GA 100 100;\n-STATS LOCAL MSV -11.4163 0.69884\n-STATS LOCAL VITERBI -12.5340 0.69884\n-STATS LOCAL FORWARD -5.7531 0.69884\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60464 3.94623 3.00784 2.61539 3.44174 3.07100 3.73663 2.72698 2.39625 2.55930 3.68301 2.85232 3.75402 2.93886 2.87683 2.66079 2.86862 2.77534 4.69489 3.36702\n- 2.68615 4.42235 2.77529 2.73125 3.46360 2.40523 3.72504 3.29359 2.67751 2.69328 4.24401 2.90346 2.73746 3.18148 2.89807 2.37897 2.77527 2.98528 4.58487 3.61513\n- 0.67881 1.14973 1.73693 0.10949 2.26618 0.00000 *\n- 1 2.72442 4.58514 3.41870 2.85756 3.75778 2.90565 3.88805 3.12957 2.42162 2.69808 1.81430 3.30861 3.72996 3.14537 3.14899 2.50757 2.95946 2.70592 5.15544 3.89621 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01556 4.56662 5.28896 0.61958 0.77255 0.60504 0.78977\n- 2 2.74505 4.39081 3.75582 2.92691 3.51661 3.75712 4.02181 1.69498 2.85029 2.41313 2.79603 3.17480 4.00240 3.12665 3.24075 3.01246 2.78425 2.30949 4.98221 3.76178 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01446 4.63940 5.36174 0.61958 0.77255 0.45872 0.99993\n- 3 2.38701 4.01124 4.09613 3.30682 3.27062 3.85419 4.14629 2.27751 3.21859 2.34460 2.59380 3.77763 3.80868 3.65904 3.64322 2.74676 1.81836 2.39912 4.90330 3.61485 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72207 5.44442 0.61958 0.77255 0.55525 0.85315\n- 4 2.41501 4.53878 3.59408 2.89803 3.68957 3.73580 3.99377 2.42887 2.93321 2.75914 3.64659 2.76916 4.12144 3.30218 3.36173 2.57557 2.03024 2.00351 5.12300 3.88116 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72207 5.44442 0.61958 0.77255 0.55525 0.85315\n- 5 3.59633 5.71048 4.11229 3.30746 5.30808 3.56853 3.98771 4.59127 0.88868 3.93680 4.80914 3.66686 4.49556 3.11022 1.35940 3.56685 3.72322 4.26268 5.90020 4.79800 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72207 5.44442 0.61958 0.77255 0.44872 1.01733\n- 6 2.52003 3.21539 3.52426 2.96085 3.77748 3.47585 3.97198 2.71753 1.70063 2.84211 3.71986 3.19710 4.10949 3.24609 3.31498 2.74110 2.72166 2.24027 5.18976 3.93576 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01289 4.75394 5.47629 0.61958 0.77255 0.48402 0.95790\n- 7 3.30863 4.62079 5.25750 4.66902 3.16586 4.57979 4.93773 1.35515 4.49678 1.73027 1.99388 4.72885 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28780 4.59985 1.42696 0.61958 0.77255 0.72941 0.65816\n- 422 2.35642 5.00422 2.95142 2.17291 4.28978 3.34598 3.65347 3.22137 1.93876 3.16222 4.06457 2.75426 3.85019 2.77557 2.89042 2.35997 2.78348 3.36291 5.47672 4.10806 462 k - - -\n- 2.68617 4.42215 2.77530 2.73128 3.46365 2.40520 3.72505 3.29344 2.67733 2.69336 4.24688 2.90357 2.73750 3.18157 2.89806 2.37864 2.77530 2.98497 4.58488 3.61514\n- 0.86372 0.64557 2.91791 0.10105 2.34226 0.54170 0.87170\n- 423 2.43126 5.18577 2.78356 1.98027 4.51472 3.20836 3.42985 3.90242 2.35912 3.34941 3.89109 2.96591 3.73840 2.02176 2.91338 2.44766 2.85222 3.56776 5.62809 4.22694 464 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14405 4.54766 2.09100 0.61958 0.77255 0.72025 0.66676\n- 424 2.60169 4.36651 3.00599 1.95773 4.32592 3.34750 3.68729 3.66026 2.24555 3.32005 4.09962 2.92332 3.88367 2.80879 2.86469 1.83616 2.86745 3.39870 5.51195 3.94285 465 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05201 4.46660 3.23918 0.61958 0.77255 0.92622 0.50426\n- 425 2.70751 5.13355 2.96913 1.85265 4.45360 3.48092 3.66550 3.44375 1.74813 3.42273 4.18435 2.82018 3.50583 2.69659 2.80394 2.68413 2.82207 3.40928 5.57664 4.19366 466 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04071 4.43240 3.57533 0.61958 0.77255 0.96139 0.48185\n- 426 2.66684 4.55210 3.32557 2.56330 3.52656 3.58404 3.81493 2.92297 2.47813 2.23240 3.64573 2.75783 3.58307 3.06235 3.14090 2.81081 2.75214 2.78609 5.10941 2.47889 467 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06404 4.40992 2.99822 0.61958 0.77255 0.95020 0.48884\n- 427 2.66204 4.95587 2.88646 2.36354 3.70291 3.35497 2.83710 3.55470 2.24603 3.06381 4.01847 2.53935 3.66426 2.80200 2.85217 2.62842 2.89326 3.30322 5.43861 2.74280 468 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04411 4.37869 3.48647 0.61958 0.77255 1.01205 0.45173\n- 428 2.55214 4.96658 2.84358 2.43958 4.23851 3.35929 3.66103 3.55967 1.82233 2.94555 4.02816 2.89454 3.85679 2.71718 2.77688 2.33487 2.88928 2.93786 5.44536 3.91985 469 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04227 4.35386 3.55659 0.61958 0.77255 1.03375 0.43954\n- 429 2.66084 4.98416 2.99091 2.38892 4.26406 3.46238 3.51146 3.20218 1.93884 3.25847 4.04414 2.55003 3.85330 2.70156 2.66184 2.49251 2.54631 3.05134 5.45552 4.09505 470 k - - -\n- 2.68641 4.42067 2.77545 2.73103 3.46364 2.40542 3.72507 3.29374 2.67665 2.69366 4.24503 2.90283 2.73769 3.18156 2.89825 2.37915 2.77529 2.98527 4.58507 3.61463\n- 0.74766 0.64145 * 0.97636 0.47269 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f2_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f2_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1574 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f2_V-F_1\n-LENG 517\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:54 2020\n-NSEQ 3\n-EFFN 0.635742\n-CKSUM 1666594791\n-GA 100 100;\n-STATS LOCAL MSV -11.7959 0.69787\n-STATS LOCAL VITERBI -12.8642 0.69787\n-STATS LOCAL FORWARD -6.1927 0.69787\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56892 4.06587 2.88744 2.65264 3.44406 2.87746 3.74059 2.89142 2.45811 2.54767 3.78451 2.95997 3.47568 3.10522 2.72643 2.62557 2.90879 2.71544 4.74008 3.46932\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.00000 *\n- 1 2.95364 4.39363 4.39162 3.86880 3.31254 4.09947 4.56521 2.02228 3.71988 1.86127 2.16263 4.12393 4.45902 3.99089 3.93090 3.45441 3.21996 1.38449 5.18313 4.00408 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 2 3.10623 4.49918 4.47068 4.09066 3.44011 4.16899 4.80152 0.96627 3.92063 2.00728 3.36131 4.32259 4.59161 4.25946 4.10628 3.67417 3.40395 1.85255 5.35032 4.09644 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 3 1.76751 4.50671 2.86476 2.63710 4.23284 3.11866 3.92293 3.62417 2.80726 3.32465 4.18825 1.75093 3.76846 3.13867 3.19765 2.57465 2.86696 3.20596 5.54656 4.22936 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 4 2.56796 4.33594 3.50652 3.09112 3.49757 3.40432 4.00505 2.79472 2.97703 1.65225 3.57182 3.40415 3.95133 3.35578 3.26952 1.99241 2.90504 2.59591 5.04754 3.73987 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 5 3.11781 4.48511 4.58336 4.07939 1.74411 4.25909 4.33817 1.65125 3.94891 1.73838 3.08903 4.24025 4.55290 4.09945 4.08819 3.61283 3.35946 2.17133 4.67157 3.23159 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 6 2.77950 5.01906 1.64227 2.30078 4.58977 1.66415 3.86591 4.10161 2.87414 3.67441 4.53348 2.84076 3.82647 3.05820 3.40266 2.76588 3.12610 3.66231 5.79127 4.41716 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 7 3.38794 4.83793 3.98100 3.72898 2.30123 3.94277 3.66654 3.38393 3.58376 2.81291 4.04912 3.84319 4.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 510 3.04922 4.54189 4.03238 3.67495 3.10390 3.85613 4.36109 2.30663 3.44351 1.00456 3.16284 3.95937 4.31030 3.83519 3.63416 3.42014 3.34914 2.31822 4.94497 3.64499 531 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 511 2.89808 4.72795 3.03973 2.79281 3.22322 3.37111 1.36422 3.58555 2.63886 3.09065 4.12835 3.20491 3.91988 3.15863 2.90896 2.97050 3.19937 3.32282 4.68915 3.17742 532 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 512 2.27256 4.19002 3.12711 2.94136 3.98109 2.92191 4.05246 3.49193 3.00837 3.22086 4.15732 3.17986 3.65335 3.36608 3.29539 1.24702 2.74598 3.04849 5.36209 4.06477 533 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 513 2.63279 4.40293 3.23008 3.05761 4.05564 3.09605 4.14079 3.57872 3.10706 3.21517 4.26304 3.37258 1.02887 3.49897 3.36115 2.79797 3.06748 3.23493 5.26625 4.17601 534 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 514 2.73227 4.30475 3.98856 3.65173 3.48256 3.62032 4.47110 2.06612 3.51785 2.18881 3.46569 3.85615 4.18837 3.88602 3.73905 3.12017 3.09758 1.15712 5.24954 3.97371 535 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 515 3.04922 4.54189 4.03238 3.67495 3.10390 3.85613 4.36109 2.30663 3.44351 1.00456 3.16284 3.95937 4.31030 3.83519 3.63416 3.42014 3.34914 2.31822 4.94497 3.64499 536 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 516 2.36602 4.20983 3.34714 3.09825 3.88806 3.05135 4.12229 3.00364 3.03925 2.87038 3.92976 3.32120 3.74858 3.43977 3.30080 2.56654 1.34744 2.70906 5.33467 4.10559 537 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03464 3.77579 4.49814 0.61958 0.77255 0.64814 0.74027\n- 517 2.36602 4.20983 3.34714 3.09825 3.88806 3.05135 4.12229 3.00364 3.03925 2.87038 3.92976 3.32120 3.74858 3.43977 3.30080 2.56654 1.34744 2.70906 5.33467 4.10559 538 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02345 3.76460 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f2_V-F_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f2_V-F_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1289 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f2_V-F_2\n-LENG 422\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:55 2020\n-NSEQ 9\n-EFFN 2.597168\n-CKSUM 2613527535\n-GA 300 300;\n-STATS LOCAL MSV -11.0981 0.69893\n-STATS LOCAL VITERBI -12.5859 0.69893\n-STATS LOCAL FORWARD -5.7078 0.69893\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45940 4.04150 3.01100 2.68501 3.54889 2.80695 3.64970 3.08686 2.55348 2.55722 3.77285 3.05740 3.29143 2.95644 2.63133 2.64405 2.83046 2.74158 4.46979 3.64196\n- 2.68624 4.42232 2.77526 2.73130 3.46360 2.40519 3.72501 3.29360 2.67747 2.69361 4.24500 2.90283 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58483 3.61510\n- 0.23019 1.60106 5.53832 0.15049 1.96815 0.00000 *\n- 1 3.09943 4.74420 4.56268 4.14018 3.90621 3.99300 4.83521 3.00796 3.93000 2.60156 0.89666 4.26646 4.57203 4.26457 4.11696 3.41778 1.80852 2.89360 5.61761 4.43724 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 2 2.18065 4.89681 3.30056 2.74936 4.12948 3.66461 3.90066 3.52804 2.38679 2.12723 4.00049 2.68366 4.06484 3.07992 3.17321 2.46530 1.96686 3.23057 5.44316 4.13610 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 3 2.81106 3.26342 3.42245 2.86285 3.94664 3.70514 2.73249 3.32859 2.83525 3.00005 3.85966 3.33553 4.09856 2.23243 3.25301 2.52274 1.92790 2.39503 5.31745 4.04001 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 4 2.92657 4.76737 3.65082 3.05260 3.93829 3.83211 4.00911 2.65587 2.30725 1.81998 3.85437 3.48465 4.20624 3.25647 1.74537 3.08242 2.54830 3.04434 5.30753 4.06801 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16271 4.81597 1.95147 0.61958 0.77255 0.48576 0.95510\n- 5 3.04452 4.54805 4.52298 3.99746 3.73928 4.12764 4.68720 2.40981 3.87270 2.02944 3.64265 4.21162 4.56814 4.14632 4.09337 3.47806 1.20679 1.66875 5.42223 4.22563 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66732 5.38966 0.61958 0.77255 0.34335 1.23578\n- 6 3.40320 4.81162 4.73802 4.21087 2.79526 4.39932 4.10149 3.27704 3.94719 1.72189 3.90773 4.25793 4.74141 4.17782 2.76083 3.71073 3.62735 3.11482 2.91064 1.08503 7 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 7 2.28088 5.25482 3.11574 2.55544 4.57540 3.61216 3.79206 4.03519 2.09519 3.54478 4.30548 2.56292 4.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01600 4.53908 5.26143 0.61958 0.77255 0.58057 0.82002\n- 415 3.35165 5.12025 3.77057 3.37426 1.37661 4.11202 1.89589 3.73877 3.37068 3.25164 4.26986 1.90197 4.52210 3.66573 3.71132 3.43130 3.59279 3.51827 4.47194 2.80069 603 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67643 5.39877 0.61958 0.77255 0.75237 0.63724\n- 416 2.97848 5.15701 3.40959 2.81037 4.49376 2.50802 3.86416 3.88049 2.01521 3.43677 4.26293 3.28711 4.13180 3.00532 1.43560 3.00266 3.19638 2.42893 5.61104 4.33534 604 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67643 5.39877 0.61958 0.77255 0.75237 0.63724\n- 417 2.82213 5.25910 3.09737 2.20183 4.59926 3.58944 3.74977 4.05781 1.99060 3.54751 4.30737 3.06625 3.97870 2.45513 1.89131 2.33880 3.04699 2.82435 5.68134 4.30815 605 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67643 5.39877 0.61958 0.77255 0.75237 0.63724\n- 418 3.32409 5.10200 3.93852 3.73412 3.57883 0.73317 4.46669 4.14042 3.82211 3.71008 4.71774 4.00933 4.56485 4.12516 4.09633 3.47408 3.71817 3.82327 5.13903 1.71917 606 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10851 4.67643 2.36957 0.61958 0.77255 0.75237 0.63724\n- 419 2.23729 4.57744 4.80863 4.45892 4.14814 4.03522 5.19716 2.27163 4.36614 2.81262 3.99507 4.46724 4.65259 4.64298 4.54127 3.49282 3.42524 0.66515 5.94039 4.72831 607 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01530 4.58321 5.30556 0.61958 0.77255 0.88260 0.53393\n- 420 2.28029 4.87403 3.16252 2.61665 4.13901 3.55300 3.79739 3.54731 2.60983 3.16558 3.98661 2.61277 2.69628 2.47478 3.06437 2.77383 2.30150 2.41431 5.42192 4.09841 608 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01530 4.58321 5.30556 0.61958 0.77255 0.88260 0.53393\n- 421 1.77442 4.83816 3.22671 2.67315 4.07201 2.80747 2.63528 3.47457 2.61115 2.55170 3.94025 3.16956 3.99001 2.99030 2.54838 2.81676 2.98569 3.17566 5.37207 4.06634 609 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12628 4.58321 2.22183 0.61958 0.77255 0.88260 0.53393\n- 422 1.31339 4.67587 3.46742 2.95559 4.27881 3.44949 4.02475 3.64222 2.77082 3.30105 4.14553 3.34234 3.99994 3.22005 2.09615 2.78849 2.29967 3.27512 5.56261 4.30160 610 a - - -\n- 2.68576 4.42237 2.77532 2.73135 3.46287 2.40525 3.72507 3.29366 2.67753 2.69330 4.24702 2.90359 2.73752 3.18159 2.89813 2.37899 2.77532 2.98457 4.58489 3.61515\n- 0.31115 1.31902 * 0.67886 0.70764 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f2_V-F_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f2_V-F_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1508 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f2_V-F_3\n-LENG 495\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:55 2020\n-NSEQ 50\n-EFFN 1.712036\n-CKSUM 3321719147\n-GA 300 300;\n-STATS LOCAL MSV -11.9934 0.69807\n-STATS LOCAL VITERBI -12.4968 0.69807\n-STATS LOCAL FORWARD -6.1278 0.69807\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.33811 4.10699 3.03377 2.71485 3.61567 2.88473 3.60155 3.09899 2.58956 2.61176 3.80224 3.09906 3.38520 2.96762 2.54694 2.59673 2.76815 2.73523 4.46502 3.71428\n- 2.68529 4.42053 2.77559 2.73195 3.46340 2.40482 3.72381 3.29339 2.67803 2.69344 4.24613 2.90412 2.73699 3.18197 2.89801 2.37922 2.77499 2.98489 4.58479 3.61551\n- 0.45065 1.42933 2.09297 2.37687 0.09744 0.00000 *\n- 1 2.64546 3.74089 4.08652 3.54915 3.48998 3.62045 4.21188 2.72851 3.41357 2.49439 1.28629 3.73999 3.73188 3.68720 3.63454 2.76594 2.95411 2.43182 5.01880 3.82098 15 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01855 4.39214 5.11449 0.61958 0.77255 0.52203 0.89972\n- 2 2.13620 4.80054 2.98753 2.57895 4.02101 3.35222 3.74402 3.42533 2.46521 3.05301 3.23007 3.08706 3.09425 2.91362 2.82115 2.54292 2.34525 2.74578 5.32250 4.00606 16 a - - -\n- 2.68623 4.42244 2.77517 2.73100 3.46373 2.40527 3.72501 3.29373 2.67720 2.69374 4.24688 2.90358 2.73740 3.18156 2.89812 2.37878 2.77458 2.98531 4.58496 3.61522\n- 0.43800 1.13261 3.42698 0.88887 0.52953 0.45017 1.01479\n- 3 2.44205 5.15412 2.50540 2.19148 4.47919 3.30782 3.66297 3.95126 2.30428 3.33391 3.47653 2.78804 3.17304 2.58389 2.55673 2.58729 2.76703 3.18436 5.59893 4.20040 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01693 4.48275 5.20510 0.61958 0.77255 0.47495 0.97264\n- 4 2.50911 5.10576 2.63912 2.29217 4.40956 2.94868 3.68261 3.86739 2.38051 3.22318 3.46108 2.85507 3.46635 2.58780 2.67574 2.68346 2.32498 3.04319 5.56396 4.17942 21 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01650 4.50853 5.23088 0.61958 0.77255 0.50157 0.93033\n- 5 2.52751 5.11985 2.92612 1.84311 4.42778 3.06740 3.21500 3.88807 2.43496 3.40926 4.17146 2.97323 3.43430 2.67946 2.76316 2.68494 2.35118 3.00572 5.57591 4.18873 22 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01650 4.50853 5.23088 0.61958 0.77255 0.50157 0.93033\n- 6 2.69661 3.76429 3.28345 2.80571 3.56327 3.67282 3.92475 2.60919 2.84729 2.50337 3.32415 3.40386 4.05237 3.17046 2.69934 2.91642 2.40434 1.86780 5.00615 3.77041 23 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01650 4.50853 5.23088 0.61958 0.77255 0.47600 0.97091\n- 7 2.69938 4.35670 3.68779 2.97799 3.48376 3.70628 3.64841 2.84058 2.92837 1.62911 3.36505 3.29104 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22177 4.94411 0.61958 0.77255 0.85455 0.55421\n- 488 2.41610 5.02139 2.60796 2.24735 4.32008 2.92377 3.61526 3.56388 2.37496 3.21609 4.07809 2.90147 2.68457 2.54433 2.71289 2.61828 2.86494 3.38753 5.48477 4.10359 521 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22177 4.94411 0.61958 0.77255 0.85455 0.55421\n- 489 2.57021 4.70465 2.80164 2.53239 3.91359 3.47338 3.68536 3.31379 2.51870 2.67402 3.78446 3.03641 2.75085 2.67917 2.78038 2.47893 2.79175 2.80659 4.23692 3.61129 522 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22177 4.94411 0.61958 0.77255 0.85455 0.55421\n- 490 2.47932 4.32874 2.86067 2.35899 4.15734 3.32458 3.64996 3.58641 2.43590 3.16809 3.96625 2.82668 2.90107 2.78761 2.79580 2.25941 2.35644 3.23755 5.38946 4.04017 523 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04604 4.22177 3.49584 0.61958 0.77255 0.85455 0.55421\n- 491 2.35329 4.45747 3.29907 2.73666 3.47832 3.53114 3.34368 2.99086 2.70579 2.32460 3.55443 3.19004 3.47559 2.89907 3.10405 2.28106 2.74939 2.55765 5.02095 3.49182 524 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02257 4.19830 4.92064 0.61958 0.77255 0.81682 0.58310\n- 492 2.59142 4.88039 2.90406 2.44251 4.15036 3.27841 3.48533 3.39268 2.43224 3.16017 3.96364 2.96538 2.27788 2.72194 2.62968 2.35127 2.81203 3.23460 5.38415 4.03973 525 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03667 4.22708 3.84397 0.61958 0.77255 0.84977 0.55776\n- 493 2.55217 4.46689 3.20256 2.74114 3.63549 3.53132 3.77658 2.85479 2.70985 2.34826 3.56972 3.09986 2.93939 2.90752 3.10810 2.76503 2.24116 2.48686 5.03802 3.77746 526 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02224 4.21265 4.93500 0.61958 0.77255 0.86265 0.54826\n- 494 2.54681 4.69929 3.11802 2.56176 3.93356 3.27350 3.69899 3.32796 2.50623 2.89385 3.80268 3.05639 2.70893 2.69600 2.40883 2.69666 2.70674 2.47886 5.24100 3.93917 527 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04433 4.21265 3.55599 0.61958 0.77255 0.86265 0.54826\n- 495 2.42790 4.95475 2.65561 2.38367 4.23975 3.41359 3.35273 3.68146 2.39013 3.23752 4.02251 2.85295 3.81433 2.74804 2.53948 2.02102 2.67319 3.31523 5.43493 3.86134 528 s - - -\n- 2.68584 4.42228 2.77549 2.73121 3.46379 2.40482 3.72502 3.29387 2.67749 2.69371 4.24731 2.90350 2.73687 3.18085 2.89802 2.37893 2.77530 2.98551 4.58519 3.61545\n- 0.58414 0.81551 * 1.56415 0.23479 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f3_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f3_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1532 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f3_V-F_1\n-LENG 503\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:55 2020\n-NSEQ 21\n-EFFN 1.863647\n-CKSUM 1064552098\n-GA 300 300;\n-STATS LOCAL MSV -11.8070 0.69800\n-STATS LOCAL VITERBI -12.6244 0.69800\n-STATS LOCAL FORWARD -5.8433 0.69800\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57587 4.28406 3.00071 2.63317 3.49872 2.95223 3.70936 2.94900 2.33346 2.57162 3.86268 2.96418 3.38662 2.87895 2.75735 2.64290 2.83932 2.85491 4.47454 3.46924\n- 2.68661 4.42268 2.77512 2.73116 3.46306 2.40556 3.72452 3.29355 2.67745 2.69344 4.24223 2.90367 2.73749 3.18102 2.89816 2.37894 2.77518 2.98521 4.58520 3.61546\n- 0.36856 1.19313 5.29789 1.58702 0.22883 0.00000 *\n- 1 2.72676 3.30645 4.05828 3.47653 3.35726 3.80160 3.07536 2.69230 3.14011 2.44069 1.67146 3.73356 4.17682 3.61342 3.58049 3.08242 2.74165 2.10055 4.85718 3.65873 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57554 5.29789 0.61958 0.77255 0.48576 0.95510\n- 2 3.04353 5.14133 3.55044 2.89305 4.43332 3.80740 3.84209 2.83154 1.16457 2.81809 4.20519 3.34235 4.16791 2.99141 2.06468 3.08041 3.23834 3.48313 5.54232 4.30463 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57554 5.29789 0.61958 0.77255 0.48576 0.95510\n- 3 2.99312 4.50722 4.46241 3.94677 3.76187 4.06875 4.66885 2.33176 3.82565 2.25968 3.66274 4.16329 4.52602 4.11227 4.05743 3.42623 1.34684 1.43633 5.43786 4.23150 10 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57554 5.29789 0.61958 0.77255 0.48576 0.95510\n- 4 2.92832 4.29644 4.75773 4.16626 2.80094 4.13094 4.47782 1.81374 3.99740 1.54035 3.31069 4.24167 4.47054 4.15255 4.06636 2.84004 3.16250 1.60964 4.98296 3.80884 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57554 5.29789 0.61958 0.77255 0.48576 0.95510\n- 5 3.27414 5.76118 2.60687 0.76491 5.07017 3.60309 4.06503 4.59154 2.90668 4.06295 4.92362 3.08135 4.19210 2.43232 3.36834 3.17566 3.54667 4.18193 6.18104 4.74469 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57554 5.29789 0.61958 0.77255 0.48576 0.95510\n- 6 3.98880 5.21813 5.33253 4.98804 0.66304 4.93460 4.34820 3.00172 4.80163 1.76773 3.60996 4.82467 5.18535 4.74739 4.78422 4.36383 4.22291 3.13424 4.45997 2.81060 13 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57554 5.29789 0.61958 0.77255 0.48576 0.95510\n- 7 3.81763 5.67639 4.03565 3.58498 5.23914 4.15685 4.39178 4.73778 0.36907 4.16623 5.13797 3.95627 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40469 5.12704 0.61958 0.77255 0.74016 0.64825\n- 496 2.75519 5.15668 2.97635 2.45684 4.49693 3.49977 3.68638 3.94838 1.70746 3.45261 4.22486 2.62064 3.90548 2.26189 2.79805 2.50958 2.35989 3.55044 5.59815 4.23173 563 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40469 5.12704 0.61958 0.77255 0.74016 0.64825\n- 497 2.73257 5.18111 2.93114 2.21559 4.51683 3.47869 3.66939 3.98157 2.24000 3.47433 4.23405 2.10974 3.17811 2.77697 2.15468 2.40989 2.96222 3.56885 5.61358 4.22815 564 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40469 5.12704 0.61958 0.77255 0.74016 0.64825\n- 498 2.95886 5.32473 3.12413 2.60564 4.70928 3.63057 3.17160 4.13627 1.28467 3.58666 4.38538 2.64658 4.02901 2.18509 2.54858 2.92242 3.16424 3.74971 5.66730 4.36444 565 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40469 5.12704 0.61958 0.77255 0.74016 0.64825\n- 499 2.96050 5.22708 3.30094 2.71076 4.65424 3.66138 3.74718 4.05350 1.43899 3.52790 4.34143 3.18366 4.05481 2.87033 2.03415 1.87073 3.17045 3.68464 5.62238 4.35638 566 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40469 5.12704 0.61958 0.77255 0.74016 0.64825\n- 500 2.70254 5.06066 2.95558 2.05801 4.36906 3.47216 3.68722 3.81487 2.05947 3.35651 4.13592 2.97397 3.33001 2.80847 2.90641 1.88581 2.93794 2.96141 5.53899 4.16772 567 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09084 4.40469 2.59538 0.61958 0.77255 0.74016 0.64825\n- 501 1.84024 4.79500 3.17030 2.60805 4.07732 3.50880 3.73733 3.46486 2.25241 3.09032 3.92232 3.09815 3.91635 2.90353 2.26455 2.74443 2.56457 2.85494 5.34418 4.04277 568 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20219 4.33354 1.77230 0.61958 0.77255 0.81971 0.58082\n- 502 2.65739 4.89484 2.99775 2.46201 4.18577 2.50119 3.64397 3.60742 2.35822 2.86235 3.98899 2.97514 3.30038 2.21400 2.46574 2.67637 2.89061 3.26553 5.38814 4.05758 569 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 4.15493 4.87727 0.61958 0.77255 0.77976 0.61344\n- 503 2.09488 4.83806 3.01889 2.47806 4.12062 3.44097 3.67843 3.54020 2.25559 2.85878 3.94591 2.54679 3.34721 2.82590 2.92717 2.45443 2.56323 3.20403 5.37202 4.03536 570 a - - -\n- 2.68642 4.42356 2.77453 2.73136 3.46369 2.40595 3.72626 3.29220 2.67802 2.69268 4.24821 2.90360 2.73761 3.18062 2.89774 2.37865 2.77448 2.98602 4.58196 3.61561\n- 0.69443 0.69186 * 2.49595 0.08601 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f4_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f4_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1835 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f4_V-F_1\n-LENG 604\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:56 2020\n-NSEQ 28\n-EFFN 1.972168\n-CKSUM 4214670094\n-GA 300 300;\n-STATS LOCAL MSV -11.8147 0.69719\n-STATS LOCAL VITERBI -13.1136 0.69719\n-STATS LOCAL FORWARD -6.4900 0.69719\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.35415 4.24478 2.94157 2.61547 3.71837 3.07217 3.56680 2.97148 2.64178 2.51000 3.72722 3.14937 3.35700 2.92039 2.56728 2.73787 2.83384 2.69678 4.18156 3.74767\n- 2.68606 4.42267 2.77541 2.73081 3.46354 2.40511 3.72483 3.29369 2.67761 2.69397 4.24349 2.90389 2.73707 3.18116 2.89826 2.37918 2.77504 2.98483 4.58519 3.61545\n- 0.99309 1.15559 1.15614 1.49495 0.25394 0.00000 *\n- 1 2.47004 4.87683 2.62988 2.26494 4.13886 3.43826 3.65721 3.56325 2.45044 3.15217 3.01180 2.96390 3.55960 2.79879 2.92047 2.26091 2.40535 3.22414 5.38109 4.03406 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02155 4.24406 4.96641 0.61958 0.77255 0.53716 0.87804\n- 2 2.69070 4.67319 3.27289 2.72702 3.91166 2.80780 3.82668 3.29466 2.22286 2.95640 2.22723 3.19854 3.96852 3.03609 3.08337 2.60317 2.19290 3.01475 5.25886 3.97740 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01735 4.45848 5.18083 0.61958 0.77255 0.49376 0.94246\n- 3 2.08321 5.08851 3.02123 2.08812 4.38111 3.51321 3.70832 3.83021 2.46613 3.37115 3.09749 2.55935 2.91628 2.72897 2.67514 2.71066 2.80289 3.45099 5.55507 4.18013 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01576 4.55416 5.27650 0.61958 0.77255 0.59300 0.80445\n- 4 2.43054 3.34524 4.47555 3.87396 3.22252 3.86399 4.18746 1.95991 3.70255 2.10454 2.78881 3.95605 3.31118 3.87231 3.78364 3.16624 2.55368 1.94365 4.74750 3.02257 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01576 4.55416 5.27650 0.61958 0.77255 0.59300 0.80445\n- 5 2.60268 4.81985 3.32721 2.74991 4.04421 3.64130 3.82571 3.42114 2.19151 2.18191 3.91353 3.22774 4.02822 3.01287 2.37113 2.87635 1.87298 3.14052 5.34005 4.06129 10 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01576 4.55416 5.27650 0.61958 0.77255 0.59300 0.80445\n- 6 2.61678 4.46378 4.80564 4.27004 3.77078 4.33180 4.86320 1.66038 4.16228 2.54794 3.65352 4.43427 4.70823 4.40065 4.33932 3.68186 2.29619 1.05129 5.47887 4.27463 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01576 4.55416 5.27650 0.61958 0.77255 0.59300 0.80445\n- 7 3.20985 4.93321 3.85008 3.34000 2.82478 4.04762 1.91775 3.49930 3.15270 2.56575 4.04618 3.67552 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01601 4.53831 5.26066 0.61958 0.77255 0.61817 0.77420\n- 597 1.51354 4.31134 3.83960 3.27291 3.46380 3.06553 4.04763 2.47151 3.19900 2.54768 3.45460 3.59257 4.11377 3.47290 3.48612 2.64465 2.94420 2.40210 3.41758 3.72900 608 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01601 4.53831 5.26066 0.61958 0.77255 0.61817 0.77420\n- 598 2.42272 4.85314 3.14796 2.58915 4.07697 3.19362 3.76147 3.48453 2.57550 2.70985 2.86254 2.83895 3.94302 2.34777 2.43629 2.56742 2.79059 2.94547 5.36703 4.04557 609 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06809 4.53831 2.89810 0.61958 0.77255 0.61817 0.77420\n- 599 2.27789 5.15747 2.94238 2.12145 4.47631 2.47575 3.68485 3.94260 2.24739 3.45158 4.20999 2.62001 3.88481 2.31244 2.91719 2.69110 2.94970 3.17296 5.60771 4.21417 610 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01686 4.48709 5.20943 0.61958 0.77255 0.69303 0.69326\n- 600 2.31165 5.08845 2.99344 2.43722 4.38834 3.04319 3.31640 3.84275 2.32657 3.06961 4.14164 2.66823 2.98018 2.63651 2.39878 2.53739 2.92689 3.45466 5.54869 3.55069 611 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05577 4.48709 3.14680 0.61958 0.77255 0.69303 0.69326\n- 601 2.53183 4.95627 3.03282 2.48639 4.22849 3.02737 3.12510 3.65946 2.48809 3.23740 4.03377 2.65403 2.86135 2.84057 2.95978 2.08823 2.68935 3.31086 5.45564 3.24546 612 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06083 4.44884 3.05082 0.61958 0.77255 0.74325 0.64544\n- 602 1.94432 4.68752 2.93474 2.63781 3.20233 3.54084 3.76396 3.27454 2.62388 2.92860 3.77584 2.93875 3.93055 2.77426 2.84304 2.55327 2.90025 2.38124 5.22686 3.93220 613 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21539 4.40631 1.70611 0.61958 0.77255 0.79423 0.60135\n- 603 2.65106 4.98936 2.92443 2.39705 4.28396 2.91422 3.63005 3.29093 2.17559 3.27236 4.05705 2.67150 3.04951 2.12665 2.83033 2.64641 2.88306 3.35537 5.45993 4.09678 614 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21058 4.21315 1.74247 0.61958 0.77255 0.67849 0.70803\n- 604 2.08384 4.62548 3.16570 2.62458 3.90092 3.45213 3.74779 2.94409 2.30659 2.93641 3.78532 3.10029 2.61189 2.94336 3.00431 2.69897 2.47836 2.97511 5.23367 3.94286 615 a - - -\n- 2.68513 4.42252 2.77523 2.73061 3.46381 2.40540 3.72522 3.29381 2.67752 2.69382 4.24717 2.90374 2.73744 3.18138 2.89792 2.37914 2.77464 2.98546 4.58504 3.61530\n- 0.62071 0.77124 * 1.12340 0.39330 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f6_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f6_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1784 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f6_V-F_1\n-LENG 587\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:56 2020\n-NSEQ 4\n-EFFN 0.996094\n-CKSUM 800640468\n-GA 300 300;\n-STATS LOCAL MSV -11.6947 0.69730\n-STATS LOCAL VITERBI -12.5962 0.69730\n-STATS LOCAL FORWARD -5.9969 0.69730\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49786 4.30143 2.97852 2.67408 3.40531 2.91798 3.71876 2.82911 2.60671 2.43321 3.77678 3.07950 3.31968 3.03221 2.80528 2.68180 2.83884 2.65796 4.26512 3.59598\n- 2.68610 4.42259 2.77508 2.73157 3.46387 2.40546 3.72412 3.29388 2.67733 2.69305 4.24331 2.90380 2.73773 3.18112 2.89834 2.37860 2.77553 2.98552 4.58235 3.61537\n- 0.19356 1.78019 4.91009 2.12737 0.12687 0.00000 *\n- 1 2.63645 4.26373 3.83952 3.31305 3.45235 2.45617 4.10197 2.57534 3.21764 2.39783 2.06809 3.60012 4.07729 3.51210 3.49145 2.94145 2.92189 1.90873 4.99681 3.78539 13 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 2 2.81930 5.21190 2.76178 1.92301 4.55375 3.44372 3.68160 4.00524 2.34717 3.50064 4.29922 1.93540 3.89879 2.80913 2.10673 2.78012 3.05245 3.61452 5.63166 4.27082 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 3 2.97247 5.31625 1.11828 2.35014 4.76982 3.33596 3.94477 4.29485 2.94518 3.83722 4.69871 2.91158 2.23033 3.12481 3.49601 2.92011 3.29216 3.86718 5.95599 4.54234 15 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 4 2.65322 4.56566 3.32051 2.79131 3.86452 3.50575 3.83881 3.05137 2.06830 2.85801 3.76049 3.22680 3.95017 3.06111 2.98076 2.79373 1.96658 2.18032 5.23346 3.97182 16 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 5 3.07346 5.67726 1.64761 1.11928 4.96512 3.31892 3.87642 4.49864 2.90918 3.98476 4.84109 2.77863 3.94925 3.04348 3.51764 2.94580 3.36478 4.05987 6.12654 4.60911 17 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 6 2.01475 4.66185 3.15821 2.67882 4.13873 3.37568 3.81405 3.48282 2.01085 3.14901 3.99328 3.12477 3.87829 2.99426 2.94021 2.69264 1.90447 3.14279 5.41234 4.12662 18 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 7 2.76130 4.97739 2.64864 1.84781 4.49138 3.31636 3.87044 3.94382 2.73207 3.53577 4.37602 2.96887 3.90'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 580 3.11746 5.23698 3.47231 2.85721 4.64526 3.72589 3.71110 4.04833 2.01196 3.48408 4.36307 3.26860 4.11138 2.04142 1.19602 3.11386 3.29579 3.72914 5.53061 4.33806 682 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 581 2.79636 4.48963 3.68125 3.09974 3.47769 3.75720 3.96699 2.73657 2.16260 1.86496 2.10779 3.49047 4.11999 3.27135 3.10361 3.03407 3.02256 2.61218 5.03558 3.82301 683 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 582 2.89478 4.77942 2.09909 2.78640 3.74137 3.60294 4.01118 3.02465 2.98578 1.33462 3.76007 3.27443 4.09340 3.27857 3.39332 3.02225 3.16440 2.87145 5.29066 3.96327 684 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 583 2.97453 5.44825 1.24985 2.27785 4.76789 3.36344 3.82250 4.26869 1.92991 3.77612 4.61254 2.84850 3.93771 2.97816 3.20471 2.89088 3.24758 3.85741 5.90740 4.46826 685 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 4.18774 4.91009 0.61958 0.77255 0.48576 0.95510\n- 584 2.76551 5.11391 2.80080 1.75484 4.44690 3.43397 3.67814 3.87328 1.91524 3.40814 4.21013 2.93462 3.88072 2.80880 2.78883 2.74371 2.26908 3.49883 5.57422 4.21735 686 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18589 4.18774 1.86783 0.61958 0.77255 0.48576 0.95510\n- 585 2.86367 4.78833 3.36977 2.82780 3.89122 3.62132 3.76536 3.18255 1.53284 2.00588 3.82112 3.25340 4.02629 2.96733 2.56385 2.96522 3.08681 2.98576 5.23210 3.96707 687 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02680 4.02865 4.75099 0.61958 0.77255 0.65474 0.73309\n- 586 2.74460 4.45216 3.63461 3.22635 1.96452 3.55590 3.95433 2.94775 3.18968 2.51538 3.61816 3.52750 1.78460 3.48974 3.48303 2.96000 3.06124 2.77636 4.69404 3.21410 688 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02680 4.02865 4.75099 0.61958 0.77255 0.65474 0.73309\n- 587 2.93276 4.43498 4.33934 4.00976 3.66861 3.88295 4.78589 2.05507 3.87994 2.33010 3.61241 4.17383 4.43655 4.22961 4.07702 3.39825 3.29164 0.84865 5.47862 4.21888 689 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01812 4.01996 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f7_V-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12f7_V-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1721 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12f7_V-F_1\n-LENG 566\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:56 2020\n-NSEQ 4\n-EFFN 0.542969\n-CKSUM 829701125\n-GA 300 300;\n-STATS LOCAL MSV -11.9847 0.69746\n-STATS LOCAL VITERBI -13.0135 0.69746\n-STATS LOCAL FORWARD -6.0254 0.69746\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38435 3.93582 2.95735 2.73052 3.47908 2.78254 3.71838 2.94780 2.66639 2.54851 3.80683 3.19570 3.32711 3.12513 2.64371 2.62643 2.88988 2.62512 4.51185 3.55351\n- 2.68598 4.42261 2.77555 2.73072 3.46389 2.40507 3.72530 3.29288 2.67776 2.69335 4.24463 2.90382 2.73746 3.18182 2.89768 2.37902 2.77525 2.98517 4.58512 3.61539\n- 0.18173 1.85550 4.62582 2.41987 0.09314 0.00000 *\n- 1 2.60917 4.35810 3.51059 3.04738 3.46709 3.47147 3.97817 2.72697 2.92105 2.30931 2.00197 3.39787 2.61438 3.29788 3.22371 2.83435 2.91335 2.57484 5.03994 3.79733 20 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 2 2.23214 4.19965 3.14263 2.92999 4.28962 2.00917 4.11083 3.75675 3.07876 3.42740 4.25878 3.17035 3.65404 3.37144 3.41270 1.41715 2.71281 3.20272 5.61009 4.36543 21 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 3 2.62474 4.66089 3.16176 2.69444 4.16319 3.32085 3.71650 3.60543 2.27131 3.19456 4.06081 3.09866 3.84022 2.89865 1.68815 2.09491 2.92903 3.24820 5.34787 4.08095 22 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 4 2.83247 4.36629 4.16834 3.83223 3.57255 3.75609 4.62853 2.04830 3.70049 2.25407 3.53280 4.01714 4.31473 4.05797 3.91004 3.26142 3.19317 0.98671 5.36229 4.09591 23 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 5 2.97861 5.09649 2.50019 0.98211 4.44654 3.29380 3.88302 3.90658 2.76741 3.51862 4.49107 2.95002 3.89979 3.09789 3.17963 2.95772 3.28300 3.58714 5.61226 4.33427 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 6 3.18985 4.64282 4.23931 3.87911 3.14725 4.02162 4.52510 2.35277 3.64656 0.83796 3.16017 4.15159 4.45152 4.00747 3.81763 3.59581 3.48262 2.39819 5.03798 3.76852 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 7 2.84710 4.97246 2.97175 2.55525 4.06836 3.47048 2.05223 3.71206 1.77254 3.23927 4.11487 3.02489 3.91'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 559 3.04010 4.87747 3.53387 3.03822 4.23989 3.52242 3.84624 3.78357 2.24920 3.29385 4.29303 3.39569 4.02332 3.06485 0.93208 3.12265 3.30383 3.50613 5.31026 4.16031 578 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 560 2.86377 5.04597 2.88864 2.50888 4.36940 3.44753 3.62562 3.80254 1.85757 3.31118 4.18668 2.98914 3.90305 1.69819 2.39862 2.85744 3.08625 3.47749 5.43506 4.15743 579 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 561 3.00013 4.96553 3.17821 2.79364 4.35904 3.48646 3.77593 3.79020 0.99666 3.34843 4.30804 3.21681 3.98447 2.96552 2.43695 3.03998 3.25100 3.49618 5.40082 4.21797 580 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 562 2.98284 5.08411 3.36392 2.73809 4.51212 3.60122 3.58466 3.87151 1.34978 3.33681 4.21167 3.14696 3.98331 2.72499 1.71758 2.98592 3.16022 3.55730 5.39710 4.21676 581 k - - -\n- 2.68600 4.42234 2.77529 2.73132 3.46363 2.40501 3.72504 3.29363 2.67750 2.69336 4.24699 2.90356 2.73720 3.18156 2.89810 2.37896 2.77499 2.98528 4.58486 3.61512\n- 0.29657 1.85550 2.29995 1.27495 0.32773 0.48576 0.95510\n- 563 2.73377 4.92142 2.60833 2.36449 4.27101 3.27656 3.65151 3.74529 1.98908 3.31937 4.18451 1.89025 3.80870 2.82599 2.66564 2.73648 3.00798 3.39268 5.44722 4.10948 587 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03350 3.80865 4.53100 0.61958 0.77255 0.43782 1.03688\n- 564 2.99277 5.05591 3.39902 2.77385 4.47625 3.60568 3.59733 3.83938 1.66466 3.31599 4.20156 3.17140 3.99369 2.74363 1.36684 3.00602 3.17322 3.53368 5.38105 4.20651 588 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 565 0.97000 4.20726 3.49383 3.28633 4.08301 3.03102 4.30474 3.21315 3.30338 3.09335 4.12161 3.42818 3.77315 3.64166 3.55189 2.55721 2.83670 2.86219 5.50707 4.31072 589 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03043 3.90347 4.62582 0.61958 0.77255 0.48576 0.95510\n- 566 1.32446 4.13891 3.31507 3.07998 4.23361 1.98809 4.18204 3.57293 3.17654 3.32627 4.18696 3.25420 3.65996 3.46649 3.48036 2.38946 2.69689 3.07101 5.58126 4.37639 590 a - - -\n- 2.68623 4.42285 2.77519 2.73068 3.46414 2.40469 3.72554 3.29414 2.67801 2.69387 4.24750 2.90407 2.73684 3.18161 2.89827 2.37866 2.77519 2.98393 4.58537 3.61493\n- 0.17188 1.84566 * 2.91032 0.05600 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12g_V-G_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12g_V-G_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2354 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12g_V-G_1\n-LENG 777\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:56 2020\n-NSEQ 9\n-EFFN 0.725098\n-CKSUM 3067106738\n-GA 300 300;\n-STATS LOCAL MSV -12.6375 0.69630\n-STATS LOCAL VITERBI -13.2339 0.69630\n-STATS LOCAL FORWARD -6.6171 0.69630\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59326 4.09963 2.91481 2.59824 3.19420 3.08265 3.59176 2.95200 2.51981 2.49931 3.73614 3.03159 3.42670 2.99954 2.66810 2.72514 2.94458 2.75884 4.27107 3.45705\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11885 4.02760 2.36186 0.61958 0.77255 0.00000 *\n- 1 2.63293 4.46460 3.32366 2.79450 3.61711 3.49194 3.74724 2.98991 2.51207 2.65536 2.11308 2.89755 3.91291 3.01018 2.51489 2.79397 2.87908 2.75975 5.01667 3.75297 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02937 3.93812 4.66046 0.61958 0.77255 0.57311 0.82959\n- 2 2.58161 4.71769 2.92716 2.44181 3.96740 3.37112 3.10373 3.39587 2.42136 2.78298 3.84287 2.37296 3.22856 2.79975 2.84879 2.63066 2.56956 3.08036 5.25031 3.92413 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02937 3.93812 4.66046 0.61958 0.77255 0.57311 0.82959\n- 3 2.74135 4.77743 3.20621 2.71635 4.23014 3.40831 3.72547 3.66300 2.25013 3.22205 4.10355 3.13838 2.55616 2.90146 1.51702 2.80627 3.01610 3.32818 5.36515 4.13043 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02937 3.93812 4.66046 0.61958 0.77255 0.57311 0.82959\n- 4 2.42899 4.30439 3.31716 2.82200 3.72744 3.27401 3.84947 2.63748 2.77787 2.77423 3.65981 3.19269 3.10123 3.11433 3.14379 2.31891 2.00921 2.73376 5.13065 3.88101 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02937 3.93812 4.66046 0.61958 0.77255 0.57311 0.82959\n- 5 3.01828 5.06992 3.43166 2.80561 4.49381 3.62423 3.61745 3.85930 1.71778 3.33481 4.22467 3.19785 4.01485 2.76519 1.28015 3.03348 3.19932 3.55508 5.39572 4.22516 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02937 3.93812 4.66046 0.61958 0.77255 0.57311 0.82959\n- 6 3.34241 4.80480 3.93530 3.67706 2.29671 3.90671 3.65004 3.34250 3.53269 2.77949 4.01074 3.80461 4.37907 3.82297 3.70293 3.47255 3.62942 3.21617 3.94297 0.86326 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02937 3.93812 4.66046 0.61958 0.77255 0.57311 0.82959\n- 7 3.02269 5.10133 3.43745 2.78942 4.53735 3.63453 3.60093 3.89175 1.58355 3.35299 4.23350 3.18596 4.01'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02683 4.02760 4.74994 0.61958 0.77255 0.48576 0.95510\n- 770 2.77423 4.92356 1.98021 2.43684 4.58551 1.26350 3.96692 4.09929 2.98164 3.69346 4.56038 2.95198 3.86589 3.17546 3.47992 2.79507 3.14644 3.65056 5.79207 4.46433 793 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02683 4.02760 4.74994 0.61958 0.77255 0.48576 0.95510\n- 771 2.90563 5.30776 2.32217 1.20405 4.62724 3.27878 3.77401 4.12946 2.66547 3.67039 4.52889 2.36055 3.87247 2.94405 3.14961 2.83510 3.19192 3.73493 5.80934 4.37508 794 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02683 4.02760 4.74994 0.61958 0.77255 0.48576 0.95510\n- 772 3.15315 4.53224 4.55075 4.17449 3.48281 4.22980 4.87605 0.90417 4.00559 2.03994 3.39692 4.39841 4.64846 4.33951 4.18475 3.74231 3.45054 1.86237 5.40392 4.15390 795 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02683 4.02760 4.74994 0.61958 0.77255 0.48576 0.95510\n- 773 2.57230 4.53783 3.05550 2.18331 3.84157 2.89984 3.76743 3.12157 2.64652 2.87100 3.74492 3.08106 3.85272 2.98606 3.05730 2.68896 2.55850 2.09507 5.20694 3.92388 796 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02683 4.02760 4.74994 0.61958 0.77255 0.48576 0.95510\n- 774 3.33298 4.75069 4.43795 4.08099 3.20118 4.17772 4.68824 2.41629 3.84722 0.70535 3.18014 4.34136 4.58800 4.17826 3.99689 3.77042 3.62108 2.49343 5.13417 3.89247 797 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11810 4.02760 2.36898 0.61958 0.77255 0.48576 0.95510\n- 775 2.84060 4.58688 3.45495 3.30359 4.29301 3.27063 4.37557 3.85550 3.36656 3.47515 4.52786 3.60359 0.71298 3.75333 3.60456 3.01018 3.28740 3.49330 5.46136 4.41460 798 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02935 3.93885 4.66119 0.61958 0.77255 0.57245 0.83043\n- 776 2.60831 4.53855 3.08249 2.37139 3.79097 3.41488 3.77198 3.00041 2.59834 2.45066 3.70523 3.10864 3.87705 2.99659 2.96912 2.73567 1.95095 2.75555 5.18427 3.90433 799 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02935 3.93885 4.66119 0.61958 0.77255 0.57245 0.83043\n- 777 2.35516 4.81782 2.55063 2.36204 4.17974 3.30870 3.62057 3.61304 2.41032 3.18861 3.98977 2.88067 3.16279 2.76277 2.49487 2.25105 2.82385 3.24491 5.39950 4.04738 800 s - - -\n- 2.68591 4.42248 2.77521 2.73083 3.46377 2.40536 3.72476 3.29352 2.67749 2.69363 4.24616 2.90370 2.73711 3.18170 2.89780 2.37899 2.77527 2.98514 4.58500 3.61527\n- 0.29817 1.35546 * 1.68394 0.20535 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12h_V-H_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12h_V-H_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2717 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12h_V-H_1\n-LENG 898\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:57 2020\n-NSEQ 5\n-EFFN 0.717773\n-CKSUM 933578338\n-GA 300 300;\n-STATS LOCAL MSV -12.7045 0.69586\n-STATS LOCAL VITERBI -13.5769 0.69586\n-STATS LOCAL FORWARD -6.8071 0.69586\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59487 4.25314 2.89692 2.63821 3.26907 2.93747 3.75306 2.78182 2.53910 2.45743 3.71281 3.00062 3.52099 3.12884 2.87573 2.64120 2.93815 2.64318 4.61366 3.37353\n- 2.68640 4.42063 2.77542 2.73111 3.46376 2.40535 3.72516 3.29376 2.67763 2.69344 4.24557 2.90328 2.73762 3.18168 2.89742 2.37885 2.77542 2.98453 4.58499 3.61525\n- 0.43533 1.82927 1.64809 1.89414 0.16305 0.00000 *\n- 1 3.07652 4.52551 4.33110 3.79590 3.04072 4.18273 4.47901 2.16000 3.59186 1.22152 2.09966 4.10828 4.46640 3.87141 3.79752 3.52968 3.31612 2.22513 5.01706 3.84354 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81989 4.54223 0.61958 0.77255 0.66391 0.72327\n- 2 3.19296 4.61059 4.16627 3.87165 1.10192 3.89326 3.85653 2.72413 3.78021 2.10686 3.46277 3.96054 4.35376 3.96299 3.91291 3.46502 3.49444 2.71078 4.12290 2.49720 12 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81989 4.54223 0.61958 0.77255 0.66391 0.72327\n- 3 2.70535 4.56951 2.44908 2.67899 3.55743 3.44155 3.84399 2.82359 2.79333 1.70985 3.62207 3.14747 3.92979 3.12259 3.17749 2.84707 2.98005 2.64983 5.08767 3.74485 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81989 4.54223 0.61958 0.77255 0.66391 0.72327\n- 4 2.62240 4.48401 3.14920 2.77156 3.28621 3.36439 3.73919 3.13830 2.72586 2.76194 3.74092 3.17438 2.03800 3.11043 3.06363 2.75762 2.92206 2.89037 4.78666 2.59609 14 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81989 4.54223 0.61958 0.77255 0.66391 0.72327\n- 5 2.39389 4.36998 2.95039 2.68105 4.02573 3.08074 3.87227 3.37283 2.72901 3.11675 4.00490 2.44089 3.72076 3.10928 3.07746 2.52489 1.74275 2.99864 5.37302 4.07657 15 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81989 4.54223 0.61958 0.77255 0.66391 0.72327\n- 6 2.79693 4.55024 3.39353 2.95949 3.33728 3.61893 3.88281 2.72644 2.68462 1.55484 3.38283 3.36246 4.04525 2.58446 2.95855 2.98950 3.04983 2.64717 4.95898 3.64366 16 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81989 4.54223 0.61958 0.77255 0.66391 0.72327\n- 7 1.66708 4.46556 2.93888 2.63802 3.97517 3.17415 3.81357 3.31935 2.61061 2.99722 3.92602 3.04732 3.766'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18540 4.02289 1.88834 0.61958 0.77255 0.48576 0.95510\n- 891 2.23051 4.15901 3.29529 2.99167 4.07748 2.95950 4.06338 3.39237 2.99321 3.15843 4.03586 3.21201 3.67043 3.33506 3.30405 1.84573 1.64678 2.95772 5.45156 4.21013 984 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86900 4.59135 0.61958 0.77255 0.62673 0.76430\n- 892 2.85281 4.34738 4.00628 3.50450 2.84491 3.88290 3.98287 1.66251 3.34670 2.06817 3.25904 3.75773 4.24728 3.63953 3.57210 3.21078 3.09730 2.22420 4.52778 2.32697 985 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86900 4.59135 0.61958 0.77255 0.62673 0.76430\n- 893 2.78031 4.58980 3.37187 2.87647 3.60751 3.58478 3.80099 2.86347 1.99892 1.75057 3.58722 3.28498 4.00269 3.05255 2.71744 2.94190 3.01928 2.70427 5.07628 3.80311 986 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86900 4.59135 0.61958 0.77255 0.62673 0.76430\n- 894 2.65804 4.76281 2.91094 2.53922 4.23654 3.30695 3.68166 3.64907 1.62664 3.24167 4.10054 2.99369 3.82353 2.85285 2.58626 2.13615 2.94724 3.29271 5.40387 4.11598 987 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86900 4.59135 0.61958 0.77255 0.62673 0.76430\n- 895 2.72583 4.72163 1.83914 2.52901 2.44594 3.39266 3.71634 3.21795 2.75696 2.85161 3.84978 3.02317 3.88966 3.03135 3.19983 2.79336 2.99698 2.98393 4.91953 3.42333 988 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86900 4.59135 0.61958 0.77255 0.62673 0.76430\n- 896 2.04522 4.56514 2.96532 2.62871 3.73142 3.27682 2.10320 3.37744 2.56722 3.01682 3.92503 3.05923 3.82119 3.00530 2.90946 2.67934 2.89794 3.06400 5.12358 3.73324 989 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86900 4.59135 0.61958 0.77255 0.62673 0.76430\n- 897 2.56749 4.53740 3.02342 2.64442 3.74464 3.29636 2.60751 3.30863 2.54247 2.95918 3.86112 3.07220 3.82152 2.98875 2.88190 2.67469 1.90897 3.00539 5.12480 3.76592 990 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 3.86900 4.59135 0.61958 0.77255 0.62673 0.76430\n- 898 1.59476 4.17055 3.72462 3.33571 3.74846 3.24926 4.25528 2.48205 3.26409 2.58583 3.66921 3.51595 3.89768 3.58895 3.54030 2.67530 2.81999 1.79388 5.33554 4.10786 991 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 3.85881 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12i_V-I_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12i_V-I_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3146 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12i_V-I_1\n-LENG 1041\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:57 2020\n-NSEQ 6\n-EFFN 0.911133\n-CKSUM 473059685\n-GA 300 300;\n-STATS LOCAL MSV -12.8436 0.69549\n-STATS LOCAL VITERBI -13.7473 0.69549\n-STATS LOCAL FORWARD -7.1365 0.69549\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60880 4.37132 2.88027 2.63726 3.26579 3.03643 3.69942 2.82535 2.50514 2.49911 3.70564 2.93475 3.54682 3.03446 2.85845 2.64206 2.88343 2.71617 4.40316 3.36625\n- 2.68635 4.42242 2.77537 2.73105 3.46371 2.40530 3.72512 3.29371 2.67724 2.69372 4.24544 2.90301 2.73757 3.18163 2.89798 2.37867 2.77537 2.98513 4.58494 3.61479\n- 0.40432 1.54799 2.12112 1.39199 0.28579 0.00000 *\n- 1 2.76940 4.59088 3.42727 2.89427 3.68295 3.60655 3.82526 2.95411 1.98159 2.56374 1.94502 3.30475 4.01567 3.06921 2.77336 2.93063 3.00687 2.77795 5.12224 3.87902 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02700 4.02127 4.74361 0.61958 0.77255 0.61140 0.78217\n- 2 2.61736 4.33918 3.49829 2.97385 3.48365 3.56437 3.90850 2.63926 2.89018 2.45541 2.46672 2.50508 3.98591 3.23124 3.22486 2.85361 2.87589 2.02725 4.98721 3.73754 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02700 4.02127 4.74361 0.61958 0.77255 0.41452 1.08074\n- 3 1.96773 4.33019 3.47714 2.98862 3.80000 3.31117 3.98477 3.09994 2.93934 2.83923 2.65387 3.31837 3.87407 3.26681 3.28972 1.68702 2.82106 2.80526 5.22154 3.98006 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 4 2.83997 5.29919 2.03428 1.82604 4.63553 3.31330 3.75715 4.12049 2.66752 3.64127 4.45255 2.80290 3.86711 2.90517 3.20734 1.65891 3.11334 3.70675 5.81347 4.36791 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 5 2.76886 5.11176 2.54615 1.87792 4.50775 3.32276 3.75678 3.97506 2.60923 3.52068 4.33423 2.34539 3.86154 2.90829 3.09593 1.68481 3.04989 3.57368 5.70050 4.30017 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 6 2.08293 4.29520 3.74212 3.24931 3.70030 3.47585 4.15719 2.16614 3.17581 2.62652 3.62390 3.53439 4.01831 3.49221 3.48638 2.83215 1.66597 2.37726 5.22194 4.00044 11 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 7 2.86465 4.48847 3.87188 3.31220 3.55607 3.81125 4.09140 1.39719 2.86491 2.39643 3.51084 3.64539 4.21'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02647 4.04094 4.76329 0.61958 0.77255 0.59266 0.80487\n- 1034 3.08452 5.19530 3.48846 2.82439 4.65783 3.68954 3.63385 4.00522 1.17583 3.44106 4.31427 3.22363 4.05983 2.76871 1.72346 3.07808 3.24988 3.68637 5.47520 4.31200 1133 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18993 4.04094 1.86174 0.61958 0.77255 0.59266 0.80487\n- 1035 2.71951 4.56804 3.26414 2.80088 3.58099 3.54474 3.81731 2.20872 2.58629 2.46668 3.55988 3.23649 3.97379 2.05659 2.90137 2.87500 2.97081 2.65602 5.08914 3.79159 1134 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88210 4.60445 0.61958 0.77255 0.72599 0.66135\n- 1036 1.76287 4.58597 3.00881 2.63470 4.09803 3.26981 3.76586 3.38721 1.93156 3.09068 3.98188 3.06081 3.81447 2.96082 2.76850 2.66760 2.89089 3.06182 5.36334 4.09325 1135 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88210 4.60445 0.61958 0.77255 0.72599 0.66135\n- 1037 3.16593 4.62526 4.20500 3.84475 3.13914 3.99447 4.49746 2.34355 3.61241 0.86343 3.15882 4.11931 4.42808 3.97844 3.78696 3.56625 3.45968 2.38341 5.02207 3.74766 1136 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88210 4.60445 0.61958 0.77255 0.72599 0.66135\n- 1038 1.74053 4.55561 2.92642 2.60413 4.03848 3.22573 3.79239 3.40009 2.56462 3.05644 3.96717 3.03660 3.79413 2.21493 2.91471 2.63565 2.87299 3.07240 5.35838 4.06203 1137 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88210 4.60445 0.61958 0.77255 0.72599 0.66135\n- 1039 2.81115 4.66313 3.47861 2.89558 3.68270 3.58855 3.74660 3.06072 2.29837 2.03104 3.68800 3.28559 3.99781 2.97953 1.75202 2.94406 3.04368 2.88803 5.08570 3.80654 1138 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88210 4.60445 0.61958 0.77255 0.72599 0.66135\n- 1040 2.41764 4.26278 3.43638 3.18865 3.97712 3.10179 4.20527 3.10542 3.13182 2.96857 4.01836 3.39660 3.80625 3.52613 3.39014 2.61900 1.15569 2.79937 5.41407 4.19371 1139 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88210 4.60445 0.61958 0.77255 0.72599 0.66135\n- 1041 2.65553 4.76266 2.91348 2.54061 4.24023 3.30741 3.68710 3.65399 1.64348 3.24618 4.10291 2.99586 3.82469 2.85788 2.60197 2.08950 2.94597 3.29556 5.40991 4.12064 1140 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02104 3.87205 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12k_V-K_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas12k_V-K_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1937 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas12j_V-J_1\n-LENG 638\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:58 2020\n-NSEQ 105\n-EFFN 1.714325\n-CKSUM 4042500117\n-GA 450 280;\n-STATS LOCAL MSV -12.3614 0.69697\n-STATS LOCAL VITERBI -12.9253 0.69697\n-STATS LOCAL FORWARD -6.5928 0.69697\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54315 4.40235 3.02688 2.55622 3.49319 3.22666 3.69022 2.87501 2.48035 2.42753 3.77114 3.04098 3.54892 2.78504 2.79149 2.63425 2.81906 2.78875 4.21856 3.52856\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13973 4.51863 2.12442 0.61958 0.77255 0.00000 *\n- 1 2.71855 4.52495 3.36987 2.79876 3.72172 3.32258 3.90411 3.07689 2.70000 2.78003 1.52386 3.09360 4.02656 3.18769 3.15187 2.89530 2.71051 2.83388 5.12735 3.88366 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01846 4.39735 5.11970 0.61958 0.77255 0.66725 0.71973\n- 2 2.54916 4.77044 3.12826 2.58025 3.80809 3.51296 3.58430 3.33874 2.56761 3.03377 3.86575 2.94608 3.71164 2.77368 3.01401 1.56729 2.78518 3.05347 5.30483 3.82623 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01846 4.39735 5.11970 0.61958 0.77255 0.55481 0.85375\n- 3 2.67243 4.27716 3.76965 3.08531 3.27548 3.70468 3.57461 2.30272 3.05738 2.16230 2.83786 3.28692 4.07990 2.43438 3.41890 2.96610 2.78044 2.21479 4.39456 3.59345 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01761 4.44370 5.16605 0.61958 0.77255 0.60424 0.79074\n- 4 2.72695 4.56233 3.44570 2.79744 3.72887 3.64584 3.85203 1.74534 2.28911 2.78017 3.65953 3.25018 4.02495 3.11143 2.48798 2.86269 2.87380 2.71176 5.11531 3.65133 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01761 4.44370 5.16605 0.61958 0.77255 0.60424 0.79074\n- 5 2.52159 4.43919 4.01787 3.74049 4.37573 3.32674 4.66419 3.38569 3.64732 3.32242 4.33747 3.78410 4.08000 3.99444 3.87927 2.79877 0.71212 2.87087 5.87069 4.65817 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01761 4.44370 5.16605 0.61958 0.77255 0.60424 0.79074\n- 6 3.40733 4.65285 5.32493 4.80286 3.27098 4.86354 5.35048 0.85565 4.70346 1.95741 3.44374 4.97100 5.08117 4.85691 4.81966 4.24741 3.65154 1.59521 5.67128 4.50719 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01761 4.44370 5.16605 0.61958 0.77255 0.60424 0.79074\n- 7 2.70269 4.33392 3.01782 2.35874 4.35721 3.49567 3.29726 3.80178 2.32584 3.16523 3.99945 2.98908 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03898 4.51013 3.60344 0.61958 0.77255 0.50041 0.93213\n- 631 2.69728 3.98933 3.82091 3.33170 2.97887 3.75093 4.02524 2.71691 3.17273 2.30722 3.36673 3.63002 4.12521 3.29237 3.50128 2.84011 2.79257 2.42260 4.83216 1.63014 631 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01684 4.48799 5.21034 0.61958 0.77255 0.53700 0.87828\n- 632 2.65046 4.69874 2.75779 2.31101 4.45331 3.47838 3.08324 3.82046 2.25134 3.26349 4.18389 2.74982 3.42899 2.07437 2.84475 2.64386 2.69908 3.28147 5.58536 3.54456 632 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10416 4.48799 2.43407 0.61958 0.77255 0.53700 0.87828\n- 633 2.43434 3.90713 2.74704 2.21610 4.15009 3.46900 3.66432 3.74533 2.35967 3.04850 4.07445 2.61587 3.86103 2.77063 2.76859 2.11959 2.69479 3.37411 5.48830 3.98948 633 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40220 5.12454 0.61958 0.77255 0.66098 0.72638\n- 634 2.56370 4.90587 3.19887 2.62228 3.91071 3.57020 3.73469 3.47924 2.33149 2.96674 3.99235 2.89722 3.95788 2.89058 1.48723 2.72133 2.98371 3.25337 5.39027 4.08943 634 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08450 4.40220 2.67692 0.61958 0.77255 0.66098 0.72638\n- 635 2.59711 4.90567 3.02643 2.41890 4.16016 3.34146 3.50973 3.12918 2.21372 2.62328 3.97217 2.72814 3.86442 2.23381 2.81614 2.64894 2.71446 3.14484 5.39530 4.05068 635 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04531 4.33731 3.46658 0.61958 0.77255 0.73959 0.64877\n- 636 2.25571 4.50012 3.05875 2.42166 4.04747 3.47867 3.47948 3.24237 2.24840 2.86668 3.88925 2.60305 3.86819 2.76995 2.92723 2.36515 2.81283 2.83288 5.32374 3.99506 636 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04049 4.31212 3.63904 0.61958 0.77255 0.76725 0.62416\n- 637 2.01805 4.70612 3.12396 2.56518 3.61475 3.42183 3.71123 3.25019 2.37249 2.95292 3.79049 2.88902 3.73518 2.89351 2.77066 2.47078 2.56706 2.80066 5.23605 3.84086 637 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14244 4.29215 2.12789 0.61958 0.77255 0.75588 0.63412\n- 638 2.49960 4.13867 3.25023 2.62069 3.58849 3.51651 3.74593 2.76007 2.42055 2.39169 3.56728 2.99321 3.90056 2.70065 2.92546 2.54667 2.83431 2.54830 5.05596 3.69888 638 l - - -\n- 2.68626 4.42233 2.77520 2.73132 3.46355 2.40511 3.72495 3.29331 2.67732 2.69363 4.24698 2.90352 2.73733 3.18142 2.89805 2.37881 2.77516 2.98519 4.58485 3.61511\n- 0.66018 0.72723 * 0.12415 2.14773 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13a_VI-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13a_VI-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,518 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas13a_VI-A_1\n-LENG 165\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:58 2020\n-NSEQ 24\n-EFFN 2.979492\n-CKSUM 282309092\n-GA 25 25;\n-STATS LOCAL MSV -10.2169 0.70794\n-STATS LOCAL VITERBI -11.2050 0.70794\n-STATS LOCAL FORWARD -4.2579 0.70794\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68066 4.53938 2.89271 2.63656 3.25107 3.28877 3.54666 2.77030 2.48815 2.35856 3.60554 2.80030 3.87765 3.09197 2.80410 2.71646 2.93515 2.73869 4.94708 3.14596\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.00000 *\n- 1 2.57270 5.37113 3.11073 1.59683 4.71702 3.63953 3.82286 4.19681 2.12199 3.67221 4.41400 2.42289 4.03489 2.78941 2.29023 2.83760 2.57316 3.76274 5.79891 4.39680 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 2 3.29210 4.98178 4.09327 3.53211 1.66468 4.18982 3.05991 3.52357 2.75011 3.13591 4.09657 3.86336 4.55236 3.69438 2.39583 3.45781 3.51406 3.30968 4.72186 1.38215 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 3 2.49991 5.28827 3.13489 2.57941 3.58426 3.63984 3.82745 4.06877 2.29543 3.57998 4.33814 1.83604 4.03276 2.02021 2.69521 2.83433 2.51154 3.66423 5.73710 4.34869 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 4 2.85485 5.12862 3.21369 2.43133 3.42456 3.66916 3.07738 3.81915 1.97635 3.39607 4.19287 3.18170 4.05937 2.53898 2.37982 2.86911 3.08544 3.06189 2.53889 3.30735 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 5 1.93153 4.37378 4.28102 3.69551 3.47247 3.97226 3.30390 2.23995 3.02964 1.39456 2.97354 3.92774 4.34138 3.81116 3.77150 3.25536 3.11223 2.61796 4.98278 3.78922 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 6 2.59360 5.17965 2.61117 2.64178 4.45838 3.66822 3.86037 3.24400 1.42861 3.45295 4.24185 3.17199 4.05988 2.98690 2.65427 2.86939 3.09603 2.37458 5.65566 4.29681 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 7 2.90605 5.21689 2.65536 2.64042 4.49131 3.05237 3.26274 2.45577 2.69808 3.49688 4.29090 1.43410 4.0862'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 158 2.37838 3.26426 3.84189 3.27190 3.65182 3.86438 3.32050 2.67803 3.21495 2.73080 2.78814 3.64724 4.24306 3.00030 3.54103 1.50274 3.09261 2.55707 5.11357 3.89012 195 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 159 3.32022 4.64641 5.27148 4.67519 2.95580 4.56450 4.91351 1.57434 4.49220 1.13432 2.83534 4.71780 4.85620 4.58077 4.50554 3.89421 2.78971 2.03089 5.30452 4.17826 196 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 160 2.56321 4.46366 3.96709 2.42928 2.90905 3.89651 4.17074 2.03607 2.39761 2.38766 3.57282 3.73041 4.27158 3.59606 3.61411 3.15848 2.61787 2.29989 5.06111 2.84138 197 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 161 3.04230 5.58822 1.74181 2.06488 4.92036 3.66804 3.95914 4.41831 1.83961 3.88739 4.64367 1.92525 4.13329 3.07155 3.27416 2.98054 2.73013 3.97406 6.01753 4.57916 198 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 162 2.93091 4.35549 4.57965 3.98515 3.44945 3.25322 4.39259 1.26790 3.82502 2.04715 2.88296 4.12181 4.43422 4.02425 2.64104 3.37180 3.16360 2.19749 4.99234 3.80952 199 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 163 3.05374 4.51131 4.46289 3.32431 2.08957 3.43176 4.42109 2.84114 3.82389 0.94900 3.49922 4.13439 4.50976 4.03762 3.98108 3.45296 3.29080 2.70886 5.01783 3.76182 200 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 164 2.34987 5.35340 1.86720 2.29887 4.68079 3.63359 3.83953 4.15680 1.99362 2.39203 4.40092 2.85496 4.03879 2.94389 3.08256 2.59499 3.11083 3.73490 5.79567 4.39116 201 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92158 5.64393 0.61958 0.77255 0.48576 0.95510\n- 165 2.87588 5.38379 2.25758 2.17339 4.73225 3.63615 3.22022 4.21576 1.70438 3.68658 4.42566 3.10304 4.03369 2.63676 2.12149 2.59149 3.10624 3.77670 5.81012 4.40365 202 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00734 4.91803 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13b_VI-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13b_VI-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3317 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas13b_VI-B_1\n-LENG 1098\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:58 2020\n-NSEQ 28\n-EFFN 3.045410\n-CKSUM 1809325517\n-GA 410 230;\n-STATS LOCAL MSV -13.0572 0.69537\n-STATS LOCAL VITERBI -14.2285 0.69537\n-STATS LOCAL FORWARD -7.0088 0.69537\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68202 4.58918 2.90170 2.48527 3.11966 3.25154 3.62278 2.92520 2.40466 2.43616 3.69008 2.89898 3.54062 2.94275 2.82131 2.71504 2.89350 2.90032 4.76682 3.33122\n- 2.68628 4.42235 2.77529 2.73133 3.46364 2.40523 3.72504 3.29326 2.67751 2.69365 4.24204 2.90330 2.73749 3.18156 2.89811 2.37897 2.77529 2.98528 4.58487 3.61513\n- 0.96148 1.33211 1.03915 0.10938 2.26708 0.00000 *\n- 1 2.70346 4.53848 3.41863 2.85566 3.69536 3.63575 3.87147 2.71508 2.69366 2.49513 2.12396 2.74030 4.01895 2.82245 3.19824 2.28917 2.93492 2.82255 5.10343 3.84794 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01652 4.50751 5.22985 0.61958 0.77255 0.90054 0.52147\n- 2 2.74652 5.08480 3.05260 2.25093 4.37081 3.53997 3.73683 3.81236 2.00270 3.36392 2.93895 2.66868 3.93517 2.86000 2.96190 2.49601 1.99631 3.44407 5.55675 4.19108 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60086 5.32321 0.61958 0.77255 0.80087 0.59591\n- 3 2.76144 5.02464 3.12430 1.95727 4.28140 3.57868 3.77791 3.10208 2.20644 3.29092 3.06413 2.49878 3.96941 2.68473 3.02920 2.77877 2.70846 2.58411 5.51397 4.16454 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06215 4.68937 2.97457 0.61958 0.77255 0.45911 0.99925\n- 4 2.80579 3.68456 2.64312 2.07222 4.57373 3.58932 3.77936 3.47886 2.29226 3.54841 2.85788 2.58447 2.81411 2.61850 3.01291 2.40977 3.03699 3.63096 5.70216 4.30701 5 e - - -\n- 2.68598 4.42243 2.77538 2.73050 3.46372 2.40502 3.72513 3.29372 2.67738 2.69373 4.24548 2.90365 2.73758 3.18120 2.89819 2.37905 2.77512 2.98536 4.58495 3.61521\n- 0.56324 0.97803 2.90800 0.39611 1.11759 0.49706 0.93729\n- 5 2.50063 5.29368 2.45219 2.15607 3.28853 3.59240 3.78120 4.10271 2.30245 3.59341 3.68648 2.73044 3.98582 2.44710 3.01189 2.21363 2.47900 3.67733 5.73420 4.33113 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01178 4.84305 5.56539 0.61958 0.77255 0.70246 0.68392\n- 6 2.82377 5.29088 3.08822 1.98839 4.62119 3.60171 3.78720 3.02178 2.03523 3.58796 4.33631 2.94074 3.99454 2.67869 2.39828 2.21302 2.39347 3.67375 5.73075 4.33331 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01178 4.84305 5.56539 0.61958 0.77255 0.70246 0.68392\n- 7 2.82551 5.11142 3.17734 1.89955 4.37719 3.63669 3.83063 2.88941 2.00214 2.46402 4.17456 2.99919 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05352 4.85437 3.11641 0.61958 0.77255 0.68011 0.70635\n- 1091 2.32430 4.63137 3.54561 2.47234 2.72060 3.75065 3.98979 2.77082 2.16253 2.85030 2.85911 3.42529 4.13286 3.26658 3.02505 2.98337 2.48998 2.46655 5.19930 3.94579 1256 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01214 4.81299 5.53534 0.61958 0.77255 0.75832 0.63196\n- 1092 2.82686 4.22898 4.62036 4.01612 2.25209 3.97732 4.30104 2.07264 3.19442 1.73480 2.82742 4.08178 4.34156 3.99909 2.91998 3.28115 3.05888 2.12217 4.84683 3.12046 1257 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01214 4.81299 5.53534 0.61958 0.77255 0.75832 0.63196\n- 1093 2.57859 5.28817 2.66595 1.84391 4.62229 2.44168 3.76970 3.20233 2.09308 3.58857 3.75767 3.05302 3.97484 2.67965 2.66825 2.77168 3.03547 3.67294 5.72722 4.32326 1258 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01214 4.81299 5.53534 0.61958 0.77255 0.75832 0.63196\n- 1094 2.93979 5.35791 3.22963 2.64991 4.71679 3.69508 3.82617 4.16371 1.30089 3.64071 4.40854 2.88662 4.07950 2.45554 2.29340 2.44729 3.15836 3.06667 5.75835 4.40798 1259 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20875 4.81299 1.71324 0.61958 0.77255 0.75832 0.63196\n- 1095 2.74489 4.46989 3.61429 2.63258 3.60817 3.72022 3.96881 2.01873 2.97945 1.96256 3.57176 3.45233 4.09929 2.95968 2.66084 2.69651 2.97604 2.45151 5.05049 3.81639 1260 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01476 4.61900 5.34134 0.61958 0.77255 0.87991 0.53584\n- 1096 2.78103 4.32995 4.00914 2.87125 3.43641 3.84220 4.12436 1.71158 3.32343 2.02353 2.53394 3.72579 4.21289 3.59408 2.76148 3.11474 2.66799 2.55469 4.93697 3.73468 1261 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05296 4.66992 3.16519 0.61958 0.77255 0.97133 0.47575\n- 1097 2.75892 5.22022 3.01104 1.77783 4.54947 3.53147 3.71844 3.28779 2.37267 3.51563 4.26681 2.28732 3.92648 2.34449 2.58891 2.72931 2.62762 3.60267 5.65936 4.26440 1262 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07382 4.63154 2.78992 0.61958 0.77255 1.01723 0.44878\n- 1098 2.47200 5.13393 3.00900 2.15002 4.44009 3.14850 3.70340 3.00361 2.10234 3.42217 4.18552 2.59583 3.61538 2.25277 2.93786 2.70551 2.95439 3.04271 5.59047 4.20506 1263 k - - -\n- 2.68615 4.42269 2.77564 2.73075 3.46398 2.40545 3.72539 3.29278 2.67727 2.69361 4.24411 2.90302 2.73732 3.18126 2.89834 2.37881 2.77527 2.98562 4.58521 3.61547\n- 0.57780 0.82355 * 1.28472 0.32397 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13b_VI-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13b_VI-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3410 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas13b_VI-B_2\n-LENG 1129\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:59 2020\n-NSEQ 5\n-EFFN 0.874023\n-CKSUM 3340319784\n-GA 300 300;\n-STATS LOCAL MSV -13.0652 0.69531\n-STATS LOCAL VITERBI -14.2926 0.69531\n-STATS LOCAL FORWARD -6.9203 0.69531\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69204 4.53680 2.88326 2.58367 3.02688 3.23991 3.63354 2.75989 2.46939 2.38029 3.70066 2.86253 3.62645 3.05897 2.99157 2.73728 2.95972 2.76793 4.71508 3.17800\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15743 3.98676 2.06274 0.61958 0.77255 0.00000 *\n- 1 2.96036 4.51094 4.03724 3.62991 3.20290 3.82559 4.36769 2.37737 3.39858 1.79935 1.39991 3.90879 4.28619 3.78124 3.60522 3.30825 3.26547 2.38215 5.04217 3.80290 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03176 3.86109 4.58344 0.61958 0.77255 0.59989 0.79601\n- 2 2.82026 5.12229 2.54556 1.65394 4.45129 3.32738 3.63445 3.86544 1.87614 3.40433 4.25808 2.83490 3.83465 2.78763 2.65582 2.78143 3.06299 3.51375 5.55205 4.21590 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03176 3.86109 4.58344 0.61958 0.77255 0.59989 0.79601\n- 3 2.46883 4.50617 2.81779 2.56989 4.12638 3.12139 3.83323 3.51178 2.67805 3.21545 4.09054 1.87359 3.74411 3.04686 3.05530 2.56719 2.13970 3.12721 5.44146 4.11969 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03176 3.86109 4.58344 0.61958 0.77255 0.59989 0.79601\n- 4 2.47910 4.31340 3.34966 2.95389 3.57013 3.27468 3.92794 2.90363 2.85584 2.04580 3.66936 3.27854 3.85131 3.24662 3.16503 1.80528 2.83524 2.66250 5.07513 3.74717 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03176 3.86109 4.58344 0.61958 0.77255 0.59989 0.79601\n- 5 1.89559 4.46978 2.79949 2.58364 4.16241 3.07919 3.87170 3.54946 2.75206 3.26101 4.13513 1.83601 3.72806 3.09183 3.13583 2.54269 2.83305 3.14392 5.48373 4.16208 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03176 3.86109 4.58344 0.61958 0.77255 0.59989 0.79601\n- 6 2.76444 4.97586 2.66124 2.38738 4.33112 3.31908 3.65081 3.79541 1.85261 3.35070 4.20692 1.92497 3.83317 2.81557 2.62419 2.75989 3.02686 3.43968 5.47342 4.14378 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03176 3.86109 4.58344 0.61958 0.77255 0.59989 0.79601\n- 7 2.61040 4.47198 3.13533 2.75702 3.61995 3.40309 3.83638 2.20278 2.71799 2.69094 3.68914 2.08389 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98676 4.70911 0.61958 0.77255 0.48576 0.95510\n- 1122 2.86182 5.22662 2.34167 1.81631 4.55187 3.26499 3.75124 4.04923 2.62712 3.59981 4.45677 1.55126 3.85142 2.92261 3.09807 2.80429 3.14817 3.66167 5.74452 4.32320 1204 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98676 4.70911 0.61958 0.77255 0.48576 0.95510\n- 1123 2.66081 4.87972 2.73827 2.39682 4.25547 3.32089 3.68093 3.69039 2.43542 3.27009 4.09817 2.08760 3.81648 2.29171 2.84721 2.67712 2.36342 3.32914 5.46760 4.12324 1205 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98676 4.70911 0.61958 0.77255 0.48576 0.95510\n- 1124 3.05925 4.40131 4.70344 4.21295 3.55443 4.35952 4.94551 1.48601 4.09424 2.07510 3.37327 4.43915 4.69827 4.37396 4.30399 3.74827 3.33217 1.07430 5.50149 4.28579 1206 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98676 4.70911 0.61958 0.77255 0.48576 0.95510\n- 1125 3.08856 4.41978 4.74808 4.25826 3.52038 4.40068 4.97587 1.15029 4.13535 2.01402 3.33325 4.48264 4.72449 4.40454 4.33490 3.79220 3.35851 1.39229 5.49470 4.29051 1207 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98676 4.70911 0.61958 0.77255 0.48576 0.95510\n- 1126 2.62586 4.61943 3.12329 2.62854 3.88167 3.42355 3.70929 3.24884 2.08335 2.37264 3.79394 3.08509 3.86662 2.91205 2.78629 2.04608 2.88223 2.96854 5.19937 3.91352 1208 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98676 4.70911 0.61958 0.77255 0.48576 0.95510\n- 1127 2.26211 4.95584 2.94637 2.48554 4.31245 3.43286 3.62948 3.70897 1.72231 3.25731 4.09018 2.97822 3.86658 2.28175 2.54253 2.75143 2.97448 3.36728 5.42837 4.13283 1209 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98676 4.70911 0.61958 0.77255 0.48576 0.95510\n- 1128 2.73108 4.86124 2.98093 2.58414 4.34380 3.37640 3.70741 3.75771 1.43421 3.32604 4.17847 3.04014 3.87875 2.86886 2.56442 2.19114 3.00954 3.39489 5.46795 4.18591 1210 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15769 3.98676 2.06102 0.61958 0.77255 0.48576 0.95510\n- 1129 2.76698 5.11686 1.97361 2.23358 4.43570 3.26852 3.64995 3.89381 1.72108 3.44097 4.27977 2.78172 3.79751 2.80454 2.86791 2.72327 3.02754 3.51981 5.58911 4.20738 1211 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02150 3.85057 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13c_VI-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13c_VI-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3305 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas13c_VI-C_1\n-LENG 1094\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:59 2020\n-NSEQ 7\n-EFFN 1.028809\n-CKSUM 253023100\n-GA 221.9 121.0;\n-STATS LOCAL MSV -13.2988 0.69538\n-STATS LOCAL VITERBI -14.1102 0.69538\n-STATS LOCAL FORWARD -7.0599 0.69538\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.78775 4.58623 2.84007 2.49568 3.19533 3.28756 3.74158 2.69407 2.34644 2.41914 3.67714 2.79510 3.85414 3.06490 2.92303 2.74439 2.96375 2.75222 5.03997 3.24770\n- 2.68630 4.42237 2.77531 2.73112 3.46366 2.40504 3.72506 3.29366 2.67726 2.69367 4.24490 2.90358 2.73751 3.18158 2.89779 2.37879 2.77531 2.98530 4.58489 3.61515\n- 0.65783 1.20603 1.70024 0.83461 0.56924 0.00000 *\n- 1 2.83237 5.15343 2.91513 1.74357 4.52050 3.47712 3.61214 3.93182 1.88645 3.41362 4.22887 2.96503 3.89610 2.73895 2.06349 2.80273 3.04354 3.56487 5.52307 4.22399 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02676 4.03020 4.75255 0.61958 0.77255 0.67207 0.71468\n- 2 2.66128 4.92384 2.83451 1.95329 4.19352 3.39828 3.62232 2.91179 2.11263 3.18780 4.00153 2.51096 3.82065 2.76504 2.79152 2.66725 2.89374 3.26603 5.39898 4.05545 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02676 4.03020 4.75255 0.61958 0.77255 0.51969 0.90314\n- 3 2.70791 4.56438 3.37672 2.81111 2.87758 3.60450 3.79255 2.96859 1.71707 2.56435 2.88739 3.25407 3.98512 3.05398 2.97248 2.85811 2.93731 2.77754 5.02492 3.71973 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02441 4.12070 4.84304 0.61958 0.77255 0.58427 0.81535\n- 4 2.11360 4.74395 3.03528 2.50650 4.05675 2.84707 2.98025 3.46815 2.45140 3.07723 3.89904 3.00329 3.83168 2.83799 2.50874 2.65053 2.49131 3.13923 5.32004 4.00366 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02441 4.12070 4.84304 0.61958 0.77255 0.58427 0.81535\n- 5 3.14158 5.24863 3.54012 2.87571 4.72347 3.73477 3.67453 4.06973 1.04518 3.49689 4.37277 3.27081 4.10609 2.80914 1.82530 3.13305 3.30486 3.75017 5.52116 4.36429 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02441 4.12070 4.84304 0.61958 0.77255 0.58427 0.81535\n- 6 2.68851 4.98940 2.87762 2.41587 4.33008 3.41054 3.64676 3.76464 2.09070 3.30699 4.10651 2.93674 2.58045 2.23845 2.75814 2.28670 2.92883 3.39488 5.48358 4.13857 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02441 4.12070 4.84304 0.61958 0.77255 0.58427 0.81535\n- 7 2.95096 4.94294 2.87852 2.79292 4.34794 3.36819 4.15244 4.12015 3.08172 3.74034 4.69971 0.78352 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1087 2.48628 2.15173 3.96482 3.45189 3.44716 3.43736 4.14208 2.06293 3.32768 2.46424 3.43703 3.61886 3.97988 3.60422 3.55502 2.31622 2.82215 2.29944 4.97810 3.76540 1180 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1088 2.96655 4.55047 3.81224 3.32222 1.62365 3.86693 3.63451 3.01995 3.21734 2.54920 3.61169 3.58071 4.23071 2.49139 3.48745 3.15938 3.19592 2.85664 4.09267 2.05599 1181 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1089 2.57228 4.67465 2.71273 2.54306 4.33964 3.15519 3.91084 3.88836 2.79748 3.50461 4.35284 1.42721 3.80694 3.11925 3.20674 2.11550 2.96157 3.43052 5.62972 4.26014 1182 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1090 3.15951 4.45911 4.86122 4.33116 3.42124 4.52390 4.98241 1.25440 4.21533 1.63247 3.21940 4.56411 4.77501 4.42595 4.38847 3.88981 3.40581 1.49649 5.42101 4.26412 1183 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1091 2.83844 5.19246 2.14749 2.33014 4.53128 3.35966 3.70135 3.98972 1.40515 3.51637 4.34807 2.87159 3.87177 2.84887 2.83338 2.79482 3.09126 3.60969 5.64450 4.27815 1184 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1092 3.05382 4.39114 4.72008 4.17361 2.41386 4.32331 4.66330 1.39619 4.05803 1.83088 3.13755 4.36317 4.60339 4.22594 4.20119 3.66521 3.29412 1.64273 5.09670 3.86952 1185 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1093 2.65217 4.32058 3.60469 3.04936 3.50567 3.64661 3.95086 1.89907 2.48242 2.45530 3.43600 3.43214 4.03944 3.27928 3.23541 2.92416 2.47341 2.11553 5.00846 3.78012 1186 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 4.02884 4.75118 0.61958 0.77255 0.58479 0.81469\n- 1094 2.86012 4.35573 4.07282 3.53765 2.84726 3.90319 3.97508 2.46716 3.39553 1.86004 3.28691 3.77719 4.25888 3.65634 3.61804 3.20786 3.09834 1.95662 4.50835 1.91158 1187 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01811 4.02016 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13d_VI-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13d_VI-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2816 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas13d_VI-D_1\n-LENG 931\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:00 2020\n-NSEQ 36\n-EFFN 1.489746\n-CKSUM 2017735627\n-GA 300 300;\n-STATS LOCAL MSV -12.7475 0.69577\n-STATS LOCAL VITERBI -13.8076 0.69577\n-STATS LOCAL FORWARD -6.7167 0.69577\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61630 4.52075 2.87997 2.56828 3.21126 3.23520 3.69981 2.80202 2.44851 2.45205 3.61519 2.85314 3.75664 3.01302 2.88760 2.70617 2.89306 2.75296 5.03944 3.20830\n- 2.68575 4.42236 2.77530 2.73120 3.46364 2.40514 3.72505 3.29364 2.67740 2.69365 4.24436 2.90357 2.73750 3.18157 2.89811 2.37897 2.77530 2.98513 4.58487 3.61514\n- 0.63673 1.42173 1.47106 0.67704 0.70952 0.00000 *\n- 1 2.74338 4.85263 3.09583 2.23948 4.09173 3.52177 3.69492 3.45916 1.82724 3.06614 2.31193 3.07036 3.92205 2.86030 2.71377 2.79060 2.96647 3.16988 5.33237 4.04294 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02315 4.17297 4.89532 0.61958 0.77255 0.72593 0.66140\n- 2 2.49946 4.81731 3.03464 2.49365 4.14155 2.95952 3.67999 3.55713 1.80364 3.15201 3.56114 2.99947 3.84265 2.82759 2.88251 2.27909 2.64895 3.21379 5.38006 4.05063 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02240 4.20550 4.92785 0.61958 0.77255 0.75957 0.63087\n- 3 2.83727 5.11876 2.93624 2.52183 4.52930 3.48418 3.71324 3.94698 1.42597 3.46441 4.28183 2.15717 3.93940 2.84837 2.63653 2.82642 2.78148 3.57136 5.59513 4.28122 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02240 4.20550 4.92785 0.61958 0.77255 0.75957 0.63087\n- 4 2.78658 4.90506 3.18011 2.68706 4.33784 3.05396 3.76711 3.68569 1.22920 3.29736 4.15055 3.14290 3.96056 2.92389 2.63941 2.83348 3.04743 2.89950 5.48837 4.21399 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02240 4.20550 4.92785 0.61958 0.77255 0.71461 0.67213\n- 5 2.50081 4.25110 3.66399 3.09125 3.37123 3.64274 3.91065 2.34435 2.80221 2.32824 2.29708 3.44876 4.01784 2.90404 3.31886 2.90195 2.63817 2.34277 4.84985 3.63336 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02191 4.22746 4.94981 0.61958 0.77255 0.62784 0.76302\n- 6 2.67321 4.88869 3.06716 2.49914 3.59736 3.48878 3.14583 3.55991 1.77248 3.14658 3.37905 3.01316 3.87556 2.81149 2.45152 2.46084 2.89994 3.23155 5.36754 4.03836 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02076 4.28093 5.00327 0.61958 0.77255 0.68063 0.70583\n- 7 2.34313 4.80055 3.04262 2.07398 3.57817 3.47078 3.68717 3.44192 2.49850 2.73998 3.88052 3.01553 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42642 5.14876 0.61958 0.77255 0.48576 0.95510\n- 924 2.70315 5.18797 2.34866 2.24117 4.52218 3.14362 3.65945 4.00027 1.82383 3.48753 4.23473 2.92871 3.23473 2.76215 2.66792 2.66753 2.52683 3.57342 5.62571 4.22078 979 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15355 4.42642 2.03727 0.61958 0.77255 0.48576 0.95510\n- 925 2.46065 5.13073 2.59933 2.07474 4.45921 3.22577 3.62289 3.93293 1.93895 3.42841 4.17967 2.89488 3.82425 2.72764 2.63097 2.42249 2.69749 3.51321 5.57333 4.17244 980 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29337 5.01571 0.61958 0.77255 0.66637 0.72066\n- 926 2.34557 5.10133 2.32256 1.94949 4.40818 3.42473 3.64274 3.09641 2.24028 3.38942 4.15568 2.90513 3.83675 2.54409 2.89421 2.65074 2.90987 3.47115 5.55530 4.16256 981 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29337 5.01571 0.61958 0.77255 0.66637 0.72066\n- 927 2.69665 5.08322 2.86803 2.00836 4.41237 3.02843 3.66667 3.86620 1.92569 3.39202 4.16793 2.93170 3.85610 2.78611 2.87946 2.38043 2.31768 3.47319 5.56068 4.18170 982 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04676 4.29337 3.44133 0.61958 0.77255 0.66637 0.72066\n- 928 2.33151 4.89257 2.99970 2.16167 4.14866 3.45252 3.65089 3.26637 2.17413 3.15783 3.17560 2.70696 3.84348 2.52035 2.89386 2.65473 2.86694 3.04850 5.38189 4.03504 983 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05224 4.26765 3.30007 0.61958 0.77255 0.69543 0.69087\n- 929 2.75430 5.12422 2.58140 2.39848 4.48910 3.42030 3.69896 3.94114 1.41580 3.46090 4.25110 2.93328 3.36968 2.82694 2.86193 2.44312 3.00173 3.54509 5.61812 4.24608 984 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08872 4.23711 2.65288 0.61958 0.77255 0.72795 0.65951\n- 930 2.44515 4.82819 2.84192 2.43600 4.07412 2.95161 3.63540 3.26816 2.27519 2.87318 3.89878 2.68885 3.31571 2.78097 2.72502 2.63518 2.83842 2.80057 5.32753 3.98786 985 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02319 4.17158 4.89393 0.61958 0.77255 0.79137 0.60372\n- 931 2.13590 5.09637 2.48103 2.17833 4.40510 3.38027 3.63622 3.86862 2.42237 3.39097 4.16480 2.66965 3.81644 2.25509 2.91690 2.53323 2.69850 3.47084 5.56120 4.16353 986 a - - -\n- 2.68629 4.42236 2.77518 2.73118 3.46365 2.40505 3.72505 3.29365 2.67736 2.69366 4.24701 2.90348 2.73750 3.18130 2.89777 2.37881 2.77521 2.98513 4.58488 3.61514\n- 0.49452 0.94126 * 0.51990 0.90283 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13gr13_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13gr13_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2882 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas13gr13_VI_1\n-LENG 953\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:00 2020\n-NSEQ 4\n-EFFN 0.550781\n-CKSUM 882758710\n-GA 300 300;\n-STATS LOCAL MSV -12.3817 0.69571\n-STATS LOCAL VITERBI -13.8242 0.69571\n-STATS LOCAL FORWARD -6.8953 0.69571\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70787 4.46601 2.83688 2.62033 3.12654 3.22288 3.81887 2.62968 2.46509 2.39881 3.69218 2.81097 3.67037 3.17955 2.94905 2.72649 2.98699 2.66362 4.64239 3.29392\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15390 3.90913 2.09899 0.61958 0.77255 0.00000 *\n- 1 2.88497 4.97260 2.45988 1.15002 4.30911 3.22338 3.80608 3.74654 2.67638 3.37822 4.35840 2.89272 3.82476 3.02510 3.07467 2.87746 3.18942 3.43993 5.49664 4.22153 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.78940 4.51174 0.61958 0.77255 0.58731 0.81152\n- 2 3.07274 4.47798 4.41017 3.89801 3.11781 4.23676 4.57893 1.68451 3.70879 1.25508 2.99599 4.19276 4.52811 3.99258 3.91395 3.60300 3.32172 1.95575 5.09623 3.88113 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.78940 4.51174 0.61958 0.77255 0.58731 0.81152\n- 3 3.13130 4.65395 3.71723 3.43307 2.30369 3.73459 3.58647 3.15247 3.29297 2.62737 3.83685 3.62409 4.21145 3.61902 3.49288 3.27557 3.41820 3.01941 3.94355 1.11614 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.78940 4.51174 0.61958 0.77255 0.58731 0.81152\n- 4 3.13130 4.65395 3.71723 3.43307 2.30369 3.73459 3.58647 3.15247 3.29297 2.62737 3.83685 3.62409 4.21145 3.61902 3.49288 3.27557 3.41820 3.01941 3.94355 1.11614 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.78940 4.51174 0.61958 0.77255 0.58731 0.81152\n- 5 3.06400 4.55223 4.05476 3.69663 3.10794 3.87428 4.37849 2.31043 3.46509 0.98498 3.16123 3.97985 4.32558 3.85344 3.65381 3.43883 3.36299 2.32571 4.95469 3.65809 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.78940 4.51174 0.61958 0.77255 0.58731 0.81152\n- 6 2.27806 4.19609 3.13789 2.95208 3.99449 2.92768 4.06314 3.50688 3.02009 3.23446 4.16921 3.18879 3.66011 3.37652 3.30715 1.22373 2.75237 3.06035 5.37421 4.07810 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.78940 4.51174 0.61958 0.77255 0.58731 0.81152\n- 7 3.13130 4.65395 3.71723 3.43307 2.30369 3.73459 3.58647 3.15247 3.29297 2.62737 3.83685 3.62409 4.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03392 3.79660 4.51894 0.61958 0.77255 0.58181 0.81845\n- 946 2.65914 4.78919 2.47113 1.86313 4.30511 1.89082 3.76333 3.74252 2.65146 3.36402 4.24003 2.84218 3.75678 2.96390 3.07926 2.68474 2.99089 3.36454 5.52919 4.21298 1001 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03392 3.79660 4.51894 0.61958 0.77255 0.58181 0.81845\n- 947 2.90537 4.86218 3.07612 2.71437 4.23119 3.40095 3.72215 3.65614 1.14744 3.23888 4.20629 3.14151 3.90823 2.91936 2.42440 2.95346 3.16531 3.36887 5.31862 4.12113 1002 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03392 3.79660 4.51894 0.61958 0.77255 0.43007 1.05115\n- 948 2.42302 4.46630 2.82151 2.61006 4.20779 3.06171 3.89843 3.72504 2.78789 3.36519 4.21091 2.29050 3.72597 3.12031 3.17296 1.50468 2.83195 3.26385 5.51928 4.18422 1003 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 949 3.19621 4.64751 4.24837 3.88821 3.14945 4.02878 4.53244 2.35530 3.65561 0.83137 3.16063 4.16015 4.45772 4.01517 3.82575 3.60365 3.48873 2.40219 5.04222 3.77406 1004 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 950 2.69952 4.81395 2.94309 2.55957 4.28585 3.34200 3.68552 3.69727 1.50492 3.27782 4.13658 3.01372 3.84979 2.85207 2.54954 2.23264 2.98095 3.34089 5.42704 4.14438 1005 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 951 2.55361 4.66567 2.09104 2.43013 4.06232 3.25251 3.72848 3.39263 2.61279 3.10225 3.95923 2.92599 3.77868 2.91372 3.07150 2.21793 2.85400 2.47024 5.38027 4.03973 1006 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 952 2.97768 4.40704 4.39816 3.91284 3.35875 4.12737 4.63929 1.91300 3.74977 1.65190 3.24425 4.16831 4.50590 4.05994 3.96963 3.51167 3.25725 1.24473 5.25750 4.01841 1007 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 953 3.29983 4.77398 3.89221 3.62832 2.29414 3.87272 3.63539 3.30390 3.48477 2.74842 3.97509 3.76843 4.34564 3.78203 3.66104 3.43294 3.58664 3.17616 3.93936 0.90696 1008 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02046 3.89934 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13x_VI-X_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13x_VI-X_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2584 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME cas13x_VI-X\n-LENG 854\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 4 19:54:07 2021\n-NSEQ 2\n-EFFN 0.535156\n-CKSUM 3492538219\n-STATS LOCAL MSV -12.4054 0.69601\n-STATS LOCAL VITERBI -13.7355 0.69601\n-STATS LOCAL FORWARD -6.8152 0.69601\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65207 4.24010 2.78806 2.58806 3.22184 2.99391 3.65723 2.81691 2.45439 2.44214 3.73873 3.05061 3.63746 3.12242 2.81254 2.75081 2.99561 2.68125 4.68564 3.30217\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.00000 *\n- 1 2.98892 4.53365 4.07647 3.67171 3.21853 3.85292 4.40099 2.39665 3.43845 1.80928 1.33026 3.94612 4.31355 3.81859 3.64083 3.34073 3.29466 2.40573 5.06280 3.82687 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 2 2.78460 4.53798 3.39446 3.23697 4.23037 3.22405 4.31253 3.78207 3.29640 3.40625 4.45703 3.54124 0.78188 3.68441 3.53925 2.95283 3.22811 3.42458 5.41020 4.35131 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 3 2.99493 4.96012 3.17263 2.78911 4.35233 3.48188 3.77275 3.78313 1.00418 3.34260 4.30250 3.21254 3.98028 2.96266 2.43583 3.03515 3.24622 3.48943 5.39644 4.21277 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 4 2.99493 4.96012 3.17263 2.78911 4.35233 3.48188 3.77275 3.78313 1.00418 3.34260 4.30250 3.21254 3.98028 2.96266 2.43583 3.03515 3.24622 3.48943 5.39644 4.21277 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 5 2.99493 4.96012 3.17263 2.78911 4.35233 3.48188 3.77275 3.78313 1.00418 3.34260 4.30250 3.21254 3.98028 2.96266 2.43583 3.03515 3.24622 3.48943 5.39644 4.21277 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 6 3.03367 4.87144 3.52686 3.03239 4.23242 3.51708 3.84208 3.77571 2.24685 3.28702 4.28634 3.39029 4.01826 3.06098 0.94041 3.11650 3.29778 3.49851 5.30509 4.15408 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 7 2.99493 4.96012 3.17263 2.78911 4.35233 3.48188 3.77275 3.78313 1.00418 3.34260 4.30250 3.21254 3.98028 2.96266 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 847 3.01650 5.14915 0.88242 2.35025 4.52948 3.22958 3.95292 4.12335 3.04176 3.72709 4.70555 2.90797 3.88414 3.19197 3.56157 2.97586 3.35554 3.75977 5.69319 4.39795 847 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 848 3.28337 4.76211 3.87545 3.60941 2.29360 3.85950 3.62994 3.28901 3.46619 2.73646 3.96137 3.75441 4.33267 3.76617 3.64479 3.41761 3.57012 3.16074 3.93840 0.92471 848 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 849 2.99493 4.96012 3.17263 2.78911 4.35233 3.48188 3.77275 3.78313 1.00418 3.34260 4.30250 3.21254 3.98028 2.96266 2.43583 3.03515 3.24622 3.48943 5.39644 4.21277 849 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 850 3.01650 5.14915 0.88242 2.35025 4.52948 3.22958 3.95292 4.12335 3.04176 3.72709 4.70555 2.90797 3.88414 3.19197 3.56157 2.97586 3.35554 3.75977 5.69319 4.39795 850 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 851 3.01650 5.14915 0.88242 2.35025 4.52948 3.22958 3.95292 4.12335 3.04176 3.72709 4.70555 2.90797 3.88414 3.19197 3.56157 2.97586 3.35554 3.75977 5.69319 4.39795 851 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 852 3.01650 5.14915 0.88242 2.35025 4.52948 3.22958 3.95292 4.12335 3.04176 3.72709 4.70555 2.90797 3.88414 3.19197 3.56157 2.97586 3.35554 3.75977 5.69319 4.39795 852 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 853 3.01650 5.14915 0.88242 2.35025 4.52948 3.22958 3.95292 4.12335 3.04176 3.72709 4.70555 2.90797 3.88414 3.19197 3.56157 2.97586 3.35554 3.75977 5.69319 4.39795 853 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 854 2.99493 4.96012 3.17263 2.78911 4.35233 3.48188 3.77275 3.78313 1.00418 3.34260 4.30250 3.21254 3.98028 2.96266 2.43583 3.03515 3.24622 3.48943 5.39644 4.21277 854 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02070 3.88789 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13y_VI-Y_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas13y_VI-Y_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2506 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME cas13y_VI-Y\n-LENG 828\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 4 19:54:21 2021\n-NSEQ 5\n-EFFN 0.502930\n-CKSUM 1089627289\n-STATS LOCAL MSV -12.2443 0.69608\n-STATS LOCAL VITERBI -13.4616 0.69608\n-STATS LOCAL FORWARD -6.8160 0.69608\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67003 4.48113 2.81646 2.58294 3.17565 3.04579 3.74910 2.78672 2.43657 2.41086 3.69016 2.96438 3.62190 3.07687 2.86819 2.73916 2.98205 2.71315 4.66267 3.34971\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.00000 *\n- 1 2.97030 4.51880 4.05100 3.64452 3.20825 3.83519 4.37930 2.38399 3.41253 1.80264 1.37501 3.92184 4.29575 3.79427 3.61768 3.31960 3.27561 2.39030 5.04930 3.81124 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 2 2.75325 4.51045 3.36057 3.19975 4.19496 3.19787 4.27716 3.74067 3.25716 3.36739 4.41723 3.50635 0.82481 3.64590 3.50260 2.92077 3.19492 3.38589 5.38119 4.31562 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 3 2.97338 4.93739 3.14948 2.77056 4.32417 3.46276 3.75984 3.75351 1.03619 3.31822 4.27951 3.19499 3.96293 2.95117 2.43165 3.01522 3.22649 3.46119 5.37813 4.19109 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 4 2.97338 4.93739 3.14948 2.77056 4.32417 3.46276 3.75984 3.75351 1.03619 3.31822 4.27951 3.19499 3.96293 2.95117 2.43165 3.01522 3.22649 3.46119 5.37813 4.19109 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 5 2.97338 4.93739 3.14948 2.77056 4.32417 3.46276 3.75984 3.75351 1.03619 3.31822 4.27951 3.19499 3.96293 2.95117 2.43165 3.01522 3.22649 3.46119 5.37813 4.19109 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 6 3.00703 4.84622 3.49782 3.00846 4.20118 3.49484 3.82514 3.74293 2.23766 3.25857 4.25863 3.36812 3.99728 3.04532 0.97606 3.09108 3.27284 3.46679 5.28356 4.12813 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 7 2.97338 4.93739 3.14948 2.77056 4.32417 3.46276 3.75984 3.75351 1.03619 3.31822 4.27951 3.19499 3.96293 2.95117 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 821 2.99110 5.11983 0.91588 2.33563 4.49701 3.21170 3.93219 4.08550 3.01656 3.69352 4.67158 2.89211 3.86459 3.17128 3.53305 2.95323 3.32968 3.72449 5.66534 4.36956 841 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 822 3.24915 4.73753 3.84042 3.57001 2.29340 3.83186 3.61903 3.25814 3.42749 2.71169 3.93299 3.72523 4.30563 3.73317 3.61091 3.38572 3.53581 3.12875 3.93724 0.96326 842 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 823 2.97338 4.93739 3.14948 2.77056 4.32417 3.46276 3.75984 3.75351 1.03619 3.31822 4.27951 3.19499 3.96293 2.95117 2.43165 3.01522 3.22649 3.46119 5.37813 4.19109 843 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 824 2.99110 5.11983 0.91588 2.33563 4.49701 3.21170 3.93219 4.08550 3.01656 3.69352 4.67158 2.89211 3.86459 3.17128 3.53305 2.95323 3.32968 3.72449 5.66534 4.36956 844 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 825 2.99110 5.11983 0.91588 2.33563 4.49701 3.21170 3.93219 4.08550 3.01656 3.69352 4.67158 2.89211 3.86459 3.17128 3.53305 2.95323 3.32968 3.72449 5.66534 4.36956 845 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 826 2.99110 5.11983 0.91588 2.33563 4.49701 3.21170 3.93219 4.08550 3.01656 3.69352 4.67158 2.89211 3.86459 3.17128 3.53305 2.95323 3.32968 3.72449 5.66534 4.36956 846 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 827 2.99110 5.11983 0.91588 2.33563 4.49701 3.21170 3.93219 4.08550 3.01656 3.69352 4.67158 2.89211 3.86459 3.17128 3.53305 2.95323 3.32968 3.72449 5.66534 4.36956 847 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87399 4.59634 0.61958 0.77255 0.48576 0.95510\n- 828 2.97338 4.93739 3.14948 2.77056 4.32417 3.46276 3.75984 3.75351 1.03619 3.31822 4.27951 3.19499 3.96293 2.95117 2.43165 3.01522 3.22649 3.46119 5.37813 4.19109 848 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02121 3.86385 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,809 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_4\n-LENG 262\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:39 2020\n-NSEQ 17\n-EFFN 1.182861\n-CKSUM 2584918448\n-GA 190.100 112.100;\n-STATS LOCAL MSV -10.6810 0.70247\n-STATS LOCAL VITERBI -11.5731 0.70247\n-STATS LOCAL FORWARD -5.3923 0.70247\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38786 4.38292 2.99066 2.72212 3.34769 2.86173 3.68366 2.79206 2.75003 2.39651 3.57578 3.18930 3.47249 3.11341 2.82585 2.72169 2.86853 2.55122 4.77697 3.40885\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.00000 *\n- 1 2.66837 4.14579 4.10201 3.51922 2.65979 3.77311 2.77690 2.05576 3.40138 2.17324 3.23155 3.74017 4.13824 3.62809 3.59232 3.05998 2.71217 1.86994 4.74983 3.54148 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 2 2.26087 5.12891 2.99232 2.22339 4.46728 3.48580 3.64020 3.91195 1.80292 3.40995 4.18450 2.96878 3.87891 2.59295 2.26948 2.53691 2.95609 3.51876 5.54770 4.19376 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 3 3.16894 5.84241 0.97213 1.86383 5.11380 3.35403 3.94432 4.66966 3.02672 4.13398 5.00016 2.43762 4.00692 3.11596 3.67281 3.02104 3.46829 4.21350 6.28460 4.72254 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 4 2.83524 5.05729 3.17360 2.63667 4.48301 2.68027 3.72500 3.88830 2.09092 3.40740 4.22401 3.11388 3.97267 2.85939 1.47952 2.48274 3.06944 3.52409 5.54586 4.26462 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 5 2.62180 4.13509 3.95917 3.37729 3.23267 3.70190 3.07304 2.15122 3.27380 2.03015 3.24776 3.63227 4.07309 3.51474 3.49384 2.65011 2.57522 2.27913 3.63761 3.11836 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 6 2.42389 4.43795 3.41034 3.01784 4.44710 2.38391 4.16331 3.88509 3.06616 3.51791 4.31898 3.31335 2.60249 3.37157 3.45527 1.30908 2.38223 3.35971 5.73924 4.48141 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 7 2.69598 4.12310 4.31221 3.72468 2.10959 3.82186 4.07681 2.36952 3.57688 1.94814 2.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 255 2.48344 4.23919 4.35149 3.78626 3.41996 3.28395 4.36003 1.57774 3.67073 2.06268 3.36495 3.99048 4.34158 3.90431 3.85765 3.28581 3.05441 1.58791 5.02447 3.82843 268 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 256 2.54248 5.03440 2.54632 2.29524 4.34107 2.89426 3.63380 3.79542 2.39322 3.32811 4.09816 2.91959 2.74150 2.74948 2.44846 2.63311 2.64088 3.15980 5.50465 4.12344 269 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 257 2.71539 5.09357 1.69767 2.38887 4.38214 3.43904 3.21689 3.84525 2.42614 3.12923 4.16253 2.92941 3.86443 2.79541 2.48191 2.69578 2.78380 3.46392 5.54761 4.16580 270 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 258 3.39187 4.65306 5.21585 4.68031 3.42961 4.79420 5.23356 1.19981 4.55724 1.24894 3.20518 4.88339 4.98584 4.68121 4.66393 4.17351 3.62941 1.79639 5.51617 4.41843 271 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 259 2.46561 5.01350 2.97248 1.92596 4.30574 3.45652 3.64020 3.74446 1.98222 2.92208 3.61220 2.95228 3.84934 2.46340 2.81858 2.66371 2.89787 3.37480 5.47287 4.11186 272 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 260 2.64857 5.08041 2.74456 1.92547 3.82411 3.42398 3.32750 3.85760 2.28640 3.37126 4.13068 2.58739 3.82176 2.72962 2.62962 2.62525 2.39581 3.45401 5.53138 4.14018 273 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 261 3.39424 4.66535 5.19118 4.64519 3.37024 4.76748 5.17669 1.62788 4.52157 0.99724 3.14628 4.85127 4.95452 4.62469 4.61941 4.13849 3.62755 1.71340 5.45409 4.37450 274 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28486 5.00720 0.61958 0.77255 0.48576 0.95510\n- 262 3.56341 4.84797 5.22012 4.65469 2.26804 4.81759 4.96563 2.38490 4.51410 0.73429 2.61191 4.85799 4.93928 4.50481 4.55556 4.17384 3.77162 2.60158 5.12826 3.96094 275 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.27814 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,941 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_3\n-LENG 306\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:39 2020\n-NSEQ 8\n-EFFN 0.691406\n-CKSUM 773959954\n-GA 212 212;\n-STATS LOCAL MSV -11.2604 0.70116\n-STATS LOCAL VITERBI -11.9400 0.70116\n-STATS LOCAL FORWARD -5.3539 0.70116\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44685 4.32544 2.97418 2.73145 3.22947 2.88313 3.75140 2.80520 2.73316 2.35679 3.60715 3.10328 3.54658 3.08695 2.88374 2.73454 2.85372 2.63772 4.33448 3.34866\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.00000 *\n- 1 3.10268 4.43851 4.75171 4.26857 3.51416 4.40129 4.98354 1.08350 4.13787 2.00265 3.33122 4.49088 4.73102 4.41061 4.33476 3.79810 3.37534 1.48310 5.49630 4.28985 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 2 3.27553 4.65548 4.67631 4.13103 3.06016 4.44513 4.73320 2.21341 3.93359 0.95677 2.12297 4.41924 4.66652 4.13317 4.09000 3.80103 3.50438 2.33884 5.12076 4.00910 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 3 2.67794 4.64513 3.12938 2.66012 3.58633 3.46836 2.06053 3.26069 2.52096 2.48521 3.78593 3.11554 3.10678 2.96259 2.87464 2.77300 2.92872 2.99756 5.00326 3.60373 3 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 4 2.38489 4.30614 3.32688 3.15055 4.21128 3.03378 4.25587 3.75275 3.23334 3.46328 4.37931 3.35275 3.78394 3.57252 3.51408 0.90646 2.87531 3.25850 5.57342 4.29597 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 5 2.95044 5.10528 3.11898 2.64066 4.33247 3.55844 2.86193 3.88352 1.24029 3.36737 4.23520 3.09539 3.97751 2.79701 2.31669 2.94544 3.15247 3.55851 5.38977 4.10218 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 6 3.16047 4.98707 3.66518 3.15054 4.37563 3.62076 3.92797 3.92795 2.30098 3.41974 4.41789 3.49935 4.11816 3.14294 0.79277 3.23909 3.41818 3.64651 5.40544 4.27556 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 7 1.48087 4.47200 3.04091 2.69983 4.10059 3.18870 3.87937 3.49033 2.71895 3.15478 4.01116 3.09'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 299 2.71069 5.16622 2.17132 1.84916 4.47096 3.30343 3.63580 3.94418 2.47040 3.45995 4.24810 2.77829 3.79219 2.45226 2.98219 2.35148 2.68750 3.54050 5.62866 4.20865 306 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 300 2.56235 4.58687 3.08354 2.54494 3.17772 3.09146 3.67060 3.21253 2.50936 2.86196 3.70895 3.02943 3.82433 2.64306 2.69278 2.20700 2.61754 2.92579 5.15011 3.85561 307 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 301 3.16095 4.47039 4.82255 4.29114 3.36976 4.50275 4.94233 1.25073 4.16640 1.55689 3.17186 4.53330 4.75258 4.37729 4.34061 3.86710 3.40636 1.61434 5.37856 4.22521 308 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 302 2.79589 5.01374 3.01863 2.52636 4.37918 3.47823 3.62325 3.76954 1.55922 3.29571 4.13070 3.00998 3.89682 2.29305 2.44715 2.79797 2.56935 3.42867 5.44311 4.16475 309 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 303 2.45538 5.09648 2.42523 1.96886 4.41305 3.34728 3.58496 3.87801 2.20444 3.38297 4.15455 2.82193 3.78039 2.49437 2.52724 2.61671 2.88819 3.47358 5.53604 4.14152 310 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 304 2.84895 4.27221 4.30139 3.73621 3.32599 4.03981 4.39580 1.65503 3.63309 1.87644 2.79271 3.99739 4.36713 3.87118 3.84925 3.34696 2.50073 1.73985 5.05560 3.87976 311 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 305 1.11049 2.74638 3.96452 3.59003 3.97884 3.03118 4.37963 3.05841 3.48227 2.99790 3.94514 3.55244 3.77385 3.75975 3.69906 2.48641 2.72874 2.70321 5.45154 4.26952 312 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00577 4.72811 0.61958 0.77255 0.48576 0.95510\n- 306 2.40508 4.50514 3.17126 2.68051 3.73227 3.43151 3.75064 3.08725 2.58842 2.08950 3.66119 3.12794 3.87250 2.43535 2.95572 2.41278 2.84854 2.82983 5.11356 3.84155 313 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01854 3.99688 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,821 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_III-B_9\n-LENG 266\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:40 2020\n-NSEQ 4\n-EFFN 0.535156\n-CKSUM 853192357\n-GA 19 18;\n-STATS LOCAL MSV -10.9666 0.70236\n-STATS LOCAL VITERBI -11.8197 0.70236\n-STATS LOCAL FORWARD -5.0758 0.70236\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43473 3.98673 2.97837 2.75395 3.37863 2.79379 3.59225 2.90745 2.80714 2.29671 3.72700 3.19226 3.32388 3.18348 2.75701 2.78214 2.88208 2.69484 3.90910 3.53184\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18055 3.89779 1.93169 0.61958 0.77255 0.00000 *\n- 1 2.88015 4.44992 3.92207 3.51023 3.16440 3.74396 4.27336 2.32846 3.28331 1.78113 1.62949 3.80137 4.20736 3.67537 3.50197 3.21497 3.18493 2.31956 4.98689 3.73569 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03547 3.75270 4.47505 0.61958 0.77255 0.60486 0.78999\n- 2 2.60658 4.37897 3.20164 3.02701 4.02433 3.07347 4.11106 3.54259 3.07465 3.18120 4.22915 3.34362 1.08415 3.46740 3.33024 2.77138 3.03981 3.20140 5.24021 4.14489 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03547 3.75270 4.47505 0.61958 0.77255 0.60486 0.78999\n- 3 2.35603 4.19925 3.32863 3.08039 3.86945 3.04106 4.10592 2.98236 3.02090 2.84978 3.91201 3.30622 3.73699 3.42304 3.28273 2.55644 1.39328 2.69037 5.31831 4.08741 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03547 3.75270 4.47505 0.61958 0.77255 0.60486 0.78999\n- 4 3.02419 4.52454 3.99411 3.63815 3.09736 3.82488 4.33155 2.30091 3.40686 1.03897 3.16639 3.92455 4.28413 3.80424 3.60070 3.38834 3.32581 2.30616 4.92850 3.62276 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03547 3.75270 4.47505 0.61958 0.77255 0.60486 0.78999\n- 5 1.20192 4.13994 3.34624 3.13694 3.93756 2.96656 4.17240 3.04597 3.15010 2.93227 3.98153 3.31521 3.69488 3.50362 3.40624 2.49338 2.76261 2.72171 5.37710 4.16477 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03547 3.75270 4.47505 0.61958 0.77255 0.60486 0.78999\n- 6 2.79381 4.76744 2.83279 2.59058 3.91846 3.29089 3.74610 3.53508 2.42120 3.04903 4.08522 3.04735 3.84578 1.46470 2.70577 2.84898 3.09325 3.27379 5.21457 3.90157 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03547 3.75270 4.47505 0.61958 0.77255 0.60486 0.78999\n- 7 2.87703 4.71622 3.35614 2.89856 4.04036 3.38236 3.75045 3.57733 2.20876 3.11556 4.12322 3.26537 3.89467 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 259 2.13628 4.48589 3.11799 2.66378 4.07333 3.21061 3.76519 3.46494 2.49171 3.10425 3.94904 3.06689 3.76320 2.95770 2.21547 1.97300 2.79823 3.09292 5.34114 4.06946 261 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 260 2.64734 4.64090 3.25981 2.74665 4.10241 3.36923 3.72267 3.43881 2.26048 3.07218 3.97398 3.14218 3.86637 2.90826 1.69467 2.74291 2.22807 3.12701 5.31148 4.06996 262 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 261 2.97370 5.09044 2.49775 0.98992 4.43977 3.29012 3.87884 3.89868 2.76252 3.51164 4.48433 2.94676 3.89584 3.09383 3.17415 2.95339 3.27805 3.57983 5.60656 4.32857 263 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 262 3.08442 4.42463 4.65220 4.11460 3.29958 4.38026 4.79276 1.48119 3.99166 1.48083 3.11114 4.37874 4.64418 4.21538 4.18544 3.73219 3.32897 1.57174 5.28147 4.12472 264 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 263 2.75886 4.99585 2.41645 1.47241 4.45365 2.22884 3.76660 3.90940 2.66027 3.49439 4.35594 2.82127 3.80615 2.94867 3.12331 2.74459 3.06894 3.52166 5.64964 4.29308 265 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 264 2.53350 4.63787 2.75993 2.13476 4.14154 3.21076 3.74155 3.52615 2.58089 3.17291 4.01626 2.93332 3.76399 2.92644 3.00233 1.88505 2.41185 3.16250 5.42225 4.10274 266 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 265 3.37731 4.74306 4.12966 3.84185 2.69172 3.75832 3.93058 3.40177 3.56343 2.79239 4.03443 3.98575 4.27812 3.94972 3.68739 3.58078 3.67894 3.29281 0.83575 2.69246 267 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 266 3.02215 4.83544 3.15002 2.91233 3.30212 3.46860 1.09021 3.72900 2.75467 3.21987 4.26464 3.32071 4.02243 3.27884 3.01896 3.09255 3.32630 3.46362 4.76688 3.25223 268 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02070 3.88789 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,974 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_1\n-LENG 317\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:39 2020\n-NSEQ 142\n-EFFN 5.941223\n-CKSUM 1771255742\n-GA 67.6 66.2;\n-STATS LOCAL MSV -10.9426 0.70084\n-STATS LOCAL VITERBI -11.7081 0.70084\n-STATS LOCAL FORWARD -5.6146 0.70084\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51508 4.51064 3.03172 2.61785 3.28586 2.99555 3.64031 2.82262 2.66148 2.32423 3.73612 3.00635 3.49452 3.04720 2.75016 2.70185 2.86722 2.74418 4.86775 3.34889\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.00000 *\n- 1 3.00844 5.61882 2.97779 2.35842 4.48724 3.44965 3.96336 4.17461 2.03219 3.59947 2.55896 2.21743 3.74176 2.93312 1.87866 2.77260 2.96679 3.84941 6.05237 4.41225 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 2 3.03504 5.57586 2.92130 2.23915 4.59632 3.89467 3.44259 2.87533 2.72147 3.31082 4.36536 2.65857 3.26799 2.93789 2.92986 2.58681 1.59939 2.99819 6.02052 4.62176 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 3 3.04962 4.56486 5.12345 4.50996 3.41124 4.35277 4.14457 2.38983 4.09511 0.97632 3.42069 4.50651 3.82091 4.43681 4.31819 3.66296 3.03096 1.98412 5.18627 2.64887 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 4 3.19333 4.58366 4.54213 3.76462 2.62768 4.35012 3.54436 2.59843 4.25242 2.41332 3.70203 4.47643 4.71455 4.40163 4.29622 3.65708 3.24179 2.15485 3.82311 1.05218 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 5 3.46647 4.89728 5.59593 5.01825 3.39220 4.48122 5.27915 1.05726 4.83961 1.68541 4.01556 5.03617 5.20103 4.99220 4.87514 3.96502 3.71030 1.35238 5.73963 4.55657 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 6 2.60576 5.57615 2.85283 2.41265 3.08684 3.50844 3.65131 3.77377 2.60863 2.90914 4.19867 2.70719 4.28760 2.68168 3.17582 2.35184 1.69131 3.89000 6.02074 4.23998 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 7 3.04124 5.62437 2.87531 1.99489 4.97038 2.94270 3.34810 4.25354 2.65519 3.93005 4.66479 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 310 3.11283 4.41701 3.09138 2.53066 4.68736 3.74461 3.44212 3.81213 1.62625 2.04788 4.21323 2.93557 4.28539 2.71918 2.47376 2.31668 3.24080 3.85719 5.24399 4.62738 448 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 311 3.62818 5.11351 5.76368 5.15386 2.33835 5.01377 5.32526 2.10787 4.95617 0.67821 3.25048 5.18147 5.27922 4.99086 4.93250 4.34347 4.01248 2.65924 5.65372 3.07098 449 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 312 1.29829 3.65885 4.03209 2.72069 3.72107 3.37693 4.38701 2.28484 2.72915 2.98307 3.97756 3.87029 4.51293 3.52315 3.48405 2.82901 3.30754 2.37081 5.45629 3.68560 450 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 313 2.54676 5.62329 3.21118 2.51131 4.96876 3.62960 3.15862 4.45486 1.48652 3.38324 4.28707 2.59619 4.27910 2.88878 1.95660 2.62469 3.05162 4.01415 6.05564 4.64466 451 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 314 2.15368 3.20482 3.48975 3.06225 2.52968 4.16724 2.21575 3.29770 3.37436 2.73061 2.73432 3.95321 4.54439 3.53378 3.58148 2.40765 3.23652 2.61174 5.00524 2.74535 452 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 315 3.19492 3.67333 5.16996 4.55396 2.64222 3.80497 4.70034 1.94035 4.33655 0.98681 3.30607 4.53238 4.72876 4.46467 4.34049 3.67825 3.28401 2.24253 4.38584 3.76378 453 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 316 2.72708 3.72360 3.62297 2.42744 4.40393 3.99491 4.02327 2.96389 2.62694 2.07281 3.54670 2.88090 4.38254 3.11405 2.05568 2.93911 2.31440 2.94315 5.72769 3.92812 454 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49617 6.21851 0.61958 0.77255 0.48576 0.95510\n- 317 2.84977 5.65723 2.53937 1.96213 5.00114 1.34045 3.88710 4.48864 2.47705 3.96201 4.69924 2.66588 4.30095 2.85269 3.33558 2.92432 3.11634 4.04745 6.08946 4.36392 455 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00412 5.49417 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,872 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_10\n-LENG 283\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:40 2020\n-NSEQ 400\n-EFFN 4.129028\n-CKSUM 3180834040\n-GA 37.7 26.5;\n-STATS LOCAL MSV -10.7943 0.70177\n-STATS LOCAL VITERBI -11.5717 0.70177\n-STATS LOCAL FORWARD -5.4806 0.70177\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52181 4.48335 2.98606 2.62117 3.26726 2.97386 3.68284 2.82964 2.69397 2.31445 3.69820 3.04146 3.50904 3.05745 2.74800 2.71253 2.88776 2.69122 4.86073 3.37500\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00862 5.15421 5.87656 0.61958 0.77255 0.00000 *\n- 1 2.95511 4.37736 4.89471 4.28381 3.27034 4.15663 4.14515 2.20574 3.94699 1.04247 3.42350 4.29821 4.52019 4.22501 3.98947 3.42861 2.98189 2.10039 4.99781 2.81291 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00862 5.15421 5.87656 0.61958 0.77255 0.48576 0.95510\n- 2 2.84367 4.24491 4.43434 4.13690 2.97185 4.13293 3.24326 2.35637 3.96653 2.30220 3.35915 3.60616 4.39616 4.13731 4.04987 3.43437 3.04089 2.22923 4.85124 1.28558 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00856 5.16101 5.88335 0.61958 0.77255 0.48576 0.95510\n- 3 3.04890 4.51609 5.12281 4.51618 3.47634 4.29679 4.70160 1.52746 4.31240 1.62970 3.18790 4.51692 4.70293 4.43849 4.32606 3.67498 3.37692 1.32977 4.83697 3.63351 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00852 5.16531 5.88765 0.61958 0.77255 0.48576 0.95510\n- 4 2.72083 4.97450 2.72784 2.83544 2.93460 3.68820 3.64689 3.53927 2.74804 2.59029 3.76466 2.73582 4.19047 2.58140 3.11176 2.51379 1.87897 2.99652 5.33291 3.96110 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00852 5.16531 5.88765 0.61958 0.77255 0.48576 0.95510\n- 5 2.85656 5.17272 2.87392 1.84889 4.79485 2.73517 3.84896 4.25481 2.47006 3.65762 4.40597 2.85731 4.11554 2.64393 2.88705 2.15377 2.09514 3.29365 5.88642 4.40719 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 5.16531 3.92882 0.61958 0.77255 0.48576 0.95510\n- 6 2.84492 5.43034 2.50715 2.34616 3.36332 3.64521 3.05083 4.05276 2.56608 3.73200 4.25506 2.91142 2.52694 2.06781 2.93955 2.53680 3.13762 3.77953 5.63950 2.85959 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01270 5.14827 4.98990 0.61958 0.77255 0.45303 1.00978\n- 7 2.96677 5.44852 2.66974 2.56488 4.75428 1.06453 3.86500 4.14349 2.72201 3.73715 4.50396'..b'.68614 4.42227 2.77521 2.73123 3.46343 2.40514 3.72496 3.29355 2.67742 2.69351 4.24691 2.90348 2.73735 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.01812 4.18406 5.90732 0.80347 0.59379 0.48576 0.95510\n- 276 2.39076 5.08157 3.12730 2.57556 4.38347 3.75361 3.91895 2.79063 1.78648 2.61430 3.99200 3.13119 4.17165 3.08278 2.55225 2.87576 2.27133 3.04676 5.71538 4.36569 746 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 277 2.81033 4.43355 5.02694 4.41274 1.60658 4.23743 4.56830 2.17744 4.19936 1.66951 3.22595 4.39957 4.59374 4.32377 4.20579 3.55021 3.27675 1.85157 4.68265 3.11888 747 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 278 2.39947 4.34276 4.93973 4.19185 3.36162 4.18323 4.51597 1.70284 4.12253 1.31311 3.42375 4.33224 4.54630 4.26156 4.14556 3.41166 2.81936 2.06998 4.90315 3.40410 748 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 279 2.38966 5.46740 2.79909 1.83505 4.81268 3.28402 3.71508 4.16847 2.13312 3.67532 4.32437 2.77957 3.90746 2.63256 2.60763 2.54865 2.47627 3.29178 5.89995 4.48887 749 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 280 1.70582 5.08906 3.15019 1.91725 4.55022 3.39924 3.11152 3.90034 2.17155 3.08407 4.30627 3.00563 4.13025 2.90621 2.78500 2.73891 3.13679 3.73470 5.87102 3.74615 750 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 281 3.12099 4.48710 5.06503 4.46203 1.90047 4.28431 4.46731 2.28920 4.24803 1.82441 3.29267 4.43051 4.63916 4.36203 4.25025 3.59828 3.35202 2.32941 2.46607 1.93330 751 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 282 2.87351 5.45499 2.60405 1.48346 4.17261 3.68883 3.70501 4.00915 2.51932 2.94874 4.32394 2.53992 4.12556 2.24956 2.98550 2.74434 3.00374 3.63226 5.52155 4.28773 752 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 283 2.48122 5.46897 2.61138 1.67099 4.81470 3.22360 3.91713 4.27952 2.10325 3.39011 4.50948 2.82953 4.02468 2.63349 2.45226 2.69407 2.75335 3.81224 5.90122 4.48985 753 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00563 5.18225 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,803 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_2\n-LENG 260\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:39 2020\n-NSEQ 22\n-EFFN 3.558350\n-CKSUM 2113378662\n-GA 60 60;\n-STATS LOCAL MSV -10.6085 0.70253\n-STATS LOCAL VITERBI -11.3592 0.70253\n-STATS LOCAL FORWARD -5.3767 0.70253\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53482 4.53292 3.00935 2.64072 3.24226 2.93049 3.67405 2.77146 2.66607 2.38360 3.66489 3.00851 3.51730 3.07131 2.84659 2.68145 2.89379 2.65059 4.73136 3.35530\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.00000 *\n- 1 2.91198 4.76767 5.40789 4.80403 2.29366 4.67574 5.00917 2.05516 4.61281 1.01820 2.45490 4.83794 4.95526 4.67452 4.60670 4.00521 3.66809 2.07432 5.36992 4.26001 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 2 2.94226 4.37049 4.60314 3.19159 2.72961 4.07439 3.34724 2.47321 3.85285 2.27593 3.48656 4.13058 4.44106 4.03903 3.96635 3.37151 2.85349 1.89140 4.97812 1.54613 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 3 3.24252 4.58413 5.20112 4.60438 2.86106 4.45961 4.77794 1.83901 4.40857 1.71142 3.53106 4.61174 4.78615 4.52060 4.42168 3.78297 3.47440 1.30791 5.20492 2.24243 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 4 2.38506 4.85114 2.96235 2.96263 2.74356 3.81784 4.04430 3.40721 2.47618 1.85677 3.94170 3.02914 4.20301 3.27193 3.36091 2.73343 2.11037 3.14678 5.40158 3.49143 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 5 2.75830 5.50748 2.01236 1.69383 4.84765 2.67454 3.93331 4.33757 2.69536 3.81185 4.55552 3.16764 4.12567 2.12310 3.19784 2.34030 2.87154 3.89671 5.94195 4.52089 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 6 2.90336 5.34755 2.49231 2.62294 3.49904 3.68773 2.82173 4.13317 2.36317 3.64128 4.39538 2.69880 2.74370 2.73389 2.81794 2.46721 3.13453 3.72367 3.43142 2.51963 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 7 2.97137 2.55046 2.26416 3.52430 4.72890 0.84022 4.66198 4.08220 3.63522 3.80248 4.64931 3.83'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 253 2.68195 5.39218 2.86985 2.61687 4.72607 2.09579 3.87763 4.20185 1.96728 3.69165 2.99666 2.13526 4.08384 2.97886 2.38129 2.88309 3.14599 3.77716 5.83117 4.43022 288 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 254 2.56405 4.95790 2.69027 2.31665 3.32226 3.78223 3.99800 2.39500 2.84836 2.88235 3.45446 3.35957 3.30147 2.24212 3.28973 2.65536 3.14389 2.90090 5.48975 3.03589 289 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 255 2.93793 4.34589 4.70351 2.79301 3.01723 2.71373 4.40686 1.73509 3.92752 2.03319 2.68744 4.17897 4.44994 4.09549 4.00543 2.86780 3.17006 2.19310 3.07262 3.78338 290 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 256 2.48758 5.39809 2.83762 1.99185 4.73681 3.67844 3.86630 3.38367 1.98349 3.70066 4.44043 2.89295 3.31304 2.73429 3.09527 2.46215 2.22514 3.78531 5.83457 3.39825 291 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 257 2.63559 5.39661 2.39848 2.19243 3.76958 3.67858 3.34791 4.21597 2.23711 2.88356 4.43909 2.77636 2.56358 2.42465 3.09546 2.86778 2.82083 3.78356 5.83342 3.39805 292 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 258 2.93094 5.44037 2.03059 1.55558 4.78268 3.23004 3.88653 4.26828 1.94941 3.74410 4.48335 3.15416 4.08942 2.98543 2.80202 2.64260 3.16333 3.17539 5.87336 4.46116 293 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 259 2.44243 5.36306 1.84897 2.61925 2.70542 2.88055 3.06243 4.15659 2.38426 3.65891 4.41015 3.16369 4.08123 2.98242 2.44543 2.47754 3.13837 3.74189 5.80936 4.41215 294 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06286 5.78520 0.61958 0.77255 0.48576 0.95510\n- 260 2.91720 3.49944 2.99993 2.62287 1.55297 3.24219 3.20656 3.38655 2.95634 2.76399 3.92714 3.45090 4.20877 3.28595 2.53232 3.04742 3.14874 2.83355 5.38821 4.11488 295 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00637 5.05978 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,848 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_5\n-LENG 275\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:40 2020\n-NSEQ 18\n-EFFN 1.524902\n-CKSUM 3153937786\n-GA 69.4 69.2;\n-STATS LOCAL MSV -10.9454 0.70202\n-STATS LOCAL VITERBI -11.5711 0.70202\n-STATS LOCAL FORWARD -5.4755 0.70202\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57543 4.44176 2.98160 2.67201 3.24004 3.18270 3.68550 2.64782 2.60952 2.34207 3.63901 2.89590 3.70419 3.00565 2.95950 2.72345 2.88939 2.59936 4.52763 3.43673\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.00000 *\n- 1 3.06334 4.71283 3.91594 3.36495 2.38634 3.96110 3.85777 3.20977 1.93770 2.79185 3.79862 3.67248 4.32966 3.50138 3.34879 3.25175 3.28891 3.02083 1.57719 2.91162 1 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 2 3.06938 5.37459 2.84642 2.72600 4.79797 3.71638 3.77101 4.19306 1.67328 3.63264 4.45074 3.20453 4.10906 2.89143 1.22705 3.03695 3.26377 3.82238 5.69583 4.43749 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 3 2.65481 4.36108 3.65402 3.10282 3.56501 3.19235 3.99058 2.57360 3.05060 2.63692 3.53515 3.09086 4.04665 3.34598 3.38260 2.55695 2.03126 1.80790 5.02033 3.79478 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 4 3.40596 4.64746 5.34343 4.82429 3.68878 4.87694 5.40124 1.57966 4.72194 1.52133 3.46380 4.99306 5.09542 4.88739 4.84083 4.26539 3.65185 1.01940 5.72792 4.58435 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 5 2.67928 4.69069 2.89575 2.06657 3.87726 3.55683 3.08826 2.99859 2.63903 2.48941 3.77575 3.14582 3.94402 2.97706 3.07374 2.77356 2.91078 2.39457 5.22547 3.09464 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 6 3.34011 4.59988 5.27786 4.73675 3.00346 4.75074 5.19857 1.13010 4.62022 1.74681 3.37933 4.87189 4.98253 4.74968 4.70493 4.11911 3.57953 1.41526 5.53353 4.38805 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 7 2.52835 5.04973 2.98106 2.30081 4.34140 3.15053 3.67835 3.29613 2.32167 3.33330 4.10941 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 268 2.45597 4.23211 4.63017 4.04399 2.54322 4.05720 4.41280 1.48074 3.88900 2.26351 2.97115 4.14695 4.40323 4.06506 3.98470 3.37119 2.78270 1.76491 4.95473 3.77488 288 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 269 2.69707 4.08458 2.07018 2.18066 4.48122 3.46184 3.66403 3.95330 2.28034 3.45430 4.20681 2.75837 3.86370 2.59702 2.90500 2.30645 2.53299 3.53729 5.60423 4.20414 289 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 270 2.49241 4.97968 2.71374 2.47009 4.24752 3.49249 3.34536 2.82575 1.94455 3.25061 3.22958 2.99997 3.88350 2.57633 2.78188 2.69118 2.71547 3.32813 5.46087 4.10391 290 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 271 2.51120 4.10960 4.44124 3.84142 2.64279 3.84861 4.16943 2.14375 3.67436 1.91633 2.95256 3.93356 4.21036 3.84477 3.76134 3.15079 2.54355 2.17158 4.72872 2.34333 291 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 272 2.09065 4.26489 4.17585 3.61739 3.47666 3.81953 4.26169 1.91089 3.51883 2.48217 3.44772 3.84291 4.24060 3.76461 3.74047 2.82249 2.39742 1.61724 5.01711 3.81728 292 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 273 2.29275 5.16445 2.67440 2.27740 4.49732 3.22370 3.33466 3.97376 2.00586 3.46371 4.20886 2.93344 3.85523 2.40431 2.53890 2.53248 2.91662 3.22385 5.60363 4.20155 293 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 274 2.55023 5.13935 2.72381 2.40269 4.45631 3.17168 3.67408 3.92213 2.23825 3.12579 4.19403 2.39304 3.87110 2.56865 2.91602 1.88929 2.93672 3.51616 5.59339 4.19943 294 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01765 4.44142 5.16377 0.61958 0.77255 0.48576 0.95510\n- 275 2.98302 4.34177 4.81217 4.21855 2.13438 4.17401 4.45386 2.01361 4.04361 1.39514 3.14595 4.28301 4.48591 4.15437 4.08736 3.49188 3.21106 1.94537 4.87722 3.04845 295 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.43569 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1037 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_6\n-LENG 338\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:40 2020\n-NSEQ 23\n-EFFN 0.951782\n-CKSUM 4182336489\n-GA 196.7 196.5;\n-STATS LOCAL MSV -10.8398 0.70037\n-STATS LOCAL VITERBI -11.9015 0.70037\n-STATS LOCAL FORWARD -5.5668 0.70037\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47188 4.41296 2.98521 2.69643 3.29458 2.90809 3.65427 2.89544 2.73327 2.28066 3.60549 3.10154 3.47237 3.04780 2.69943 2.76590 2.89207 2.62811 4.94317 3.51301\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.00000 *\n- 1 2.55306 4.38741 3.51822 2.96725 3.43625 3.62696 3.15805 2.71178 2.80642 1.59587 3.43867 3.36278 4.00943 2.92126 3.11938 2.89617 2.90514 2.63478 4.91529 3.65806 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 2 3.04624 4.67605 3.80981 3.37276 3.33275 3.93022 4.19970 2.69893 3.07266 1.01636 3.31169 3.73905 4.32447 2.77088 3.31158 3.31371 3.29407 2.70824 5.08066 3.81714 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 3 2.99592 4.98425 2.91571 2.83589 4.39714 3.40481 4.19990 4.18204 3.13482 3.79776 4.75906 0.73053 4.07526 3.48169 3.49218 3.05725 3.39254 3.77377 5.66937 4.33121 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 4 2.39418 4.29770 3.56378 3.31344 4.26062 3.11174 4.34249 3.51499 3.28930 3.34375 4.25995 3.46202 3.85409 3.64527 3.55731 2.41348 0.95535 3.08883 5.66396 4.42782 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 5 3.30389 4.67800 4.81000 4.31112 3.23467 4.47726 4.90867 2.16863 4.12455 0.84272 3.06718 4.55005 4.76283 4.33171 4.27209 3.87150 3.56264 1.89457 5.28954 4.14400 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 6 3.84819 5.04421 4.76992 4.49688 1.59480 4.53871 3.54138 3.52708 4.33542 2.82619 4.11654 4.19386 4.84512 4.27148 4.34545 3.92176 4.06964 3.45702 3.66731 0.80266 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 7 2.73835 4.40044 4.77218 4.24098 3.61048 4.40975 4.90541 1.55996 4.13862 1.99910 3.4348'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 331 2.55482 4.17133 3.98565 3.40573 3.24311 3.50500 4.04810 2.19094 3.28692 1.56796 2.91192 3.67285 4.11297 3.54366 3.24457 3.03170 2.89511 2.22662 4.79623 3.60467 338 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 332 2.44999 5.30872 1.66565 1.92034 4.61664 3.33984 3.71398 4.10341 2.58268 3.60599 4.39672 2.80742 3.03375 2.71031 3.11578 2.74265 3.06473 3.68582 5.76770 4.32500 339 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 333 2.37789 4.86901 2.96564 2.22612 3.81419 2.76291 3.10117 3.55398 2.40465 3.13617 3.68661 2.93795 3.60941 2.67364 2.70883 2.52291 2.75638 3.21198 5.35899 4.00973 340 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 334 3.69452 5.06436 4.28141 4.07405 2.36758 4.17977 3.79524 3.66684 3.92416 3.04305 4.31274 4.10068 4.65077 4.15785 4.04395 3.79823 3.98484 3.55223 4.01938 0.59206 341 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 335 2.64942 4.37843 3.59531 3.05158 3.57525 3.60161 3.99406 2.45711 2.97620 2.32058 3.50176 3.43303 1.94772 3.30459 3.31922 2.89050 2.65067 2.28270 5.08874 3.85497 342 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 336 2.24025 4.36021 3.31790 3.11597 4.39981 3.08919 4.27501 3.79199 3.21060 3.50574 4.37618 3.34771 1.10222 3.54312 3.51931 2.40994 2.88652 3.28934 5.74742 4.49939 343 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 337 3.53441 4.78250 4.78223 4.41632 1.08938 4.39783 3.58220 3.27222 4.24231 2.69730 3.87224 4.14867 4.70324 4.19513 4.24290 3.74189 3.75213 2.86338 2.45196 1.71318 344 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16325 4.88559 0.61958 0.77255 0.48576 0.95510\n- 338 2.55008 4.13344 4.16036 3.57599 2.69534 3.79444 4.10411 2.33870 3.45493 1.64264 2.79646 3.78320 4.15154 3.66715 3.62994 2.71323 2.90709 2.07957 4.75491 3.57045 345 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01580 4.15566 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,983 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_7\n-LENG 320\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:40 2020\n-NSEQ 26\n-EFFN 1.158447\n-CKSUM 1419773730\n-GA 52.1 51.8;\n-STATS LOCAL MSV -11.1847 0.70077\n-STATS LOCAL VITERBI -11.8785 0.70077\n-STATS LOCAL FORWARD -5.4623 0.70077\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65211 4.58887 3.08680 2.63679 3.18511 3.18569 3.65141 2.68498 2.59269 2.34517 3.62655 2.96486 3.42350 3.09337 2.86817 2.68149 2.87664 2.65561 4.98411 3.22555\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.00000 *\n- 1 2.54942 4.90043 2.71822 2.44987 4.25186 3.40649 3.69284 3.68785 2.48493 3.26065 4.05354 2.39902 3.17250 2.82872 2.95890 2.40320 2.06963 3.10370 5.47082 4.11446 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 2 2.72765 4.17846 4.22189 3.64182 2.72849 3.83514 4.05868 2.21287 3.50859 1.96304 3.21669 3.81906 4.19185 3.71147 3.34971 3.12805 2.95857 2.22413 4.63439 1.93638 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 3 3.47030 4.83478 4.51003 4.07768 2.07893 4.32395 3.17250 3.38573 3.93439 2.86842 3.97997 4.03529 4.65033 4.02948 4.06578 3.64353 3.27061 3.23018 3.09776 0.88458 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 4 3.36591 4.62703 5.19458 4.66264 3.46090 4.77670 5.23178 1.13977 4.54310 1.36043 3.23809 4.86461 4.97805 4.68331 4.65941 4.15663 3.60585 1.73085 5.53503 4.42454 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 5 2.63986 4.14933 3.97978 3.39995 2.23595 3.72175 4.00591 2.37550 3.29612 2.02928 3.24849 3.16322 4.09156 3.53572 3.51496 3.00174 2.30403 2.31945 4.73518 3.30530 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 6 2.60886 5.02512 2.82513 2.27508 4.36122 3.41575 3.70624 3.80515 2.49049 3.35877 4.15300 2.64993 3.86716 2.48284 2.95943 1.67666 2.71173 3.42832 5.55273 4.18320 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 7 2.57139 5.01625 2.27263 2.38199 4.31247 3.42549 3.38041 3.39219 2.40307 3.30441 4.07969 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 313 2.68775 5.14205 2.24351 1.84231 4.45536 2.95875 3.64543 3.34767 2.41879 3.43421 4.19684 2.62908 3.83415 2.59257 2.91540 2.65413 2.92401 3.36017 5.59190 4.18810 338 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 314 2.73262 5.18842 2.73054 1.77130 4.52619 3.44449 3.64647 3.99068 1.80249 3.47660 4.24139 2.91662 3.86176 2.65563 2.61050 2.69474 2.75090 3.57724 5.60975 4.22470 339 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 315 2.64620 5.06240 2.82962 1.95617 4.37367 3.42767 3.61814 3.83293 2.06111 3.21089 4.11415 2.91090 3.15440 2.72847 2.55628 2.56443 2.77512 3.09285 5.51442 4.12976 340 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 316 4.04038 5.17665 4.94981 4.72117 1.56619 4.68671 3.59783 3.68917 4.54709 2.95340 4.26472 4.31819 4.98174 4.42026 4.50990 4.07866 4.25708 3.62705 3.70719 0.71729 341 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 317 2.64376 4.93404 2.98888 2.07529 4.20394 3.28458 3.64485 3.38025 1.93251 3.03318 3.99824 2.96022 3.84251 2.77601 2.76675 2.52743 2.63286 2.99216 5.41440 4.06130 342 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 318 2.18794 4.36137 3.54731 3.18288 4.32735 3.15811 4.25334 3.69838 3.19446 3.40364 4.24495 3.40777 1.28881 3.50707 3.53313 2.05206 2.86602 2.93547 5.67754 4.44615 343 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 319 2.85489 4.30274 4.27168 3.40312 1.60072 3.93968 4.03752 2.61160 3.57618 1.75653 3.07980 3.88310 4.28447 3.77182 3.74112 3.23578 3.08382 2.49386 4.53107 2.76077 344 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 4.27269 4.99503 0.61958 0.77255 0.48576 0.95510\n- 320 2.68408 4.91363 3.06510 2.42460 4.17851 3.49123 3.66286 3.33813 1.88841 3.17313 3.98224 2.85689 3.87807 2.70377 2.40059 2.59648 2.90946 2.47893 5.38768 4.06103 345 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01414 4.26589 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas1_I_II_III_IV_V_VI_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1007 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas1_I_II_III_IV_V_VI_8\n-LENG 328\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:45:40 2020\n-NSEQ 37\n-EFFN 6.291626\n-CKSUM 2663003314\n-GA 100 100;\n-STATS LOCAL MSV -10.8717 0.70059\n-STATS LOCAL VITERBI -11.5084 0.70059\n-STATS LOCAL FORWARD -5.6185 0.70059\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53506 4.57599 3.03182 2.63163 3.28306 2.99621 3.69685 2.76170 2.64037 2.31967 3.75512 3.02700 3.49372 3.07121 2.79171 2.68187 2.89893 2.69140 4.71182 3.35456\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.44593 5.47355 1.03401 0.61958 0.77255 0.00000 *\n- 1 2.90958 4.67465 3.08605 2.78776 3.16499 3.09840 2.47699 2.32491 2.48134 2.27312 2.68902 3.57840 4.25178 3.42451 3.48632 3.11006 3.14126 2.42300 5.25048 4.00777 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00969 5.03731 5.75966 0.61958 0.77255 1.02397 0.44499\n- 2 2.38229 5.32969 2.84697 2.45960 4.62262 3.75030 3.94377 3.36651 2.22633 2.79871 2.28188 2.94662 4.14236 3.06019 2.82312 2.04952 2.85291 3.69200 5.79491 4.41784 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00846 5.17269 5.89504 0.61958 0.77255 0.65088 0.73728\n- 3 2.72634 3.84031 2.62064 2.80449 4.63717 2.93714 3.38155 4.07767 2.01460 2.84896 2.13414 3.33798 3.37875 3.15764 2.75331 2.75873 2.77928 3.19821 5.83623 4.47071 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00722 5.33103 6.05338 0.61958 0.77255 0.32468 1.28286\n- 4 3.13642 4.96640 3.86069 3.29646 3.40770 3.17043 4.31094 3.49217 2.24998 2.85104 2.15648 2.60719 4.45572 3.58329 1.95617 3.30518 3.00911 2.59184 2.74378 4.27752 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00623 5.47730 6.19965 0.61958 0.77255 0.57052 0.83294\n- 5 2.65540 5.59253 2.94497 2.44244 4.92913 3.87910 4.06703 3.54508 2.22357 3.89419 3.68729 3.34986 4.27237 2.42818 1.99924 2.50709 1.89058 3.56206 6.03030 3.77288 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00623 5.47730 6.19965 0.61958 0.77255 0.57052 0.83294\n- 6 2.79291 4.72790 4.33124 3.75534 3.84415 4.20402 4.48596 2.90377 3.67656 1.69639 3.25411 2.25616 3.47568 3.93988 3.94720 2.00062 2.12134 2.37471 5.32951 4.12178 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00623 5.47730 6.19965 0.61958 0.77255 0.57052 0.83294\n- 7 3.43709 4.78773 5.41612 4.80707 2.57844 4.63610 4.96530 1.92890 4.59924 1.88913 2.68148 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00787 5.24387 5.96622 0.61958 0.77255 1.14284 0.38407\n- 321 2.98623 5.47979 2.33115 1.64793 4.81777 3.20568 3.94998 4.29868 2.41424 3.23051 4.52246 3.23191 4.15544 3.04874 2.17429 2.79002 2.55096 2.73273 5.91665 4.51008 375 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00787 5.24387 5.96622 0.61958 0.77255 1.14284 0.38407\n- 322 2.99501 5.23718 2.96130 2.56401 3.16608 2.63495 3.37919 3.91092 2.58084 3.07430 4.30450 3.33603 4.20698 3.15950 3.27705 2.15798 3.22642 3.57560 5.72982 1.63314 376 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00787 5.24387 5.96622 0.61958 0.77255 1.14284 0.38407\n- 323 2.98751 5.47410 3.24578 1.91070 4.81004 3.32467 3.54518 4.28876 2.05227 3.37613 4.51737 3.23574 4.15755 2.54638 2.34086 2.42064 3.21844 3.18951 5.91176 2.34494 377 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 5.24387 3.67162 0.61958 0.77255 1.14284 0.38407\n- 324 2.67924 5.23176 3.35674 2.54932 4.49185 2.36302 4.01157 3.91719 2.79923 3.50459 4.30669 3.32747 1.65630 3.15174 2.91070 2.26051 3.21865 3.01696 5.73238 3.10357 378 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 5.22073 3.75944 0.61958 0.77255 1.18461 0.36509\n- 325 2.67096 4.56212 4.19939 2.55875 2.03876 3.24504 4.33614 3.02637 3.54058 2.08153 3.67320 3.92783 2.46554 3.80038 3.80382 2.52612 3.23178 2.53222 3.54135 3.19677 379 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12464 5.19984 2.19220 0.61958 0.77255 1.22012 0.34984\n- 326 2.91860 5.10712 2.84362 2.56479 2.69307 2.72462 3.95751 3.75653 2.50085 2.62916 3.42162 2.99912 4.14243 2.83268 2.42179 2.95639 3.14992 2.14933 5.61219 4.27989 380 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04153 5.08444 3.36721 0.61958 0.77255 1.38570 0.28788\n- 327 1.62583 4.37860 4.51855 3.92573 3.47746 4.05483 4.36629 2.52856 3.78538 1.95480 2.25272 4.08329 4.42252 3.02395 3.92511 2.91528 3.16515 2.18046 4.99357 3.30767 381 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11199 5.05246 2.30711 0.61958 0.77255 1.42422 0.27535\n- 328 2.88052 4.43208 4.10879 3.52939 3.54453 2.86485 4.22210 2.55784 2.43126 2.31750 3.02278 3.82448 4.31224 3.69622 3.10919 3.21068 3.11220 2.19557 1.89305 3.83039 382 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00713 4.94760 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,281 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_12\n-LENG 86\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 80\n-EFFN 2.016602\n-CKSUM 1626453317\n-GA 41.1 41;\n-STATS LOCAL MSV -9.3004 0.71848\n-STATS LOCAL VITERBI -9.6816 0.71848\n-STATS LOCAL FORWARD -4.1417 0.71848\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61520 4.46945 3.12935 2.66903 3.43455 2.65504 3.87596 2.74435 2.86837 2.35039 3.40060 3.22412 3.50870 3.17806 2.84912 2.79362 2.83961 2.32200 4.18902 3.60762\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02076 4.63067 4.52871 0.61958 0.77255 0.00000 *\n- 1 3.27469 4.85374 5.19917 4.62508 2.67059 4.74012 4.99536 2.55872 4.47352 1.50027 0.97671 4.80421 4.94886 4.53526 4.53989 4.08027 3.74276 2.69095 5.28378 4.15184 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01468 4.62459 5.34694 0.61958 0.77255 0.49751 0.93661\n- 2 2.55307 4.26536 4.46782 3.88188 3.39078 3.99854 4.33410 2.14759 3.74439 1.92361 3.06135 4.03752 4.35923 3.94621 3.88434 3.19200 1.84016 1.73167 4.94747 3.76012 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02180 4.62459 4.44366 0.61958 0.77255 0.49751 0.93661\n- 3 3.44841 4.69371 5.39095 4.87672 3.89804 4.92961 5.48955 1.76656 4.77872 2.23172 3.21000 5.04171 5.17500 4.98975 4.92193 4.31662 3.55833 0.67661 5.88437 4.70599 3 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01478 4.61758 5.33992 0.61958 0.77255 0.51080 0.91633\n- 4 2.79979 4.48974 5.11468 4.54236 3.15122 4.48223 4.88162 1.33301 4.38697 1.80988 2.90090 4.61689 4.78011 4.52736 4.44551 3.82091 3.41686 1.43247 5.31392 4.15708 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01478 4.61758 5.33992 0.61958 0.77255 0.49178 0.94555\n- 5 2.73678 4.24876 4.51061 3.92317 3.38196 3.99777 4.33877 1.93312 3.77557 2.40770 3.14233 4.05649 4.35995 3.97147 3.89907 3.03150 2.62712 1.22272 4.93443 3.42318 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62370 5.34604 0.61958 0.77255 0.47744 0.96855\n- 6 2.39423 3.88491 4.39844 3.81504 3.38542 3.94952 4.29718 2.51554 3.68326 1.66483 3.09563 3.98408 4.32256 3.89118 3.83719 3.25093 1.85974 1.91309 4.93404 3.74700 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 7 2.72209 5.21064 3.01117 1.83435 4.53792 3.52793 3.71574 3.79579 2.38136 3.50641 4.25761 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 79 2.67023 4.08959 4.34600 3.43840 3.23039 3.90263 4.21836 1.99014 3.45499 2.29367 3.23479 3.92371 4.26835 3.82569 3.55473 3.19645 2.69905 1.34626 4.85357 3.66494 96 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03311 4.63067 3.77994 0.61958 0.77255 0.48576 0.95510\n- 80 2.79552 5.38783 1.36206 1.76094 4.69798 3.53109 3.83920 3.81242 2.66033 3.68178 4.45765 3.00138 4.00383 2.96214 3.17552 2.75204 2.99043 3.76058 5.84108 4.13772 97 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01486 4.61241 5.33476 0.61958 0.77255 0.46469 0.98975\n- 81 2.51168 3.60463 4.62339 4.01370 2.07520 3.90174 3.47345 2.15187 3.81639 1.93150 2.95297 4.03682 4.26613 3.96279 3.85336 3.12589 2.97363 2.19825 4.48223 2.77390 98 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 82 3.34905 6.01999 0.90308 1.69183 5.31586 3.56151 4.14133 4.86986 3.20907 4.32797 5.18158 3.01148 4.20641 3.30790 3.85185 2.43308 3.64692 4.40481 6.47665 4.91834 99 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 83 3.85157 5.48888 4.66599 4.67823 5.69048 0.15004 5.68097 5.53911 4.95196 5.06066 6.08520 4.83387 4.89045 5.21781 5.04485 4.05297 4.38364 4.92360 6.52501 5.83771 100 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 84 2.59625 4.21710 4.58047 3.97971 3.19101 3.97184 3.77632 2.01774 3.80855 1.28928 2.85826 4.06500 4.32689 3.97059 3.88647 3.27643 3.00866 2.14310 4.83574 3.54694 101 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.63067 4.53129 0.61958 0.77255 0.48576 0.95510\n- 85 2.73744 4.57537 3.45190 2.88804 3.73174 3.67161 3.80425 2.84700 2.53349 2.42655 3.57353 3.33721 3.22489 2.58322 3.00354 2.71983 2.39266 2.54532 3.10039 3.47569 102 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01468 4.62462 5.34697 0.61958 0.77255 0.47852 0.96679\n- 86 3.82482 5.10819 5.54958 5.05416 3.43354 5.08184 5.51865 2.46327 4.86136 0.50109 3.21468 5.25661 5.25761 4.91168 4.90436 4.51677 4.07090 2.17646 5.63440 4.58167 103 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00984 4.62593 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I-E_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I-E_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,302 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_2\n-LENG 93\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:00 2020\n-NSEQ 5\n-EFFN 0.864258\n-CKSUM 3168698118\n-GA 57 57;\n-STATS LOCAL MSV -9.1879 0.71826\n-STATS LOCAL VITERBI -9.9508 0.71826\n-STATS LOCAL FORWARD -4.1219 0.71826\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53164 4.47199 3.13949 2.74831 3.40567 2.71353 3.94566 2.68259 2.88473 2.31427 3.45300 3.17854 3.31529 3.23948 2.83926 2.77695 2.91346 2.32815 4.38725 3.64637\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.00000 *\n- 1 3.17607 4.69029 4.31738 3.93576 3.33718 4.01913 4.61537 2.53796 3.68882 1.90113 0.98159 4.18149 4.48678 4.05802 3.86449 3.54721 3.48915 2.57075 5.20613 3.98618 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 2 3.21453 4.56235 4.79408 4.23027 3.18740 4.46012 4.79997 2.12718 4.09395 1.09611 2.38314 4.47616 4.68984 4.24166 4.23455 3.79924 3.44399 1.72892 5.19623 4.10786 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 3 3.00260 4.48632 4.45335 4.13042 3.73821 3.96710 4.89457 2.07071 4.00213 2.38735 3.67280 4.27996 4.51898 4.34754 4.19061 3.49098 3.36127 0.76749 5.56117 4.30507 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 4 3.13731 4.45682 4.85615 4.37390 3.65087 4.47442 5.09776 1.53836 4.25746 2.16148 3.46014 4.58132 4.80738 4.53514 4.45733 3.87388 3.41174 0.92816 5.61957 4.40012 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 5 3.00260 4.48632 4.45335 4.13042 3.73821 3.96710 4.89457 2.07071 4.00213 2.38735 3.67280 4.27996 4.51898 4.34754 4.19061 3.49098 3.36127 0.76749 5.56117 4.30507 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 6 1.89825 4.23801 3.74462 3.29025 3.87253 3.27531 4.21444 2.82178 3.22800 2.83228 3.79325 3.49804 3.91062 3.53458 3.53210 2.67116 1.60960 2.09967 5.35738 4.14354 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 7 2.79310 5.18603 2.71084 1.69516 4.52226 3.40979 3.65960 3.97510 2.33959 3.47473 4.27489 2.2915'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 86 2.61596 4.56350 3.24008 2.69019 3.80347 3.47337 3.74666 3.16089 2.54353 2.30498 3.70642 3.14323 2.53849 2.96327 2.49570 2.73547 2.47031 2.89450 5.15560 3.88683 90 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 87 3.43611 4.83088 4.57497 4.22258 3.24510 4.28496 4.80357 2.46881 3.98818 0.62690 3.20469 4.47482 4.68317 4.29815 4.12214 3.89425 3.72173 2.56736 5.20460 3.98123 91 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 88 3.00260 4.48632 4.45335 4.13042 3.73821 3.96710 4.89457 2.07071 4.00213 2.38735 3.67280 4.27996 4.51898 4.34754 4.19061 3.49098 3.36127 0.76749 5.56117 4.30507 92 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23216 4.11303 1.65642 0.61958 0.77255 0.48576 0.95510\n- 89 2.74532 4.46353 3.60104 3.04191 3.53657 3.63966 3.89393 1.84564 2.61713 2.41322 3.49755 3.41314 4.04836 3.17937 2.15366 2.97204 2.99228 2.47203 5.04707 3.79576 93 i - - -\n- 2.68624 4.42231 2.77526 2.73096 3.46360 2.40519 3.72501 3.29360 2.67716 2.69361 4.24696 2.90353 2.73746 3.18153 2.89807 2.37870 2.77526 2.98525 4.58483 3.61509\n- 0.20575 1.73589 4.63341 0.92584 0.50451 0.38179 1.14771\n- 90 2.05983 4.64491 3.21581 2.71731 4.21889 3.33388 3.80126 3.61277 2.46396 3.22567 4.06138 3.13425 3.85817 2.97558 1.72177 2.23897 2.90158 3.23770 5.43870 4.16777 97 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 91 1.47631 4.32447 3.85634 3.42046 2.06566 3.52768 4.12061 2.73419 3.36424 2.44783 3.54390 3.63914 4.07678 3.63444 3.62576 2.91456 2.98900 2.55386 4.87342 3.47629 98 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 92 2.65557 4.46359 3.34121 2.85091 3.46852 3.52901 2.93235 3.01270 2.73152 1.78623 3.60372 3.26252 3.95975 3.12424 3.06613 2.27569 2.90967 2.77925 4.92794 3.58647 99 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 93 3.10337 4.81326 3.73761 3.61622 4.57974 3.48750 4.66811 4.19450 3.69561 3.79205 4.85653 3.89558 0.48129 4.07680 3.90804 3.27984 3.56505 3.81105 5.69318 4.70577 100 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01663 4.10505 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,293 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_1\n-LENG 90\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:00 2020\n-NSEQ 12\n-EFFN 2.633789\n-CKSUM 1436913945\n-GA 67 67;\n-STATS LOCAL MSV -9.2457 0.71841\n-STATS LOCAL VITERBI -9.9622 0.71841\n-STATS LOCAL FORWARD -3.8490 0.71841\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65445 4.37213 2.89353 2.62376 3.34917 3.17950 3.91633 2.73349 2.56385 2.35480 3.54368 3.11702 3.67008 2.94980 2.76338 2.66310 2.93890 2.57597 5.13063 3.30130\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.00000 *\n- 1 3.35215 5.19342 4.09801 3.38435 4.43089 4.11088 4.10348 3.76248 2.09458 3.32379 0.95423 3.73843 4.47051 3.29961 2.12277 3.46686 3.53701 3.53838 5.61218 4.44052 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 2 3.20099 4.65973 4.52953 3.97226 2.49622 4.24234 4.19602 3.05049 3.77802 1.38746 3.67463 4.13260 4.58986 4.02033 1.98623 3.53912 3.42795 2.91016 4.64790 1.85661 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 3 2.83009 4.25836 4.49155 3.89444 3.35170 3.96286 3.16956 2.29914 3.73727 1.93714 2.74533 4.01930 4.32906 3.92604 2.83772 3.26007 3.06209 1.55662 4.87335 2.92566 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 4 3.90396 5.10457 5.90471 5.36927 3.68765 5.39609 5.84016 1.46833 5.26019 0.75024 3.42550 5.55455 5.48210 5.23848 5.27344 4.80667 4.13108 1.96132 5.90326 4.89129 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 5 3.26206 4.58346 5.16343 4.59027 3.59663 4.53811 4.89863 1.99842 4.42641 1.77157 3.53414 4.66121 4.84550 4.57279 4.48801 3.87258 3.49858 0.95443 5.33525 2.75687 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 6 2.41043 3.13253 4.69553 4.08801 2.67227 3.99259 4.32344 2.31953 3.89582 2.41090 2.35310 4.12158 4.35730 4.04676 3.94080 2.70523 2.56007 1.64491 4.84838 3.66978 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 7 4.95449 5.84118 5.72059 5.69543 1.12780 5.37908 3.98759 4.49066 5.46957 3.60513 5.00368 4.902'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08571 4.74027 2.61182 0.61958 0.77255 0.66479 0.72233\n- 83 2.89852 5.40025 2.84294 1.59762 4.73513 2.10032 3.82746 4.21990 2.22787 3.70357 4.46487 2.53427 2.94757 2.94100 3.10455 2.84814 3.14008 3.78982 5.84236 4.42213 89 e - - -\n- 2.68653 4.42260 2.77555 2.73120 3.46317 2.40548 3.72530 3.29329 2.67706 2.69353 4.24725 2.90299 2.73738 3.18121 2.89794 2.37922 2.77478 2.98464 4.58512 3.61538\n- 0.52419 0.90780 5.39095 1.05999 0.42535 0.78324 0.61050\n- 84 2.26956 4.92453 3.17251 2.30293 4.15489 3.59114 3.79658 2.93177 2.26507 2.67698 3.99778 3.12987 3.06930 2.95334 2.64681 2.42578 2.98455 2.74107 5.43278 4.10471 95 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01404 4.66860 5.39095 0.61958 0.77255 0.33655 1.25258\n- 85 2.45521 4.93033 3.26834 2.06298 4.14661 3.66343 3.87253 2.94660 2.10997 2.74014 4.00771 3.21745 4.05179 3.04254 2.66497 2.48882 3.04395 2.73675 3.30265 4.13278 96 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 86 2.44632 4.36529 4.31076 3.72949 3.49196 3.99609 4.30813 2.03837 2.83754 2.22588 3.48466 3.95926 3.16345 3.84962 3.81142 3.28373 3.12054 1.35245 5.01681 3.82121 97 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 87 2.89310 5.33090 2.14615 2.55642 4.69111 2.91473 3.87707 4.16480 2.65911 3.67267 4.43502 1.57384 3.08468 2.99164 3.15773 2.48898 3.14082 2.96724 5.82889 4.42454 98 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 88 2.06692 4.93947 3.26252 2.70450 4.15932 3.66114 3.87135 3.56434 2.13553 2.69404 4.01785 2.41345 4.05061 3.03921 3.14402 2.19682 3.04512 2.73311 5.45748 3.19671 99 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 89 3.66361 6.41683 1.27223 0.80548 5.68194 3.73191 4.38868 5.28370 3.55943 4.71711 5.62506 3.17737 4.42194 3.57305 4.26799 3.48270 3.98045 4.80045 6.84251 5.23657 100 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82658 5.54893 0.61958 0.77255 0.48576 0.95510\n- 90 2.81154 5.30592 2.62702 2.26870 4.64387 2.83215 3.77469 4.12507 2.06087 2.94456 4.34878 3.05481 2.55214 2.48096 3.00482 2.43989 2.63037 3.69279 5.74273 4.33567 101 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00808 4.82268 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,326 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_10\n-LENG 101\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 32\n-EFFN 1.433594\n-CKSUM 3934902207\n-GA 40 40;\n-STATS LOCAL MSV -9.6590 0.71728\n-STATS LOCAL VITERBI -10.2560 0.71728\n-STATS LOCAL FORWARD -4.3603 0.71728\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73036 4.65691 3.05409 2.55656 3.25137 3.20284 3.72871 2.84976 2.36933 2.37419 3.60570 3.11805 3.50843 3.01276 2.59625 2.70305 2.84828 2.72216 5.07858 3.48290\n- 2.68576 4.42140 2.77531 2.73135 3.46365 2.40524 3.72472 3.29346 2.67752 2.69366 4.24413 2.90358 2.73751 3.18158 2.89812 2.37898 2.77531 2.98530 4.58488 3.61471\n- 0.33508 1.27737 5.12431 0.64458 0.74419 0.00000 *\n- 1 3.23109 4.60575 4.81848 4.23674 3.10360 4.39100 4.58515 2.52148 4.04374 1.34884 1.30706 4.40930 4.65115 4.19015 4.14450 3.71349 3.45203 2.60943 3.63261 3.74462 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 2 2.83067 4.22516 4.52931 3.94335 3.05572 4.00766 4.32699 1.35347 3.79181 1.87046 3.25929 3.74726 4.35306 3.97329 3.90323 3.31574 3.06435 1.94523 4.87541 3.34161 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 3 2.66204 5.28048 1.67618 2.35949 4.60820 3.43998 3.08251 4.08986 2.56505 3.59229 4.36481 2.31321 3.91154 2.87110 3.07762 2.27506 2.89242 3.67059 5.74800 4.32605 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 4 2.54421 4.64052 3.35348 2.77884 3.83092 3.61192 3.81351 2.23257 1.74346 2.59716 3.73661 3.23823 3.99589 3.03786 2.84055 2.69078 2.95197 2.91637 5.18691 3.92442 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 5 2.02936 5.07996 2.69089 2.19960 4.38881 3.28016 3.66177 3.84673 2.41993 3.37362 4.13979 2.71028 3.85725 2.77503 2.71961 2.24631 2.74256 3.17242 5.54533 4.16023 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 6 2.57817 4.94937 3.01891 2.48248 4.27010 3.04552 3.70707 3.70565 2.48234 3.27476 4.06592 2.45286 3.87750 2.66364 2.80551 2.19220 2.07532 3.19373 5.48273 4.12771 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 7 1.76054 4.22062 4.21637 3.63638 2.71740 3.87179 4.19670 2.30856 3.52287 1.88665 3.28677 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02121 4.25971 4.98206 0.61958 0.77255 0.67275 0.71397\n- 94 2.55859 4.85071 3.01638 2.28830 4.09523 3.45506 3.29264 3.16915 2.33976 2.71398 3.71965 2.71876 3.40922 2.55014 2.81702 2.57535 2.85996 2.86714 5.34837 4.00878 98 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04752 4.25971 3.43322 0.61958 0.77255 0.67275 0.71397\n- 95 2.54641 5.05190 2.79616 2.00656 4.36203 2.94455 3.17162 3.82368 2.30001 3.04370 4.10267 2.71660 3.63387 2.71561 2.61492 2.60911 2.76252 3.29143 5.50551 4.11708 99 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02177 4.23396 4.95631 0.61958 0.77255 0.70072 0.68564\n- 96 2.62737 4.68589 3.12763 2.46831 3.89028 3.49038 3.69827 2.84566 2.41736 2.67485 3.20577 2.84363 3.65211 2.77697 2.27973 2.70454 2.78273 2.90711 5.21151 3.91107 100 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04542 4.23396 3.50972 0.61958 0.77255 0.70072 0.68564\n- 97 2.50195 5.01324 2.89592 2.18773 4.31592 2.90588 3.61707 3.76789 2.05344 3.08400 4.07596 2.69444 3.16192 2.73434 2.85145 2.47601 2.75478 3.38306 5.48149 4.10341 101 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02228 4.21083 4.93317 0.61958 0.77255 0.65280 0.73519\n- 98 2.73519 4.87413 3.18303 2.59265 4.12060 3.54396 2.83094 3.52725 2.26658 2.71426 3.43142 2.87573 3.92303 2.83654 1.80912 2.77641 2.95285 3.21921 5.33383 4.03926 102 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04661 4.24596 3.46676 0.61958 0.77255 0.68787 0.69846\n- 99 2.85343 5.15091 3.15901 2.57820 4.53039 3.14512 3.65318 3.93502 1.39938 3.41902 4.22550 3.06750 3.95417 2.51542 2.20127 2.83822 2.77147 3.56944 5.52988 4.24503 103 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22140 4.94375 0.61958 0.77255 0.71382 0.67289\n- 100 2.56500 4.91473 3.00145 2.38654 4.18353 3.45070 3.63598 3.47061 1.80168 2.98415 3.98001 2.96292 3.63524 2.53810 2.71833 2.58636 2.71741 3.01655 5.39208 4.04787 104 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22140 4.94375 0.61958 0.77255 0.71382 0.67289\n- 101 2.61643 4.25979 3.63292 3.06219 3.38732 3.24923 3.89200 2.20663 2.96778 1.86555 3.36682 3.42402 4.00398 2.98576 3.02830 2.71862 2.84937 2.42990 4.85452 3.63545 105 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.21425 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,326 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_11\n-LENG 101\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 32\n-EFFN 0.613281\n-CKSUM 550856203\n-GA 51.4 51.3;\n-STATS LOCAL MSV -9.3688 0.71721\n-STATS LOCAL VITERBI -10.2517 0.71721\n-STATS LOCAL FORWARD -4.0541 0.71721\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68528 4.46550 3.05817 2.69328 3.16401 3.08980 3.86408 2.64876 2.67556 2.35684 3.31798 3.15437 3.60026 3.00944 2.75065 2.76972 2.85581 2.49143 5.09696 3.37897\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06457 3.95323 3.13875 0.61958 0.77255 0.00000 *\n- 1 3.00552 4.54703 4.09891 3.69581 3.22799 3.86848 4.42027 2.40820 3.46138 1.81570 1.29224 3.96761 4.32931 3.84020 3.66129 3.35947 3.31171 2.41967 5.07499 3.84084 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02996 3.91863 4.64097 0.61958 0.77255 0.51888 0.90432\n- 2 3.05736 4.89356 3.55270 3.05397 4.25983 3.53670 3.85751 3.80460 2.25574 3.31213 4.31097 3.41026 4.03691 3.07542 0.91018 3.13922 3.32009 3.52652 5.32408 4.17701 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02996 3.91863 4.64097 0.61958 0.77255 0.51888 0.90432\n- 3 3.09818 4.55133 4.40480 3.93163 3.13849 4.17021 4.60175 2.13216 3.72247 1.00996 3.03357 4.19959 4.52315 4.01887 3.91527 3.56871 3.37277 1.99512 5.11890 3.89772 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02996 3.91863 4.64097 0.61958 0.77255 0.50344 0.92748\n- 4 3.10767 4.50041 4.52766 3.96932 3.12141 4.30349 4.61612 1.82048 3.81319 1.48419 1.78655 4.25747 4.55604 4.02856 3.99975 3.63502 3.33938 2.10973 5.10300 3.97560 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02966 3.92859 4.65094 0.61958 0.77255 0.50958 0.91817\n- 5 3.03406 4.38147 4.65293 4.15798 3.50658 4.32585 4.89153 1.39016 4.03911 2.02375 3.32637 4.39235 4.66080 4.31618 4.25090 3.70981 3.30470 1.20584 5.45192 4.24144 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02966 3.92859 4.65094 0.61958 0.77255 0.47116 0.97891\n- 6 3.08046 4.53875 4.35015 3.83914 2.67190 4.14526 4.39721 2.30029 3.69178 1.60867 1.50575 4.10623 4.46477 3.91818 3.88781 3.50044 3.33026 2.36086 4.87156 3.56804 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 7 3.36202 4.74023 4.34938 4.07952 0.88831 4.03228 3.91452 2.87610 3.98459 2.22771 3.59454 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 94 2.48669 4.42527 3.20888 2.69363 3.53783 3.32602 3.76148 3.14030 2.62812 2.77060 3.69783 3.11634 3.81036 2.99368 2.82338 1.98202 2.23621 2.84655 5.13554 3.85796 94 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 95 2.06471 4.73111 2.19947 2.38522 4.29650 3.18358 3.75765 3.73135 2.65059 3.33519 4.15424 2.80097 3.75711 2.92823 3.12943 1.93487 2.87727 3.32016 5.55358 4.19685 95 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 96 2.74483 5.31463 1.63963 1.79018 4.61144 3.13304 3.68230 4.09627 2.47601 3.60852 4.42475 2.70684 3.80077 2.83111 3.14907 2.72800 2.92573 3.68540 5.77996 4.32155 96 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 97 2.95304 5.01974 3.38248 2.76937 4.44947 3.59519 3.61956 3.79320 1.79738 3.29651 4.17682 3.17148 3.99221 2.76686 1.32988 2.97648 3.01148 3.48511 5.39588 4.20949 97 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 98 2.55650 4.30748 3.66284 3.19572 3.63134 3.43513 4.12406 2.53217 3.06273 2.27540 3.56752 3.48852 3.98818 3.43525 3.36274 2.81039 1.61166 2.20537 5.21623 3.96646 98 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 99 3.06709 4.39615 4.70048 4.18438 3.48796 4.39587 4.90072 1.47055 4.06683 1.92541 3.30288 4.42912 4.69520 4.33058 4.27562 3.76502 3.32541 1.16826 5.43856 4.23814 99 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 100 3.04574 4.38263 4.66652 4.11798 3.20110 4.34720 4.75018 1.37678 4.01470 1.83128 2.77037 4.35819 4.61727 4.21467 4.19545 3.68775 3.28657 1.50627 5.24604 4.09039 100 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 101 3.17624 4.51403 4.70513 4.18819 3.23492 4.43928 4.82063 1.32932 4.01772 1.36485 3.07420 4.44759 4.69624 4.25420 4.19091 3.81322 3.42144 1.88161 5.25079 4.07147 101 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01956 3.94387 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,236 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_13\n-LENG 71\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 420\n-EFFN 7.905121\n-CKSUM 3640582415\n-GA 18 18;\n-STATS LOCAL MSV -8.7627 0.71871\n-STATS LOCAL VITERBI -9.3398 0.71871\n-STATS LOCAL FORWARD -4.0217 0.71871\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.80367 4.06677 2.79074 2.71822 3.07677 3.30349 3.96599 2.71867 2.54726 2.40481 3.52193 3.12733 3.77384 2.95116 2.72498 2.68397 3.05082 2.59518 4.64614 3.11119\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10392 5.75067 2.34839 0.61958 0.77255 0.00000 *\n- 1 3.15588 5.08804 3.66873 3.06346 4.33300 3.94550 3.74186 3.69905 3.02358 3.33285 0.77746 3.41350 4.21275 3.48346 3.31183 3.10642 3.13792 3.34967 5.55681 4.40585 1 m - - -\n- 2.68593 4.42244 2.77533 2.73144 3.46359 2.40531 3.72518 3.29349 2.67714 2.69324 4.24691 2.90340 2.73751 3.18155 2.89796 2.37903 2.77494 2.98517 4.58495 3.61515\n- 0.21572 1.65854 5.62045 0.62100 0.77091 0.75860 0.63171\n- 2 3.26263 4.95702 3.22470 3.55105 2.48161 4.15455 3.94733 3.19874 3.01964 1.93736 2.82066 3.33025 4.24003 3.72571 2.10698 3.34858 3.28502 3.17059 2.72609 2.31866 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00513 5.67130 6.39365 0.61958 0.77255 0.31669 1.30400\n- 3 3.07895 4.33577 5.32412 4.70795 3.35185 4.51962 4.24188 1.85961 4.49022 2.05613 2.27137 4.68574 4.88321 4.61926 3.50644 3.73394 3.23641 1.56908 3.59161 2.18050 5 v - - -\n- 2.68625 4.42143 2.77529 2.73133 3.46315 2.40522 3.72478 3.29363 2.67750 2.69360 4.24699 2.90356 2.73749 3.18156 2.89810 2.37896 2.77515 2.98524 4.58468 3.61336\n- 0.12246 2.17411 6.47127 0.11235 2.24182 0.47936 0.96543\n- 4 2.41334 4.44993 5.35058 4.73472 3.21828 4.54640 4.88080 1.68312 4.51736 1.08887 3.30683 4.71310 4.90758 4.51058 4.52054 3.85878 3.56027 1.97862 4.29115 4.05140 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 5 3.51208 3.77203 5.99408 5.44197 4.14986 5.00717 5.77754 1.18202 5.28800 1.93185 4.06525 5.47779 5.61795 5.46202 5.34308 4.66496 4.09014 0.94298 6.21802 5.02347 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 6 2.21373 2.84594 5.31468 4.69929 2.12596 4.24191 4.85336 2.31142 4.48398 2.60721 2.66398 4.68239 4.88342 4.61506 4.49191 2.45349 2.06647 1.92212 5.34692 3.83162 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 7 5.92458 4.46942 6.64357 6.68577 1.07080 6.27275 4.81241 5.46001 6.44098 4.53143 5.95468 5.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14339 5.75067 2.03713 0.61958 0.77255 0.48576 0.95510\n- 64 3.24846 4.36863 5.25901 4.64439 1.87886 4.45943 4.78594 2.39520 4.42788 1.93981 3.44191 4.62326 4.82038 4.55427 4.43208 3.67860 3.46837 2.48496 4.85087 1.22316 124 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01343 5.61272 4.63667 0.61958 0.77255 1.05659 0.42716\n- 65 3.13949 4.75393 3.04227 2.64945 3.68830 3.74292 3.64296 3.46846 1.90517 3.57643 4.02948 3.28655 2.09284 2.94528 2.49990 2.75954 2.75679 2.91118 5.29830 3.04833 125 k - - -\n- 2.68620 4.42232 2.77514 2.73123 3.46351 2.40498 3.72502 3.29361 2.67748 2.69362 4.24697 2.90348 2.73742 3.18154 2.89773 2.37891 2.77522 2.98526 4.58462 3.61510\n- 0.05631 2.93810 6.32711 0.67207 0.71468 0.23886 1.54894\n- 66 3.30505 4.72824 5.30349 4.68907 2.96976 4.52009 4.85318 1.65416 4.47667 1.19846 3.33150 3.79156 4.20235 4.01272 4.48915 3.09896 3.45432 1.79224 5.35032 4.17413 128 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 67 3.22613 2.58492 2.44021 2.28542 5.10458 2.36932 4.12935 4.49263 2.82592 3.99388 3.82044 3.02245 3.74582 3.08320 2.66722 2.52616 1.76090 4.15121 6.19585 4.39650 129 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 68 2.40689 5.76944 1.95169 1.78503 4.79400 3.11327 4.21650 4.47935 2.54207 3.80805 4.53099 2.42117 3.48751 2.64994 3.03298 2.45926 3.14936 3.59946 6.20146 4.55610 130 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 69 2.78236 5.03309 2.77834 2.40790 5.11444 2.86251 3.41399 4.29315 1.75804 4.07422 4.45896 2.16765 3.96434 2.97378 2.70217 2.59035 2.85942 4.00961 3.14233 3.74816 131 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 70 2.72728 2.69749 3.01768 2.78596 3.87509 3.50794 4.09815 4.30987 2.60012 3.95520 3.65563 3.08025 4.21766 1.67071 2.82234 2.27652 2.98498 3.75171 3.40724 3.25514 132 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.75067 6.47301 0.61958 0.77255 0.48576 0.95510\n- 71 3.08939 5.25765 2.37069 2.76328 2.24100 4.02225 3.85841 3.44619 2.26817 3.05069 4.24031 3.01925 4.40984 2.69500 2.88529 3.10486 3.42205 2.98593 3.12592 2.36385 133 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00319 5.74912 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,260 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_3\n-LENG 79\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:00 2020\n-NSEQ 121\n-EFFN 3.740631\n-CKSUM 1191527741\n-GA 30 30;\n-STATS LOCAL MSV -9.0867 0.71857\n-STATS LOCAL VITERBI -9.6945 0.71857\n-STATS LOCAL FORWARD -4.0152 0.71857\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74708 4.17247 2.80086 2.61628 3.29470 3.13241 3.90623 2.70067 2.56791 2.44107 3.79560 3.17733 3.83592 2.98103 2.73351 2.68111 2.99146 2.47150 4.81021 3.16717\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.00000 *\n- 1 2.73919 3.67794 4.91241 4.29800 3.42972 4.12929 4.10227 2.12061 4.08566 2.20507 2.96127 4.28763 4.49303 4.21922 4.09825 3.44009 2.96296 1.40446 3.61536 2.18046 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 2 2.97729 4.61204 5.23439 4.63312 3.41903 4.49060 4.83736 1.48353 4.43752 1.22088 3.52845 4.64892 4.81369 4.54832 4.45025 3.81393 3.50132 1.73408 3.72051 4.11895 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 3 3.53469 4.99493 5.84878 5.33246 3.85590 5.27419 5.82582 1.17183 5.22834 1.89609 3.35248 5.43667 5.50108 5.38316 5.30856 4.66596 4.01635 0.98785 6.13930 4.98188 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 4 2.34947 3.13203 4.85346 4.24335 2.50612 4.12439 4.45471 2.12989 4.04443 2.46985 3.31234 4.26265 4.48870 4.18956 4.07863 2.47992 2.17116 1.70403 4.97048 3.57834 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 5 5.23089 6.12582 5.93065 5.92742 2.44749 5.59824 4.26531 4.79218 5.70562 3.89053 5.30933 5.16645 5.88115 5.35764 5.49456 5.06675 5.44098 4.76898 4.33625 0.22772 5 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 6 4.81588 6.67871 0.11177 3.88628 6.34490 4.64250 5.60899 6.31717 4.95931 5.69383 6.81118 4.46249 5.35189 4.93170 5.50798 4.73232 5.20121 5.85982 7.16655 6.19405 6 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 7 3.59403 4.58236 5.82268 5.33052 4.01537 5.28009 5.92841 0.86510 5.24796 2.92562 3.98359 5.44'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 72 2.71006 4.44355 3.10133 2.31227 4.18323 3.43087 3.91283 3.32045 2.02586 3.44022 4.35116 3.07121 4.11130 2.71876 2.07612 2.91336 2.62190 2.29815 5.76187 4.38532 89 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 73 2.66066 4.92683 2.74105 1.44534 4.75018 3.56305 3.35928 3.32980 2.19936 3.71469 4.25303 3.06796 4.08987 2.87137 2.49012 2.82778 2.87354 3.52576 5.10726 4.44348 90 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 74 2.66789 4.19180 4.17733 3.81869 3.15063 4.10004 3.07115 1.62328 3.92377 2.12824 3.36921 4.18344 4.46615 3.88029 3.55713 3.28770 2.86338 1.62906 4.60687 3.66806 91 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 75 2.95924 4.34942 4.17185 3.74229 2.87142 4.11771 4.16631 1.97859 3.73198 1.61249 2.99103 4.24761 4.48238 4.17234 3.72500 3.20759 2.64313 1.87837 4.07239 3.01072 92 l - - -\n- 2.68641 4.42155 2.77530 2.73114 3.46352 2.40492 3.72401 3.29239 2.67780 2.69365 4.24729 2.90365 2.73762 3.18171 2.89818 2.37884 2.77530 2.98552 4.58484 3.61393\n- 0.44407 1.03386 5.82585 0.88017 0.53565 0.48576 0.95510\n- 76 3.60195 5.94664 2.78521 2.61569 5.69176 0.47163 4.68122 5.22999 3.81637 4.74943 5.62651 3.32414 4.59231 3.88115 4.42589 3.05034 3.99369 4.69636 6.91876 5.42121 99 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 77 2.09308 5.29989 2.86226 2.36280 4.09651 3.51904 3.80132 3.01789 2.38055 2.78871 4.15594 2.85087 3.53812 2.65180 2.92045 2.62420 2.74095 2.89489 5.76471 3.63108 100 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 78 2.70610 5.42921 2.53507 1.76635 4.15751 2.66085 3.88074 4.25942 2.15821 3.73428 4.24202 2.91924 3.05341 2.76799 2.82189 2.49023 2.97357 3.42552 5.86218 4.45151 101 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10351 5.82585 0.61958 0.77255 0.48576 0.95510\n- 79 2.86255 5.40168 2.80641 2.15554 3.72014 3.17378 3.88685 3.98552 1.87895 3.16486 4.02833 3.09234 2.54660 2.75202 2.65615 2.61349 2.97986 3.19029 5.84168 4.00296 102 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.10055 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,209 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_4\n-LENG 62\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:00 2020\n-NSEQ 34\n-EFFN 3.756104\n-CKSUM 1041243136\n-GA 24.5 23.9;\n-STATS LOCAL MSV -8.5503 0.71889\n-STATS LOCAL VITERBI -8.7471 0.71889\n-STATS LOCAL FORWARD -4.1433 0.71889\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54507 4.81773 2.91385 2.74756 3.42995 2.47979 3.94606 2.85391 2.91983 2.54776 3.62899 3.17178 3.50282 3.17666 2.78753 2.68317 2.88613 2.36819 3.97674 3.46154\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.00000 *\n- 1 2.08348 5.42944 2.60416 2.62796 4.77148 3.70483 3.89177 4.25278 2.26657 3.73238 4.47254 3.17455 4.09920 2.46028 1.71521 2.36537 2.74628 3.81881 5.86355 4.45778 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 2 0.89131 4.85981 4.64838 4.32810 5.25454 3.66509 5.24514 4.69363 4.31399 4.37697 5.16922 4.25238 1.49878 4.55170 4.56574 2.78147 1.97709 4.02861 6.59829 5.44693 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 3 3.44808 5.73182 3.02536 2.65974 5.53270 0.63321 4.62168 5.04989 3.65073 4.57687 5.41538 2.32755 4.53187 3.80716 4.19381 2.65497 3.83483 4.51378 6.73884 5.29677 3 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 4 3.91638 5.09954 6.03038 5.56103 4.35572 5.56352 6.28206 1.85581 5.50763 2.48741 3.38612 5.72333 5.74323 5.71428 5.64823 5.00251 4.17109 0.46184 6.51744 5.33933 4 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 5 5.32476 6.14556 6.02119 6.04658 1.21599 5.67734 4.22642 4.83877 5.81104 3.91092 5.33377 5.17247 5.92106 5.37340 5.54798 5.10828 5.50876 4.81805 4.29099 0.52893 5 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 6 2.81925 4.71403 5.23341 4.68197 3.97596 4.63621 5.11830 2.00319 4.54231 2.50597 3.88847 4.77544 4.99422 4.74428 4.65334 2.81654 3.62381 0.69378 5.65348 4.45740 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 7 1.94497 5.02176 3.93635 3.65534 5.23433 0.79374 4.86109 4.69967 3.79304 4.31668 5.10307 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 55 2.73823 3.88451 4.66667 3.40017 3.48638 4.10661 4.42621 2.07987 3.49675 2.28690 3.15386 4.17708 4.47264 4.08846 3.49470 3.40586 2.77249 1.15399 5.00841 3.82514 61 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 56 2.82302 5.99138 0.96865 1.51173 5.30339 3.83351 4.26476 4.82027 3.18150 3.71990 5.08340 3.03809 4.38783 3.40181 3.74753 2.93583 3.66524 4.37206 6.43209 4.94706 62 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 57 2.10896 4.36522 4.84854 4.24026 2.00362 4.13652 2.83177 2.06134 4.04503 1.71166 3.01938 4.26736 4.49957 4.19143 4.08474 3.44417 3.20925 2.60911 4.97354 2.99902 63 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 58 3.86278 6.62044 0.51321 2.19790 5.91549 3.92572 4.60181 5.51605 3.79547 4.94939 5.86079 3.37377 4.62577 3.78820 4.52348 2.35607 4.18914 5.02054 7.09735 5.46407 64 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 59 4.70528 6.21249 5.55717 5.61679 6.49189 0.06048 6.49246 6.51390 5.90961 5.91789 6.99849 5.72805 5.59716 6.15005 5.88925 4.92737 5.24842 5.84532 7.15351 6.67314 65 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 60 3.03092 4.40644 4.95255 4.34159 3.46255 4.20290 3.79882 1.69777 4.13775 1.24212 2.63395 4.35100 4.55841 4.27093 4.15998 3.51429 3.08383 2.10867 5.02681 3.36176 66 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 61 2.93257 5.05449 3.38527 2.82604 4.27199 3.78215 3.99081 3.28624 2.33461 2.11726 4.13159 3.33492 2.77281 2.49568 2.72867 2.46109 2.32857 2.59360 5.57192 4.25519 67 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00904 5.10688 5.82923 0.61958 0.77255 0.48576 0.95510\n- 62 4.46472 5.63138 6.38257 5.82384 3.03468 5.88153 6.06496 2.87926 5.69742 0.33252 3.41258 6.04845 5.80656 5.44810 5.58912 5.31375 4.65951 2.53075 5.92378 4.90946 68 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00609 5.10394 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,290 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_5\n-LENG 89\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 19\n-EFFN 3.001221\n-CKSUM 231035392\n-GA 40 40;\n-STATS LOCAL MSV -9.2119 0.71843\n-STATS LOCAL VITERBI -9.7589 0.71843\n-STATS LOCAL FORWARD -3.8989 0.71843\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68433 4.44448 2.84031 2.59464 3.32203 3.14918 3.90787 2.69249 2.60466 2.43674 3.64880 3.14882 3.70111 2.96517 2.67562 2.68616 3.01321 2.52751 4.82711 3.22911\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04429 4.92726 3.32200 0.61958 0.77255 0.00000 *\n- 1 3.06048 4.73574 4.04103 3.41110 3.87262 4.00501 4.17929 3.17339 2.52938 2.85847 1.10504 3.76024 4.37595 3.49228 2.52962 3.29805 3.28137 2.44033 5.29554 4.09475 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01119 4.89416 5.61650 0.61958 0.77255 0.56769 0.83663\n- 2 3.38539 4.71836 5.26012 4.67024 2.60690 4.57650 4.76619 2.23901 4.48226 1.20175 2.76436 4.69502 4.85469 4.53198 4.48188 3.90234 3.60782 2.79417 5.08793 1.53770 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01119 4.89416 5.61650 0.61958 0.77255 0.56769 0.83663\n- 3 2.90462 4.35223 4.45629 3.86726 3.33019 4.01467 3.35787 2.79758 3.70837 2.17558 3.46785 4.02311 4.38083 3.92234 2.89363 3.30821 3.13598 1.32688 3.16163 2.43379 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01119 4.89416 5.61650 0.61958 0.77255 0.56769 0.83663\n- 4 3.92095 5.12040 5.94335 5.41293 3.76854 5.42670 5.89347 1.65291 5.30848 0.74051 3.50676 5.58888 5.52518 5.30342 5.32856 4.83821 4.15101 1.69982 5.97306 4.94839 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01119 4.89416 5.61650 0.61958 0.77255 0.56769 0.83663\n- 5 2.47122 4.42987 4.96024 4.37170 3.56967 4.29922 4.66563 1.58476 4.19746 2.51671 3.03145 4.42600 4.64450 4.36051 4.25884 3.61961 3.31141 1.17066 5.17422 2.87822 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01119 4.89416 5.61650 0.61958 0.77255 0.56769 0.83663\n- 6 2.39375 3.27346 4.86138 4.26549 2.67085 4.16638 4.52846 2.18671 4.08233 2.50964 3.48056 4.30342 4.52714 4.23975 4.13425 3.48294 2.44902 1.16133 5.04694 3.86523 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01119 4.89416 5.61650 0.61958 0.77255 0.56769 0.83663\n- 7 4.94180 6.02003 5.45102 5.42039 2.99687 5.10282 4.52893 4.88271 5.28564 4.06561 5.44631 5.1449'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92726 5.64961 0.61958 0.77255 0.48576 0.95510\n- 82 2.85511 5.30603 2.77953 2.33975 4.62756 2.29984 3.82611 4.09659 1.65164 3.60122 3.64857 3.11084 2.64100 2.93138 3.05835 2.82863 3.08663 3.02274 5.75355 4.35770 92 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92726 5.64961 0.61958 0.77255 0.48576 0.95510\n- 83 2.63653 5.16830 2.76865 2.68412 4.54622 2.59159 3.92897 3.99178 2.71037 3.54856 4.33039 2.92662 2.26847 3.05686 3.18805 1.72916 3.12321 2.56310 5.74369 4.37912 93 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92726 5.64961 0.61958 0.77255 0.48576 0.95510\n- 84 2.32434 5.28193 2.86866 1.94679 4.59644 3.63319 3.82376 3.04177 2.34556 3.16978 4.33077 2.82235 2.66518 2.93091 2.60039 2.82488 3.07855 3.65605 5.73328 3.00728 94 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92726 5.64961 0.61958 0.77255 0.48576 0.95510\n- 85 2.84906 5.32830 2.17948 2.12013 4.66057 2.69124 3.81521 3.59595 2.25048 2.88733 4.37254 3.09889 4.02006 2.91599 2.37179 2.81727 2.37329 3.71207 5.76846 4.36567 95 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92726 5.64961 0.61958 0.77255 0.48576 0.95510\n- 86 2.84775 5.27973 2.43794 1.99868 4.59316 2.91298 3.82476 4.05746 2.37690 2.61842 4.32892 3.11440 2.91362 2.93237 3.06033 2.43928 2.82921 3.15766 5.73184 3.20124 96 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92726 5.64961 0.61958 0.77255 0.48576 0.95510\n- 87 2.45873 5.33210 2.60776 1.97686 3.06975 3.62424 3.81281 4.14500 2.35961 3.63281 4.37564 2.16027 3.30169 2.91271 2.59235 2.81421 2.82986 3.30114 5.77121 4.36672 97 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92726 5.64961 0.61958 0.77255 0.48576 0.95510\n- 88 2.85376 4.90592 2.61667 2.37491 2.72635 3.72152 3.93671 2.48117 2.19982 3.14651 3.37234 3.29649 4.10892 2.61750 3.22655 2.93404 3.08519 2.27713 5.43664 4.13503 98 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08215 4.92726 2.63634 0.61958 0.77255 0.48576 0.95510\n- 89 2.83310 4.41315 3.26872 3.41252 2.42367 3.18613 4.15641 1.94525 2.89759 2.19917 3.52339 3.73304 3.35648 3.60236 3.61284 2.55629 3.06501 2.46009 5.01270 3.10983 99 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00784 4.85294 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,371 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_6\n-LENG 116\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 5\n-EFFN 0.698242\n-CKSUM 2715774562\n-GA 60 60;\n-STATS LOCAL MSV -9.8805 0.71425\n-STATS LOCAL VITERBI -10.5520 0.71425\n-STATS LOCAL FORWARD -4.0735 0.71425\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67187 4.48885 3.03410 2.66316 3.02786 3.01463 3.80192 2.79661 2.55664 2.29982 3.32773 3.03390 3.56860 3.02944 2.82896 2.74136 2.94609 2.69564 5.05904 3.42234\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02730 4.01023 4.73258 0.61958 0.77255 0.00000 *\n- 1 3.08217 4.61029 4.19953 3.80526 3.27466 3.93797 4.50859 2.46430 3.56521 1.85026 1.13670 4.06518 4.40099 3.93901 3.75398 3.44479 3.39106 2.48599 5.13274 3.90571 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02730 4.01023 4.73258 0.61958 0.77255 0.48576 0.95510\n- 2 2.49569 4.30768 3.49695 3.07582 3.69278 3.32290 4.04444 2.20205 3.00770 2.71125 3.70819 3.37747 3.90678 3.36016 3.32406 1.53748 2.85873 2.58547 5.19197 3.90870 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14889 4.01023 2.11852 0.61958 0.77255 0.48576 0.95510\n- 3 2.96883 5.08440 2.49536 0.99777 4.43302 3.28647 3.87471 3.89080 2.75769 3.50467 4.47763 2.94354 3.89192 3.08983 3.16872 2.94910 3.27314 3.57254 5.60088 4.32289 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89212 4.61447 0.61958 0.77255 0.42243 1.06553\n- 4 2.33878 4.73641 2.34871 2.42812 3.95859 2.82960 3.68551 3.41329 2.56088 3.04467 3.88629 2.94096 3.81841 2.87288 3.02169 2.66414 2.87233 3.10064 5.28153 2.61439 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02730 4.01023 4.73258 0.61958 0.77255 0.48576 0.95510\n- 5 3.05812 5.16712 3.44928 2.80091 4.61969 3.66543 3.62401 3.97198 1.19151 3.41639 4.29026 3.20369 4.04058 2.76051 1.76373 3.05418 3.22776 3.65398 5.45759 4.28870 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02730 4.01023 4.73258 0.61958 0.77255 0.48576 0.95510\n- 6 3.56435 4.83060 4.57308 4.24200 1.04226 4.34409 3.50485 3.22648 4.09194 2.56328 3.83252 4.05196 4.65958 4.09175 4.14461 3.71314 3.79025 3.16188 3.65684 1.54353 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02730 4.01023 4.73258 0.61958 0.77255 0.48576 0.95510\n- 7 3.08217 4.61029 4.19953 3.80526 3.27466 3.93797 4.50859 2.46430 3.56521 1.85026 1.13670 4.065'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20491 4.01023 1.78888 0.61958 0.77255 0.48576 0.95510\n- 109 2.70360 4.65393 2.18073 2.56401 3.67963 3.39916 3.79945 2.97189 2.73087 1.88002 3.73090 3.05666 3.89540 3.04749 3.14507 2.80545 2.97663 2.77425 5.16645 3.81006 109 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83785 4.56020 0.61958 0.77255 0.63930 0.75006\n- 110 2.47951 4.26569 3.40317 3.02193 3.63385 2.02306 4.00533 2.05582 2.97284 2.62342 3.64331 3.33488 3.86733 3.32872 3.28098 2.70014 2.83742 2.48970 5.13428 3.86855 110 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83785 4.56020 0.61958 0.77255 0.63930 0.75006\n- 111 2.85659 5.35156 1.70257 1.50160 4.63875 3.16596 3.69657 4.13174 2.68909 3.66638 4.52621 2.64433 3.77706 2.86621 3.25666 2.75753 3.14307 3.72937 5.82729 4.35513 111 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83785 4.56020 0.61958 0.77255 0.63930 0.75006\n- 112 1.46821 4.09469 3.30656 3.04103 4.12425 2.88638 4.11548 3.44144 3.08812 3.21545 4.08601 3.21443 3.62690 3.39840 3.38997 1.76322 2.64638 2.96872 5.50051 4.26970 112 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83785 4.56020 0.61958 0.77255 0.63930 0.75006\n- 113 3.00943 4.59845 3.70827 3.29387 1.58498 3.80897 2.33411 3.09806 3.18080 2.57210 3.68988 3.52744 4.20569 3.46464 3.43655 3.15653 3.25497 2.94409 3.91923 2.24894 113 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83785 4.56020 0.61958 0.77255 0.63930 0.75006\n- 114 2.72375 4.96870 1.53767 2.22083 4.49555 2.12596 3.78494 4.00107 2.78997 3.58204 4.44585 2.76445 3.75984 2.97759 3.31746 2.70562 3.06284 3.57656 5.70345 4.32604 114 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83785 4.56020 0.61958 0.77255 0.63930 0.75006\n- 115 2.92356 5.02604 2.47470 1.07566 4.36809 3.25248 3.83701 3.81514 2.71325 3.43809 4.41423 2.91489 3.85560 3.05377 3.11805 2.90985 3.22773 3.50278 5.54624 4.26911 115 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83785 4.56020 0.61958 0.77255 0.63930 0.75006\n- 116 2.51330 4.28342 3.45490 3.04733 2.27323 3.33645 3.83377 2.90461 3.01835 2.58233 3.59900 3.33677 3.88908 3.32333 3.32639 1.87187 2.85577 2.67217 4.66243 3.18218 116 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02201 3.82734 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,293 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_8\n-LENG 90\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 7\n-EFFN 0.728027\n-CKSUM 816467468\n-GA 90 90;\n-STATS LOCAL MSV -9.3409 0.71847\n-STATS LOCAL VITERBI -9.8257 0.71847\n-STATS LOCAL FORWARD -3.8423 0.71847\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46597 4.49243 2.77880 2.79383 3.39386 2.83405 3.87849 2.84864 2.69278 2.17795 3.68298 3.29255 3.32625 3.20319 2.69512 2.79932 3.04665 2.57098 5.17653 3.44900\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15273 4.02947 2.08863 0.61958 0.77255 0.00000 *\n- 1 2.99627 4.53955 4.08643 3.68239 3.22268 3.85983 4.40952 2.40173 3.44862 1.81207 1.31322 3.95565 4.32054 3.82817 3.64990 3.34903 3.30220 2.41187 5.06818 3.83305 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90705 4.62940 0.61958 0.77255 0.41946 1.07119\n- 2 2.19008 4.29967 3.40577 2.96400 3.78796 1.83262 3.97528 3.06075 2.92161 2.80790 2.63017 3.28718 3.84084 3.25930 3.26111 2.62982 2.80161 2.76999 5.21871 3.97695 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02677 4.02947 4.75182 0.61958 0.77255 0.48576 0.95510\n- 3 3.12140 5.08566 3.30745 2.90287 4.50811 3.59098 3.85510 3.94791 0.84194 3.48005 4.43556 3.31946 4.08231 3.03949 2.47339 3.15459 3.36425 3.64775 5.50014 4.33670 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02677 4.02947 4.75182 0.61958 0.77255 0.48576 0.95510\n- 4 3.18971 5.01292 3.69708 3.17856 4.40762 3.64430 3.94877 3.96236 2.31543 3.44986 4.44814 3.52515 4.14122 3.16322 0.76316 3.26766 3.44624 3.68007 5.42822 4.30323 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02677 4.02947 4.75182 0.61958 0.77255 0.48576 0.95510\n- 5 2.89860 4.57197 3.77071 3.22693 3.41731 3.76858 4.00484 2.74660 2.74001 1.27306 3.41522 3.57560 4.16996 3.32317 2.39540 3.13635 3.14300 2.66938 5.02742 3.76770 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02677 4.02947 4.75182 0.61958 0.77255 0.48576 0.95510\n- 6 2.71415 4.50822 3.38890 3.00731 2.95459 3.49758 3.75782 3.20448 2.96646 2.83612 3.80597 3.34443 4.00975 3.30675 3.28345 1.96170 3.02331 2.95037 4.52517 1.70968 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02677 4.02947 4.75182 0.61958 0.77255 0.48576 0.95510\n- 7 0.80917 4.27708 3.62802 3.42962 4.21453 3.09682 4.43227 3.36398 3.45007 3.23808 4.25483 3.53761'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 83 2.67924 4.91621 2.64630 1.80395 4.25630 3.30006 3.61744 3.68187 2.32786 3.25012 4.08565 2.84920 3.78915 2.77394 2.43851 2.38322 2.93434 3.33131 5.43592 4.09869 91 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 84 2.62957 4.74280 2.76460 1.89925 3.98404 3.33130 3.65623 3.34132 2.45048 2.60868 3.87863 2.91669 3.11224 2.83813 2.85925 2.67568 2.88579 3.05334 5.29072 3.96412 92 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 85 2.37967 4.86895 2.70902 1.84822 4.20744 3.31558 3.62151 3.59521 2.32362 3.18934 4.03499 2.87642 3.79463 2.78014 2.40561 2.67937 2.92016 3.26021 5.40220 4.07844 93 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 86 1.98504 4.69208 2.85838 2.22872 4.05484 3.31236 3.65698 3.41694 2.37310 3.05578 3.91486 2.95096 3.79556 2.83575 2.43131 2.66182 2.87300 3.10007 5.30662 4.01155 94 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 87 3.15541 4.56440 4.33691 3.89310 1.53748 4.13496 3.97130 2.41604 3.74858 1.57887 3.13944 4.03306 4.46338 3.92282 3.90823 3.51368 3.40508 2.44796 4.25882 2.67823 95 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 88 1.58351 4.10264 3.42376 3.05674 3.92244 2.45024 4.06268 3.09608 3.04380 2.95605 3.86103 3.25715 3.68058 3.35559 3.35486 2.41764 2.65974 2.34653 5.34154 4.11838 96 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 89 2.90669 4.37382 4.25818 3.78670 3.34023 4.00698 4.54230 1.92035 3.61725 1.73866 3.24934 4.04909 4.41689 3.95129 3.84907 3.39782 3.19713 1.29215 5.21344 3.95279 97 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03290 3.82662 4.54896 0.61958 0.77255 0.66488 0.72224\n- 90 1.88411 4.25319 3.73303 3.25411 3.52415 3.49712 4.15579 2.30188 3.14726 2.05969 3.43677 3.54390 4.02078 3.48776 3.44419 2.86380 2.89888 1.92262 5.16224 3.92631 98 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02226 3.81598 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas2_I_II_III_IV_V_VI_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,305 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas2_I_II_III_IV_V_VI_9\n-LENG 94\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 6\n-EFFN 1.010742\n-CKSUM 737118809\n-GA 44.9 44.7;\n-STATS LOCAL MSV -9.2201 0.71835\n-STATS LOCAL VITERBI -10.0662 0.71835\n-STATS LOCAL FORWARD -3.7952 0.71835\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52115 4.51993 2.84796 2.76123 3.45697 2.96337 3.98091 2.68928 2.72936 2.40685 3.59829 3.24467 3.80799 3.15305 2.69628 2.66346 2.97941 2.25248 5.06422 3.45049\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.00000 *\n- 1 2.76910 4.46500 3.78323 3.33966 3.53847 3.63484 4.20307 2.80522 3.19202 2.33526 1.35056 3.64505 2.72284 3.56245 3.45994 3.02585 3.08471 2.68084 5.15706 3.93282 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 2 2.66955 4.25025 3.80169 3.22302 3.23713 3.70264 3.93475 2.32224 3.07737 2.33211 2.61834 3.54178 4.07078 3.39083 2.73245 2.97428 2.89982 2.47413 4.76250 2.18045 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 3 2.81457 2.63660 4.64048 4.17783 3.69797 3.87073 4.77433 2.06177 4.03122 2.44938 3.60093 4.21643 4.41410 4.28750 4.19060 3.29274 3.16366 0.97694 5.42829 4.21409 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 4 3.25403 4.52995 5.06078 4.52524 3.46478 4.64865 5.10644 1.50258 4.41326 1.39228 3.25402 4.72447 4.87857 4.57917 4.54725 4.01758 3.49585 1.33973 5.47769 4.34585 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 5 3.07320 4.54062 4.56459 4.24953 3.81031 4.04928 5.00333 2.09377 4.12310 2.44793 3.73688 4.38470 4.60048 4.46494 4.30314 3.58272 3.43225 0.69554 5.64545 4.39257 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 6 2.02953 4.24006 4.36955 3.80356 2.61556 3.98753 4.36144 1.83026 3.69123 2.18670 3.28306 4.00582 4.34396 3.90987 3.87138 3.30012 3.06111 1.63666 4.99129 3.79442 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 7 3.74799 5.10430 4.33284 4.13356 2.38417 4.22034 3.82027 3.71686 3.98311 3.08402 4.35945 4.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 87 2.74025 5.06406 2.96634 2.14077 4.37882 3.47716 3.64192 3.80121 1.69561 3.33097 4.12944 2.97225 3.87984 2.36631 2.67310 2.72904 2.96267 2.79120 5.49420 4.15888 90 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 88 2.30408 4.29460 3.58356 3.01561 3.41740 3.62171 3.88182 2.72348 2.49329 2.17627 3.39595 3.39524 4.00097 3.24456 3.24891 2.87926 2.85784 2.02382 4.88556 2.96800 91 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 89 2.94515 5.33616 2.58535 1.73659 4.64610 3.42859 3.77245 4.12079 2.50083 3.61887 4.46013 2.91899 3.95058 1.48980 2.90747 2.88682 3.19528 3.74100 5.75620 4.37510 92 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 90 2.36943 4.38267 4.69957 4.18396 3.67606 4.29453 4.86862 1.36732 4.08648 2.32256 3.51262 4.38329 4.65898 4.34559 4.29042 3.65892 3.29006 1.22437 5.48617 4.28034 93 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 91 2.69393 4.26425 3.89471 3.36078 3.25001 3.71259 4.03812 2.53985 3.25056 2.39927 3.39228 3.63982 4.12711 3.53823 3.50531 3.02024 2.44648 1.75102 4.80595 2.10582 94 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24977 4.19571 1.58007 0.61958 0.77255 0.48576 0.95510\n- 92 2.70995 4.38024 3.66893 3.09692 3.44510 3.67970 3.94957 2.53010 2.82080 1.98447 3.38632 3.46682 4.06795 3.26976 2.46228 2.97367 2.95299 1.84215 4.99670 3.76204 95 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02832 3.97426 4.69660 0.61958 0.77255 0.70939 0.67716\n- 93 2.18895 4.29402 4.07264 3.55998 3.47796 3.81313 4.35973 2.09388 3.45233 1.85795 3.36491 3.83370 4.25421 3.75414 3.71605 3.16048 3.04369 1.51587 5.18404 3.97358 96 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02832 3.97426 4.69660 0.61958 0.77255 0.70939 0.67716\n- 94 2.37169 4.23316 3.47306 3.15837 3.95664 1.50795 4.17278 3.10797 3.15831 2.99518 3.95535 3.37381 3.80690 3.48503 3.45529 2.57415 2.81025 2.03166 5.39952 4.15841 97 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01915 3.96509 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I-E_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I-E_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,878 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3HD_I-E_4\n-LENG 285\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:03 2020\n-NSEQ 6\n-EFFN 0.735352\n-CKSUM 440946061\n-GA 140 139;\n-STATS LOCAL MSV -10.8351 0.70171\n-STATS LOCAL VITERBI -11.7091 0.70171\n-STATS LOCAL FORWARD -5.2987 0.70171\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30353 4.01199 2.96240 2.70679 3.59173 2.75918 3.61869 3.01546 2.82479 2.44927 3.70991 3.13754 3.24731 3.13945 2.79978 2.62781 2.84225 2.65091 4.07939 3.80650\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22196 4.03415 1.70731 0.61958 0.77255 0.00000 *\n- 1 2.94770 4.50103 4.01958 3.61124 3.19626 3.81323 4.35288 2.36910 3.38073 1.79544 1.43263 3.89210 4.27395 3.76462 3.58927 3.29374 3.25260 2.37189 5.03317 3.79230 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03230 3.84449 4.56683 0.61958 0.77255 0.51473 0.91046\n- 2 2.57697 4.54467 2.54698 2.56537 3.79036 2.85835 3.74492 3.14122 2.64969 2.83219 2.24944 3.04030 3.83538 2.97175 3.06763 2.68629 2.84762 2.87087 5.17152 3.87615 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.57393 0.82852\n- 3 2.73354 5.10437 1.66311 2.19683 4.49084 3.21950 3.71011 3.95485 2.63242 3.51729 4.34335 2.28875 3.79006 2.86953 3.15976 2.69331 2.49972 3.55136 5.70406 4.27540 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.57393 0.82852\n- 4 2.44094 4.25419 3.42118 2.94802 2.68477 3.29599 3.89288 2.94220 2.91398 2.67754 3.60068 3.27699 3.83799 3.22702 3.25411 1.89827 2.33383 2.67348 4.99781 3.69633 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.57393 0.82852\n- 5 2.71265 5.00466 2.65927 1.74369 4.35538 2.62283 3.64348 3.79197 2.36729 3.33824 4.15811 2.86369 3.81535 2.78988 2.39165 2.69914 2.96462 3.42417 5.51012 4.16170 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.57393 0.82852\n- 6 2.78043 5.22029 1.69979 1.85136 4.53358 3.24031 3.68817 3.98695 2.60736 3.53784 4.36312 2.72696 3.79807 2.84156 3.14499 2.71691 2.47670 3.59354 5.72815 4.28743 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.57393 0.82852\n- 7 2.54238 4.32097 3.44687 2.96296 3.56105 3.42233 3.92393 2.76311 2.86516 1.84136 3.50592 3.32366 2.9333'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.57393 0.82852\n- 278 2.95280 5.04323 3.29024 2.72502 4.39499 3.57728 3.62103 3.82200 1.97186 3.29596 4.18572 3.14454 3.98171 2.27255 1.38979 2.96628 3.14893 3.51440 5.38267 4.16554 287 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.57393 0.82852\n- 279 2.70706 4.42780 3.44660 2.45262 3.49194 3.64807 3.94305 2.51666 2.86628 1.78753 3.41010 3.37733 4.04556 3.23466 3.20342 2.94376 2.95141 2.08339 5.05997 3.81392 288 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94436 4.66671 0.61958 0.77255 0.43433 1.04327\n- 280 3.19554 5.01804 3.70344 3.18418 4.41396 3.64897 3.95295 3.96919 2.31839 3.45585 4.45417 3.53032 4.14582 3.16731 0.75743 3.27337 3.45185 3.68674 5.43275 4.30873 289 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02665 4.03415 4.75649 0.61958 0.77255 0.48576 0.95510\n- 281 2.31576 4.50775 3.30531 2.79686 3.81912 3.47514 3.83233 2.90765 1.99242 2.78549 3.71516 3.22077 3.93053 3.06139 2.94396 2.78294 2.89881 1.96390 5.20707 3.95061 290 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02665 4.03415 4.75649 0.61958 0.77255 0.48576 0.95510\n- 282 1.84007 4.47087 3.20725 2.71149 4.02919 3.24915 3.81611 3.41460 2.62448 3.06869 3.90677 3.11641 3.79147 3.01542 2.45488 2.22340 2.37500 3.05264 5.33517 4.06278 291 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02665 4.03415 4.75649 0.61958 0.77255 0.48576 0.95510\n- 283 2.68679 4.94307 2.53221 1.74587 4.44347 2.06726 3.77194 3.89643 2.65337 3.46893 4.29375 2.86083 3.81662 2.93789 3.13304 2.29738 2.99891 3.48713 5.66584 4.28553 292 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19817 4.03415 1.81975 0.61958 0.77255 0.48576 0.95510\n- 284 2.58744 4.49676 3.21399 2.68064 2.85558 3.43552 3.68763 3.07377 2.51387 2.70785 3.62632 3.12006 3.05151 2.94439 2.22205 2.71534 2.83767 2.82577 4.97222 3.63921 293 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03156 3.86754 4.58988 0.61958 0.77255 0.63825 0.75123\n- 285 2.69144 4.96734 2.55462 1.82816 4.22216 3.29149 2.87822 3.71060 2.42428 3.27546 4.10675 2.81508 3.78910 2.79160 2.86054 2.28615 2.94641 3.35816 5.44746 4.06926 294 e - - -\n- 2.68608 4.42233 2.77528 2.73131 3.46362 2.40494 3.72503 3.29362 2.67749 2.69318 4.24698 2.90355 2.73748 3.18154 2.89809 2.37895 2.77528 2.98496 4.58485 3.61511\n- 0.26151 1.46919 * 0.95099 0.48835 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,632 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3HD_I_1\n-LENG 203\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:03 2020\n-NSEQ 307\n-EFFN 17.524521\n-CKSUM 2237429423\n-GA 30 30;\n-STATS LOCAL MSV -10.6884 0.70517\n-STATS LOCAL VITERBI -11.6492 0.70517\n-STATS LOCAL FORWARD -4.7535 0.70517\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46411 4.47227 2.76556 2.63128 3.16543 2.83514 3.16961 3.01175 2.66416 2.27223 4.09699 3.16286 3.28798 3.13521 2.93932 2.67076 3.05554 3.00443 4.19003 3.50528\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.00000 *\n- 1 2.34559 4.52006 2.44223 2.20149 3.77225 2.72943 4.14071 3.52488 2.26322 2.52269 4.15017 2.76850 3.63339 3.04412 3.04487 2.50426 3.14929 3.77564 4.89616 3.78835 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 2 2.53248 4.78710 2.13633 2.51221 5.20943 2.28805 3.86948 4.01507 2.00516 3.09432 4.96985 2.48423 3.28458 3.54792 3.06790 2.46080 3.27912 3.62866 6.70733 3.40084 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 3 2.74193 5.38169 2.26278 2.37261 4.27833 2.17619 4.01601 3.88310 2.21569 3.31143 4.89621 2.76198 3.70801 3.10996 3.26041 1.96675 2.78039 3.51355 5.41652 4.84565 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 4 2.95236 5.39226 2.71656 2.30580 5.05754 2.01249 2.39289 4.03789 2.43696 3.26826 4.60883 2.63177 3.17035 3.35875 3.19893 2.39397 2.83146 4.19598 4.38739 3.65871 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 5 2.62023 5.51736 2.57886 2.39454 4.60625 2.77195 4.10361 3.59426 2.32985 3.48078 4.73800 2.99705 1.91733 2.87923 2.32201 3.02071 3.23783 3.15477 6.70680 3.92838 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 6 2.72751 4.51916 2.90396 2.39346 3.51443 2.59567 3.59379 3.30909 2.69615 3.79561 4.27229 3.15385 3.02337 3.35791 3.01052 3.03813 3.09027 3.87034 2.00412 2.51490 6 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 7 3.76723 5.44564 3.78860 1.88006 5.55035 4.33662 1.81312 3.48645 2.29559 2.52732 4.82077 3.65763 4.9421'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 196 1.33875 5.33088 1.68799 2.80015 5.61466 1.87905 3.98660 4.55282 3.37671 4.17100 5.31203 3.02708 4.18672 3.53586 3.81866 2.53283 3.83961 3.67442 6.70452 5.29441 301 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 197 2.13628 4.95515 4.80202 4.75711 5.14836 4.47506 5.59167 4.51389 4.69510 3.41271 5.12249 5.00446 5.45245 4.96892 4.43491 0.71796 1.50716 3.40762 6.60060 5.39124 302 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 198 1.61973 6.26977 2.69292 2.11022 5.15499 2.60083 3.89420 3.52794 3.27725 3.85713 4.09204 2.19700 4.93160 3.12079 3.20836 2.03627 3.57252 3.94149 4.57830 4.21319 303 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 199 2.51958 4.16042 2.88871 1.79715 3.90114 2.64867 3.16804 3.35885 3.03172 2.75815 4.46350 2.74304 4.23815 2.70651 2.55915 2.96609 2.76807 3.42729 5.47857 4.03922 304 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 200 2.50396 5.03087 2.68115 2.23070 1.95780 3.52952 2.91728 3.24706 2.63982 3.05859 5.26472 3.53563 4.12916 3.29883 2.90838 3.02984 2.91924 3.07177 5.55926 2.82018 305 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 201 2.74998 6.21422 2.63938 2.28046 2.45991 3.46923 3.42805 3.99812 2.79045 2.60836 2.66625 3.45464 3.35267 3.34260 3.22506 2.63595 3.22497 3.85661 3.75806 2.39779 306 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 202 2.67863 6.25575 2.54879 2.44678 1.65797 3.80561 4.18366 3.55780 2.76577 2.91024 4.92134 2.45327 3.47525 3.45215 2.81705 2.70520 3.07263 3.19829 6.69340 3.92071 307 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00225 6.49288 7.21522 0.61958 0.77255 0.48576 0.95510\n- 203 3.11585 4.93104 2.84237 2.08470 3.96441 2.54799 4.53369 3.29940 2.55115 3.44391 4.09916 3.02950 1.64917 3.05546 2.90545 3.07228 2.92335 3.49080 5.08713 4.17797 308 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00152 6.49214 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,590 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3HD_I_2\n-LENG 189\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:03 2020\n-NSEQ 20\n-EFFN 4.047852\n-CKSUM 2775323783\n-GA 42.1 41.1;\n-STATS LOCAL MSV -10.4157 0.70607\n-STATS LOCAL VITERBI -11.3127 0.70607\n-STATS LOCAL FORWARD -4.7007 0.70607\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51295 4.53126 2.98422 2.57836 3.38569 3.03386 3.34149 2.74499 2.57856 2.39323 3.66900 3.09938 3.60631 3.23939 2.85395 2.64853 3.01365 2.62063 4.80368 3.28251\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.00000 *\n- 1 2.96883 5.32146 3.28676 1.50426 4.61053 3.04928 3.95459 2.72368 2.04746 3.12120 3.24505 3.26148 4.15711 3.07445 2.33332 2.96351 3.19882 3.68144 5.78676 4.41882 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 2 2.62454 5.80235 1.25405 1.43323 5.12994 3.82307 4.14655 4.63192 2.96846 4.09941 4.86386 3.27966 4.31027 2.78921 2.79184 3.17500 3.49248 4.18668 6.23072 4.78295 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 3 3.79617 5.73882 4.12562 3.59939 4.49347 4.40208 0.60735 4.42204 2.26162 2.78119 4.85823 3.98063 4.80334 3.60525 2.97121 3.83324 3.98237 4.17040 5.77505 4.37739 3 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 4 1.89412 4.50570 4.55077 3.00002 3.62839 4.16724 4.48622 1.76268 3.84539 2.31538 3.62867 4.16416 4.53545 4.06354 4.01841 2.62537 3.28101 1.55899 5.15370 3.96160 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 5 2.52999 3.47412 3.27326 2.36951 4.59734 3.75592 3.94895 3.01693 1.78597 2.28887 4.36760 2.59695 4.14748 2.55322 2.62933 2.95138 3.18733 3.66962 5.77959 4.40860 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 6 2.48491 5.41610 2.87840 2.45525 3.36332 1.77099 3.92420 4.21357 2.23086 3.71290 4.46263 3.20978 4.12802 3.02758 2.09268 2.92643 2.67721 3.79637 5.86074 4.46253 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 7 2.25709 5.11930 3.38668 2.45675 4.34950 2.54778 4.00828 3.17554 2.81970 3.37569 2.47883 3.34283 4.18'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 182 3.00521 4.43233 4.66896 4.07200 3.52722 4.13933 4.45517 2.22184 2.58440 1.33211 3.54453 4.19638 4.50527 4.10295 4.02568 2.74571 3.23735 2.02756 5.05037 2.56968 252 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 183 2.06816 5.38246 1.78563 2.73944 4.78159 2.26313 4.00819 4.24990 2.76952 3.76418 4.52175 2.83014 4.17244 3.11965 3.25707 2.07881 2.84633 3.18369 5.92213 4.53198 253 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 184 0.64608 4.88002 4.96822 4.68982 5.24337 3.73264 5.45237 4.54983 4.62865 4.35366 5.18645 4.43436 4.55105 4.82935 4.79757 1.43269 3.52997 2.68945 6.64270 5.51572 254 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 185 2.35315 5.03728 3.44635 2.42324 3.18797 3.82227 3.16140 2.98032 2.61988 3.28092 3.40651 2.25717 4.21004 3.21669 3.32102 1.93979 3.19216 2.78259 5.56357 3.44579 255 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 186 2.40198 5.31834 2.92237 2.17343 4.60775 3.75080 3.94487 4.05618 2.46723 1.84080 4.37415 3.24413 4.14283 2.75076 2.85380 2.67586 2.44417 2.75708 5.78583 4.41131 256 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 187 2.67876 5.36781 3.24079 2.68476 4.67571 2.54298 3.30618 3.34426 2.68317 3.65708 4.41902 1.76329 4.13432 2.45462 2.41254 2.53724 3.18403 2.90115 5.82376 4.43724 257 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 188 3.19390 5.58817 2.78641 2.14188 4.91607 3.88251 4.08620 3.10643 2.75920 3.86468 4.65348 3.36440 4.30872 3.20691 0.92014 3.16329 3.42222 3.96813 6.01078 4.64863 258 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00849 5.16849 5.89084 0.61958 0.77255 0.48576 0.95510\n- 189 2.98431 3.46385 3.21593 2.22647 4.78355 1.67154 3.95574 4.25610 1.83380 3.75366 4.50528 2.63064 4.15277 3.06093 3.18216 2.35739 3.21974 3.83515 5.89940 4.50156 259 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00573 5.16572 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3HD_I_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,716 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3HD_I_3\n-LENG 231\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:03 2020\n-NSEQ 12\n-EFFN 4.233398\n-CKSUM 873784217\n-GA 36.5 35.4;\n-STATS LOCAL MSV -10.4379 0.70371\n-STATS LOCAL VITERBI -11.3750 0.70371\n-STATS LOCAL FORWARD -5.0273 0.70371\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49337 4.29827 3.00944 2.56018 3.41059 2.96102 3.52966 2.75189 2.54313 2.39291 3.66128 3.14040 3.63593 3.25047 2.89453 2.68865 3.02304 2.57643 4.75592 3.25459\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07978 5.20578 2.64235 0.61958 0.77255 0.00000 *\n- 1 3.27867 4.99343 4.20477 3.53040 4.14472 4.18657 4.28520 2.33027 2.06719 3.10757 1.17794 3.88709 4.54170 3.55666 2.18248 3.48359 3.48445 3.24592 5.51337 4.32126 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 2 2.95091 5.41441 3.21766 2.27377 4.74503 3.72862 3.91217 4.21627 2.11187 3.71074 4.46026 3.20337 4.12104 2.27299 2.44498 2.49944 1.84350 2.59896 5.85342 4.45814 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 3 2.20424 1.86834 4.92524 4.32599 3.56250 4.23441 4.58773 2.12732 4.14144 1.96903 3.56769 4.36705 2.64837 4.29811 4.19483 3.54771 3.29685 1.86182 5.11295 3.93305 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 4 3.33434 1.37591 5.02594 4.47723 3.11283 4.42942 2.59279 3.15883 4.28448 1.70677 3.82647 4.45088 4.78232 4.40385 4.33291 3.74267 3.56403 2.98171 2.91805 2.29307 4 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 5 0.43319 4.86935 5.00197 4.81362 5.50497 3.67668 5.57949 4.94680 4.78233 4.66050 5.43483 4.44988 4.52553 4.95310 4.91385 2.07783 2.46750 4.16580 6.85749 5.77342 5 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 6 5.38783 6.17966 6.07392 6.11352 1.00954 5.72542 4.23531 4.91310 5.86971 3.98018 5.40010 5.19622 5.95850 5.40303 5.58796 5.14546 5.56282 4.88166 1.58302 1.09549 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 7 2.97365 2.64239 4.13744 2.47462 2.41250 4.01949 4.29326 2.23068 2.14518 2.74818 3.65905 3.87793 4.393'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 224 2.94786 5.32811 3.25016 2.20442 4.62606 1.96048 3.93081 4.07707 2.29832 2.64629 4.38313 3.23080 4.13264 3.04632 2.35617 2.20815 3.17851 2.84712 5.78961 4.41353 294 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 225 1.89469 5.12679 3.36147 1.84240 2.87610 2.96081 3.98848 3.77406 2.79089 3.38357 4.20109 3.32090 4.17361 3.14408 2.09508 2.98946 3.18050 3.45701 3.32288 4.30114 295 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00879 5.13479 5.85714 0.61958 0.77255 0.69877 0.68756\n- 226 3.02510 4.46976 4.60242 4.00965 2.77019 4.14664 4.45372 2.05622 3.85659 1.33284 3.54281 4.17153 4.51026 4.06494 2.49843 2.10882 3.25713 2.69497 5.07516 3.88667 296 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14235 5.13479 2.06519 0.61958 0.77255 0.69877 0.68756\n- 227 2.97087 5.46147 3.07136 1.67874 4.79242 2.45632 3.91419 4.27358 2.11429 3.75916 4.51179 1.87819 4.11070 3.02088 3.15438 2.92976 3.20563 3.84662 5.89630 2.99848 297 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01004 5.00248 5.72482 0.61958 0.77255 0.97880 0.47122\n- 228 2.90903 4.79864 3.56967 3.01631 2.67735 1.91723 4.06545 3.35823 2.97265 3.04238 3.91246 2.36019 4.21032 3.31308 2.35006 3.05192 3.14768 2.11275 5.36494 4.09353 298 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01004 5.00248 5.72482 0.61958 0.77255 0.97880 0.47122\n- 229 1.73901 5.12170 2.35431 2.70991 4.36989 2.54520 3.91732 2.84056 2.29397 3.38602 4.19279 3.23356 4.10353 3.06162 3.17908 2.91649 3.12334 3.45953 5.62026 2.81241 299 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18827 5.00248 1.80249 0.61958 0.77255 0.97880 0.47122\n- 230 2.85631 4.72707 3.50196 2.21706 3.91782 3.75723 4.03571 3.20784 2.95637 2.22104 3.84480 3.43026 4.16378 3.28691 3.35502 1.60461 3.09964 2.09548 5.32563 4.06045 300 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01198 4.82619 5.54854 0.61958 0.77255 1.22492 0.34783\n- 231 2.95251 5.34924 3.20824 2.66319 4.71413 3.69502 3.85704 4.15969 1.46892 3.64898 4.42263 3.18613 2.58378 2.11003 2.88704 2.92846 2.22110 3.75866 5.77746 4.42609 301 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00808 4.82229 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1082 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3_I-D_4\n-LENG 353\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:02 2020\n-NSEQ 5\n-EFFN 1.069336\n-CKSUM 740611504\n-GA 42.0 38.0;\n-STATS LOCAL MSV -11.0368 0.70007\n-STATS LOCAL VITERBI -12.1760 0.70007\n-STATS LOCAL FORWARD -5.6528 0.70007\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51884 4.56589 2.86494 2.64823 3.12999 2.96211 3.74450 2.75554 2.72549 2.36033 3.74860 3.09139 3.35881 2.98718 2.92571 2.71739 2.80400 2.64140 4.94984 3.65161\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.00000 *\n- 1 3.46785 5.19428 3.55300 3.36263 3.60085 3.80425 0.57456 4.22812 3.19934 3.66943 4.75205 3.75164 4.38288 3.73776 3.43601 3.53987 3.78951 3.95675 5.05657 3.54471 1 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 2 3.22384 5.18659 3.19728 2.97414 4.40147 3.64145 4.12964 4.10460 2.77321 3.56891 4.60246 3.43113 4.20988 0.71386 3.04331 3.26385 3.52794 3.81629 5.61499 4.34089 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 3 2.14536 4.20223 4.06287 3.51174 3.27914 3.71459 4.11282 2.49961 3.37618 2.34072 3.33544 3.73103 4.13833 3.64172 3.58771 3.03289 2.93613 1.54647 2.83597 3.58509 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 4 1.51336 4.71567 2.26291 2.59724 4.30933 3.29527 3.89358 3.67059 2.77480 3.33868 4.16931 3.06626 3.86430 3.07116 3.23217 2.67029 2.25616 3.28187 5.59398 4.26632 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 5 2.80240 4.36457 4.08066 3.54875 3.51789 3.84530 4.33442 2.30608 3.43688 1.84502 3.42422 3.83314 4.27723 3.73593 3.70282 3.17548 1.71781 1.80438 5.17410 3.96878 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 6 2.74071 4.45150 3.59057 3.02396 2.23807 3.68810 2.66917 2.94057 2.86935 2.12469 3.53267 3.40365 4.06144 3.23524 2.49440 2.94644 2.96873 2.73239 4.69584 3.27285 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 7 2.25363 5.31656 2.03890 1.75059 4.62828 3.37142 3.71492 4.11580 2.55643 3.61038 4.39145 2.83599 3.869'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 346 2.99490 4.35835 4.67071 4.10871 2.11829 4.13213 4.17859 1.97623 3.94178 1.61003 3.13496 4.16144 4.43999 4.04433 4.00429 3.44909 3.22046 2.46509 2.36664 3.10727 387 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 347 3.22384 5.18659 3.19728 2.97414 4.40147 3.64145 4.12964 4.10460 2.77321 3.56891 4.60246 3.43113 4.20988 0.71386 3.04331 3.26385 3.52794 3.81629 5.61499 4.34089 388 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 348 3.45443 5.23828 3.98566 3.44001 4.68614 3.85386 4.14837 4.26635 2.46908 3.71769 4.72103 3.76580 4.35054 3.36205 0.55027 3.52950 3.70337 3.97782 5.63135 4.55061 389 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 349 3.41352 4.70317 5.13573 4.57071 2.23716 4.68657 4.89483 1.81457 4.43442 0.94307 2.95063 4.74731 4.85058 4.45604 4.48333 4.03829 3.62987 2.37749 5.11038 3.94059 390 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 350 3.16771 4.89257 3.91267 3.86395 4.97060 0.34504 4.94729 4.67158 4.09253 4.27496 5.26412 4.07874 4.29343 4.38929 4.27532 3.35204 3.67606 4.13103 5.95687 5.08958 391 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 351 3.45443 5.23828 3.98566 3.44001 4.68614 3.85386 4.14837 4.26635 2.46908 3.71769 4.72103 3.76580 4.35054 3.36205 0.55027 3.52950 3.70337 3.97782 5.63135 4.55061 392 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 352 3.33497 4.68736 4.90947 4.40224 3.28595 4.54618 4.98287 2.15521 4.22754 0.86268 3.10675 4.62953 4.81786 4.41392 4.36450 3.93678 3.58984 1.74841 5.34359 4.21145 393 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 353 2.84521 4.86884 3.34153 2.92437 4.51999 1.49163 3.97767 3.98030 2.54337 3.53814 4.39721 3.32530 4.03069 3.16128 1.52985 2.92472 3.17205 3.58145 5.62407 4.41245 394 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01481 4.21984 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I-G_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I-G_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2552 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3_I-U_3\n-LENG 843\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:02 2020\n-NSEQ 4\n-EFFN 0.753906\n-CKSUM 3234386027\n-GA 137.1 96.7;\n-STATS LOCAL MSV -12.3002 0.69604\n-STATS LOCAL VITERBI -13.4666 0.69604\n-STATS LOCAL FORWARD -7.0457 0.69604\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48580 4.36017 2.81977 2.68139 3.41133 2.84486 3.69217 2.87068 2.69788 2.41663 3.71958 3.19548 3.23510 3.13250 2.83253 2.69882 2.85179 2.57015 4.40416 3.65760\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.00000 *\n- 1 2.70151 4.80920 2.81755 2.02965 4.00553 3.41422 3.70614 3.39397 2.51613 2.12459 3.91511 2.41136 3.87086 2.89299 2.93126 2.74660 2.94628 3.10710 5.31807 3.98653 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 2 2.81305 5.32056 1.95019 1.86551 4.63157 3.31068 3.67810 4.11524 1.80474 3.60572 4.40484 2.77305 3.83260 2.81350 3.00304 2.73877 3.06604 3.69830 5.75144 4.31667 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 3 3.48682 4.83874 4.47683 4.22717 0.76553 4.12995 3.96560 2.99248 4.13063 2.32390 3.69882 4.21856 4.58686 4.25149 4.20735 3.74581 3.78916 2.99542 4.16871 2.51622 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 4 2.22780 5.31314 1.66164 1.76132 4.63199 3.27086 3.73170 4.10155 2.66530 3.63472 4.45605 2.75093 3.83720 2.88345 3.21761 2.76144 3.10979 3.69391 5.81503 4.35886 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 5 2.63241 4.84467 2.71702 1.77295 4.28390 3.29234 3.73007 3.69521 2.55712 3.29973 4.12272 2.91472 3.81316 2.89036 3.01128 2.11277 2.33961 3.32130 5.52152 4.16970 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 6 2.16111 4.44874 3.27087 2.79945 3.49140 3.43748 3.78435 3.09106 2.72817 2.76965 3.66722 2.42322 3.90409 3.09818 3.08140 2.74995 2.87149 2.82834 2.49537 3.57567 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 7 3.66236 4.90828 4.60730 4.29501 1.52471 4.39751 3.48656 3.36365 4.14414 2.69454 3.96350 4.07343 4.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 836 1.44418 4.34307 3.72518 3.30194 3.62237 3.46437 4.20956 2.61545 3.19482 1.89691 3.58181 3.56953 4.03682 3.54868 3.47845 2.86479 2.96578 2.43666 5.23438 3.98591 902 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 837 0.79004 4.28706 3.64641 3.44960 4.23256 3.10621 4.45007 3.38459 3.47052 3.25787 4.27337 3.55289 3.86219 3.79635 3.70678 2.63725 2.92682 3.00872 5.64225 4.46293 903 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 838 3.18472 5.32923 0.69791 2.45952 4.73162 3.34998 4.09590 4.36115 3.21470 3.93983 4.92493 3.02339 4.01533 3.33758 3.75203 3.12971 3.52810 3.98290 5.86563 4.58001 904 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 839 2.14929 4.35465 3.83230 3.30735 2.70187 3.74115 3.73950 2.84178 3.17813 2.49060 3.47556 3.56315 4.12871 3.45888 3.43143 3.03708 3.02240 2.64990 2.31457 2.21123 905 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 840 2.21714 4.27129 4.09518 3.55913 3.42366 3.81609 4.30447 2.17820 3.45346 2.18767 2.41739 3.82389 4.23662 3.73181 3.70307 3.14646 3.01984 1.53935 5.09180 3.89724 906 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 841 1.47041 4.59325 3.01822 2.68760 4.12055 3.27222 3.87256 3.48858 2.65730 3.14495 4.04333 3.11136 3.84942 2.24342 3.01217 2.67883 2.92062 3.14643 5.43697 4.14453 907 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 842 2.40850 4.32944 3.36608 3.19328 4.25357 3.05654 4.29664 3.80132 3.27888 3.50927 4.42291 3.38776 3.81036 3.61512 3.55719 0.85663 2.90223 3.29800 5.61274 4.33895 908 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 843 2.26916 4.99684 2.96841 2.49594 4.35670 3.45469 3.63996 3.75752 1.69426 3.29561 4.12242 2.99115 3.88296 2.20718 2.55015 2.76516 2.99113 3.40960 5.45751 4.15885 909 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01780 4.03736 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1082 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3_I_2\n-LENG 353\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 8\n-EFFN 1.746094\n-CKSUM 2321845953\n-GA 60 60;\n-STATS LOCAL MSV -11.1283 0.70006\n-STATS LOCAL VITERBI -12.3206 0.70006\n-STATS LOCAL FORWARD -5.6130 0.70006\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54868 4.46076 2.98319 2.59588 3.33155 3.10150 3.70140 2.68052 2.64720 2.35034 3.57680 3.10933 3.45222 3.05282 2.93367 2.67209 2.76541 2.61772 4.89471 3.58571\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.00000 *\n- 1 2.77663 3.08138 3.10856 3.79417 2.23815 3.91128 4.22224 2.14569 3.65353 1.57497 3.26754 3.94668 4.27069 3.84520 3.78661 3.20874 3.00908 2.36766 4.82178 3.63016 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 2 2.99012 4.37821 4.69445 4.11165 2.52803 4.17195 4.51008 2.39339 3.96352 1.33489 3.26066 4.24487 4.50272 4.12609 4.06903 3.48728 2.30936 1.73046 5.02397 3.85399 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 3 3.38890 4.65056 5.31972 4.77590 3.62191 4.79774 5.25426 1.75028 4.65701 1.74393 2.54453 4.91739 5.02842 4.78918 4.74401 4.16509 3.62787 0.97168 5.59520 4.46947 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 4 3.49621 4.71833 5.49335 4.98318 3.76607 5.01113 5.56672 1.07133 4.88945 1.57120 3.52645 5.14493 5.20992 5.04263 4.99787 4.41196 3.74245 1.36003 5.84609 4.70982 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 5 2.71485 4.87885 3.13456 1.82974 3.13722 3.55153 3.75411 3.51817 2.55785 3.13059 3.95220 3.09154 3.94093 2.49073 2.53524 2.75888 2.94568 2.72320 5.37890 3.13475 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 6 0.37589 4.67231 4.28736 4.16731 4.86419 3.47065 5.08515 4.10691 4.20566 3.95001 4.93799 4.10141 4.27310 4.48481 4.36997 3.03350 3.35801 3.62907 6.20953 5.11291 6 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 7 3.85151 5.44437 4.52945 4.48922 5.35734 4.09790 5.46308 5.13748 4.61526 4.65858 5.76479 4.71289 0.18825 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 346 2.93900 4.77018 4.20712 4.05174 4.74743 3.57375 4.99238 3.97581 4.01143 3.80915 4.84716 4.10155 4.34213 4.37574 4.19990 3.15140 0.41697 3.58178 6.10663 4.97675 427 T - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 347 2.71540 4.66430 2.69078 2.74546 3.84155 3.61086 3.83402 2.19404 2.71504 2.43746 3.75044 3.22341 3.99618 2.40930 2.66425 2.83339 2.94666 2.53052 5.21347 3.93444 428 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 348 2.37702 5.28277 2.89982 1.77594 4.62280 3.51004 3.72394 4.09930 1.94454 3.57871 4.33305 2.51860 3.92918 2.25669 2.92051 2.75303 3.02754 3.67240 5.70934 4.30765 429 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 349 2.37960 4.52260 3.51274 2.94461 3.66588 3.68054 2.35224 2.55706 2.38823 1.93211 3.61704 3.37252 4.06146 3.20123 3.19916 2.92456 2.96670 2.79168 5.08784 3.84189 430 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 350 3.74225 4.97582 5.61518 5.04052 3.32575 5.11660 5.43388 1.51098 4.90214 0.83833 2.30881 5.24177 5.19155 4.84380 4.89636 4.49616 3.95265 2.50445 5.51562 4.53430 431 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 351 2.35749 5.20510 3.01452 1.75285 4.54257 3.52964 3.70645 4.00179 1.90113 3.49721 4.25880 3.00893 3.92668 2.81398 2.45475 2.74318 2.57159 3.59360 5.63687 4.25955 432 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 352 2.86480 5.16567 2.94661 1.24856 3.06812 3.56569 3.80546 3.85991 2.16219 3.41763 4.24059 3.06924 4.00298 2.95123 3.00084 2.85698 3.10074 3.51424 5.59234 4.21301 433 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53101 5.25336 0.61958 0.77255 0.48576 0.95510\n- 353 2.70838 4.23084 4.01960 3.43957 3.33475 2.30111 4.07576 2.32023 3.34020 1.99708 2.66104 3.70469 4.15581 3.58543 3.56880 2.53412 2.94102 2.48141 4.83567 2.86762 434 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.52577 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2246 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3_I_5\n-LENG 741\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:02 2020\n-NSEQ 29\n-EFFN 9.993530\n-CKSUM 1557258069\n-GA 70 70;\n-STATS LOCAL MSV -12.0855 0.69644\n-STATS LOCAL VITERBI -13.0951 0.69644\n-STATS LOCAL FORWARD -6.4970 0.69644\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61415 4.53809 2.88628 2.48788 3.29935 3.04479 3.67431 2.83324 2.53603 2.38406 3.83572 3.05970 3.34408 3.09257 2.87409 2.63156 2.90883 2.78330 4.59469 3.40911\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.51337 5.85361 0.91967 0.61958 0.77255 0.00000 *\n- 1 2.56908 4.55130 3.17946 4.48616 2.31876 4.35846 4.69712 1.29354 4.28823 2.23662 2.40183 4.50253 4.71546 4.42977 4.31864 3.67078 3.41092 2.06278 5.19890 4.02338 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00710 5.34735 6.06969 0.61958 0.77255 1.77508 0.18569\n- 2 3.03527 5.53639 2.73141 2.08036 2.94512 2.92320 3.09516 4.36056 2.36586 2.60301 4.57814 1.99041 3.06549 3.09552 2.71529 2.99935 3.26645 3.92486 5.97145 4.56291 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00710 5.34735 6.06969 0.61958 0.77255 1.77508 0.18569\n- 3 3.05773 5.56979 2.72452 1.48364 4.91316 2.95715 3.07041 4.39965 2.18402 2.98926 4.61178 2.84549 2.23723 3.11290 3.24974 3.01824 3.28987 3.95969 6.00249 4.58969 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00710 5.34735 6.06969 0.61958 0.77255 1.42226 0.27598\n- 4 1.94410 5.45779 3.37187 2.53011 4.75475 2.95780 4.05788 3.18992 2.12434 2.97949 3.14798 2.79988 4.25719 3.17244 2.72988 2.36642 2.35157 3.82231 5.92039 4.54052 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00666 5.41053 6.13288 0.61958 0.77255 1.70068 0.20158\n- 5 2.58893 5.43480 2.39286 2.44934 4.72335 3.05306 4.06444 3.22703 2.82624 2.12555 3.38340 2.37371 3.38421 3.18297 3.30732 2.55486 2.31766 3.79469 5.90294 4.52893 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00666 5.41053 6.13288 0.61958 0.77255 1.70068 0.20158\n- 6 3.06817 5.57903 2.33880 2.11960 3.27312 3.02940 4.02854 4.41022 1.93632 3.88428 4.61975 3.30853 2.27520 2.63181 2.35503 3.03032 2.87356 3.96975 6.01153 4.60054 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00666 5.41053 6.13288 0.61958 0.77255 1.41666 0.27776\n- 7 3.09236 5.55992 2.84323 2.14796 4.88732 3.87292 3.10979 3.26341 2.40120 3.85761 3.38008 3.34748 4.26596 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00523 5.65249 6.37483 0.61958 0.77255 1.27709 0.32691\n- 734 3.20889 5.57111 2.61151 2.96334 4.85913 2.45345 4.20136 4.30706 2.32572 2.64217 2.82315 1.79249 4.39880 3.32024 3.44456 2.72544 3.44023 3.93086 6.03934 2.17422 1071 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04514 5.65249 3.20322 0.61958 0.77255 1.27709 0.32691\n- 735 3.24421 4.79625 4.47034 2.22130 2.94988 4.30306 4.58567 3.25739 3.80036 1.42991 3.90645 4.18763 4.67592 4.06057 1.86323 2.87627 3.47600 2.25629 3.42929 4.19098 1072 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00544 5.61278 6.33513 0.61958 0.77255 1.36833 0.29374\n- 736 2.13370 4.93626 2.00682 2.83865 3.20245 4.20904 4.46405 3.43149 3.50439 1.73180 4.03987 3.95243 4.58817 3.80408 3.08029 3.45501 3.45730 1.88504 5.51936 3.19529 1073 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00544 5.61278 6.33513 0.61958 0.77255 1.36833 0.29374\n- 737 3.19113 5.40764 2.86605 3.02422 4.65086 2.38528 4.22237 2.07926 2.54361 3.01788 4.47778 2.97288 4.40909 3.36902 3.48454 1.45647 2.96038 3.16131 5.90791 4.56902 1074 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00544 5.61278 6.33513 0.61958 0.77255 1.36833 0.29374\n- 738 2.75727 5.45284 3.55007 2.34290 3.35356 4.00492 3.20666 3.12572 2.52666 3.71963 4.51791 3.51980 1.75743 3.34102 2.16771 2.82762 2.95991 3.79516 3.49373 3.24317 1075 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00544 5.61278 6.33513 0.61958 0.77255 1.36833 0.29374\n- 739 2.67057 5.66761 2.80225 1.54381 2.76165 3.95405 4.14220 4.48411 2.06181 3.96923 4.71055 3.42482 3.02134 2.16149 3.37170 3.14360 3.40856 3.10939 6.10542 3.36417 1076 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04675 5.61278 3.16958 0.61958 0.77255 1.36833 0.29374\n- 740 3.27805 4.78535 4.61302 2.95847 1.27610 2.64601 4.59664 3.24252 2.93363 2.16082 3.89940 4.27893 4.72291 4.16492 4.14060 3.63340 3.50959 3.04520 2.31867 3.04254 1077 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05387 5.57170 3.02338 0.61958 0.77255 1.45144 0.26688\n- 741 3.12899 5.60767 2.92890 1.90626 4.93947 2.30140 4.09600 2.70765 2.83606 2.98303 4.65189 1.93108 4.30063 2.66514 2.48457 3.09744 3.36018 3.27903 6.04831 4.64548 1078 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00401 5.52184 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2924 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3_I_6\n-LENG 967\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:03 2020\n-NSEQ 5\n-EFFN 0.581055\n-CKSUM 2587434727\n-GA 1000 1000;\n-STATS LOCAL MSV -12.8285 0.69566\n-STATS LOCAL VITERBI -13.6091 0.69566\n-STATS LOCAL FORWARD -6.7900 0.69566\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52726 4.42100 2.96087 2.65744 3.26254 2.88148 3.80912 2.78060 2.73524 2.28522 3.66320 3.16713 3.35866 3.12207 2.87693 2.76218 2.91508 2.54616 4.35457 3.52185\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40499 3.72499 3.29359 2.67746 2.69360 4.24577 2.90352 2.73718 3.18151 2.89806 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.15997 1.97831 4.65308 0.89690 0.52396 0.00000 *\n- 1 2.73111 4.53089 3.40862 2.88809 3.60849 3.57739 3.81734 2.86814 2.10192 2.48615 2.02412 3.29397 3.99126 3.07331 2.79868 2.90529 2.97309 2.69892 5.07314 3.82764 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 2 2.53750 4.45980 3.11866 2.68593 3.56335 3.34002 3.74492 3.17625 2.67430 2.83963 3.72643 3.11150 2.38309 3.02849 3.05233 2.34204 2.83102 2.88902 4.99464 2.71159 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 3 2.76238 2.71340 4.24006 3.73087 3.25255 3.77005 4.34210 2.24434 3.54192 1.32344 3.22400 3.91396 4.23181 3.83186 3.73321 3.16008 3.06585 2.14334 4.99282 3.75900 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 4 2.56595 4.70568 2.72845 2.03031 4.18731 3.23267 3.73219 3.58148 2.56799 3.21381 4.05127 2.91805 3.77630 2.90875 3.00083 1.89988 2.46131 3.21482 5.45370 4.12276 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 5 3.04690 4.39114 4.66961 4.17594 3.49162 4.34055 4.90349 1.25450 4.05412 1.99723 3.30974 4.40929 4.67101 4.32786 4.26166 3.72640 3.31692 1.34008 5.44890 4.24254 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 6 2.82723 4.43763 3.78448 3.24227 3.24463 3.82879 4.07235 2.18089 3.03810 1.45075 3.16645 3.61483 4.17933 2.80375 3.31386 3.12643 3.06043 2.39454 4.95866 3.73530 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 7 2.85404 4.38051 4.20587 3.87078 3.59276 3.78406 4.66246 2.04794 3.73945 2.26968 3.54907 4.05126 4.3413'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 960 2.99696 4.41714 4.43514 3.94620 3.36004 4.15860 4.66359 1.91547 3.78471 1.61638 3.23948 4.19962 4.52842 4.08744 4.00056 3.54124 3.27368 1.24261 5.26632 4.03392 981 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 961 2.84682 5.17640 2.53633 1.52034 4.50650 3.34206 3.66264 3.93010 1.93499 3.46119 4.31052 2.84378 3.85534 2.81417 2.71677 2.80098 3.09187 3.56999 5.60502 4.25722 982 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 962 3.20161 4.79329 3.70503 3.33350 2.20010 3.91338 2.59915 3.40349 3.16405 2.84326 3.95345 3.55635 4.30614 3.49813 3.40746 3.27976 3.43655 3.22513 3.84225 1.21639 983 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 963 1.90262 4.21420 3.91051 3.50941 3.71159 3.43291 4.38348 2.26471 3.42827 2.49443 3.61361 3.68529 4.04620 3.74566 3.68838 2.85433 2.92087 1.39563 5.35845 4.13500 984 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 964 2.69653 4.95976 2.28338 2.29065 4.01256 3.31216 3.64601 3.66485 2.53323 3.24447 4.08494 1.94527 3.80706 2.83169 3.01514 2.68739 2.95239 3.32416 5.33592 3.06276 985 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02960 3.93074 4.65308 0.61958 0.77255 0.48576 0.95510\n- 965 2.75671 4.89531 3.12593 2.58029 4.25167 3.47227 3.61055 3.63916 2.11171 3.18389 4.03436 3.04081 3.88465 2.27138 1.82032 2.78466 2.55487 3.31701 5.35308 4.09369 986 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11060 3.93074 2.46419 0.61958 0.77255 0.48576 0.95510\n- 966 2.71477 4.85911 2.98677 2.51796 4.23624 2.76914 3.60570 3.65102 2.14788 3.19806 4.04272 2.98680 3.84284 2.40189 1.88061 2.74155 2.95379 3.31471 5.35327 4.08041 987 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85218 4.57453 0.61958 0.77255 0.55634 0.85169\n- 967 2.58826 2.93633 4.22828 3.75798 3.51873 3.57691 4.44771 2.05670 3.61577 2.30231 3.44593 3.86617 4.13868 3.90262 3.82194 2.98931 2.94655 1.30174 5.21015 3.98538 988 v - - -\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40516 3.72498 3.29357 2.67720 2.69358 4.24693 2.90350 2.73743 3.18109 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.16389 1.88939 * 0.65852 0.72902 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3_I_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1901 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3_I_7\n-LENG 626\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:01 2020\n-NSEQ 3\n-EFFN 0.506836\n-CKSUM 3297017211\n-GA 177.8 172.6;\n-STATS LOCAL MSV -12.0758 0.69703\n-STATS LOCAL VITERBI -13.1457 0.69703\n-STATS LOCAL FORWARD -6.6338 0.69703\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56777 4.39702 2.86438 2.60793 3.27827 2.79540 3.75124 2.81405 2.71220 2.42273 3.72213 3.12500 3.30949 3.15252 2.82196 2.74039 2.87860 2.65755 4.46038 3.39184\n- 2.68628 4.42235 2.77529 2.73133 3.46363 2.40522 3.72504 3.29311 2.67750 2.69364 4.24563 2.90356 2.73749 3.18156 2.89810 2.37875 2.77467 2.98528 4.58487 3.61513\n- 0.19381 1.79500 4.59925 1.28335 0.32449 0.00000 *\n- 1 2.68236 4.56505 3.09366 2.15182 3.65369 3.48469 3.79191 2.89232 2.62061 2.53797 2.25717 3.14877 3.92470 3.03109 2.97470 2.82039 2.93287 2.70937 5.12586 3.85060 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 2 2.80527 5.15349 2.31168 1.74554 4.47181 3.22246 3.69937 3.95972 2.56751 3.51902 4.37697 1.80666 3.80346 2.87143 3.03229 2.75312 3.08942 3.57984 5.67094 4.25625 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 3 2.62860 4.42239 3.39814 2.99311 3.53280 3.41522 3.96915 2.82660 2.87519 1.86803 3.57756 3.35457 2.05109 3.28068 3.18048 2.82516 2.95217 2.65573 5.08127 3.78961 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 4 2.97287 5.05637 3.37006 2.74162 4.47769 3.59280 3.57804 3.83734 1.54533 3.31007 4.18894 3.14588 3.97596 2.72109 1.51328 2.98125 3.15120 3.52785 5.37567 4.19735 9 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 5 2.67879 4.90328 2.46856 1.62804 4.33171 3.20678 3.72131 3.76760 2.57791 3.37450 4.23037 2.81777 3.78311 2.89889 3.02366 2.05531 2.98557 3.39225 5.57127 4.19609 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 6 1.91041 4.19589 3.84755 3.44994 3.69294 3.38974 4.33800 2.27573 3.36890 2.47835 3.59833 3.63430 4.00629 3.69200 3.63363 2.81174 2.89093 1.46566 5.33422 4.10779 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 7 3.26385 4.66427 4.24482 3.96006 1.00449 3.95276 3.87897 2.78689 3.86696 2.15587 3.51632 4.02411 4.41'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 619 3.34271 4.71587 4.09778 3.80489 2.67048 3.73498 3.90502 3.36639 3.52696 2.76056 3.99999 3.95303 4.25306 3.91434 3.65457 3.54637 3.64330 3.25684 0.87639 2.67232 647 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 620 2.72979 4.81823 1.74181 2.42212 3.89952 3.33829 3.76370 3.24908 2.68408 2.26696 3.94808 2.94386 3.86114 2.97840 3.13756 2.77370 3.00750 3.00785 5.31697 3.92860 648 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 621 2.95590 5.06814 2.48916 1.01908 4.41488 3.27678 3.86382 3.86965 2.74489 3.48601 4.45973 2.93512 3.88154 3.07931 3.15428 2.93777 3.26013 3.55299 5.58561 4.30772 649 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 622 2.75705 4.51379 3.36468 3.20425 4.19927 3.20105 4.28144 3.74570 3.26191 3.37210 4.42206 3.51057 0.81942 3.65056 3.50704 2.92465 3.19894 3.39058 5.38472 4.31995 650 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 623 2.97287 5.05637 3.37006 2.74162 4.47769 3.59280 3.57804 3.83734 1.54533 3.31007 4.18894 3.14588 3.97596 2.72109 1.51328 2.98125 3.15120 3.52785 5.37567 4.19735 651 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 624 2.82551 5.13182 2.56085 1.66021 4.46359 3.33687 3.63660 3.87853 1.84403 3.41303 4.26440 2.84270 3.84078 2.78812 2.64912 2.78606 3.06671 3.52502 5.55751 4.22245 652 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 625 2.64553 4.72462 2.80320 2.51130 4.11803 3.26716 3.74348 3.59702 2.48379 3.17390 4.07219 2.98243 2.00766 2.22903 2.83696 2.70194 2.95303 3.25902 5.38059 4.06823 653 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03126 3.87691 4.59925 0.61958 0.77255 0.48576 0.95510\n- 626 2.95590 5.06814 2.48916 1.01908 4.41488 3.27678 3.86382 3.86965 2.74489 3.48601 4.45973 2.93512 3.88154 3.07931 3.15428 2.93777 3.26013 3.55299 5.58561 4.30772 654 e - - -\n- 2.68622 4.42229 2.77523 2.73067 3.46358 2.40516 3.72498 3.29358 2.67744 2.69359 4.24693 2.90350 2.73743 3.18150 2.89804 2.37891 2.77523 2.98522 4.58481 3.61507\n- 0.18370 1.78489 * 0.66124 0.72611 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3d_I-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3d_I-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1940 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3d_I-D_1\n-LENG 639\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:04 2020\n-NSEQ 6\n-EFFN 0.624023\n-CKSUM 982528656\n-GA 100 61;\n-STATS LOCAL MSV -11.9500 0.69697\n-STATS LOCAL VITERBI -12.9586 0.69697\n-STATS LOCAL FORWARD -6.4185 0.69697\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63566 4.30737 2.94581 2.67309 3.12408 2.90052 3.84099 2.69354 2.68054 2.38021 3.62130 3.07737 3.47831 3.19332 2.93844 2.68778 2.89572 2.54370 4.79673 3.31525\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20165 3.96062 1.81053 0.61958 0.77255 0.00000 *\n- 1 2.27154 4.29667 3.71161 3.25833 3.37675 3.53093 4.12894 2.39760 3.10678 2.07914 2.02709 3.55442 4.03585 3.47301 3.37648 2.91089 2.94308 2.28123 5.06947 3.84739 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03404 3.79301 4.51536 0.61958 0.77255 0.62891 0.76180\n- 2 2.63796 4.72280 2.87905 2.52416 4.18451 3.27837 3.66338 3.59343 1.66644 3.19885 4.06784 2.97448 3.80153 2.84103 2.56006 2.23193 2.92995 3.24518 5.36477 4.07802 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03404 3.79301 4.51536 0.61958 0.77255 0.62891 0.76180\n- 3 2.45430 4.44764 3.05049 2.67800 4.01389 3.15319 3.76840 3.47428 2.47294 3.11082 3.98540 3.05893 3.74177 2.98400 2.35178 1.71892 2.81169 3.09958 5.29834 4.01032 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03404 3.79301 4.51536 0.61958 0.77255 0.62891 0.76180\n- 4 2.19852 4.15991 3.03279 2.84760 4.20367 1.69977 4.04454 3.67011 3.01247 3.35344 4.19916 3.10259 3.60581 3.31270 3.34029 1.87420 2.67684 3.13644 5.53029 4.27892 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03404 3.79301 4.51536 0.61958 0.77255 0.62891 0.76180\n- 5 2.56270 4.52917 3.05481 2.60845 3.81408 3.33486 3.68743 3.17687 2.17913 2.50277 3.75993 3.04844 3.81205 2.90399 2.75301 2.12107 2.83873 2.89615 5.14903 3.85837 5 s - - -\n- 2.68620 4.42227 2.77522 2.73110 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18148 2.89780 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.24225 1.58864 4.51536 0.30078 1.34800 0.52869 0.89008\n- 6 2.45468 4.23586 3.44831 2.96046 3.55623 3.32989 3.89918 2.78517 2.85992 2.54883 2.32493 3.29248 3.85085 3.21415 3.17796 2.28930 2.43542 2.54835 5.02879 3.79197 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03157 3.86710 4.58944 0.61958 0.77255 0.57107 0.83223\n- 7 2.22229 4.18434 3.12318 2.91485 4.24565 2.31842 4.08955 3.71364 3.05312 3.39226 4.23125 3.15567 3.64050'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89027 4.61262 0.61958 0.77255 0.55132 0.85847\n- 632 2.06757 2.04710 4.02812 3.57581 3.62547 3.24226 4.29545 2.45487 3.44792 2.54394 3.57062 3.62585 3.89175 3.72328 3.66199 2.66033 2.76849 1.95643 5.19363 3.99500 645 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89027 4.61262 0.61958 0.77255 0.55132 0.85847\n- 633 2.60282 4.58243 2.61349 2.55810 3.76849 3.42716 3.68973 2.30579 2.51614 2.78417 3.68571 3.04052 3.84750 2.90004 2.52600 2.70489 2.84462 2.80362 5.13770 3.84052 646 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89027 4.61262 0.61958 0.77255 0.55132 0.85847\n- 634 2.62110 4.64375 2.96082 2.53234 3.79473 2.36287 3.66311 3.30606 2.16215 2.94210 3.80855 3.00871 3.83270 2.87847 2.81725 2.69887 2.87399 3.01551 5.13355 2.96087 647 k - - -\n- 2.68606 4.42233 2.77527 2.73131 3.46361 2.40520 3.72502 3.29362 2.67729 2.69362 4.24697 2.90331 2.73727 3.18154 2.89808 2.37894 2.77527 2.98526 4.58484 3.61416\n- 0.24786 1.56254 4.61262 0.94412 0.49270 0.55132 0.85847\n- 635 3.17505 4.63193 4.21812 3.85787 3.14220 4.00486 4.50801 2.34701 3.62545 0.85359 3.15926 4.13164 4.43704 3.98952 3.79868 3.57753 3.46842 2.38900 5.02813 3.75562 651 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89027 4.61262 0.61958 0.77255 0.55132 0.85847\n- 636 1.55592 4.28891 3.58831 3.18561 3.60882 3.35711 4.12563 2.59378 3.07875 2.04846 3.58238 3.46085 3.94530 3.44961 3.36778 2.76713 2.89296 2.40198 5.20338 3.93966 652 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89027 4.61262 0.61958 0.77255 0.55132 0.85847\n- 637 3.17505 4.63193 4.21812 3.85787 3.14220 4.00486 4.50801 2.34701 3.62545 0.85359 3.15926 4.13164 4.43704 3.98952 3.79868 3.57753 3.46842 2.38900 5.02813 3.75562 653 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89027 4.61262 0.61958 0.77255 0.55132 0.85847\n- 638 3.28075 4.67723 4.26314 3.98086 0.98304 3.96666 3.88475 2.80207 3.88741 2.16794 3.52949 4.03912 4.42473 4.05044 4.00274 3.54987 3.58183 2.79411 4.12826 2.49292 654 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89027 4.61262 0.61958 0.77255 0.55132 0.85847\n- 639 3.11405 4.47277 4.58494 4.07957 3.24531 4.34904 4.74395 1.28865 3.90064 1.52173 3.10675 4.34685 4.63516 4.17506 4.09260 3.72675 3.36604 1.82727 5.23011 4.01797 655 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02086 3.88029 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3d_I-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3d_I-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1904 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3d_I-D_2\n-LENG 627\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:04 2020\n-NSEQ 7\n-EFFN 0.591309\n-CKSUM 3396953120\n-GA 141.8 141.2;\n-STATS LOCAL MSV -12.1572 0.69704\n-STATS LOCAL VITERBI -13.0908 0.69704\n-STATS LOCAL FORWARD -6.5109 0.69704\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55272 4.57580 2.73375 2.56990 3.13000 2.92694 3.70071 2.83132 2.78023 2.45673 3.75197 3.04180 3.47721 3.08325 2.87248 2.73081 2.83894 2.63372 4.74769 3.41015\n- 2.68625 4.42232 2.77527 2.73118 3.46361 2.40520 3.72502 3.29361 2.67748 2.69362 4.24521 2.90323 2.73747 3.18113 2.89808 2.37894 2.77514 2.98526 4.58484 3.61510\n- 0.23082 1.62633 4.66030 0.94225 0.49389 0.00000 *\n- 1 3.08380 4.49989 4.43624 3.91392 1.85361 4.17200 4.26788 2.33781 3.77795 1.61866 1.99498 4.12261 4.46647 3.94621 3.93957 3.51092 3.32046 2.39970 4.64714 3.24946 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 2 2.58147 4.45803 3.23390 2.48996 3.63468 3.48290 3.71292 2.63674 2.56749 2.44933 3.55287 3.13268 3.87297 2.95479 2.71022 2.72850 2.30213 2.69518 5.02660 3.76621 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 3 3.02669 4.38290 4.63154 4.13975 3.51733 4.30426 4.87964 1.49063 4.01867 2.04349 3.34213 4.37412 4.64989 4.30226 4.23390 3.68981 3.30048 1.12798 5.45473 4.23824 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 4 2.43237 4.91784 2.75639 1.90225 4.26167 2.91912 3.62278 3.68468 2.34864 3.24763 4.06112 2.88127 3.79826 2.76663 2.33199 2.65493 2.90112 3.32494 5.44088 4.09894 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 5 2.22847 4.63905 2.27303 2.43934 4.35693 1.69322 3.86219 3.77808 2.81862 3.41718 4.25728 2.91276 3.74992 3.05916 3.28753 2.58547 2.90078 3.33869 5.63683 4.29565 8 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 6 0.92339 4.22517 3.52939 3.32379 4.11787 3.04793 4.33805 3.25321 3.34173 3.13179 4.15651 3.45675 3.79335 3.67692 3.58770 2.57494 2.85683 2.89629 5.53849 4.34604 9 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 7 2.34765 4.26888 3.26375 3.08259 4.14167 2.99757 4.19062 3.67315 3.16076 3.38835 4.30900 3.29688 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 620 3.05514 4.41149 4.64739 4.16379 3.46465 4.32019 4.88914 1.14987 4.02860 1.96397 3.29178 4.39678 4.66172 4.30971 4.23356 3.71321 3.32959 1.50257 5.43112 4.22051 625 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 621 2.78328 5.24009 2.09684 1.96087 4.55272 3.23416 3.68233 4.03715 2.60051 3.56097 4.38031 1.86513 3.79395 2.83492 3.13854 2.39178 3.05512 3.63266 5.73812 4.29256 626 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 622 2.33984 4.24113 3.81803 3.29554 3.52086 3.61144 4.15433 2.25871 3.20474 2.11988 3.42887 3.59782 4.08046 3.51730 3.50137 2.94419 2.36043 1.69877 5.11097 3.89429 627 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 623 2.68002 5.00324 2.91847 2.19469 4.32443 3.41539 3.10409 3.74984 2.03619 3.26818 4.06550 2.90779 3.81301 2.35545 2.37247 2.66724 2.66164 3.38477 5.42012 4.09249 628 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 624 2.65131 4.84119 3.00469 2.30304 4.10247 3.43152 3.10869 3.51865 2.24614 2.80707 3.91854 2.95891 3.30109 2.73764 2.12372 2.67665 2.87291 3.19625 5.29746 3.98821 629 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 625 3.07965 4.91413 3.57701 3.07451 4.28531 3.55504 3.87231 3.83158 2.26466 3.33561 4.33412 3.42923 4.05446 3.08942 0.88292 3.16068 3.34116 3.55271 5.34183 4.19847 630 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 626 2.71957 5.06010 2.22740 2.24742 4.38798 3.26948 3.66964 3.86543 2.50366 3.41414 4.23789 2.79439 3.79747 1.80306 2.97450 2.42064 2.98939 3.48283 5.58840 4.18896 631 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93795 4.66030 0.61958 0.77255 0.48576 0.95510\n- 627 2.77021 4.28977 3.98504 3.41451 3.30417 3.86213 4.16341 1.68548 3.23507 1.88056 3.21499 3.73300 4.21241 3.56979 3.00063 3.15777 3.00809 1.94514 4.97284 3.77092 632 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01987 3.92844 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3f_I-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas3f_I-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3341 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas3f_I-F_1\n-LENG 1106\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:04 2020\n-NSEQ 5\n-EFFN 0.932617\n-CKSUM 1674244155\n-GA 207.1 206.6;\n-STATS LOCAL MSV -13.0405 0.69535\n-STATS LOCAL VITERBI -13.8149 0.69535\n-STATS LOCAL FORWARD -7.1418 0.69535\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45005 4.34563 2.90302 2.68281 3.41177 3.01671 3.54815 2.90554 2.66731 2.33575 3.70641 3.07935 3.48329 2.93940 2.80791 2.67317 2.87917 2.73105 4.31706 3.58607\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.00000 *\n- 1 3.21449 4.72362 4.36421 3.98815 3.36413 4.05141 4.65864 2.56937 3.73850 1.92405 0.92684 4.22824 4.52136 4.10614 3.90899 3.58858 3.52946 2.60637 5.23679 4.01943 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 2 2.88503 5.10648 2.69577 2.47275 4.04317 3.41891 2.47976 3.95249 2.59189 3.48239 4.35269 1.41164 3.95457 2.99796 2.98663 2.87266 3.16164 3.59131 5.38235 3.90295 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 3 3.20554 4.49502 4.99050 4.50703 3.64979 4.59328 5.20910 1.00350 4.39414 2.12008 3.44204 4.70675 4.89234 4.65006 4.57630 3.99729 3.47334 1.35816 5.66308 4.46204 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 4 3.40667 4.70957 5.01274 4.48331 3.19966 4.68839 5.03071 1.68123 4.30854 0.87830 3.00412 4.73152 4.87591 4.45180 4.42486 4.07064 3.63914 2.15971 5.30806 4.20091 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 5 3.40667 4.70957 5.01274 4.48331 3.19966 4.68839 5.03071 1.68123 4.30854 0.87830 3.00412 4.73152 4.87591 4.45180 4.42486 4.07064 3.63914 2.15971 5.30806 4.20091 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 6 3.20597 4.49818 4.98321 4.50097 3.64303 4.58699 5.20291 0.98672 4.38571 2.11206 3.43684 4.70129 4.88844 4.64248 4.56783 3.99176 3.47450 1.39044 5.65740 4.45637 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 7 2.47691 4.39603 3.47717 3.31594 4.37053 3.12207 4.41274 3.93623 3.40932 3.63777 4.54593 3.48779 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1099 3.83901 5.03278 4.77044 4.49657 1.53770 4.53347 3.53333 3.51573 4.33481 2.81537 4.10412 4.18850 4.83814 4.26640 4.34184 3.91489 4.05961 3.44554 3.65859 0.83631 1146 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1100 2.85333 5.31113 1.96782 2.25306 4.52300 3.34339 1.93443 4.09922 2.62479 3.61069 4.42461 2.23858 3.87919 2.89243 3.14290 2.78781 3.11507 3.69687 5.72772 4.27035 1147 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1101 2.70919 4.81828 2.89073 2.11574 3.93339 3.44434 3.72281 3.46121 2.56293 3.08079 3.93771 3.01180 2.12330 2.92116 2.99093 2.75567 2.95540 3.16172 5.27039 2.75478 1148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1102 2.11181 4.28425 3.62617 3.11080 3.60881 2.24156 4.01963 2.75670 3.05290 2.17297 3.56033 3.43289 3.96513 3.35896 3.37775 2.78739 2.85583 2.09397 5.08637 3.86014 1149 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1103 3.23281 4.58501 4.60702 4.11864 1.87793 4.26114 3.90905 2.73202 3.96897 1.27881 3.33321 4.13392 4.55754 4.05319 4.06204 3.58611 3.45523 2.72201 4.15331 1.98650 1150 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1104 3.05187 4.78996 3.78220 3.72166 4.84070 0.40366 4.81564 4.51753 3.94049 4.13307 5.11764 3.94772 4.18926 4.24302 4.13706 3.23325 3.55475 3.99159 5.85258 4.95522 1151 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1105 3.06902 4.46000 4.61987 4.12489 1.85939 4.20512 4.44416 2.18743 4.00081 1.99761 3.28170 4.26115 4.56108 4.17701 4.14491 3.56996 3.33188 1.31119 4.83856 3.41911 1152 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 1106 2.93605 2.73154 4.48380 3.96559 1.50418 3.98143 3.83823 2.72580 3.79615 2.33481 3.39208 3.95902 4.34054 3.91572 3.87640 3.30524 3.17322 2.57840 2.68739 2.58396 1153 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01597 4.14480 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,866 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas4_I_II_III_IV_V_VI_5\n-LENG 281\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 7\n-EFFN 1.145020\n-CKSUM 1130749223\n-GA 184 184;\n-STATS LOCAL MSV -11.0388 0.70182\n-STATS LOCAL VITERBI -11.9749 0.70182\n-STATS LOCAL FORWARD -5.1949 0.70182\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53307 3.91534 2.97542 2.63224 3.45758 2.86888 3.76286 2.80330 2.74482 2.41949 3.63476 3.17194 3.24183 3.19564 2.84279 2.67828 2.94951 2.50692 4.57197 3.41505\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12055 4.26593 2.30732 0.61958 0.77255 0.00000 *\n- 1 2.66930 4.50663 3.36569 2.40265 3.63155 3.58345 3.79285 2.97249 2.64020 1.92817 2.80624 3.24092 3.96241 3.04809 2.55507 2.83081 2.89659 2.75808 5.05304 3.80620 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02326 4.16863 4.89098 0.61958 0.77255 0.60396 0.79107\n- 2 2.57628 4.31927 3.47324 2.92635 2.77407 3.52536 3.85974 2.84359 2.88402 2.57863 3.47402 2.71088 3.94440 3.18892 3.23637 2.42022 2.45300 2.12794 4.94633 3.70445 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12136 4.16863 2.31450 0.61958 0.77255 0.60396 0.79107\n- 3 2.77031 4.40306 3.66407 2.51407 2.51015 3.75562 3.97374 2.60947 3.08189 1.57081 3.28601 3.52718 4.12436 3.38502 3.38943 3.04121 3.00400 2.50048 4.82756 3.51334 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02562 4.07289 4.79524 0.61958 0.77255 0.69892 0.68741\n- 4 2.57110 2.75098 3.54504 2.98933 3.46004 3.52770 3.87468 2.75433 2.87686 2.15732 3.42538 3.35635 3.95009 2.66171 3.19599 2.81008 2.35960 2.53607 4.92427 3.69594 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02562 4.07289 4.79524 0.61958 0.77255 0.53152 0.88603\n- 5 2.70270 5.00596 2.87887 1.81858 4.25869 3.43934 2.84478 3.71629 2.37087 2.68858 4.07246 2.93930 3.85546 2.41304 2.79917 2.69822 2.93250 3.36386 5.44781 4.08952 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02326 4.16863 4.89098 0.61958 0.77255 0.41837 1.07330\n- 6 2.63504 4.15706 3.93844 3.36017 2.68201 3.70803 3.05004 1.95249 3.25783 2.32300 2.68657 3.62518 4.07922 3.50492 3.48662 2.51135 2.86749 2.39934 4.73449 3.51169 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 7 2.36179 4.75037 2.61835 2.52453 3.11355 3.47501 3.69488 3.37187 2.25078 3.00385 3.83439 3.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 274 2.78647 4.36747 3.92284 3.35999 3.37618 3.82924 4.15054 2.51727 3.26544 1.91137 2.61055 3.69444 2.04081 3.54922 3.54768 3.11346 3.02962 2.07807 5.00035 3.80515 295 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 275 3.59209 4.89082 4.92836 4.51778 0.97033 4.58890 4.19411 2.69295 4.34941 1.58817 3.33696 4.49709 4.85978 4.39163 4.40528 3.98614 3.82829 2.78826 4.36125 2.74804 296 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 276 2.72801 4.44581 3.57328 3.00740 3.19045 3.67894 3.80246 2.95721 2.88911 2.29861 3.55118 2.73233 4.05365 3.23245 2.64258 2.93153 2.95675 2.73532 3.18466 2.15927 297 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 277 2.36520 5.13072 2.91399 2.02777 4.46387 3.44465 2.99368 3.92480 2.07034 3.41928 4.18108 2.55219 3.84389 2.73227 2.41000 2.66234 2.91937 3.51645 5.55890 4.17939 298 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 278 2.69714 4.15837 4.15845 3.58219 2.51448 3.79230 2.96987 2.25291 3.45541 2.29965 3.25592 3.76271 4.15614 3.66296 3.62438 3.08277 2.92865 1.74906 4.57330 2.68116 299 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 279 3.12247 0.40244 4.70135 4.54327 4.47050 3.64557 5.10694 3.70254 4.38219 3.58874 4.72855 4.43090 4.37987 4.71206 4.42966 3.39230 3.62299 3.41442 5.77794 4.74989 300 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26593 4.98827 0.61958 0.77255 0.48576 0.95510\n- 280 2.70916 4.82736 3.00894 2.55523 3.99596 2.78633 2.01992 3.50304 2.53786 2.58499 3.95750 2.58228 3.91381 2.92381 2.95445 2.75895 2.95486 3.19260 5.30751 3.95461 301 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11770 4.26593 2.33308 0.61958 0.77255 0.48576 0.95510\n- 281 2.17930 4.51775 3.19425 2.70675 3.97036 2.61588 3.83843 3.35582 2.71887 3.02148 3.86435 2.56849 2.81318 3.04689 3.13722 2.63466 2.83147 2.27109 5.31044 4.02863 302 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01567 4.16390 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,833 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas4_I_II_III_IV_V_VI_2\n-LENG 270\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 8\n-EFFN 1.152344\n-CKSUM 66676057\n-GA 130 130;\n-STATS LOCAL MSV -10.9141 0.70217\n-STATS LOCAL VITERBI -11.8571 0.70217\n-STATS LOCAL FORWARD -5.1792 0.70217\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52058 3.90001 2.95509 2.63031 3.46194 2.84327 3.74854 2.81403 2.73278 2.44061 3.66071 3.18711 3.20924 3.19285 2.85528 2.69814 2.95223 2.50926 4.55176 3.42547\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.00000 *\n- 1 2.78351 4.47940 3.72922 3.16455 3.56528 3.71340 3.99924 2.82878 2.82613 1.37240 3.50283 3.52123 4.12159 3.31565 2.52294 3.02285 2.52639 2.66743 5.07676 3.86091 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 2 2.71144 4.72013 3.25506 2.33962 3.92318 3.56308 3.72609 3.31283 2.22582 2.16541 3.80341 3.14435 3.94227 2.91826 2.24748 2.79843 2.93285 3.03764 3.42782 3.94515 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 3 2.65989 5.00429 2.54375 2.17843 3.27100 3.43503 3.64551 3.73270 2.41111 3.28336 4.06756 2.93248 3.83958 2.77044 2.07187 2.37651 2.89287 3.36332 5.47402 4.10308 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 4 2.41178 4.63946 3.42302 2.83570 3.83424 3.62441 3.79479 3.17557 2.19048 1.71882 3.73386 3.26776 4.00930 3.02130 2.38244 2.89463 2.98316 2.93290 5.17001 3.93073 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 5 2.70861 4.78873 3.19947 2.61535 4.01481 3.54328 2.70356 3.40806 2.17995 3.02619 3.04464 3.10218 3.92394 2.87594 2.09223 2.77179 2.93048 2.64586 5.27980 3.99119 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 6 2.62975 4.42116 3.40995 2.84346 3.57526 3.57744 3.82440 2.58244 2.78555 2.63486 2.93360 3.27439 3.16136 3.11417 2.30853 2.52479 2.86311 2.37286 4.99904 3.75266 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 7 2.65730 4.73365 3.14475 2.57814 3.94874 3.50819 3.70428 2.90448 2.24523 2.97776 3.81626 3.074'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 263 3.12833 0.39924 4.70739 4.55035 4.47731 3.65034 5.11330 3.71045 4.38952 3.59624 4.73626 4.43718 4.38484 4.71922 4.43620 3.39813 3.62916 3.42196 5.78344 4.75656 288 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 264 2.74250 4.45762 3.77529 3.28371 3.61780 3.65655 4.19104 2.67135 3.17572 2.10454 3.56770 3.61357 1.58241 3.52249 3.48284 3.00159 3.05078 2.11462 5.21457 3.96769 289 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 265 3.60093 4.89897 4.92736 4.52234 0.94904 4.58890 4.18121 2.70902 4.35311 1.62075 3.35548 4.49438 4.86335 4.39492 4.40810 3.98845 3.83819 2.80175 4.34685 2.72807 290 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 266 2.69512 4.36090 3.64111 3.07118 3.22916 3.67739 3.84667 2.85404 2.95321 1.95974 3.46672 2.83467 4.05153 3.28173 2.70155 2.93525 2.92463 2.63918 3.27608 2.49877 291 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 267 2.39130 5.10110 2.87615 1.90733 4.41933 3.42636 3.04554 3.88209 2.36817 3.39236 4.15581 2.60226 3.11555 2.74065 2.49189 2.64548 2.90333 3.47887 5.54857 4.16039 292 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 268 2.71259 4.21517 4.02487 3.45513 2.56514 3.77905 2.37994 2.32320 3.34876 2.35437 3.31015 3.68932 4.14470 3.57926 3.56346 3.06103 2.94389 1.95932 4.57803 2.73718 293 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 269 3.12833 0.39924 4.70739 4.55035 4.47731 3.65034 5.11330 3.71045 4.38952 3.59624 4.73626 4.43718 4.38484 4.71922 4.43620 3.39813 3.62916 3.42196 5.78344 4.75656 294 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26962 4.99197 0.61958 0.77255 0.48576 0.95510\n- 270 2.65570 4.76038 3.10872 2.55192 3.95541 2.90485 2.50510 3.38121 2.24735 2.63113 3.84020 2.70659 3.88699 2.87041 2.91812 2.71571 2.88509 3.08330 3.70601 3.93837 295 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.26280 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,758 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas4_I_II_III_IV_V_VI_3\n-LENG 245\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 4\n-EFFN 0.519531\n-CKSUM 3694755602\n-GA 272.9 272.8;\n-STATS LOCAL MSV -10.8932 0.70315\n-STATS LOCAL VITERBI -11.6460 0.70315\n-STATS LOCAL FORWARD -5.5238 0.70315\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70330 3.89930 2.98961 2.70671 3.19181 2.99242 3.91085 2.63996 2.66350 2.38294 3.60057 3.21805 3.42640 3.23324 2.81122 2.69216 2.89714 2.57758 4.67278 3.13642\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13576 3.88632 2.24030 0.61958 0.77255 0.00000 *\n- 1 2.90343 4.46715 3.95635 3.54530 3.17463 3.76856 4.30085 2.34171 3.31731 1.78465 1.55710 3.83296 4.23059 3.70621 3.53251 3.24240 3.20802 2.33707 5.00248 3.75523 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03432 3.78489 4.50723 0.61958 0.77255 0.57131 0.83192\n- 2 2.37008 4.21408 3.35450 3.10545 3.89544 3.05546 4.12890 3.01208 3.04664 2.87854 3.93690 3.32724 3.75324 3.44656 3.30804 2.57065 1.32984 2.71650 5.34119 4.11282 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03432 3.78489 4.50723 0.61958 0.77255 0.57131 0.83192\n- 3 3.15030 4.57889 4.11750 3.81748 1.16704 3.85634 3.84461 2.68724 3.72719 2.07891 3.43213 3.92176 4.31870 3.92011 3.86854 3.42339 3.45233 2.67103 4.12382 2.50351 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03432 3.78489 4.50723 0.61958 0.77255 0.57131 0.83192\n- 4 2.74138 4.64937 3.14448 2.71781 3.55836 3.48750 3.73400 3.01113 2.43923 2.10160 3.62762 3.15779 3.93255 2.07831 2.73483 2.85473 2.99271 2.85458 5.04457 3.70212 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03432 3.78489 4.50723 0.61958 0.77255 0.57131 0.83192\n- 5 2.60002 4.29018 3.65750 3.18015 3.39910 3.51256 4.06322 2.43385 3.01789 2.13984 2.20409 3.49446 4.00494 3.39538 3.29834 2.87532 2.34471 2.30182 5.05059 3.82643 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03432 3.78489 4.50723 0.61958 0.77255 0.57131 0.83192\n- 6 2.89530 4.85052 3.06524 2.70642 4.21681 3.39156 3.71705 3.64116 1.16537 3.22677 4.19537 3.13389 3.90013 2.91533 2.42424 2.94448 3.15642 3.35473 5.30954 4.11054 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03432 3.78489 4.50723 0.61958 0.77255 0.57131 0.83192\n- 7 2.90066 4.96422 3.27391 2.68965 4.35510 3.52666 3.55908 3.72755 1.63152 3.22900 4.11440 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 238 3.26682 4.75020 3.85854 3.59038 2.29335 3.84616 3.62459 3.27407 3.44749 2.72447 3.94762 3.74031 4.31961 3.75022 3.62843 3.40219 3.55352 3.14526 3.93769 0.94307 239 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 239 2.96433 5.06221 3.32516 2.72122 4.48101 3.58147 3.58429 3.84622 1.32193 3.32038 4.19734 3.13376 3.97103 2.72705 1.81172 2.97009 3.14709 3.53293 5.38739 4.20094 240 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 240 2.78721 4.88960 3.05137 2.60717 4.25618 3.42027 3.64320 3.73617 2.12837 3.27471 4.14220 2.41329 3.88818 2.80962 1.57382 2.81795 3.03579 3.39764 5.36033 4.08605 241 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 241 3.04185 4.45652 4.35564 3.97183 3.38335 4.08171 4.69727 1.06092 3.80025 1.96637 3.31637 4.21522 4.51144 4.14701 3.99522 3.57821 3.34070 1.84596 5.27716 4.01676 242 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 242 2.60160 0.91278 4.12406 3.86673 3.85471 3.22180 4.51075 3.00076 3.69369 2.91570 4.03737 3.85001 3.92986 4.03920 3.81567 2.87331 3.06951 2.74445 5.26810 4.14234 243 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 243 2.76939 4.52464 3.37802 3.21891 4.21323 3.21136 4.29537 3.76201 3.27736 3.38742 4.43774 3.52431 0.80228 3.66571 3.52148 2.93727 3.21200 3.40583 5.39616 4.33402 244 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 244 2.62691 4.63324 2.87763 2.20065 3.66295 3.38115 3.66574 3.24826 2.54640 2.89681 3.77382 2.98922 3.83635 2.90808 2.94908 2.32858 2.87808 2.97021 5.05763 2.52371 245 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03096 3.88632 4.60867 0.61958 0.77255 0.48576 0.95510\n- 245 2.65233 4.37065 3.56595 3.13327 2.89694 3.46083 3.75282 3.04256 2.94429 2.66865 3.66218 3.40483 3.97362 3.33655 3.20517 2.25248 2.96551 2.80880 1.95874 2.92826 246 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02095 3.87631 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,560 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas4_I_II_III_IV_V_VI_1\n-LENG 179\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 17\n-EFFN 3.523682\n-CKSUM 1031934872\n-GA 45 45;\n-STATS LOCAL MSV -10.2544 0.70678\n-STATS LOCAL VITERBI -11.3844 0.70678\n-STATS LOCAL FORWARD -4.3495 0.70678\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59654 3.56830 3.12556 2.50117 3.49509 3.05393 3.72952 2.78846 2.50729 2.51026 3.67765 3.26332 3.34671 3.04839 2.85495 2.76227 2.97566 2.58185 4.68707 3.15025\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.00000 *\n- 1 2.94021 4.36521 3.29567 4.01885 2.22816 4.07573 4.39315 1.52480 3.86275 2.08120 3.00832 4.13781 3.43022 4.04658 3.07993 3.37365 3.17231 2.18629 4.98305 3.79963 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 2 2.31545 5.30330 2.86952 2.63902 4.60776 2.60847 3.88526 3.25648 2.63912 3.59212 4.35705 2.44046 2.84969 2.99727 2.74633 2.34189 2.29511 3.16893 5.76386 4.38003 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 3 2.96729 4.47459 4.36244 3.78692 3.61057 1.88873 4.39109 2.26067 3.68146 2.35246 3.60756 4.02183 2.21998 3.91855 3.89237 3.34059 2.68394 1.81284 5.12402 3.92754 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 4 2.02655 4.50194 4.15919 3.58708 3.63890 3.96722 4.29811 2.98221 3.50206 2.13718 3.63568 3.87860 4.36302 3.76218 3.76206 1.36972 2.79589 2.42641 3.62788 3.92200 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 5 2.33204 4.71053 2.22266 3.12276 3.85907 3.86743 4.11030 2.85157 3.08739 2.03498 3.05223 3.55756 4.24893 2.97492 2.89884 3.10309 2.70468 2.65903 5.28235 2.71797 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 6 3.86848 5.09499 5.90967 5.36431 3.87282 5.31841 5.76719 1.72516 5.24120 1.28073 2.25284 5.48477 5.48391 5.27635 5.26006 4.70402 4.10045 1.15181 5.95817 4.89248 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 7 2.64153 5.09469 3.32173 2.76257 4.32928 3.74462 3.94737 2.60606 2.06106 2.27157 4.16672 2.38'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 172 4.53905 0.07808 5.97285 5.99439 6.01896 4.78724 6.46158 5.61957 5.94914 5.32502 6.50676 5.83538 5.52875 6.23705 5.83510 4.80348 5.08180 5.21822 6.96392 6.25953 222 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 173 2.42560 3.62568 3.30215 2.52074 4.35242 3.06943 3.93887 3.77031 2.73733 3.37171 4.18274 3.26463 1.99404 2.52467 2.74393 2.37012 3.13650 2.89049 3.63126 4.27736 223 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 174 3.33878 3.19657 5.14230 4.59458 1.97141 4.45834 4.41665 3.03721 4.39411 2.05703 3.72502 4.51856 4.80006 4.47251 4.40014 3.77920 3.56846 2.54374 4.72762 1.04640 224 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 175 2.90999 5.18116 3.26926 2.71143 3.37178 3.19198 3.92206 3.87053 2.45416 3.44892 4.24618 2.23279 4.11552 3.05722 1.55492 2.56032 3.14091 2.96481 5.66735 3.50645 225 r - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40491 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.06056 2.88837 5.77728 0.30732 1.32958 0.48576 0.95510\n- 176 2.62506 5.39244 2.74643 1.88769 4.73003 3.67579 3.86384 4.21075 2.34031 3.15584 4.43511 2.76480 4.06928 2.96265 2.47359 2.28512 2.73590 3.77907 5.82956 2.54747 227 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 177 2.94648 4.38831 4.53995 2.64957 2.42798 4.07034 4.37772 1.55906 3.80592 2.57048 3.50071 4.10132 4.43720 3.23678 3.94220 3.36443 3.17858 1.88400 4.99591 2.59612 228 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 178 4.53905 0.07808 5.97285 5.99439 6.01896 4.78724 6.46158 5.61957 5.94914 5.32502 6.50676 5.83538 5.52875 6.23705 5.83510 4.80348 5.08180 5.21822 6.96392 6.25953 229 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05493 5.77728 0.61958 0.77255 0.48576 0.95510\n- 179 2.91195 4.86722 3.50048 2.58365 4.04616 3.08265 4.03145 3.42963 2.33670 1.92391 3.95632 3.41865 2.87032 2.76191 3.34209 3.02747 2.78530 2.52323 3.81471 2.87171 230 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00642 5.05183 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,614 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas4_I_II_III_IV_V_VI_4\n-LENG 197\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 24\n-EFFN 5.305664\n-CKSUM 1323047126\n-GA 75 75;\n-STATS LOCAL MSV -10.4521 0.70553\n-STATS LOCAL VITERBI -11.3015 0.70553\n-STATS LOCAL FORWARD -4.5385 0.70553\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65397 3.61586 3.07490 2.45146 3.49400 3.11202 3.79126 2.76087 2.51301 2.46607 3.60235 3.21078 3.31300 3.14585 2.83313 2.72366 3.00207 2.60814 4.71512 3.22042\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.42982 5.38057 1.06488 0.61958 0.77255 0.00000 *\n- 1 2.64955 4.72898 3.56536 2.64655 3.88903 2.89376 4.03712 2.74682 2.97536 2.03162 2.54547 1.99456 3.47488 3.29775 3.37487 3.03094 3.10553 3.01527 5.29242 4.03212 1 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96121 5.68356 0.61958 0.77255 1.36671 0.29430\n- 2 2.48866 4.49975 3.94655 2.72234 3.62112 3.90589 4.17611 2.97443 2.94145 1.54448 2.89786 3.72318 4.28161 2.99642 3.60661 3.16525 3.11262 2.18593 5.09444 2.71985 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01046 4.96121 5.68356 0.61958 0.77255 1.23732 0.34272\n- 3 2.90101 3.20600 4.49497 3.90166 3.05581 4.02390 4.33576 1.75228 2.40875 2.07718 2.76947 3.42074 4.39164 3.17388 3.89678 3.31720 2.80687 2.20783 4.95979 3.77315 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01014 4.99206 5.71441 0.61958 0.77255 1.33086 0.30687\n- 4 2.89915 4.38392 4.33288 3.74696 2.84949 3.99657 4.29683 2.83369 2.88491 1.40760 3.49831 3.96605 2.83873 3.85612 3.82112 2.49307 2.81391 2.45112 3.52961 3.28082 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01014 4.99206 5.71441 0.61958 0.77255 1.33086 0.30687\n- 5 3.02543 4.53804 4.34145 3.73842 3.65868 4.10402 4.37030 1.30851 2.76753 2.20563 3.63318 4.00548 4.46576 3.83953 2.18611 3.39194 3.25449 2.12676 5.17439 3.97967 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01014 4.99206 5.71441 0.61958 0.77255 1.33086 0.30687\n- 6 2.87418 5.28119 2.78674 2.30894 4.58537 3.66475 3.33813 3.49033 2.60961 2.46351 3.14038 1.97829 2.86820 2.96810 2.67596 2.63848 3.10539 3.64967 5.73911 4.35431 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01014 4.99206 5.71441 0.61958 0.77255 1.00182 0.45762\n- 7 2.34368 4.44800 4.28797 2.70056 2.90719 2.43545 4.31546 1.82888 3.60305 2.16507 2.68835 3.20'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00675 5.39768 6.12003 0.61958 0.77255 0.48576 0.95510\n- 190 2.07565 5.50912 3.33800 2.58930 2.99027 3.84696 4.03655 4.29616 2.16428 3.80313 4.55674 2.57768 4.23973 2.66295 1.82707 2.67623 3.29413 3.30878 5.95744 3.13936 268 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00675 5.39768 6.12003 0.61958 0.77255 0.48576 0.95510\n- 191 2.75842 5.50914 2.61176 1.47809 4.82810 3.84674 4.03685 4.29598 2.50215 2.89610 4.55681 3.32500 4.23974 3.14231 2.49404 2.77064 3.29425 2.79935 5.95769 2.48274 269 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00675 5.39768 6.12003 0.61958 0.77255 0.48576 0.95510\n- 192 3.22307 4.59077 5.17973 4.56841 2.39168 4.40117 4.72756 1.57724 4.35809 1.76652 3.64542 4.55965 4.75451 3.34830 4.36744 3.71491 3.45469 1.55471 5.20227 2.72677 270 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00675 5.39768 6.12003 0.61958 0.77255 0.48576 0.95510\n- 193 5.18143 0.04152 6.46024 6.51618 6.64395 5.28990 6.97818 6.45404 6.53504 6.02844 7.22581 6.41398 6.01807 6.81078 6.37130 5.44931 5.72538 5.99723 7.42534 6.87225 271 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00675 5.39768 6.12003 0.61958 0.77255 0.48576 0.95510\n- 194 3.08902 4.94255 3.78486 3.22152 2.46285 3.23528 4.25308 3.47470 2.17462 2.29671 4.03814 3.67540 3.36487 2.55179 3.59200 1.93838 2.92076 2.84601 3.34932 3.62297 272 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04109 5.39768 3.33164 0.61958 0.77255 0.48576 0.95510\n- 195 2.50832 3.92487 3.67520 3.11361 3.28583 3.45245 4.19039 3.19864 3.09124 3.21433 4.07678 2.46201 1.96158 3.42110 2.15736 2.41806 3.28925 2.49088 5.53749 4.26268 273 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18301 5.34586 1.81725 0.61958 0.77255 0.61745 0.77505\n- 196 2.95519 5.38299 3.23770 1.85309 4.69593 2.81929 3.93160 4.15894 1.83783 3.67407 4.43269 3.22316 4.13425 3.03972 2.80843 2.58643 2.25198 2.81501 3.48043 4.44585 274 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05009 5.17132 3.14247 0.61958 0.77255 1.06179 0.42440\n- 197 2.56353 4.56232 4.09015 2.64367 3.68530 2.11918 4.28673 2.60674 3.44748 1.58123 3.67543 3.84926 4.38150 3.71849 3.73361 2.74985 3.20136 2.14073 5.16630 3.95477 275 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00595 5.12719 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,506 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas4_I_II_III_IV_V_VI_6\n-LENG 161\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 44\n-GA 50 50;\n-EFFN 2.210205\n-CKSUM 1381132792\n-STATS LOCAL MSV -10.0081 0.70830\n-STATS LOCAL VITERBI -11.1593 0.70830\n-STATS LOCAL FORWARD -4.3593 0.70830\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61993 3.50133 3.01477 2.51322 3.55910 3.05203 3.65903 2.81965 2.50340 2.49177 3.66689 3.14176 3.53799 2.95896 2.84573 2.72305 2.91616 2.67263 4.70357 3.33703\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06074 4.69635 2.99967 0.61958 0.77255 0.00000 *\n- 1 2.59097 5.18893 2.78633 2.46834 4.51158 2.90653 3.72583 3.97875 2.47373 3.48789 4.24297 2.61733 2.84458 2.71602 2.67210 2.45118 2.01801 3.43758 5.64402 4.25028 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.64992 5.37227 0.61958 0.77255 0.57600 0.82586\n- 2 2.92445 4.52062 4.17918 3.65237 3.64978 1.26961 4.42012 2.48192 3.54853 1.84672 3.59368 3.92826 4.37855 3.83756 3.81143 3.25821 3.21009 2.29926 5.26286 4.05095 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.64992 5.37227 0.61958 0.77255 0.43321 1.04534\n- 3 2.72543 4.32407 4.12217 3.54507 3.45150 3.88371 4.19601 2.25570 3.44950 2.41696 2.97043 3.81174 4.26004 3.69669 3.68258 1.94631 1.97340 2.01292 4.96280 3.76247 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 4 2.39313 5.00343 2.74790 2.43138 4.25320 2.60066 3.18100 3.53222 2.36020 2.40077 3.14106 3.10467 3.97452 2.80231 3.04361 2.78471 2.78397 3.22424 5.49777 3.76918 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 5 3.54535 4.77407 5.57099 5.04841 3.51917 5.03447 5.55551 0.97635 4.94668 1.88043 3.32641 5.17938 5.24462 5.08066 5.03002 4.42347 3.78847 1.30909 5.84724 4.71112 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 6 2.61104 5.09699 3.09135 2.53402 4.37582 3.56767 3.23873 3.81731 2.34464 3.25300 4.15587 2.15943 3.95903 2.06514 2.87245 2.60348 2.99510 3.11789 3.58727 3.51890 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 7 2.73462 4.88421 3.36004 2.86898 3.71226 3.73879 2.21086 3.48566 2.81184 3.11741 3.99447 3.33'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 154 1.30109 4.83320 3.34752 2.63491 4.65364 2.83598 4.23805 4.09188 3.11666 3.70309 4.50709 3.39924 4.08643 3.42022 3.55033 1.43012 3.13905 3.61845 5.92153 4.61863 232 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 155 3.53686 4.84945 5.09360 4.61034 2.29539 4.59503 4.23353 3.01463 4.43700 1.47329 3.63927 4.52389 4.88928 4.46456 4.46112 3.92744 3.75938 2.60797 4.44622 1.09218 233 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 156 2.10714 4.89576 3.20771 2.40047 2.62881 3.47190 3.61128 3.52177 2.55717 3.06425 3.97202 2.95746 3.99905 2.91778 2.51876 2.64232 2.90836 3.21727 5.41134 2.78401 234 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 157 2.81500 5.28087 2.01180 1.53815 4.60144 3.55062 3.77482 4.07525 2.53918 3.42024 4.33340 3.02473 2.94980 2.88363 3.03504 2.64032 3.05021 3.26300 5.72800 4.02249 235 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 158 2.96880 4.36705 4.64571 3.57074 1.79299 4.09509 4.25016 2.72292 3.90312 1.49886 3.38952 4.13991 4.44466 4.05350 3.98750 3.40139 3.19891 2.32003 4.69869 2.18235 236 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 159 3.86955 0.16036 5.41359 5.36980 5.31360 4.25172 5.86418 4.71607 5.25889 4.52747 5.69180 5.19689 4.99833 5.56605 5.21311 4.13501 4.39982 4.37297 6.43733 5.57267 237 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01365 4.69635 5.41870 0.61958 0.77255 0.48576 0.95510\n- 160 2.81471 4.22698 4.52402 3.93046 2.20980 3.94877 4.21177 2.66260 3.27919 1.79334 3.33832 4.01694 4.31260 3.52773 3.85264 3.25017 3.04638 2.15736 2.37305 2.73756 238 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 4.69635 3.21634 0.61958 0.77255 0.48576 0.95510\n- 161 2.32887 3.50478 3.75108 3.07538 3.59467 2.98693 4.05364 2.14320 3.13270 2.67321 3.57053 3.55047 2.11220 3.42225 3.45964 2.52084 2.99000 2.56374 5.05323 3.83006 239 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00956 4.65543 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_I_II_III_IV_V_VI_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,899 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas4_I_II_III_IV_V_VI_7\n-LENG 292\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 8\n-EFFN 1.144531\n-CKSUM 825175678\n-GA 73.1 67.1;\n-STATS LOCAL MSV -10.9454 0.70149\n-STATS LOCAL VITERBI -12.1417 0.70149\n-STATS LOCAL FORWARD -5.2830 0.70149\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52441 3.94354 2.96347 2.62866 3.44328 2.88890 3.75062 2.79853 2.73057 2.42276 3.60536 3.18426 3.25847 3.18562 2.85123 2.67935 2.94985 2.51376 4.56015 3.43259\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.00000 *\n- 1 3.33260 4.82764 4.50404 4.14604 3.45101 4.14811 4.79030 2.66980 3.88872 2.00054 0.78281 4.36933 4.62607 4.25226 4.04384 3.71422 3.65382 2.71875 5.33284 4.12278 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 2 2.81623 4.30848 4.14362 3.57073 1.72733 3.89487 4.11231 2.54072 3.41877 1.90123 3.23903 3.81652 4.24728 3.67719 2.88812 3.18728 3.04894 2.10700 4.74839 3.44678 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 3 2.62537 4.41850 3.39854 2.83646 2.53977 3.57107 3.81674 2.94041 2.79170 2.63978 3.52353 3.26770 3.08080 3.11202 2.72370 2.50086 2.52254 2.70402 4.98000 3.01189 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11852 4.26568 2.32559 0.61958 0.77255 0.48576 0.95510\n- 4 2.61745 4.54525 3.20556 2.36476 2.99418 3.50987 3.73895 3.08413 2.62604 2.44044 3.63042 3.13251 3.89938 2.60836 3.03508 2.74249 2.21533 2.83081 5.08990 3.81110 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17037 4.89272 0.61958 0.77255 0.60177 0.79373\n- 5 2.65400 4.25783 3.72639 3.15658 2.70231 3.67757 3.15536 2.36548 3.06413 1.82088 3.30723 3.49483 4.04674 2.78659 3.35280 2.94242 2.88459 2.50013 4.75192 3.47393 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17037 4.89272 0.61958 0.77255 0.60177 0.79373\n- 6 2.64133 4.91997 2.92741 2.18010 4.20927 3.41949 3.64113 3.63872 2.39798 3.20917 4.00793 2.54248 3.82995 2.77654 2.49808 2.09929 2.87767 2.81264 5.41674 4.06663 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11052 4.17037 2.41708 0.61958 0.77255 0.60177 0.79373\n- 7 2.61761 4.74827 2.63455 1.94063 3.96327 3.43530 3.66610 2.79790 2.48997 2.96624 3.06325 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 285 3.60109 4.90016 4.91644 4.51590 0.93668 4.58065 4.16478 2.71901 4.34627 1.65069 3.36886 4.48380 4.85942 4.38991 4.40210 3.98203 3.83957 2.80821 4.33051 2.70711 303 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 286 2.70423 4.39643 3.60017 3.03190 3.22642 3.67227 3.82625 2.89763 2.91651 2.10240 3.50177 2.78338 4.04695 3.25161 2.65876 2.92695 2.93348 2.67914 3.32750 2.32900 304 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 287 2.26312 5.09721 2.90513 2.13149 4.41936 3.42941 3.03269 3.88233 2.17144 3.38779 4.14768 2.59098 3.23025 2.72643 2.50113 2.63613 2.89186 3.47629 5.53914 4.15271 305 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 288 2.70060 4.18134 4.09021 3.51681 2.54313 3.78270 2.65842 2.28440 3.40043 2.32339 3.27825 3.72476 4.14758 3.61968 3.59215 3.06899 2.93203 1.83903 4.57929 2.72394 306 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 289 3.12208 0.40266 4.70095 4.54279 4.47005 3.64525 5.10652 3.70201 4.38170 3.58824 4.72804 4.43048 4.37954 4.71158 4.42922 3.39191 3.62258 3.41392 5.77757 4.74944 307 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11169 4.26568 2.38990 0.61958 0.77255 0.48576 0.95510\n- 290 2.76098 5.07537 2.79553 2.41004 4.37738 2.69561 2.06584 3.83692 2.15510 3.37484 4.18274 2.50652 3.88111 2.82413 2.81123 2.74665 3.00087 3.47005 5.53737 4.17892 308 h - - -\n- 2.68606 4.42236 2.77505 2.73134 3.46364 2.40488 3.72505 3.29365 2.67751 2.69365 4.24700 2.90304 2.73750 3.18157 2.89783 2.37897 2.77530 2.98529 4.58487 3.61514\n- 0.59332 1.31389 1.72183 0.79526 0.60051 0.59441 0.80272\n- 291 2.53888 4.65526 2.87619 2.53093 4.25332 2.35958 3.77457 3.68119 2.14810 3.28141 4.10620 2.98961 3.78533 2.94887 2.94671 1.85609 2.87034 3.27805 5.48897 4.17885 312 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02789 3.98916 4.71151 0.61958 0.77255 0.34247 1.23792\n- 292 2.63901 4.61979 3.22781 2.66987 3.84670 2.59942 3.75853 3.22137 2.58810 2.50338 3.74415 3.14124 3.21456 2.96651 2.21471 2.74597 2.88142 2.52057 5.19188 3.91147 313 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.25884 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_V_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas4_V_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,559 +0,0 @@\n-HMMER3/b [3.0 | March 2010]\n-NAME TIGR04328\n-ACC TIGR04328\n-DESC cas4_PREFRAN: CRISPR-associated protein Cas4, subtype PREFRAN\n-LENG 178\n-ALPH amino\n-RF no\n-CS no\n-MAP yes\n-DATE Wed May 16 17:42:09 2012\n-NSEQ 3\n-EFFN 0.594727\n-CKSUM 1935733438\n-GA 70.00 70.00;\n-TC 70.00 70.00;\n-NC 60.00 60.00;\n-STATS LOCAL MSV -10.2546 0.70688\n-STATS LOCAL VITERBI -11.3838 0.70688\n-STATS LOCAL FORWARD -4.5516 0.70688\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67448 3.84631 2.89239 2.72090 3.12355 3.03176 3.65069 2.66315 2.60202 2.47987 3.68117 2.99617 3.59164 3.05089 3.05590 2.68694 2.90629 2.69419 4.86348 3.04874\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.00000 *\n- 1 3.08399 4.48407 4.43164 4.05012 3.42023 4.13938 4.76577 0.99767 3.87956 1.99258 3.34522 4.28595 4.56421 4.22095 4.06838 3.64136 3.38201 1.84930 5.32499 4.06903 1 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 2 2.72373 4.37003 3.81228 3.35510 3.40529 3.65025 4.20336 2.40097 3.18530 1.44913 3.33924 3.65413 4.13603 3.56022 3.44775 3.02885 2.21017 2.28889 5.10928 3.87452 2 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 3 3.08894 4.45323 4.58257 4.07143 2.15854 4.26539 4.44465 1.41662 3.94606 1.73097 3.07957 4.26058 4.55684 4.11453 4.09775 3.62006 3.33222 2.04794 4.81620 3.43747 3 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 4 1.68614 4.14434 3.43070 3.06861 4.13175 2.96325 4.11055 3.46018 3.07308 3.20346 4.04959 3.25913 3.67667 3.37803 3.39784 1.80368 1.99292 2.99720 5.49429 4.27646 4 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 5 2.59713 4.52958 3.10423 2.17810 3.66153 3.43884 3.69546 3.09632 2.54849 2.76406 3.64914 3.08086 3.85765 2.93463 2.92875 2.71513 2.32994 2.83800 3.16853 3.73980 5 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 6 3.23159 4.67380 4.29836 3.93863 3.16204 4.06818 4.57307 2.36993 3.70571 0.79597 3.16400 4.20752 4.49194 4.05780 3.87063 3.64710 3.52279 2.42486 5.06585 3.80480 6 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 7 2.78016 4.77877 2.74677 2.'..b' 4.06903 173 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 171 3.34570 4.80719 3.93862 3.68083 2.29698 3.90933 3.65121 3.34549 3.53640 2.78190 4.01351 3.80740 4.38165 3.82614 3.70616 3.47562 3.63274 3.21927 3.94331 0.86001 174 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 172 1.85969 2.56450 3.44862 3.01017 3.84711 3.11234 3.99834 3.15494 2.96519 2.92330 3.79991 2.28384 3.74834 3.28866 3.29391 2.50352 2.71298 2.80498 5.25196 4.01719 175 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 173 2.46742 4.57133 2.81237 2.51860 4.24358 3.13891 3.80885 3.69866 2.66695 3.30807 4.13078 2.25473 2.47762 2.99423 3.09168 1.98985 2.82949 3.26616 5.51257 4.18725 176 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 174 3.23159 4.67380 4.29836 3.93863 3.16204 4.06818 4.57307 2.36993 3.70571 0.79597 3.16400 4.20752 4.49194 4.05780 3.87063 3.64710 3.52279 2.42486 5.06585 3.80480 177 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 175 2.66457 0.81261 4.19938 3.95453 3.93036 3.27314 4.58669 3.08554 3.78184 2.99796 4.12149 3.92342 3.98545 4.12517 3.89418 2.93635 3.13704 2.82554 5.33213 4.21755 178 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 176 2.80272 5.08739 1.38126 2.24265 4.61231 2.08986 3.83472 4.12980 2.85187 3.69283 4.55444 2.79421 3.81578 3.02365 3.39629 2.76974 3.13990 3.69396 5.80794 4.41368 179 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 177 2.73057 4.84451 2.89868 2.55926 4.36136 2.25939 3.73630 3.78407 1.49944 3.35392 4.20943 3.02486 3.86066 2.90611 2.65865 2.76834 3.02089 3.41404 5.48234 4.21691 180 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 178 2.44974 4.29490 3.48883 3.24414 4.02927 3.13189 4.25622 3.16468 3.18845 3.02576 4.07205 3.44254 3.84104 3.57991 3.44379 2.65178 1.06189 2.85239 5.46111 4.24594 181 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01982 3.93086 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,746 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I_18\n-LENG 241\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 16\n-EFFN 6.621094\n-CKSUM 4192095553\n-GA 129 129;\n-STATS LOCAL MSV -10.4599 0.70327\n-STATS LOCAL VITERBI -11.3903 0.70327\n-STATS LOCAL FORWARD -4.9777 0.70327\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64621 4.60445 3.14578 2.54655 3.24650 2.81896 4.01313 2.81182 2.55627 2.48076 3.82341 3.26475 3.13008 3.32655 2.88884 2.61023 2.84342 2.50055 4.63403 3.19823\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10770 5.59178 2.31897 0.61958 0.77255 0.00000 *\n- 1 3.92014 5.25096 5.81328 5.24179 4.00597 5.16011 5.58068 2.96948 5.06347 2.02516 0.64260 5.33045 5.44249 5.15384 5.10166 4.51464 2.43621 2.37226 5.92553 4.83317 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00615 5.49023 6.21257 0.61958 0.77255 0.88593 0.53159\n- 2 3.15048 5.23935 3.61942 1.68245 4.45422 4.00545 4.21493 1.94482 1.83738 2.69382 4.31963 2.76929 4.39360 3.39065 3.47738 3.21850 3.38137 2.48911 5.76711 4.45774 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00615 5.49023 6.21257 0.61958 0.77255 0.53550 0.88038\n- 3 2.50071 3.01316 4.82383 4.22949 3.74672 1.87415 4.64778 2.50722 4.08420 2.84080 2.87629 4.37414 4.70192 4.27868 2.65070 2.83357 2.49466 2.04552 5.26297 2.74009 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00582 5.54480 6.26714 0.61958 0.77255 0.69593 0.69037\n- 4 3.24350 4.63411 5.09865 4.49220 3.71566 4.40229 4.73168 2.50368 4.30065 0.92942 3.73550 4.52935 2.72546 4.45141 4.34733 2.61603 3.47616 2.30190 5.25421 2.74343 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00582 5.54480 6.26714 0.61958 0.77255 0.69593 0.69037\n- 5 2.40765 4.81360 4.28959 3.71398 3.93636 2.67149 4.50163 2.58625 2.19002 2.04344 3.92301 4.05656 4.60705 3.91605 2.48276 3.49368 3.43511 1.53905 5.41088 4.19709 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00582 5.54480 6.26714 0.61958 0.77255 0.69593 0.69037\n- 6 2.11471 4.83518 2.70848 4.69234 2.29764 4.67973 5.05105 1.95590 4.53902 2.96704 3.97244 4.78188 5.03170 4.71805 4.62972 3.99843 3.70476 1.00925 5.59321 4.40358 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00582 5.54480 6.26714 0.61958 0.77255 0.69593 0.69037\n- 7 3.16597 5.49176 1.84093 2.00236 2.12650 3.96436 4.16123 4.20753 1.93181 2.79779 4.55153 3.46501 4.35874'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41762 6.13997 0.61958 0.77255 1.08158 0.41409\n- 234 1.73329 5.65753 2.52693 2.93737 5.12824 1.33078 4.27820 4.61155 2.25763 4.11047 4.86926 3.47501 4.40592 3.39523 3.56744 2.26180 3.51510 4.15863 6.25578 4.84915 275 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22846 5.41762 1.61044 0.61958 0.77255 1.08158 0.41409\n- 235 3.08591 5.15208 2.44917 2.24996 1.63906 2.06733 4.14533 3.74662 3.02982 2.34501 4.24072 3.44252 4.30407 3.34267 3.48449 3.15284 3.32404 3.46177 5.66689 4.34384 276 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00825 5.19741 5.91976 0.61958 0.77255 0.59918 0.79687\n- 236 3.20365 5.73385 2.49273 1.10019 5.07445 3.90227 2.59467 4.56666 2.31321 4.03615 4.78086 3.36461 2.97572 2.48227 3.40503 3.15356 3.44030 4.12310 6.16282 4.73884 277 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41762 6.13997 0.61958 0.77255 1.08158 0.41409\n- 237 2.52532 5.54244 2.46728 1.60952 4.85784 3.86938 4.07136 4.32513 2.82534 3.83532 4.59250 2.57292 2.96927 3.17937 3.31538 3.07392 3.33227 2.36259 5.99297 2.33194 278 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41762 6.13997 0.61958 0.77255 1.08158 0.41409\n- 238 3.89416 5.18392 5.95078 5.50654 4.65275 2.07267 6.13028 1.43133 5.42097 3.22636 4.44122 5.56225 5.66298 5.66696 5.55602 4.70996 4.18736 0.71337 6.58385 5.35696 279 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41762 6.13997 0.61958 0.77255 1.08158 0.41409\n- 239 2.46593 4.63330 4.76237 4.18245 3.76369 4.28607 2.99552 1.63136 4.04506 2.83727 3.77170 4.33772 4.67369 4.25252 4.19195 1.91722 3.41989 1.39973 5.28693 4.09820 280 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41762 6.13997 0.61958 0.77255 1.08158 0.41409\n- 240 3.13144 4.72251 2.94753 3.68669 2.62263 1.78074 4.44178 3.19382 3.61627 2.12011 3.83380 4.01362 4.54434 3.88465 3.89954 3.43336 1.66967 2.98655 2.99552 4.07892 281 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06749 5.41762 2.79981 0.61958 0.77255 1.08158 0.41409\n- 241 2.54071 4.51053 4.87540 4.27304 1.65641 4.25059 4.56779 2.94720 4.09776 2.16987 2.59804 4.34668 4.61608 4.26414 2.69079 2.49560 3.33627 2.75967 3.06513 2.49195 282 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00474 5.35487 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,599 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-A_12\n-LENG 192\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:07 2020\n-NSEQ 12\n-EFFN 3.284180\n-CKSUM 2723965176\n-GA 50.5 44.0;\n-STATS LOCAL MSV -10.6621 0.70586\n-STATS LOCAL VITERBI -10.7472 0.70586\n-STATS LOCAL FORWARD -4.9822 0.70586\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50754 4.48070 3.18764 2.58583 3.37540 2.81362 3.96748 2.84341 2.55750 2.48981 3.84250 3.24205 3.33551 3.20599 2.90243 2.52835 2.82304 2.48774 4.47884 3.39171\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.00000 *\n- 1 2.90593 4.50600 2.65154 3.43735 2.80892 3.94111 4.21562 1.65303 2.35598 2.30924 2.77116 3.77482 4.31555 3.64013 3.65782 3.20342 2.66149 2.75436 5.10518 3.89267 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 2 3.06430 4.52563 4.49726 3.92923 2.16298 1.92626 4.27161 2.98342 3.80664 2.70374 2.62481 2.85085 4.50855 4.00591 3.97563 3.43458 3.29543 2.79252 2.67482 2.12408 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 3 2.91390 4.39491 4.35465 2.74645 3.49958 4.01471 4.31702 2.34034 3.65310 1.94638 3.50841 3.98684 4.38402 3.87781 3.84114 2.17750 3.14618 1.59801 5.01002 2.79120 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 4 2.38195 4.69762 3.99252 3.41907 3.85038 4.01792 4.28973 2.97441 1.57266 1.75060 3.79069 3.79629 4.40186 3.62578 3.54967 3.28915 3.26515 1.87838 5.33569 4.11510 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 5 3.85470 5.03872 5.96663 5.49254 4.22318 5.48866 6.18040 1.59303 5.43443 1.68582 3.94948 5.65256 5.66016 5.61345 5.55826 4.92569 4.10734 0.71877 6.39054 5.23284 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 6 2.24793 4.70317 2.76599 2.54624 2.21924 3.83432 4.07436 3.22409 3.03994 2.92145 3.80124 3.51378 4.21644 2.72821 3.42703 3.06817 3.12271 2.09804 3.49216 3.06065 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 7 2.08504 4.90578 3.42260 2.24526 4.10135 2.53066 3.99094 3.48536 2.39516 2.03639 3.99464 3.35915 4.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 185 2.89831 5.31536 3.16544 2.11755 4.62965 2.11483 3.87164 4.08970 2.61436 2.82571 4.37014 2.54454 4.07386 2.98206 2.27381 2.87820 2.13345 3.69054 5.77025 4.38470 206 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 186 2.97854 5.44235 2.61004 1.83668 4.76147 1.91974 3.93116 4.23360 2.08694 3.73748 4.49920 3.16424 4.11889 3.04342 3.19939 2.94190 3.21567 2.21001 5.89100 4.48443 207 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 187 2.52074 4.85443 2.82090 2.54464 3.08451 2.01108 4.00282 2.68151 2.56572 3.08675 3.94314 3.38518 4.16508 3.21880 3.31213 2.99872 3.11933 2.08071 5.40028 4.11690 208 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 188 2.89891 4.46361 4.09217 2.81537 2.48235 3.95162 4.23321 2.36938 2.90302 2.22568 3.57447 3.82284 4.32521 3.69467 2.80737 3.21990 2.09739 2.38435 5.06491 2.60911 209 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 189 1.94819 4.50422 3.99016 2.76789 3.62441 3.92886 4.20240 2.40017 3.34830 1.77001 3.61334 3.08512 4.30436 3.62301 3.64291 2.53613 3.12955 2.37751 5.10099 3.06208 210 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 190 2.89271 5.18310 3.22183 2.05489 4.45080 2.86289 3.90084 3.88194 2.67714 2.82987 4.24914 3.20721 2.74352 1.86610 3.14872 2.90244 3.12488 2.29085 5.66878 4.31250 211 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 191 1.76166 5.32512 2.32861 2.59658 4.64389 3.66179 3.85275 4.11170 2.59824 3.61901 3.42814 2.25445 4.05552 2.54519 2.53363 2.85463 3.11090 3.70169 5.77360 3.35728 212 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01008 4.99842 5.72077 0.61958 0.77255 0.48576 0.95510\n- 192 2.90719 4.39775 4.31926 2.39649 2.85966 4.00111 4.29892 2.84389 3.61938 2.31731 2.28715 3.96164 4.37075 3.84898 2.58284 3.28398 3.13909 1.73041 3.08388 3.81069 213 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00679 4.99514 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,722 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-A_15\n-LENG 233\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:07 2020\n-NSEQ 8\n-EFFN 1.082031\n-CKSUM 646909915\n-GA 43 43;\n-STATS LOCAL MSV -10.6630 0.70364\n-STATS LOCAL VITERBI -11.5982 0.70364\n-STATS LOCAL FORWARD -5.0951 0.70364\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58270 4.50837 3.01314 2.68761 3.02278 3.07911 3.83280 2.80613 2.59957 2.46308 3.65917 3.01874 3.36322 3.06248 2.88467 2.64242 2.81441 2.67938 4.70519 3.23563\n- 2.68634 4.42241 2.77536 2.73115 3.46370 2.40529 3.72511 3.29327 2.67757 2.69351 4.24512 2.90338 2.73756 3.18162 2.89817 2.37871 2.77488 2.98503 4.58493 3.61519\n- 0.64881 1.42062 1.44490 1.17348 0.37004 0.00000 *\n- 1 2.59438 4.48520 3.24296 2.72287 3.68229 3.45704 3.76415 2.99462 2.59476 2.65376 2.91262 3.16246 3.88729 2.55927 2.95248 2.73898 2.02433 2.76328 5.09408 3.83250 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02833 3.97389 4.69623 0.61958 0.77255 0.35104 1.21724\n- 2 2.66134 4.75256 2.62938 2.28399 3.97297 3.46739 3.72569 3.34823 2.57161 2.99962 2.28006 3.03426 3.88584 2.90741 3.01943 2.72421 2.28948 3.05738 5.29222 3.97840 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 3 3.40697 4.81608 4.51460 4.07293 2.57874 4.23853 3.97298 3.01606 3.73420 1.90268 3.64767 4.14536 4.61385 4.04292 3.86985 3.67625 3.65566 2.99352 1.08921 2.63597 8 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 4 3.58824 4.95203 4.76940 4.42589 3.31640 4.43729 4.97080 2.55370 4.19142 0.53073 3.25261 4.66745 4.81992 4.47050 4.30210 4.07466 3.87104 2.68198 5.31026 4.11206 9 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 5 2.70058 4.38087 3.60598 2.31200 3.54413 3.70708 3.98152 2.28414 2.99438 2.26027 3.47653 3.45285 4.08298 3.30683 3.34438 2.96310 2.52592 1.86979 5.04400 3.80963 10 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 6 2.18838 4.35098 4.55570 4.00183 3.49425 4.20249 4.62117 1.78030 3.89504 1.75261 3.36896 4.22102 4.53705 4.12742 4.08781 3.52924 3.21392 1.41121 5.23700 4.05173 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 7 2.39118 4.80461 3.00880 1.99360 4.05499 3.45143 3.08571 3.45804 2.49092 3.07732 3.90007 3.00319 3.85886 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 226 2.75439 5.02555 2.30484 2.40758 4.37135 3.38704 3.77146 3.80324 2.60949 3.38737 4.21090 2.94206 3.89157 2.47694 3.08271 2.75419 1.56522 3.43946 5.60299 4.23099 245 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 227 2.36498 4.19408 3.83762 2.79921 3.30293 3.69880 3.98371 2.16526 3.17779 1.94564 3.29013 3.57124 4.06960 3.44249 3.44171 2.97006 2.87076 2.15978 4.80965 2.97170 246 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 228 3.50150 4.89300 4.43441 4.05331 2.31647 4.31128 3.75917 3.17705 3.82589 2.06033 3.84915 4.07298 4.66733 4.03969 3.96715 3.69403 3.74193 3.10688 3.99455 0.88947 247 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 229 2.75426 5.03863 3.08778 2.26854 4.35144 3.51909 3.64662 3.76641 2.04229 3.29917 4.10196 3.02051 3.90328 2.42089 2.01085 2.75331 2.97034 2.53621 5.46275 4.14761 248 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 230 2.45259 4.87363 3.29437 2.68901 4.15426 3.58937 3.70831 2.85891 2.02987 3.11609 3.96960 3.15321 3.97140 2.87048 1.63813 2.85067 3.01097 3.21169 5.34535 4.08444 249 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23360 4.95595 0.61958 0.77255 0.48576 0.95510\n- 231 2.33185 2.58925 4.10599 3.52153 3.20528 3.72916 4.04855 2.20506 3.39758 2.07603 3.21163 3.72313 4.10264 3.61941 3.57556 3.02036 2.52853 2.28452 4.72568 2.88917 250 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10990 4.23360 2.41262 0.61958 0.77255 0.48576 0.95510\n- 232 2.69657 5.17253 2.36780 2.28096 4.49415 2.84734 3.63458 3.97168 2.15388 3.46984 4.23642 2.33312 3.81391 2.43183 2.91903 2.36491 2.93747 3.55405 5.62065 4.20690 251 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20932 4.14746 1.75413 0.61958 0.77255 0.58846 0.81009\n- 233 2.55655 4.66338 2.51968 2.45951 3.96540 3.33965 3.67493 2.79498 2.52294 3.00090 3.83932 2.95873 3.04004 2.85305 2.97382 2.16971 2.81996 3.03573 5.27344 3.95276 252 s - - -\n- 2.68589 4.42236 2.77530 2.73113 3.46365 2.40524 3.72505 3.29365 2.67731 2.69325 4.24701 2.90357 2.73730 3.18157 2.89812 2.37883 2.77530 2.98529 4.58488 3.61514\n- 0.36019 1.19581 * 0.89376 0.52613 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,560 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-A_4\n-LENG 179\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 24\n-EFFN 4.110352\n-CKSUM 1333633818\n-GA 47.7 49.8;\n-STATS LOCAL MSV -10.4079 0.70679\n-STATS LOCAL VITERBI -11.0440 0.70679\n-STATS LOCAL FORWARD -4.5828 0.70679\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43831 4.55168 3.22470 2.60217 3.38633 2.81680 3.99917 2.88561 2.57738 2.41606 3.83581 3.27882 3.13440 3.27180 2.91438 2.53020 2.84920 2.55246 4.55345 3.37194\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.00000 *\n- 1 2.99235 4.54499 2.98432 3.63893 3.07974 4.05143 3.20548 1.92083 2.72581 2.18871 1.69594 3.93567 4.42442 3.80976 3.80847 3.32197 2.93341 2.80293 5.14758 3.94309 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 2 2.56200 4.73909 2.57812 3.23868 2.83420 2.58179 4.19328 3.24609 3.19909 2.95284 2.08615 2.57406 4.32755 3.50677 3.56712 3.18727 3.21441 3.01610 3.23083 2.58027 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 3 2.99959 4.44640 4.57922 3.19465 3.54688 2.70229 4.43211 1.79490 3.84813 1.96119 3.56270 4.14708 4.48863 4.04899 3.98975 2.35440 3.23181 1.90780 5.06203 2.64807 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 4 2.72371 4.75314 4.41616 3.83452 3.86153 4.25371 4.54957 2.93381 1.75559 1.22561 3.80401 4.13488 4.62818 3.96808 3.82573 3.54879 3.44100 1.84581 5.41217 4.21759 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 5 3.25883 4.60754 5.21103 4.61176 2.47537 4.47452 4.82517 2.19113 4.41791 1.33069 3.60327 4.62848 4.80994 4.54429 4.44014 2.88942 3.49219 1.31109 5.28473 4.11711 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 6 2.46877 4.92189 3.02870 2.68208 2.03203 3.86909 4.09363 3.48261 2.56123 3.15253 4.01134 3.48241 4.25440 2.91431 2.83314 3.08949 3.20339 1.82449 4.08850 3.45483 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 7 2.39099 2.76106 3.88542 2.12495 3.82527 2.90548 4.22571 2.68465 2.42025 2.07360 3.79439 3.71655 4.34'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 172 2.65275 4.45433 4.53607 3.94554 2.58409 2.66416 4.42032 2.33601 3.81348 2.37346 3.27929 4.12255 4.48045 2.59631 3.96894 2.32516 3.22948 1.63048 5.06825 3.87950 252 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 173 2.95897 5.36479 3.25120 1.65249 3.19125 2.66132 3.94090 3.20767 2.04792 3.65219 4.41657 3.23502 4.14188 3.05245 2.42481 2.43764 3.19006 3.73329 5.82245 3.54476 253 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 174 3.12707 5.52265 3.23823 2.12053 4.89545 3.82816 4.09006 4.35332 2.16047 3.86494 4.64062 3.33825 4.27180 3.20973 3.27466 2.32369 1.10495 3.94540 6.01861 4.63872 254 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 175 2.66925 2.85963 2.68091 3.29407 3.83900 2.49169 4.21594 1.91750 3.24857 2.91361 3.80566 3.69928 4.34118 3.55000 2.95338 2.32237 3.21382 2.45608 5.28446 3.25198 255 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 176 4.18111 5.40648 5.70494 5.33396 1.40908 5.14670 4.43764 3.67819 5.12725 2.42671 4.34217 4.99565 5.43615 5.02914 5.05230 4.50012 4.40026 2.15624 4.57571 0.90628 256 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 177 2.42744 4.78160 4.01159 3.47231 3.11723 4.05103 4.28199 3.30645 2.86110 3.00862 3.91821 3.83740 4.45323 3.70931 3.72579 2.41531 3.33704 3.08317 5.18623 1.02848 257 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 178 1.98388 4.45467 4.65431 4.06017 1.54726 4.15035 4.46670 2.35444 3.91076 2.03151 3.55515 4.19786 4.51654 3.07808 4.03425 3.44707 2.37611 2.68738 5.07079 3.88602 258 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00839 5.18121 5.90355 0.61958 0.77255 0.48576 0.95510\n- 179 3.59598 5.88605 3.76691 2.57070 5.35493 4.20471 4.22214 4.72603 2.11158 4.13363 4.96222 3.68818 0.93362 3.34215 1.85815 3.55574 3.77803 4.35750 6.16918 4.94200 259 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.17847 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,686 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_1\n-LENG 221\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:05 2020\n-NSEQ 38\n-EFFN 1.693115\n-CKSUM 933488942\n-GA 36.3 35.9;\n-STATS LOCAL MSV -10.5956 0.70419\n-STATS LOCAL VITERBI -11.3256 0.70419\n-STATS LOCAL FORWARD -5.1560 0.70419\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61363 4.36001 3.10316 2.69798 3.17858 2.86238 3.70570 2.76118 2.74128 2.39115 3.63389 3.16215 3.15177 3.06501 2.91720 2.68346 2.80668 2.59975 4.72723 3.35301\n- 2.68624 4.42231 2.77526 2.73130 3.46360 2.40519 3.72501 3.29349 2.67747 2.69361 4.24392 2.90353 2.73746 3.18153 2.89807 2.37887 2.77506 2.98525 4.58483 3.61509\n- 0.32405 1.30399 5.23262 0.15151 1.96189 0.00000 *\n- 1 2.71135 4.63110 2.68307 2.76257 3.80124 3.60977 3.84017 2.89747 2.65339 2.59332 1.81320 2.91413 3.99778 2.96090 3.15007 2.84002 2.94312 2.91994 5.18285 3.90924 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01647 4.51027 5.23262 0.61958 0.77255 0.48576 0.95510\n- 2 2.89036 5.32094 3.12404 2.07264 4.70600 3.61113 3.33631 4.14831 1.40192 3.59791 4.36940 2.82458 3.99950 2.54424 2.33054 2.85223 3.10326 3.73705 5.68909 4.35225 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01647 4.51027 5.23262 0.61958 0.77255 0.48576 0.95510\n- 3 2.26200 4.22331 4.38107 3.80137 2.85731 3.44479 4.26914 2.45244 3.66668 1.82346 3.32803 3.96080 4.28947 3.87158 3.81368 3.22015 3.02435 1.43670 4.89328 3.70275 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01647 4.51027 5.23262 0.61958 0.77255 0.48576 0.95510\n- 4 2.83200 4.23146 4.56005 3.96639 2.77444 3.97940 3.83042 2.28162 3.79886 1.22595 3.21920 4.05456 4.32691 3.95365 3.88029 3.28461 3.06220 2.11846 4.75138 2.93877 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01647 4.51027 5.23262 0.61958 0.77255 0.48576 0.95510\n- 5 2.77859 5.20877 3.05774 2.04436 4.55145 3.54297 2.43905 4.00720 1.93103 3.49448 4.25710 3.01993 3.93073 2.71332 2.17901 2.75076 3.00161 3.40174 5.62447 3.76781 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01647 4.51027 5.23262 0.61958 0.77255 0.48576 0.95510\n- 6 2.63789 4.58615 5.23456 4.74175 3.95594 4.74151 5.40055 1.08482 4.65277 2.51584 3.74617 4.89066 5.05481 4.90363 4.82108 4.13738 3.57910 1.09500 5.88205 4.66745 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01647 4.51027 5.23262 0.61958 0.77255 0.48576 0.95510\n- 7 2.70815 5.14289 2.69999 2.31099 4.46030 3.49173 3.67870 3.69827 2.01468 3.29283 4.19167 2.97162 3.884'..b'.68603 4.42218 2.77470 2.73095 3.46370 2.40488 3.72486 3.29385 2.67772 2.69359 4.24721 2.90330 2.73735 3.18167 2.89824 2.37913 2.77544 2.98483 4.58508 3.61519\n- 0.78070 0.62298 5.19040 0.86444 0.54695 0.48416 0.95768\n- 214 3.30596 4.58935 5.23014 4.66836 2.12276 4.64473 5.02239 1.28904 4.52694 1.73062 3.30101 4.77201 4.89080 4.62620 4.57961 3.99714 3.53964 1.61368 5.35858 4.20755 229 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01673 4.49486 5.21721 0.61958 0.77255 0.51184 0.91477\n- 215 4.32526 5.36837 5.31066 5.13869 1.82189 4.94721 3.72271 3.97433 4.93038 2.83640 4.52133 4.54054 5.21371 4.67769 4.79655 4.33006 4.52557 3.89642 2.31217 0.68169 230 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01673 4.49486 5.21721 0.61958 0.77255 0.51184 0.91477\n- 216 3.56056 4.83821 5.41366 4.82023 1.89431 4.84350 5.11703 2.25580 4.66990 0.90861 2.37802 4.96800 4.98627 4.62861 4.65856 4.19420 3.77016 2.44771 5.29197 4.25673 231 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01673 4.49486 5.21721 0.61958 0.77255 0.51184 0.91477\n- 217 3.26525 5.11444 3.65407 3.19499 3.02355 3.97704 1.01361 3.76657 2.82975 3.26098 4.25495 3.56905 4.37896 3.37933 2.85493 3.32037 3.48740 3.53021 4.59252 2.45954 232 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01673 4.49486 5.21721 0.61958 0.77255 0.51184 0.91477\n- 218 2.49826 5.19445 2.76706 2.18092 4.53302 3.16750 3.51210 4.01424 2.03427 3.49666 4.23715 2.80325 3.63464 2.60580 2.50385 2.45521 2.45753 3.58166 5.63063 4.22380 233 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05038 4.49486 3.27111 0.61958 0.77255 0.51184 0.91477\n- 219 2.68256 3.71590 4.30868 3.71439 2.11135 3.80914 4.11656 2.46479 3.56500 1.94691 3.23310 3.59648 3.76402 3.49912 3.69009 3.10465 2.79527 2.36845 2.53060 3.52463 234 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07851 4.46178 2.74935 0.61958 0.77255 0.56438 0.84098\n- 220 2.50996 4.98830 2.89310 2.17063 4.26247 3.09937 3.67096 3.50099 2.29178 2.98331 4.04851 2.78605 3.86578 2.67017 2.91872 2.26192 2.81912 2.76347 5.46595 3.84002 235 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12167 4.40164 2.27984 0.61958 0.77255 0.59130 0.80656\n- 221 2.54850 4.76935 2.85943 2.53505 3.17289 2.56665 3.48370 3.25774 2.47015 3.01854 3.84631 2.72854 3.88179 2.71137 2.97932 2.70082 2.64663 2.89562 5.28665 3.42517 236 k - - -\n- 2.68597 4.42206 2.77486 2.73074 3.46347 2.40503 3.72498 3.29350 2.67752 2.69379 4.24714 2.90348 2.73764 3.18160 2.89817 2.37897 2.77544 2.98534 4.58501 3.61451\n- 0.64352 0.74536 * 0.89327 0.52647 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,683 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_10\n-LENG 220\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 4\n-EFFN 0.511719\n-CKSUM 2318372196\n-GA 30.7 30.2;\n-STATS LOCAL MSV -10.8235 0.70430\n-STATS LOCAL VITERBI -11.5027 0.70430\n-STATS LOCAL FORWARD -4.8049 0.70430\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73669 4.32909 2.93698 2.67805 3.09948 2.92637 3.72914 2.68694 2.67150 2.32563 3.59364 3.07345 3.37372 3.23158 2.91802 2.73262 2.91148 2.66039 4.37847 3.23879\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.00000 *\n- 1 3.00986 4.37170 4.58629 4.09189 3.45859 4.27640 4.83065 1.32453 3.96769 1.97355 3.28419 4.33440 4.61702 4.24822 4.18292 3.65889 3.28150 1.34297 5.40243 4.19267 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 2 2.65993 4.71271 3.03735 2.60848 4.15540 3.35331 3.69650 3.45691 1.67708 3.11774 4.00431 3.05034 3.84786 2.87194 2.58161 2.72950 2.18664 3.14217 5.35706 4.09224 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 3 3.16418 4.62398 4.20249 3.84224 3.13856 3.99248 4.49544 2.34289 3.60992 0.86532 3.15875 4.11695 4.42636 3.97632 3.78472 3.56409 3.45801 2.38235 5.02091 3.74614 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 4 2.65097 4.68182 2.83051 2.55965 3.86741 2.15553 2.00807 3.62039 2.59670 3.21289 4.09525 3.01951 3.82355 3.01014 2.95787 2.71824 2.97001 3.26873 5.20880 3.81898 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 5 3.03735 4.45368 4.34738 3.96337 3.37948 4.07543 4.68990 1.06797 3.79167 1.96372 3.31344 4.20757 4.50575 4.13905 3.98731 3.57140 3.33632 1.84584 5.27208 4.01116 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 6 2.81297 5.15109 2.44760 1.64068 4.43608 3.29359 3.65533 3.89819 2.40303 3.42513 4.28467 2.79528 3.82337 2.10594 2.80835 2.76563 3.06719 3.54086 5.59024 4.21504 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 7 2.76180 4.51797 3.36981 3.20989 4.20464 3.20501 4.28680 3.75198 3.26785 3.37800 4.42809 3.51585 0.81'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 213 2.31876 4.23934 3.21321 3.02920 4.08423 2.96906 4.13891 3.60786 3.10352 3.32742 4.25273 3.25279 3.70849 3.45217 3.38940 1.07896 2.79946 3.14120 5.45604 4.16776 218 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 214 2.95897 5.07203 2.49061 1.01396 4.41921 3.27908 3.86640 3.87471 2.74792 3.49046 4.46399 2.93710 3.88400 3.08179 3.15771 2.94046 3.26322 3.55766 5.58925 4.31134 219 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 215 2.67466 4.44945 3.35010 3.25045 4.39290 0.71677 4.37037 3.99436 3.43284 3.64751 4.62321 3.51437 3.84085 3.75633 3.66812 2.84678 3.15652 3.52111 5.48605 4.49502 220 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 216 3.34868 4.72056 4.10330 3.81128 2.67411 3.73902 3.90941 3.37249 3.53326 2.76604 4.00593 3.95868 4.25739 3.92045 3.66024 3.55231 3.64945 3.26304 0.86918 2.67576 221 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 217 2.81440 4.35463 4.13658 3.79983 3.55583 3.73235 4.60011 2.04946 3.66774 2.24136 3.51961 3.98840 4.29231 4.02690 3.87949 3.23628 3.17569 1.01478 5.34167 4.07385 222 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 218 2.44682 4.45953 2.89965 2.62903 4.09619 3.12279 3.85793 3.46649 2.70809 3.18079 4.05548 2.13982 3.74739 3.07817 3.07781 2.55904 1.83935 3.08540 5.42213 4.11459 223 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 219 3.14395 4.51037 4.58338 4.06353 3.15384 4.35985 4.71034 1.57636 3.88621 1.21401 3.00334 4.34167 4.62269 4.13188 4.07001 3.72705 3.38774 1.95221 5.16429 3.98220 224 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88054 4.60289 0.61958 0.77255 0.48576 0.95510\n- 220 2.63167 4.38302 3.40933 2.97910 3.08246 3.47069 3.77851 2.88729 2.87668 2.58484 3.58812 3.32335 3.95549 3.24475 3.18123 2.82533 2.17112 2.67248 4.63803 2.04828 225 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 3.87047 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,839 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_14\n-LENG 272\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:07 2020\n-NSEQ 8\n-EFFN 0.597656\n-CKSUM 3667241879\n-GA 136 112;\n-STATS LOCAL MSV -10.9637 0.70214\n-STATS LOCAL VITERBI -11.7446 0.70214\n-STATS LOCAL FORWARD -5.3894 0.70214\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54548 4.42883 3.05109 2.70817 3.11442 2.82615 3.72557 2.80934 2.80774 2.36502 3.69006 3.15700 3.11788 3.19306 2.89769 2.71920 2.84045 2.65795 4.50253 3.22083\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.00000 *\n- 1 3.02482 4.56274 4.12468 3.72363 3.23929 3.88632 4.44261 2.42191 3.48781 1.82368 1.25014 3.99243 4.34752 3.86522 3.68488 3.38112 3.33160 2.43608 5.08930 3.85710 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 2 3.21946 4.80363 3.72436 3.35555 2.19459 3.92859 2.61065 3.41497 3.18520 2.85097 3.96496 3.57177 4.32069 3.51609 3.42564 3.29659 3.45436 3.23807 3.83780 1.19007 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 3 1.62739 1.77173 3.98606 3.61902 3.87055 3.03368 4.36236 2.90997 3.49054 2.87707 3.84800 3.56242 3.76906 3.77082 3.68611 2.49232 2.71451 2.58508 5.36653 4.18256 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 4 3.12140 4.44901 4.72602 4.18804 3.30549 4.43224 4.84600 1.43111 4.06437 1.44007 3.11171 4.44325 4.68550 4.27442 4.24574 3.78745 3.36451 1.61457 5.30294 4.15539 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 5 2.02899 4.75883 2.84563 2.21488 4.08805 3.34501 3.65986 3.46426 2.20132 3.09500 3.93151 2.93762 3.80648 2.82659 2.83895 2.65550 2.53877 3.13955 5.34271 4.02569 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 6 3.20136 4.54863 4.70632 4.15445 2.47638 4.41699 4.61200 1.89110 4.03056 1.07029 2.89507 4.39341 4.63123 4.15149 4.16861 3.75419 3.42520 2.20518 4.94675 3.71150 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 7 2.82970 4.99142 3.19025 2.61527 4.39469 3.51591 3.59650 3.77551 1.68658 3.28363 4.12537 3.06494 3.9160'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 265 1.72565 4.25824 3.33860 2.93466 3.85994 2.24135 3.97578 3.12016 2.91460 2.43469 3.80920 3.24011 3.77775 3.25044 3.25497 2.55135 2.75792 2.79599 5.27236 4.02379 273 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 266 2.84206 5.10426 2.98664 2.01449 4.47793 3.48830 3.58483 3.87018 1.86896 3.35598 4.18535 2.98552 3.89629 2.71600 1.80840 2.82191 3.04463 3.52083 5.46228 4.19395 274 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 267 1.33413 4.12987 3.36143 3.08054 4.24998 2.33145 4.16858 3.64733 3.16035 3.34827 4.17511 3.24893 3.65309 3.44004 3.47957 1.99193 2.67012 3.11155 5.59595 4.38247 275 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 268 2.57213 4.48798 3.12643 2.38683 3.63120 3.44456 3.69581 2.70077 2.58871 2.71925 3.59740 3.08390 3.85099 2.93847 2.98767 2.15318 2.81108 2.77394 5.02419 3.16695 276 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94239 4.66474 0.61958 0.77255 0.48576 0.95510\n- 269 2.49573 4.36508 3.24888 2.76076 3.67966 2.35038 3.80875 2.58238 2.73176 2.73077 3.62436 2.73057 3.83954 3.07080 3.10818 2.66233 2.78919 2.40203 5.09041 3.82503 277 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10643 3.94239 2.50644 0.61958 0.77255 0.48576 0.95510\n- 270 2.27187 4.16243 3.38484 3.00306 3.92055 1.93887 4.02903 3.11538 2.98317 2.95295 3.85648 3.24617 3.71398 3.30933 3.30696 2.46243 2.25637 2.30120 5.33195 4.09951 278 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11844 3.86752 2.39926 0.61958 0.77255 0.55402 0.85481\n- 271 2.36647 4.39054 2.78111 2.57794 4.10338 3.00509 3.85072 3.62316 2.74027 3.27903 4.13566 2.38128 3.67330 3.08379 3.11109 1.65802 2.77809 3.17502 5.43046 4.09459 279 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03437 3.78345 4.50580 0.61958 0.77255 0.62021 0.77182\n- 272 2.27193 4.14578 3.36881 3.02033 3.79367 3.03740 4.02100 2.99024 2.97390 2.85525 3.81974 3.24995 3.71113 3.32537 3.27578 1.65899 2.70062 2.20616 5.25650 3.97522 280 s - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18148 2.89803 2.37865 2.77522 2.98520 4.58479 3.61505\n- 0.23131 1.57742 * 0.30241 1.34336 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_17.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_17.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,749 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_17\n-LENG 242\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:07 2020\n-NSEQ 5\n-EFFN 1.215820\n-CKSUM 829619690\n-GA 33.5 33.2;\n-STATS LOCAL MSV -10.9690 0.70325\n-STATS LOCAL VITERBI -11.4254 0.70325\n-STATS LOCAL FORWARD -4.9829 0.70325\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60562 4.44085 2.88677 2.63213 3.18654 3.00934 3.78141 2.79958 2.61789 2.43264 3.68702 3.00148 3.34886 3.16027 2.93969 2.72085 2.81961 2.59798 4.80431 3.25961\n- 2.68683 4.42290 2.77429 2.73039 3.46419 2.40578 3.72559 3.29419 2.67806 2.69372 4.24370 2.90412 2.73754 3.18133 2.89825 2.37777 2.77533 2.98538 4.57908 3.61568\n- 0.34061 1.26556 5.02340 2.26585 0.10953 0.00000 *\n- 1 2.87666 4.73878 3.23943 2.05130 3.80202 3.65881 3.98990 3.06065 2.83644 2.65891 1.50608 3.33369 4.10999 3.23895 3.18544 3.02015 3.13025 2.89364 5.29694 4.03002 19 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 2 2.84085 5.28005 1.67584 2.40616 4.62482 3.47231 3.70964 4.08591 2.00946 3.56778 4.35332 2.94755 3.92329 2.83048 2.10926 2.79425 3.07375 3.67959 5.69188 4.31544 20 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 3 1.83695 1.60102 4.36215 3.90953 3.78724 3.44799 4.53376 2.62151 3.78356 2.73550 3.73670 3.88728 4.10000 4.01739 3.95739 2.86869 2.95625 1.87317 5.34946 4.16624 21 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 4 3.67659 5.02361 4.87862 4.54109 3.36095 4.52312 5.06652 2.60625 4.30718 0.48339 3.28567 4.77725 4.89770 4.56831 4.40440 4.17842 3.95805 2.75092 5.37255 4.18818 22 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 5 2.67386 4.58893 3.33284 2.82549 3.90102 3.51336 3.87864 3.17070 2.08460 2.92833 3.81243 3.25583 3.97371 3.10793 3.04039 2.11173 2.94823 1.79298 5.26356 4.00042 23 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 6 3.60336 4.89309 5.02641 4.58486 1.09338 4.66093 4.34183 2.62869 4.41992 1.34709 3.24230 4.59551 4.89845 4.44385 4.46537 4.04901 3.83170 2.75495 4.50475 2.93581 24 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 7 2.67033 5.00309 2.40177 2.42506 4.36300 3.41719 3.69246 3.81101 2.46299 3.35775 4.14031 2.95448 3.854'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 235 3.06317 5.36961 1.32608 2.45175 4.97076 1.35813 4.09664 4.52231 3.15785 4.05500 4.92080 3.00780 4.04846 3.28914 3.72892 3.01875 3.41682 4.04734 6.14025 4.73604 280 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 236 3.05870 5.66303 1.54178 1.50169 4.97151 2.13331 3.89125 4.49999 2.88967 3.97486 4.80322 2.82856 3.97865 3.04715 3.48986 2.94341 3.34269 4.05182 6.12528 4.61253 281 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 237 2.96939 5.29564 3.26094 2.65510 4.71983 3.65294 3.68028 4.11482 1.70208 3.54746 4.35438 2.42857 4.02598 2.23866 1.68078 2.93725 3.16000 3.73779 5.60943 4.34789 282 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 238 2.66088 4.58926 3.26989 2.80273 3.90290 3.49263 3.90938 2.44585 2.78385 2.92482 3.82608 1.79157 3.97005 3.13926 3.17570 2.79914 2.16836 2.85184 5.29566 4.01247 283 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 239 3.30845 4.55847 5.21931 4.74201 3.81485 4.78617 5.45114 1.07270 4.64969 2.27477 3.58445 4.92133 5.05858 4.90231 4.82369 4.20104 3.57357 1.08663 5.85796 4.64968 284 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 240 3.18256 4.55502 4.77971 4.29459 1.50790 4.31589 4.48651 2.29406 4.16118 2.06125 3.35605 4.38477 4.66656 4.30840 4.27592 3.68728 3.44488 1.37592 4.82381 3.36541 285 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 241 3.96161 5.11273 5.04633 4.79123 0.74556 4.67290 3.67943 3.54726 4.58265 2.79790 4.10868 4.37969 4.96961 4.46170 4.52419 4.07885 4.18062 3.51281 2.26910 2.05988 286 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 242 3.11726 4.47931 4.78737 4.22054 1.61520 4.31037 4.56329 2.31867 4.07699 1.80332 2.32873 4.36493 4.59594 4.20060 4.17395 3.63859 3.34888 1.74202 4.95826 3.71618 287 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.29445 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_19.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_19.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,653 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_19\n-LENG 210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 5\n-EFFN 0.717773\n-CKSUM 4279322870\n-GA 156 154;\n-STATS LOCAL MSV -10.2930 0.70482\n-STATS LOCAL VITERBI -11.5012 0.70482\n-STATS LOCAL FORWARD -4.7669 0.70482\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76281 4.67406 2.78227 2.50936 3.22696 3.20374 3.75710 2.72207 2.45368 2.45429 3.77493 2.90624 3.71189 3.11194 2.96690 2.69346 2.97992 2.61395 5.03003 3.06186\n- 2.68654 4.42074 2.77555 2.72986 3.46390 2.40549 3.72530 3.29329 2.67678 2.69357 4.24568 2.90383 2.73775 3.18128 2.89837 2.37874 2.77555 2.98554 4.58513 3.61455\n- 0.28956 1.81564 2.42278 2.32515 0.10288 0.00000 *\n- 1 3.16052 4.58225 4.48175 3.94240 3.06364 4.28913 4.58586 2.20345 3.73920 1.22578 1.78446 4.23970 4.55357 3.98873 3.92393 3.63948 3.39656 2.29066 5.06574 3.91607 17 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02933 3.93953 4.66187 0.61958 0.77255 0.56724 0.83722\n- 2 2.80076 4.97100 3.15199 2.58970 4.36705 3.49536 3.59754 3.75366 1.69516 3.26984 4.10772 3.04678 3.90023 2.73748 1.86953 2.36812 3.01428 3.41624 5.39453 4.14653 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02933 3.93953 4.66187 0.61958 0.77255 0.56724 0.83722\n- 3 2.79578 5.26056 1.98728 2.15320 4.55257 3.24403 3.67769 4.05725 2.57266 3.57199 4.39264 1.87484 3.80007 2.35115 3.09345 2.72416 3.06426 3.65189 5.72976 4.28278 19 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02933 3.93953 4.66187 0.61958 0.77255 0.56724 0.83722\n- 4 2.67883 4.79951 2.94037 2.55611 4.28300 3.33337 3.70084 3.69878 1.59210 3.28149 4.13303 3.01355 3.84538 2.86711 2.61039 2.05117 2.96623 3.33568 5.43969 4.15033 20 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13427 3.93953 2.24255 0.61958 0.77255 0.56724 0.83722\n- 5 2.79649 5.10845 2.46002 1.75876 4.39029 3.28683 3.63990 3.84738 2.37219 3.38027 4.24516 2.79493 3.81262 2.04229 2.76527 2.75578 3.04954 3.49796 5.54935 4.18372 21 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03253 3.83779 4.56013 0.61958 0.77255 0.65073 0.73744\n- 6 3.32195 4.68347 4.25401 3.87413 1.62319 4.12436 3.43644 3.07504 3.74465 2.46737 3.70182 3.83952 4.46169 3.84198 3.87752 3.47964 3.55411 2.98713 3.63762 1.26096 22 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03253 3.83779 4.56013 0.61958 0.77255 0.65073 0.73744\n- 7 2.76672 5.13239 1.81323 2.19581 4.44437 3.24059 3.65196 3.90854 1.87853 3.45867 4.30069 2.75028 3.7845'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 203 2.73304 5.08869 2.72066 2.34516 4.42902 2.77789 3.62840 3.87272 1.92297 3.38857 4.19025 2.24491 3.83326 2.41391 2.71955 2.70599 2.97060 3.49170 5.54094 4.18460 252 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 204 2.85953 4.90890 3.19551 2.68719 3.82016 3.56359 3.65973 3.55459 1.35862 3.11612 4.02286 3.13691 3.97376 2.87494 2.51388 2.90065 3.07668 3.27653 5.12547 2.84605 253 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11913 4.02289 2.36011 0.61958 0.77255 0.48576 0.95510\n- 205 2.79451 5.27621 1.80824 2.14454 4.56775 3.24173 3.67113 4.07300 2.56499 3.58179 4.39916 2.30438 3.79598 2.11598 3.08906 2.71940 3.06139 3.66353 5.73728 4.28663 254 d - - -\n- 2.68622 4.42229 2.77524 2.73093 3.46358 2.40517 3.72499 3.29298 2.67745 2.69359 4.24694 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.20764 1.72603 4.65562 0.66377 0.72341 0.43493 1.04217\n- 206 3.22147 4.54136 4.80644 4.29110 3.28084 4.51196 4.90804 1.22773 4.12303 1.40103 3.11189 4.53845 4.75993 4.34776 4.28530 3.89131 3.46665 1.87674 5.30993 4.13690 257 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 207 2.92807 4.43163 4.33153 4.00156 3.66401 3.87718 4.77856 2.05431 3.87164 2.32636 3.60848 4.16661 4.43095 4.22163 4.06932 3.39195 3.28699 0.85450 5.47312 4.21310 258 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 208 2.53670 4.63464 2.75640 2.55793 4.33065 3.14534 3.90322 3.85745 2.78599 3.47208 4.31101 1.64496 3.79137 3.10666 3.19828 1.82966 2.92559 3.39660 5.61582 4.25916 259 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 209 3.33674 4.69192 4.60368 4.16816 1.25106 4.33304 4.06200 2.52500 4.01333 1.56454 3.20819 4.23744 4.63234 4.12782 4.12614 3.71605 3.57862 2.58527 4.28754 2.69273 260 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 210 3.16575 4.57274 4.59461 4.09722 3.20290 4.31006 4.74292 2.10106 3.91392 0.99209 3.05607 4.35269 4.62668 4.16240 4.09156 3.69570 3.42937 1.81744 5.20919 4.03290 261 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01822 4.01416 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,779 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_2\n-LENG 252\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 3\n-EFFN 0.530273\n-CKSUM 3580300006\n-GA 300 300;\n-STATS LOCAL MSV -10.7864 0.70284\n-STATS LOCAL VITERBI -11.6949 0.70284\n-STATS LOCAL FORWARD -5.0663 0.70284\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54539 4.30190 3.05289 2.70707 3.37498 2.70653 3.69542 2.85960 2.78324 2.38287 3.72008 3.08686 3.15349 3.25765 2.96039 2.61048 2.88111 2.57902 4.14462 3.42053\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40517 3.72498 3.29358 2.67716 2.69359 4.24555 2.90350 2.73743 3.18150 2.89804 2.37891 2.77523 2.98522 4.58481 3.61507\n- 0.19225 1.80171 4.61657 0.66146 0.72588 0.00000 *\n- 1 3.06314 4.48711 4.38378 3.86733 1.76906 4.13777 4.20992 2.33460 3.73224 1.63206 2.20677 4.07637 4.43969 3.90863 3.90149 3.47730 3.30171 2.38759 4.59063 3.16560 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 2 2.81345 5.16428 2.31659 1.76107 4.48377 3.22895 3.70704 3.97315 2.57621 3.53102 4.38865 1.75824 3.81061 2.87890 3.04197 2.76053 3.09789 3.59203 5.68184 4.26616 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 3 2.90338 5.43320 1.44321 1.63470 4.71882 3.18024 3.72898 4.22466 2.74569 3.74723 4.61012 2.65266 3.80280 2.89983 3.33196 2.79303 3.19364 3.81208 5.90355 4.41388 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 4 2.73324 4.80346 1.78432 2.44793 3.87514 3.35778 3.77447 3.21316 2.69468 2.17168 3.91811 2.96667 3.87414 2.99191 3.14406 2.78472 3.00871 2.97997 5.30343 3.92115 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 5 2.66446 4.45618 3.31834 2.94043 2.91279 3.44684 3.70210 3.12692 2.89104 2.76467 3.73934 3.28306 3.95500 3.24129 3.20542 2.13457 2.96970 2.87829 4.48166 1.83738 7 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 6 3.17947 4.63518 4.22446 3.86422 3.14369 4.00988 4.51312 2.34871 3.63176 0.84888 3.15950 4.13760 4.44137 3.99489 3.80435 3.58299 3.47266 2.39173 5.03107 3.75948 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 7 3.17947 4.63518 4.22446 3.86422 3.14369 4.00988 4.51312 2.34871 3.63176 0.84888 3.15950 4.13760 4.44137'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 245 3.17947 4.63518 4.22446 3.86422 3.14369 4.00988 4.51312 2.34871 3.63176 0.84888 3.15950 4.13760 4.44137 3.99489 3.80435 3.58299 3.47266 2.39173 5.03107 3.75948 268 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 246 2.67132 4.83682 2.59975 1.65087 4.23725 3.26055 3.72992 3.54888 2.55070 3.23076 4.11389 2.88286 3.80805 2.90772 2.97318 2.69757 2.24122 3.22029 5.50135 4.15804 269 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 247 1.66247 4.12733 3.32501 3.05758 4.18480 2.90724 4.14208 3.52830 3.11141 3.28163 4.14206 3.23418 3.64960 3.41858 3.41901 1.45723 2.67196 3.03561 5.55060 4.31889 270 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 248 3.00460 4.36871 4.58289 4.08881 3.48284 4.27006 4.83255 1.45242 3.96682 2.00883 3.31010 4.33010 4.61633 4.25090 4.18515 3.65239 3.27768 1.20749 5.41664 4.20205 271 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 249 2.52443 2.00973 3.61369 3.08825 3.69785 3.32188 3.92067 3.01892 2.69362 2.76056 3.70826 3.36815 3.87288 3.22673 2.11898 2.72899 2.86250 2.75242 5.09114 3.86539 272 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 250 2.61084 4.72431 2.78541 2.48669 4.15751 3.24745 3.72534 3.64878 2.45632 3.23765 4.10317 2.95640 3.79905 1.88462 2.81453 2.05847 2.92412 3.28242 5.41093 4.07426 273 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 251 2.90338 5.43320 1.44321 1.63470 4.71882 3.18024 3.72898 4.22466 2.74569 3.74723 4.61012 2.65266 3.80280 2.89983 3.33196 2.79303 3.19364 3.81208 5.90355 4.41388 274 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 252 2.69487 4.68785 1.90143 2.52679 3.84876 3.40251 3.81110 2.23743 2.72795 2.80884 3.81553 3.03218 3.89824 3.02808 3.17074 2.78949 2.96786 2.70466 5.29964 3.95052 275 d - - -\n- 2.68592 4.42227 2.77521 2.73125 3.46356 2.40514 3.72496 3.29356 2.67742 2.69357 4.24691 2.90348 2.73741 3.18148 2.89802 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.17560 1.82605 * 0.32625 1.27879 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_20.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_20.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,593 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_20\n-LENG 190\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 29\n-EFFN 0.732788\n-CKSUM 305924400\n-GA 173 173;\n-STATS LOCAL MSV -10.2360 0.70602\n-STATS LOCAL VITERBI -11.3049 0.70602\n-STATS LOCAL FORWARD -4.9222 0.70602\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63383 4.29862 3.04008 2.63431 3.09084 2.92002 3.74707 2.77089 2.64148 2.41790 3.59711 3.13306 3.35543 2.97809 2.87360 2.71004 2.90182 2.66229 4.56954 3.37604\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17841 4.03251 1.92638 0.61958 0.77255 0.00000 *\n- 1 2.64047 4.53747 3.19498 2.46843 3.71794 3.48445 3.68061 3.06314 2.35231 2.72174 2.32273 3.11585 3.88194 2.90741 2.53431 2.76714 2.86730 2.82130 5.06623 3.81418 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03100 3.88510 4.60744 0.61958 0.77255 0.57204 0.83097\n- 2 2.55419 4.47747 3.16563 2.55132 3.65873 3.32393 3.67336 2.82262 2.32801 2.63493 3.02164 2.89395 3.83709 2.90237 2.93866 2.68110 2.52342 2.76612 5.03012 3.75911 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02994 3.91916 4.64151 0.61958 0.77255 0.42333 1.06381\n- 3 2.88571 4.35221 4.17126 3.61774 2.68925 3.95086 3.98968 2.52339 3.49347 1.73210 2.41452 3.83629 4.27873 3.70175 3.69187 3.24569 3.11316 2.46385 4.47130 1.95567 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 4 3.61749 4.89145 4.53572 4.21279 1.66220 4.35540 3.48951 3.33715 4.06639 2.67972 3.94503 4.03847 4.67821 4.08322 4.13689 3.72826 3.84518 3.25735 3.64378 0.92477 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 5 3.06844 4.39540 4.73760 4.20791 3.06631 4.38630 4.82467 1.55607 4.10772 1.98856 3.27848 4.42510 4.67778 4.32310 4.29013 3.74146 3.31886 1.14295 5.31721 4.10139 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 6 3.09443 4.43289 4.71372 4.20144 3.51804 4.40486 4.91677 1.68005 4.07217 1.91624 3.34412 4.44391 4.71634 4.34718 4.28221 3.77750 3.35656 1.02125 5.46341 4.25109 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 7 2.81501 5.06622 3.12899 2.54949 4.42767 3.52613 3.28873 3.82620 1.51641 3.32287 4.14197 2.82789 3.9092'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 183 2.52002 4.55636 2.94055 2.56586 3.75955 3.15439 3.68223 2.83747 2.39265 2.80656 3.65972 2.91542 3.83767 2.89062 2.98091 2.51804 2.66209 2.38745 5.11347 3.82575 189 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 184 2.73869 4.86074 2.62452 2.30206 4.39982 1.38325 3.85661 3.82552 2.52615 3.43930 4.30565 2.96317 3.86874 3.05307 3.07681 2.77461 3.07101 3.44457 5.62919 4.31076 190 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 185 2.60591 4.94679 2.87699 2.24552 4.23636 3.38409 3.58161 3.48344 2.21199 3.22428 4.00878 2.45227 3.51471 2.47297 2.70980 2.51359 2.57229 3.30849 5.41209 4.04859 191 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 186 2.11117 4.45773 2.86779 2.68447 4.19655 3.13983 3.91509 3.59532 2.81595 3.25237 4.08399 3.08327 1.80067 3.12129 3.22943 2.31250 2.70640 3.17273 5.50640 4.21879 192 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03251 4.75486 0.61958 0.77255 0.48576 0.95510\n- 187 2.81763 4.26187 4.26302 3.71758 3.46556 3.98788 4.42048 1.76455 3.60495 2.10497 3.36426 3.97360 4.36001 3.88254 3.83836 3.04707 2.95973 1.29927 5.14749 3.93810 193 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07339 4.03251 2.93691 0.61958 0.77255 0.48576 0.95510\n- 188 2.57235 4.47991 3.20935 2.64075 3.39566 3.32882 3.68859 2.94701 2.14462 2.35694 3.57147 3.10448 3.85799 2.79332 2.82863 2.65574 2.80156 2.77497 4.53322 3.75093 194 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06099 3.98708 3.20363 0.61958 0.77255 0.53227 0.88497\n- 189 2.40027 4.66380 2.98552 2.47219 3.91565 3.17777 3.35709 3.32135 2.40252 2.94952 3.78403 2.89277 3.80093 2.81533 2.80859 2.06930 2.80910 2.93781 5.21429 3.73260 195 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07770 3.95496 2.88959 0.61958 0.77255 0.56269 0.84321\n- 190 2.53621 4.41742 3.08330 2.53660 3.29451 3.33068 3.54720 2.75464 2.60667 2.54382 3.51166 3.01487 3.67265 2.93458 2.93141 2.68167 2.67037 2.70717 4.97349 3.12162 196 a - - -\n- 2.68621 4.42186 2.77522 2.73126 3.46357 2.40515 3.72497 3.29357 2.67737 2.69352 4.24692 2.90349 2.73734 3.18138 2.89799 2.37890 2.77522 2.98521 4.58480 3.61497\n- 0.26427 1.46001 * 0.26140 1.46957 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_22.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_22.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,650 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_22\n-LENG 209\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 6\n-EFFN 0.858398\n-CKSUM 4065246150\n-GA 29 28.7;\n-STATS LOCAL MSV -10.4057 0.70485\n-STATS LOCAL VITERBI -11.3681 0.70485\n-STATS LOCAL FORWARD -4.9390 0.70485\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46614 4.49286 3.14288 2.64147 3.35740 2.67613 3.93599 2.90688 2.85436 2.19110 3.72223 3.24928 3.22555 3.17570 2.78186 2.80008 2.93988 2.52712 4.71512 3.40092\n- 2.68651 4.42362 2.77617 2.73260 3.46112 2.40579 3.72467 3.29426 2.67762 2.69316 4.24382 2.90411 2.73669 3.18283 2.89667 2.37895 2.77452 2.98468 4.58614 3.61257\n- 0.41218 1.38667 2.43170 3.23409 0.04019 0.00000 *\n- 1 3.27226 4.65347 4.67976 4.13283 3.06881 4.44082 4.73016 2.22701 3.93708 1.04285 1.87006 4.41751 4.66521 4.13488 4.09227 3.79487 3.50104 2.35071 5.12169 4.01079 36 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02686 4.02628 4.74863 0.61958 0.77255 0.57423 0.82814\n- 2 2.75749 4.68085 3.26187 2.76835 3.69171 3.56446 3.80148 3.07052 2.52688 2.55463 2.49676 3.21823 3.98295 1.83009 2.84867 2.87529 3.00072 2.90821 5.16067 3.87285 37 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02686 4.02628 4.74863 0.61958 0.77255 0.57423 0.82814\n- 3 2.86695 4.62468 3.57203 3.49220 4.62703 0.52683 4.60085 4.26623 3.69425 3.90038 4.87907 3.73666 4.02062 4.00643 3.91125 3.04366 3.36017 3.76487 5.67927 4.73492 38 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02686 4.02628 4.74863 0.61958 0.77255 0.57423 0.82814\n- 4 3.12958 4.52311 4.60586 4.10007 3.26041 4.30812 4.75252 2.03342 3.93363 1.13751 3.10877 4.34975 4.62523 4.18054 4.11622 3.68561 3.39130 1.57450 5.24091 4.06347 39 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02686 4.02628 4.74863 0.61958 0.77255 0.57423 0.82814\n- 5 3.12958 4.52311 4.60586 4.10007 3.26041 4.30812 4.75252 2.03342 3.93363 1.13751 3.10877 4.34975 4.62523 4.18054 4.11622 3.68561 3.39130 1.57450 5.24091 4.06347 40 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02686 4.02628 4.74863 0.61958 0.77255 0.57423 0.82814\n- 6 1.22015 4.19061 3.42996 3.19448 4.34229 1.83618 4.28475 3.70053 3.29262 3.44120 4.29045 3.34152 3.72161 3.57148 3.59185 2.44134 2.75519 3.17033 5.68515 4.48870 41 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02686 4.02628 4.74863 0.61958 0.77255 0.57423 0.82814\n- 7 0.81293 4.27516 3.62448 3.42577 4.21105 3.09502 4.42885 3.36001 3.44613 3.23427 4.25127 3.53467 3.8490'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 202 2.42093 3.07971 3.37172 2.87405 3.76541 2.74939 3.89229 3.10157 2.83809 2.83446 3.70653 2.11918 3.81036 3.16225 3.20410 2.59635 2.76123 2.39215 5.16476 3.91544 245 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 203 0.82734 4.26797 3.61111 3.41129 4.19794 3.08825 4.41595 3.34501 3.43131 3.21987 4.23783 3.52360 3.84109 3.75986 3.67069 2.61791 2.90520 2.97478 5.61090 4.42756 246 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 204 2.80861 4.30140 4.15138 3.62846 3.02352 3.83711 4.10151 2.37841 3.43413 2.16055 3.30384 3.83276 4.24081 3.72893 3.62961 3.18649 3.07135 1.31072 3.25325 3.27982 247 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 205 2.79438 4.99370 2.50456 1.71964 4.51320 1.58852 3.85645 3.97366 2.76109 3.56254 4.42532 2.90545 3.86321 3.04496 3.21884 2.79515 3.12081 3.57451 5.71293 4.37069 248 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 206 2.61798 4.26459 3.98372 3.55345 3.69971 3.55260 4.40561 2.23996 3.44613 2.48180 3.59995 3.75264 4.12987 3.77531 3.70453 2.95969 2.09429 1.31690 5.35010 4.12736 249 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 207 2.92099 4.42660 4.31973 3.98918 3.65709 3.86846 4.76749 2.05324 3.85912 2.32076 3.60259 4.15571 4.42248 4.20960 4.05767 3.38243 3.27999 0.86343 5.46483 4.20440 250 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 208 2.12453 4.85651 3.11113 2.58479 4.22323 3.45613 3.65354 3.61482 2.21464 3.18067 4.02574 3.05069 3.88495 2.42435 1.86244 2.76228 2.96280 3.28728 5.37048 4.09754 251 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01419 4.73654 0.61958 0.77255 0.58588 0.81332\n- 209 2.98431 4.39991 4.46531 3.96921 2.14483 4.10711 4.39458 2.11930 3.85416 1.94754 3.23005 4.14614 4.47315 4.05681 4.02818 3.46938 3.25055 1.32643 4.84321 3.44699 252 v - - -\n- 2.68625 4.42232 2.77527 2.73093 3.46361 2.40493 3.72502 3.29361 2.67748 2.69326 4.24697 2.90354 2.73747 3.18153 2.89808 2.37894 2.77527 2.98525 4.58484 3.61510\n- 0.19405 1.73509 * 0.93739 0.49700 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,566 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_6\n-LENG 181\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 8\n-EFFN 1.777344\n-CKSUM 966649898\n-GA 44 44;\n-STATS LOCAL MSV -10.0511 0.70663\n-STATS LOCAL VITERBI -11.0936 0.70663\n-STATS LOCAL FORWARD -4.4193 0.70663\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72559 4.55899 3.02637 2.59537 3.12418 3.02775 3.73832 2.68314 2.62924 2.45589 3.62289 3.09472 3.07276 3.15390 3.00386 2.66906 2.85692 2.62891 4.84073 3.19265\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.00000 *\n- 1 4.00992 5.29946 5.27000 4.95825 3.54676 4.83314 5.41974 2.82139 4.73156 0.34493 3.43733 5.17974 5.18265 4.92440 4.77880 4.56468 4.28729 3.02288 5.61333 4.47778 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 2 2.31730 5.04816 3.34941 2.74272 4.34099 3.68462 3.79742 2.68255 1.73298 3.29635 4.13111 3.22246 4.06304 2.94507 1.73121 2.93105 3.11122 3.39932 5.49987 4.22266 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 3 2.28621 4.52514 5.10204 4.56435 3.77187 4.60331 5.09502 1.34732 4.45116 2.00754 3.61528 4.70620 4.90381 4.66253 4.58724 3.96023 3.47975 1.21410 5.58648 4.39410 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 4 3.11423 5.72052 1.68272 1.21768 5.02665 3.51084 3.95207 4.54596 2.12531 4.00744 4.81015 2.96010 4.07619 3.09248 3.41848 3.01012 3.38014 4.09732 6.14300 4.65506 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 5 1.75015 4.37029 4.66976 4.08954 2.40845 4.16397 4.50085 1.63190 3.94616 1.85682 3.30062 4.22852 4.49917 4.11833 4.06101 3.47820 3.21588 2.25488 5.02986 3.84611 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 6 2.90505 4.66328 3.68119 3.10469 1.66457 3.81790 3.88733 3.19086 2.24342 2.84439 3.76415 3.49448 4.18989 3.29864 2.42231 3.07775 3.12858 2.96532 4.82457 2.46658 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 7 2.17521 4.96325 3.09224 2.62373 4.46619 3.46941 3.86668 3.90968 2.64366 3.47317 4.26273 3.12088 2.73585 1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 174 2.72352 4.94433 2.49981 2.54771 4.18614 3.54298 3.74593 2.89156 1.79761 3.20584 4.01548 3.06892 3.93580 2.89232 2.99146 2.31668 2.95492 3.28102 3.15031 4.09780 223 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 175 2.73148 4.48373 2.80063 3.01546 3.66385 3.68983 3.98291 2.35485 2.98436 2.71060 3.61358 3.43048 4.08842 3.29159 3.35227 2.35710 2.36168 1.78148 5.11007 3.86794 224 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 176 2.80844 4.72317 3.40787 3.03280 3.83697 1.48299 4.09198 3.56645 3.08244 3.21883 4.10497 3.43238 2.59239 3.40715 3.45879 2.94458 3.13693 3.25284 5.28423 1.95071 225 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 177 2.91443 4.58216 3.79415 1.63411 3.70080 3.93416 4.21032 2.16399 3.19747 2.04321 3.59330 3.66388 4.29904 3.51369 3.55411 3.19463 3.14980 1.95254 5.27787 4.04667 226 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 178 2.29746 5.03635 3.06560 2.13519 4.31307 3.53781 3.73493 3.74765 2.48392 3.31232 4.10628 3.04829 3.93435 2.86607 1.95850 2.37388 2.97397 3.39350 5.51460 2.89897 227 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 179 2.82502 4.34125 4.11811 3.55473 3.23733 3.88591 4.12135 2.70505 3.43813 1.98758 3.40986 3.80530 2.81740 3.68966 3.66050 3.17487 3.06203 2.08329 4.79819 1.69471 228 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 180 2.75745 4.18231 4.40547 3.81303 2.45077 3.89076 4.18037 2.12721 3.65622 2.32115 3.27802 3.93866 4.25341 3.84487 2.85635 3.18941 2.98949 1.62237 4.75460 2.60275 229 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01593 4.54304 5.26539 0.61958 0.77255 0.48576 0.95510\n- 181 2.75046 5.03602 3.08645 2.13420 3.01088 3.54952 3.73368 3.73488 1.75966 2.71570 4.09763 3.05734 3.94074 2.33853 2.91452 2.75892 2.97869 3.38657 5.50340 4.15445 230 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01075 4.53786 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,545 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_7\n-LENG 174\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 7\n-EFFN 0.857910\n-CKSUM 4221993669\n-GA 25.6 24.7;\n-STATS LOCAL MSV -10.1785 0.70715\n-STATS LOCAL VITERBI -11.1455 0.70715\n-STATS LOCAL FORWARD -4.6272 0.70715\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58566 4.31006 3.01969 2.65004 3.47079 2.95297 3.83997 2.78037 2.76597 2.31943 3.64049 3.17138 3.07277 3.14194 2.80027 2.63675 2.88510 2.56488 4.41017 3.54981\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.00000 *\n- 1 3.03162 4.41618 4.56260 4.02170 3.37941 4.25562 4.66759 1.37861 3.87887 1.50515 3.22335 4.26410 4.57026 4.12682 4.06962 3.59628 2.77106 1.90174 5.23962 4.07443 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 2 1.51766 4.32489 3.99796 3.54790 3.64958 3.65014 4.39416 1.68997 3.45574 2.42453 3.55781 3.78280 4.18945 3.77063 3.72213 3.03948 3.03701 2.11848 5.30774 4.08540 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 3 3.25998 4.64999 4.72315 4.22873 3.20952 4.41206 4.84248 2.15849 4.03755 0.87035 3.05254 4.47471 4.71116 4.26351 4.19564 3.80634 3.52167 1.92583 5.25099 4.09144 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 4 2.71476 4.95364 2.92596 2.14054 4.19256 3.45415 3.64042 3.64234 2.02285 3.20693 4.02621 2.96503 3.86561 2.47633 2.72041 2.72318 2.93991 3.30865 5.38888 2.48069 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 5 2.83556 4.25249 4.35156 3.78055 3.18121 4.00167 4.28811 1.98857 3.65165 1.77469 3.18218 3.98746 4.33311 3.86517 3.82433 3.30745 3.06972 1.55035 4.86540 2.70941 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 6 2.87423 5.37519 2.06300 1.34852 4.69576 3.29453 3.75917 4.19039 2.69175 3.70085 4.51866 2.77088 3.86519 2.91001 3.24445 2.24286 3.14934 3.77054 5.86682 4.40257 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 7 3.14099 4.45463 4.87082 4.38622 3.64978 4.48949 5.10733 1.49864 4.27231 2.15694 3.45576 4.59367 4.815'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 167 3.38422 4.71358 4.89742 4.37709 3.15402 4.61457 4.94198 1.88569 4.18283 0.82185 2.97741 4.63916 4.82215 4.35978 4.31545 3.99979 3.62011 2.21283 5.25094 4.11919 174 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 168 2.62122 4.62516 2.48265 2.61131 3.91976 3.42160 3.80000 2.70527 2.67525 2.91870 3.81652 3.09125 3.88868 3.00307 3.10649 2.72456 1.79283 2.84761 5.29350 3.98905 175 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 169 3.43151 4.82727 4.56896 4.21633 3.24306 4.28026 4.79846 2.46637 3.98196 0.63014 3.20344 4.46892 4.67897 4.29286 4.11661 3.88876 3.71723 2.56399 5.20144 3.97728 176 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 170 3.09733 4.80809 3.73114 3.60905 4.57325 3.48253 4.66145 4.18678 3.68806 3.78486 4.84903 3.88889 0.48539 4.06939 3.90112 3.27364 3.55868 3.80381 5.68798 4.69916 177 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 171 2.92431 4.43583 4.07931 3.60545 2.78548 3.90142 3.95356 2.57811 3.45981 2.36212 3.48758 3.80815 4.30600 3.73352 3.67453 3.24432 3.18568 1.68627 4.43480 1.63602 178 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 172 3.75965 5.04432 4.47278 4.24206 2.94996 4.01222 4.22363 3.80075 3.96319 3.15177 4.42236 4.34521 4.55092 4.33827 4.04755 3.96086 4.07351 3.69734 0.51832 2.94074 179 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 173 3.14099 4.45463 4.87082 4.38622 3.64978 4.48949 5.10733 1.49864 4.27231 2.15694 3.45576 4.59367 4.81537 4.54629 4.47059 3.88772 3.41337 0.94779 5.62168 4.40511 180 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 174 3.26244 5.40658 0.62990 2.51515 4.81973 3.40676 4.16417 4.46576 3.29680 4.03410 5.02379 3.08106 4.07676 3.40814 3.84039 3.20238 3.60823 4.08169 5.94020 4.66172 181 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01669 4.10128 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-B_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,590 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-B_8\n-LENG 189\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 8\n-EFFN 2.160156\n-CKSUM 4215884991\n-GA 67 45;\n-STATS LOCAL MSV -10.3245 0.70606\n-STATS LOCAL VITERBI -10.9495 0.70606\n-STATS LOCAL FORWARD -4.9251 0.70606\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64429 4.59929 2.97076 2.63311 3.15868 2.95090 3.72832 2.84473 2.53299 2.37659 3.82228 2.98703 3.39397 3.15368 2.92830 2.71008 2.81004 2.65105 4.90311 3.22606\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.00000 *\n- 1 4.00558 5.21143 5.83798 5.30365 3.43411 5.39841 5.72153 1.89032 5.13656 0.50625 3.18644 5.54134 5.42581 5.07162 5.12522 4.82916 4.21970 2.63370 5.70062 4.70780 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 2 2.10511 4.64277 3.54420 3.01424 3.95285 3.64048 4.04806 3.25802 2.24064 3.00041 3.87732 3.42971 4.10462 3.30151 3.32437 2.18658 3.04777 1.56374 5.34494 4.09027 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 3 4.08463 5.29533 5.52244 5.15293 0.70137 5.09550 4.54479 2.98537 4.96953 1.52339 3.55359 5.00788 5.29902 4.87494 4.92820 4.52098 4.30839 3.16370 4.63815 3.01938 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 4 2.80241 5.28125 2.39859 2.10873 4.61585 3.54470 3.75849 4.09293 2.50623 3.58337 4.33411 3.01821 3.95640 2.86359 1.89026 2.23704 2.34575 3.66818 5.72443 4.31935 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 5 2.39869 4.61519 5.28527 4.75252 3.86752 4.74798 5.25742 1.33674 4.63746 1.89756 3.70050 4.87300 5.03597 4.83919 4.75531 4.11329 3.58969 1.15548 5.70946 4.51901 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 6 3.12271 5.36807 3.48737 2.88943 4.83056 3.81233 3.89681 4.22356 1.90693 3.68945 4.50785 3.35022 4.21090 3.02108 1.64364 1.37532 3.33439 3.85259 5.77262 4.52176 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 7 2.01087 4.52502 3.88474 3.43683 2.35758 1.31076 4.38702 3.54693 3.42823 3.25228 4.12071 3.67244 4.12243 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 182 2.76806 5.13644 2.37541 2.51221 4.43135 2.75411 3.75818 2.59765 2.52041 3.42227 4.19733 2.41659 3.95330 2.87684 2.35091 2.75906 2.47593 3.50073 5.60696 4.23104 202 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 183 2.77566 2.83885 2.01854 2.35114 2.75942 3.68304 3.90905 3.21049 2.84056 2.88977 3.76188 3.32078 4.07072 3.16460 3.24977 2.91482 3.00813 2.95882 2.90338 3.88848 203 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 184 2.78979 5.16129 2.45770 1.98585 4.45037 2.57983 3.77438 3.89921 2.54874 2.58497 4.22120 2.48824 3.96508 2.89547 3.03455 2.77777 3.02373 2.56424 5.63025 4.25080 204 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 185 2.99057 4.87066 3.67978 3.04491 4.06215 3.85109 3.95828 1.96866 1.54593 2.35853 3.93940 3.46947 4.21514 3.17180 2.22868 3.11968 3.19986 3.12455 5.37149 4.14418 205 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 186 2.76893 5.16833 3.04376 2.06025 4.47597 3.55144 3.75006 3.93226 2.50136 3.45925 4.22619 2.41310 2.92806 2.86332 2.45719 2.21402 3.00131 2.49338 5.63044 4.24794 206 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 187 2.79487 4.35615 3.97693 2.45249 3.47835 3.85205 4.13880 1.68041 3.32533 2.53936 3.46743 3.71918 4.22516 3.59242 3.59406 3.12340 2.38536 2.11952 4.97722 2.75078 207 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 188 2.77648 4.75884 3.34050 2.78106 3.95303 3.65533 3.87863 2.52018 2.72748 2.43705 3.85417 2.43980 4.04574 3.08749 2.48400 1.83943 3.00959 3.06277 5.30423 4.01967 208 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 189 2.93340 5.41440 2.93247 1.98604 4.76402 3.59840 3.82896 4.23610 1.41942 3.70858 4.47494 2.41608 2.59944 2.94111 2.98117 2.88514 3.16684 3.81211 5.83138 4.43715 209 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00937 4.67527 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-C_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-C_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,617 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-C_11\n-LENG 198\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:07 2020\n-NSEQ 46\n-EFFN 1.406616\n-CKSUM 2232840665\n-GA 49 48.7;\n-STATS LOCAL MSV -10.4577 0.70546\n-STATS LOCAL VITERBI -11.2413 0.70546\n-STATS LOCAL FORWARD -4.6879 0.70546\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51871 4.33388 3.02592 2.60295 3.15798 2.96364 3.66724 2.82913 2.62231 2.54909 3.63804 3.15122 3.36706 3.05142 2.76043 2.73524 2.86698 2.62705 4.49919 3.35519\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.00000 *\n- 1 3.23823 4.53356 5.12211 4.55500 2.09593 4.55190 4.90944 1.44311 4.41246 1.61798 3.21108 4.66768 4.80067 4.51005 4.46925 3.89833 3.46997 1.64728 5.25485 4.10588 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 2 2.51864 3.43525 2.91830 2.14395 4.32846 3.47047 3.65960 3.77493 2.07580 3.31664 4.09289 2.96403 3.86198 2.58828 2.29062 2.66783 2.84020 3.39858 5.50048 3.49687 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 3 2.80684 4.32837 4.67671 4.08852 2.31900 4.13037 4.42286 2.34746 3.93238 1.30349 3.14793 4.20409 4.44763 4.07300 4.01758 3.44355 3.17927 1.78038 4.89390 3.41536 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 4 2.82714 5.22101 3.11984 2.07145 4.58825 3.56933 3.12736 4.02328 1.59421 3.05051 4.27183 3.04747 3.95049 2.65953 2.19678 2.79893 3.03962 3.62745 5.60209 4.27234 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 5 2.97772 4.54817 5.04471 4.53902 3.81482 4.63339 5.22744 1.74774 4.43127 2.18570 3.61441 4.73211 4.94457 4.69396 4.62017 4.01694 3.51370 0.77168 5.74511 4.53847 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 6 2.66987 4.51212 3.37654 2.66289 3.31510 3.59844 3.82751 3.04278 2.54953 2.73257 3.60872 3.26041 3.98095 3.09440 2.87838 2.47018 2.76899 2.79907 2.17372 3.44360 6 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 7 2.25504 4.51108 3.70725 3.62183 4.86754 0.61553 4.76600 4.30439 3.84409 4.02731 4.88530 3.71257 4.038'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 191 2.61204 5.08914 2.78873 2.06870 4.39973 3.45523 3.49926 3.51736 2.03489 3.37887 4.13931 2.85314 3.84765 2.60516 2.44951 2.64800 2.73958 3.20117 4.06762 4.15489 252 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 192 2.60185 5.18931 2.14369 2.23285 4.52130 3.44568 3.52780 4.00030 2.16489 3.48759 3.90838 2.11524 3.85503 2.70122 2.78170 2.66426 2.93479 3.57344 5.62640 4.21921 253 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 193 2.49870 4.45749 3.55526 3.36612 4.72095 0.82488 4.52736 4.15751 3.52269 3.83038 4.65048 3.53829 2.93609 3.79687 3.83334 2.66967 2.60399 3.54643 6.03089 4.82930 254 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 194 2.65364 4.11008 4.19358 3.60273 3.11521 3.76804 4.07412 2.20817 3.29846 2.24354 3.22527 3.77869 4.13636 3.57274 3.39549 2.77819 2.88565 1.60092 3.60673 3.06920 255 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 195 3.02880 4.38289 4.78126 4.20398 3.36359 4.26758 4.62997 1.32747 4.05798 1.71858 2.30992 4.34378 4.57515 4.22324 4.16366 3.29613 3.26343 1.94660 5.12081 3.96821 256 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 196 2.54865 5.12440 2.65228 2.09840 4.44828 3.44795 3.51546 3.91923 2.06319 3.42035 3.86343 2.85115 3.84103 2.65273 2.51600 2.52843 2.63902 3.18324 5.56971 3.82097 257 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 197 2.62177 3.91736 3.64307 3.33641 2.58501 3.72315 4.01325 2.53629 3.11114 2.34619 3.31260 3.17138 3.79475 3.49940 3.49277 2.99689 2.89057 1.57861 4.80719 3.60388 258 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 198 2.79172 5.06068 2.76536 2.38412 4.37174 2.77049 3.78442 3.80298 2.37396 3.20261 4.19128 3.00780 1.61691 2.93346 3.03591 2.79415 3.04339 3.44843 5.58973 4.23277 259 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01255 4.38397 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-C_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-C_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,617 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-C_5\n-LENG 198\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 46\n-EFFN 1.406616\n-CKSUM 1855509809\n-GA 58 58;\n-STATS LOCAL MSV -10.4508 0.70546\n-STATS LOCAL VITERBI -11.2291 0.70546\n-STATS LOCAL FORWARD -4.7229 0.70546\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51727 4.33433 3.02134 2.59908 3.15865 2.96232 3.66748 2.83055 2.62996 2.55082 3.63922 3.14414 3.36655 3.05092 2.76373 2.73377 2.86685 2.62816 4.49936 3.35545\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.00000 *\n- 1 3.23775 4.53304 5.12192 4.55488 2.09906 4.55164 4.90961 1.44380 4.41237 1.61934 3.21194 4.66749 4.80059 4.51027 4.46929 3.89810 3.46953 1.64304 5.25541 4.10638 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 2 2.51835 3.43342 2.91897 2.14303 4.32835 3.47053 3.65964 3.77479 2.07540 3.31653 4.09282 2.96411 3.86203 2.58886 2.29131 2.66790 2.84066 3.39849 5.50041 3.49901 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 3 2.80603 4.32688 4.67487 4.08661 2.32104 4.12822 4.42042 2.34852 3.93038 1.30449 3.14811 4.20192 4.44583 4.07116 4.01556 3.44129 3.17753 1.78141 4.89188 3.40775 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 4 2.82725 5.22121 3.11983 2.07179 4.58852 3.56937 3.12418 4.02356 1.59270 3.05342 4.27202 3.04750 3.95054 2.65955 2.19881 2.79902 3.03972 3.62769 5.60222 4.27248 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 5 2.98086 4.54872 5.04547 4.54006 3.81539 4.63408 5.22901 1.74813 4.43217 2.18682 3.61480 4.73315 4.94538 4.69515 4.62116 4.01790 3.51443 0.77057 5.74648 4.53971 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 6 2.66988 4.51090 3.37799 2.66417 3.31206 3.59887 3.82807 3.04122 2.55115 2.73123 3.60757 3.26147 3.98136 3.09556 2.88099 2.46991 2.77004 2.79772 2.17189 3.44447 6 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 7 2.25614 4.51140 3.70715 3.62185 4.86769 0.61518 4.76613 4.30468 3.84422 4.02756 4.88564 3.71274 4.03846 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 191 2.61300 5.08898 2.78945 2.07019 4.39951 3.45526 3.49932 3.51734 2.03532 3.37868 4.13917 2.85106 3.84767 2.60378 2.44988 2.64803 2.74025 3.19795 4.06351 4.15481 252 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 192 2.60149 5.18857 2.14664 2.23324 4.52054 3.44568 3.52428 3.99950 2.16559 3.48686 3.90146 2.11549 3.85476 2.69927 2.78260 2.66381 2.93419 3.57269 5.62571 4.21861 253 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 193 2.49883 4.45767 3.55488 3.36578 4.72101 0.82505 4.52720 4.15765 3.52247 3.83045 4.65056 3.53814 2.93274 3.79666 3.83320 2.66976 2.60558 3.54657 6.03090 4.82926 254 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 194 2.65363 4.10990 4.19423 3.60335 3.11588 3.76813 4.07427 2.20667 3.29972 2.24231 3.22510 3.77904 4.13644 3.57311 3.39659 2.77668 2.88564 1.60235 3.60719 3.06783 255 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 195 3.02674 4.38137 4.77822 4.20084 3.36291 4.26474 4.62685 1.32912 4.05480 1.72034 2.30900 4.34068 4.57277 4.22037 4.16069 3.29068 3.26137 1.94782 5.11865 3.96578 256 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 196 2.54840 5.12439 2.65383 2.09824 4.44827 3.44795 3.51647 3.91922 2.06177 3.42035 3.86454 2.85117 3.84103 2.65334 2.51657 2.52620 2.64073 3.18377 5.56971 3.82103 257 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 197 2.62204 3.91808 3.63575 3.33433 2.58678 3.72274 4.01268 2.53709 3.11028 2.34791 3.31338 3.17274 3.79702 3.49794 3.49167 2.99634 2.89060 1.57799 4.80793 3.60449 258 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39001 5.11235 0.61958 0.77255 0.48576 0.95510\n- 198 2.79082 5.05892 2.76780 2.38350 4.36919 2.77100 3.78381 3.80020 2.37510 3.19668 4.18893 3.00812 1.61927 2.93290 3.03504 2.79358 3.04230 3.44606 5.58767 4.23102 259 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01255 4.38397 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-E_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-E_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,563 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-E_13\n-LENG 180\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:07 2020\n-NSEQ 71\n-EFFN 2.717102\n-CKSUM 1925645906\n-GA 62.8 62.3;\n-STATS LOCAL MSV -10.4667 0.70670\n-STATS LOCAL VITERBI -11.0254 0.70670\n-STATS LOCAL FORWARD -4.7236 0.70670\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37446 4.37474 3.00237 2.66811 3.52057 2.74857 3.74848 3.13583 2.71110 2.38295 3.79558 3.23494 3.13386 3.02943 2.65673 2.61926 2.77932 2.84214 4.47452 3.59744\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.00000 *\n- 1 3.18350 5.13523 5.68817 5.12062 3.19908 5.17751 5.49204 2.28423 4.97734 0.48077 3.28378 5.30175 5.30851 4.95199 4.98908 4.54913 4.08569 2.75816 5.63580 4.60136 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 2 2.69227 4.25061 4.77432 4.16558 2.76500 4.04117 4.37499 1.98744 3.96657 1.48292 3.35804 4.18264 4.40209 4.10966 3.99836 3.19159 2.78342 1.76318 4.88349 3.24732 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 3 3.98081 5.20871 5.92241 5.32730 1.87672 5.32513 5.59128 2.13689 5.17922 0.70084 2.81286 5.48709 5.37961 5.03859 5.10837 4.70035 4.18166 2.68822 5.62732 4.65247 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 4 2.97730 4.32639 3.35706 2.76111 4.54343 3.45727 3.50166 3.95861 2.15939 3.39181 4.30476 3.26493 4.13687 2.49842 1.24563 2.98311 3.19287 3.61239 3.56689 4.35875 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 5 3.46967 4.81102 5.23678 4.64722 3.04278 4.66759 4.90672 2.57898 4.47515 0.57503 3.28390 4.75757 4.91927 4.54393 4.51555 3.99490 3.08099 2.80954 4.22039 4.06193 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 6 2.11909 5.27213 2.83642 1.84027 4.59416 3.59978 3.48374 4.06423 2.53435 3.56751 4.31900 3.07661 3.99311 2.54455 2.79819 2.43646 2.86917 3.27414 5.71878 2.78354 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 7 1.34106 4.67154 4.43148 4.32383 5.32174 0.72471 5.28101 4.79282 4.46391 4.48755 5.25935 4.13096 4.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 173 2.44480 4.28028 3.32479 2.53339 3.71077 3.55217 3.61105 2.93118 2.87305 2.72133 3.82423 3.36537 2.98875 3.20101 2.58434 2.35973 3.05521 2.80071 2.83422 3.11757 205 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 174 2.40663 5.25714 2.50381 2.30586 4.57378 3.07875 3.45408 3.29371 2.30935 2.72107 4.30539 2.99787 3.53328 2.28449 3.02658 2.67160 3.04806 2.86769 5.70722 4.31407 206 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 175 1.99817 4.33579 3.01979 2.16941 4.28630 2.73408 3.84819 3.32390 2.43603 2.98152 3.80135 3.17095 3.59524 2.99341 2.84420 2.57063 2.88236 2.84196 4.80933 4.19993 207 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 176 2.53376 5.22842 2.88165 2.44481 4.09434 2.73940 3.43053 3.62817 2.35320 2.87646 4.27961 2.87734 3.18823 2.64480 2.76407 2.37608 2.55502 3.27548 4.30716 4.29942 208 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 177 2.16217 4.38426 3.01612 2.54591 3.55727 3.15332 3.74469 2.88297 2.35310 3.02245 3.43850 3.25784 3.90446 3.08586 2.50772 2.52183 2.86247 2.74443 4.23815 4.10885 209 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 178 2.23899 5.07865 2.91564 2.32354 3.48390 3.42406 3.64110 3.54288 2.32336 3.22822 3.92913 3.07288 3.17065 2.97504 2.51008 2.73115 3.04993 3.05508 3.02838 3.47811 210 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 179 2.45161 5.31158 2.82998 2.20490 4.65021 3.14775 3.52521 4.13166 2.41946 3.50611 4.35394 2.98185 3.32933 2.06823 2.62352 2.35575 2.96211 3.27199 5.74812 3.30602 211 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85032 5.57266 0.61958 0.77255 0.48576 0.95510\n- 180 2.68568 5.30631 2.50835 2.21420 3.95849 3.11397 3.49628 3.66086 2.27583 2.87411 4.34924 3.06409 3.31759 2.58635 2.19873 2.44454 3.04748 3.69232 5.74416 4.33849 212 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00789 4.84651 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-E_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-E_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,662 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I_23\n-LENG 213\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 52\n-EFFN 7.499756\n-CKSUM 3000363625\n-GA 105 105;\n-STATS LOCAL MSV -10.3868 0.70461\n-STATS LOCAL VITERBI -11.4059 0.70461\n-STATS LOCAL FORWARD -4.6774 0.70461\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47406 4.46502 2.96472 2.65471 3.31921 2.73005 3.72773 2.97872 2.74552 2.43251 3.86000 3.28494 3.06738 3.15964 2.70223 2.70462 2.81944 2.71312 4.36418 3.38474\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.00000 *\n- 1 2.74058 3.01541 3.74308 4.04697 2.63998 2.56427 4.78696 2.57524 4.31892 2.78799 2.72883 4.56505 4.82872 4.48324 4.02362 2.63564 1.63203 2.47971 3.76980 2.98184 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 2 4.36263 5.62424 6.35009 5.75871 3.31954 5.66866 5.94851 1.49555 5.58814 0.61633 3.90070 5.83637 5.82867 5.53337 5.53822 5.02598 4.57690 2.59708 6.11484 3.18948 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 3 2.46609 4.27160 4.30839 2.28182 2.86036 4.30290 4.56959 2.65528 2.32125 1.84925 4.03641 4.10088 4.67953 3.68243 2.80105 3.29320 2.98338 1.93843 5.52129 4.30148 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 4 2.89123 4.72705 5.31209 4.69822 1.78224 4.52559 4.85784 2.69988 4.48543 1.02951 3.82329 4.68603 4.88602 4.61500 4.49516 2.71779 3.58595 2.18442 5.34671 3.56347 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 5 3.25187 5.75545 3.06393 2.13295 5.10350 3.62479 3.56567 4.58576 1.56094 3.11263 4.79668 3.49097 4.41544 2.90039 1.40770 3.21446 3.48156 4.14799 3.83281 4.77851 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 6 3.24099 4.83353 5.45508 4.84423 2.87950 4.66573 5.00582 2.15103 4.63325 1.05081 3.86719 4.83214 5.01352 4.75336 4.63734 3.98236 3.14605 1.39216 4.18485 4.30602 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 7 2.47299 5.56834 3.01932 1.56712 2.82640 4.04142 4.23730 4.28726 3.00578 3.84443 4.62737 3.54172 4.43295'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00504 5.68806 6.41040 0.61958 0.77255 0.43768 1.03713\n- 206 2.84558 5.66078 3.51468 2.35983 4.97304 4.01921 2.77601 2.21024 1.86369 3.62952 4.17970 3.25228 4.41183 2.50511 2.32840 2.84144 3.46334 2.67911 6.11357 3.50643 439 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 207 2.66822 5.56327 2.41114 2.69690 1.96670 3.13380 3.90322 4.27931 2.54703 2.79987 4.62281 2.44471 4.43418 3.19769 3.48618 3.23898 2.94786 2.92428 6.03966 2.46071 440 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 208 2.43787 5.26041 3.81624 3.25549 4.45277 1.24707 4.36738 3.84088 3.23224 2.55129 3.45085 3.74235 4.53251 2.91290 2.33142 2.43700 3.49542 3.05942 5.80356 4.51444 441 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 209 2.37354 4.97824 4.20207 2.30337 3.48719 4.27294 4.53029 2.58342 2.84472 2.79336 3.01296 4.02747 2.60523 2.90601 3.42361 3.05986 2.86980 1.90237 4.17318 3.25631 442 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 210 3.30256 4.86905 4.49226 3.91428 3.98445 4.35347 4.63363 1.84278 3.82161 2.24448 3.46996 3.27396 2.53486 4.09154 1.28674 3.07114 3.53442 2.78061 5.47073 4.26433 443 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 211 2.94276 5.71657 2.58148 2.64901 2.97241 3.73227 3.48091 3.78563 2.55800 3.32597 4.75978 2.99170 2.69696 2.64855 2.01608 3.09951 2.37753 4.10200 3.98802 2.94543 444 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 212 2.68161 3.95057 5.20312 3.82727 2.15773 4.47871 4.80828 2.80724 4.39523 2.72154 3.09990 4.61502 4.84313 4.54132 3.12524 2.70998 3.55001 0.97257 5.32586 4.14802 445 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00497 5.70318 6.42552 0.61958 0.77255 0.48576 0.95510\n- 213 3.05492 4.44025 3.00180 2.41687 3.59188 3.65715 3.75813 2.39515 2.66558 3.20990 4.51058 3.60974 2.28244 3.43305 2.07186 3.28048 2.40272 3.06726 5.94328 3.01909 446 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00335 5.70156 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-E_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-E_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,569 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-E_3\n-LENG 182\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 71\n-EFFN 2.786438\n-CKSUM 3296973166\n-GA 89 89;\n-STATS LOCAL MSV -10.3207 0.70657\n-STATS LOCAL VITERBI -10.9949 0.70657\n-STATS LOCAL FORWARD -4.7357 0.70657\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37704 4.38113 3.00515 2.66756 3.52249 2.75070 3.74068 3.13213 2.71218 2.38266 3.79091 3.23872 3.13134 3.02928 2.64876 2.61807 2.78393 2.84414 4.47565 3.59719\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.00000 *\n- 1 3.16934 5.15075 5.70620 5.13829 3.19569 5.19222 5.50553 2.31338 4.99461 0.47217 3.29412 5.31815 5.32236 4.96627 5.00416 4.56407 4.10128 2.77936 5.64653 4.61236 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 2 2.69060 4.25719 4.78349 4.17440 2.76742 4.04750 4.38115 1.97893 3.97461 1.45841 3.36509 4.18991 4.40862 4.11712 4.00529 3.19276 2.77897 1.79968 4.88904 3.23381 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 3 3.98894 5.21735 5.93435 5.33887 1.83270 5.33264 5.60040 2.12409 5.18988 0.71692 2.80822 5.49609 5.38922 5.04993 5.11826 4.70752 4.19004 2.68543 5.63843 4.66352 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 4 2.98600 4.31082 3.36059 2.76489 4.56497 3.45302 3.48799 3.98159 2.15238 3.41199 4.32188 3.26977 4.14390 2.49019 1.22997 2.98946 3.20157 3.63225 3.66920 4.37262 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 5 3.47534 4.81592 5.25149 4.66115 3.03949 4.67399 4.91507 2.58247 4.48831 0.57228 3.29451 4.76736 4.92662 4.55526 4.52576 4.00128 3.06801 2.81842 4.20479 4.07141 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 6 2.14043 5.28125 2.83136 1.85482 4.60401 3.60684 3.49024 4.07457 2.54093 3.57695 4.32792 3.08336 4.00015 2.53592 2.79142 2.42630 2.86771 3.26445 5.72746 2.71811 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 7 1.34138 4.68649 4.46096 4.35726 5.34706 0.71417 5.30865 4.82017 4.49742 4.51455 5.28476 4.15340 4.30707 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 175 2.23308 5.18427 2.74737 2.27200 4.47142 2.85203 3.81882 3.41946 2.49561 2.62281 4.24066 3.11902 2.59515 2.79529 2.98993 2.58788 2.88502 3.28606 5.65328 3.70711 202 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 176 2.48120 5.23859 2.94638 2.25166 4.54540 2.74046 3.80548 3.57024 2.30972 2.56162 3.93259 3.00765 3.41932 2.69283 2.44967 2.55823 2.82333 3.60850 4.01032 4.30827 203 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 177 2.39412 4.56809 2.75721 2.52838 4.50481 3.22927 3.41410 3.26592 2.34831 3.27832 4.06209 2.88375 3.45927 2.80534 2.29608 2.48524 2.93714 2.51301 5.67219 4.29302 204 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 178 2.58514 4.97189 2.98515 2.35872 3.12896 3.07017 3.38972 3.20255 2.32211 2.65001 4.04720 3.12255 3.38525 3.04378 2.92555 2.62611 2.97226 2.61258 3.49918 4.16352 205 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 179 2.31360 5.17511 2.98468 2.30297 3.94243 3.28925 3.21066 3.90419 2.49591 3.32579 3.60929 3.04334 3.81384 2.88437 2.27881 2.46316 2.66252 3.38398 4.55756 2.90145 206 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 180 2.33322 5.32829 2.60887 2.18917 4.67088 3.07025 3.50958 4.15509 2.22375 3.63250 4.36961 3.06661 3.20280 2.36977 2.49179 2.40144 2.96654 3.26266 4.94093 4.35301 207 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 181 2.55531 5.27733 2.79662 2.20800 4.59906 3.36275 3.65879 3.48799 2.34791 2.93299 4.32418 2.98636 3.04614 2.63611 2.41243 2.44373 2.80694 3.41264 3.48722 4.32781 208 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01147 4.86965 5.59199 0.61958 0.77255 0.48576 0.95510\n- 182 2.69188 5.30561 2.79333 2.10611 3.31112 2.89782 3.63188 3.86727 2.30806 3.28223 4.34942 3.07414 3.38380 2.41983 2.37392 2.29587 3.05487 3.68982 4.89941 4.34186 209 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00773 4.86591 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-F_16.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I-F_16.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1031 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I-F_16\n-LENG 336\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:07 2020\n-NSEQ 6\n-EFFN 0.565430\n-CKSUM 1298719548\n-GA 205 112;\n-STATS LOCAL MSV -11.0440 0.70041\n-STATS LOCAL VITERBI -12.1335 0.70041\n-STATS LOCAL FORWARD -5.5025 0.70041\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63701 4.38795 2.89141 2.71452 3.17187 2.76566 3.92104 2.70918 2.58490 2.38707 3.57990 3.02704 3.56641 3.12410 3.00745 2.65226 2.89384 2.66559 4.79677 3.38041\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18897 3.91964 1.88164 0.61958 0.77255 0.00000 *\n- 1 2.88948 4.45678 3.93591 3.52432 3.16840 3.75393 4.28439 2.33367 3.29701 1.78234 1.59984 3.81408 4.21672 3.68775 3.51428 3.22601 3.19416 2.32651 4.99309 3.74354 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03500 3.76567 4.48802 0.61958 0.77255 0.61381 0.77933\n- 2 2.87885 4.83115 3.04746 2.69371 4.19298 3.37608 3.70902 3.61634 1.19550 3.20679 4.17750 3.12165 3.88691 2.90922 2.42457 2.92994 3.14201 3.33137 5.29455 4.09310 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03500 3.76567 4.48802 0.61958 0.77255 0.61381 0.77933\n- 3 2.94784 4.40113 4.17610 3.79088 3.30591 3.94443 4.54117 1.22154 3.61655 1.91846 3.26256 4.05128 4.38928 3.97816 3.82552 3.43245 3.25042 1.85449 5.17183 3.89825 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03500 3.76567 4.48802 0.61958 0.77255 0.61381 0.77933\n- 4 2.66701 4.26885 3.84334 3.39108 3.46460 3.64525 4.26031 1.62500 3.25113 2.17360 3.36789 3.67787 4.13567 3.61428 3.52035 3.02729 2.39058 1.94421 5.17516 3.93804 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03500 3.76567 4.48802 0.61958 0.77255 0.61381 0.77933\n- 5 2.94784 4.40113 4.17610 3.79088 3.30591 3.94443 4.54117 1.22154 3.61655 1.91846 3.26256 4.05128 4.38928 3.97816 3.82552 3.43245 3.25042 1.85449 5.17183 3.89825 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03500 3.76567 4.48802 0.61958 0.77255 0.61381 0.77933\n- 6 2.81462 5.26046 1.79321 1.54609 4.54827 3.14309 3.66913 4.02596 2.64865 3.58162 4.44750 2.63283 3.74950 2.84220 3.19871 2.72759 3.10098 3.63836 5.74884 4.29551 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03500 3.76567 4.48802 0.61958 0.77255 0.61381 0.77933\n- 7 3.09929 4.63159 3.68291 3.39548 2.31008 3.70745 3.57923 3.12393 3.25603 2.60472 3.81126 3.59642 4.185'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 329 0.94788 4.21555 3.51041 3.30373 4.09926 3.03885 4.32022 3.23183 3.32120 3.11128 4.13784 3.44145 3.78251 3.65802 3.56856 2.56539 2.84600 2.87808 5.52171 4.32717 330 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 330 3.31519 4.78508 3.90780 3.64593 2.29487 3.88502 3.64059 3.31781 3.50208 2.75961 3.98793 3.78150 4.35772 3.79681 3.67618 3.44724 3.60207 3.19058 3.94048 0.89084 331 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 331 2.84525 4.37467 4.19062 3.85509 3.58449 3.77270 4.64863 2.04796 3.72359 2.26326 3.54237 4.03738 4.33050 4.07994 3.93156 3.27910 3.20559 0.96749 5.37693 4.11153 332 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 332 2.33817 4.25926 3.24735 3.06515 4.12322 2.98827 4.17378 3.65214 3.14210 3.36868 4.29074 3.28250 3.73093 3.48771 3.42678 1.02212 2.82180 3.17693 5.49192 4.20696 333 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 333 2.73467 4.95771 2.86569 2.43886 4.17083 3.40848 2.93782 3.70819 2.22404 3.24578 4.07911 2.05425 3.84660 2.76042 2.23439 2.73649 2.96521 3.36631 5.34760 4.00097 334 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 334 3.06780 4.47331 4.40276 4.02026 3.40593 4.11747 4.73957 1.02137 3.84931 1.98224 3.33386 4.25898 4.54407 4.19269 4.04048 3.61725 3.36609 1.84757 5.30658 4.04900 335 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 335 2.72490 5.11270 1.89502 2.26345 4.42829 3.31983 3.61258 3.88414 2.02494 3.40305 4.20979 2.80820 3.79885 2.74854 2.49383 2.68501 2.96751 3.50043 5.55672 4.17758 336 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 336 3.03290 4.45503 4.44348 3.94293 3.25639 4.18369 4.63785 1.98682 3.77721 1.30519 3.12413 4.20644 4.52782 4.05686 3.98327 3.55861 3.30067 1.51623 5.19730 3.99213 337 l - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18149 2.89759 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.21550 1.64063 * 0.28963 1.38047 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_III-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_III-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,647 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_III-F_1\n-LENG 208\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 3\n-EFFN 0.530273\n-CKSUM 3120857989\n-GA 121 91;\n-STATS LOCAL MSV -10.4749 0.70493\n-STATS LOCAL VITERBI -11.4120 0.70493\n-STATS LOCAL FORWARD -4.6167 0.70493\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66308 4.42976 2.96588 2.64646 3.15590 2.73769 3.83572 2.68552 2.61151 2.40758 3.69990 3.15157 3.34158 3.28086 3.00223 2.72792 2.89725 2.57077 4.95248 3.19058\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19704 3.89422 1.84212 0.61958 0.77255 0.00000 *\n- 1 2.86630 4.43988 3.90131 3.48926 3.15875 3.72889 4.25696 2.32104 3.26286 1.77988 1.67504 3.78240 4.19338 3.65702 3.48355 3.19849 3.17133 2.30947 4.97782 3.72403 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03617 3.73335 4.45570 0.61958 0.77255 0.61562 0.77719\n- 2 2.61613 4.59832 2.64932 2.52364 3.94054 3.09654 3.82412 3.62621 2.71912 3.29118 4.25187 1.43195 3.74438 3.10162 3.06466 2.69191 2.99644 3.26275 5.26370 3.90266 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03617 3.73335 4.45570 0.61958 0.77255 0.41236 1.08496\n- 3 2.71665 4.53340 3.37431 2.85158 3.62047 3.55736 3.79123 2.88142 2.05994 2.50424 2.14249 3.26286 3.97065 3.03991 2.76644 2.88218 2.95758 2.70650 5.07241 3.82413 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 4 2.97063 5.08664 2.49624 0.99485 4.43552 3.28782 3.87624 3.89372 2.75947 3.50725 4.48011 2.94473 3.89337 3.09130 3.17073 2.95069 3.27496 3.57524 5.60298 4.32499 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 5 3.04706 4.55393 3.97910 3.52548 2.41520 3.93968 3.70187 2.76173 3.33027 1.78383 3.45948 3.72239 4.30682 3.62546 3.54429 3.28648 3.28795 2.68029 4.08820 1.56665 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 6 3.17947 4.63518 4.22446 3.86422 3.14369 4.00988 4.51312 2.34871 3.63176 0.84888 3.15950 4.13760 4.44137 3.99489 3.80435 3.58299 3.47266 2.39173 5.03107 3.75948 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 7 2.80220 5.02849 2.57912 1.90830 4.10924 3.33843 2.03951 3.75837 2.41471 3.30853 4.17849 2.86892 3.8480'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 201 2.99168 4.95672 3.16914 2.78629 4.34811 3.47900 3.77078 3.77869 1.00892 3.33893 4.29904 3.20987 3.97766 2.96089 2.43515 3.03213 3.24323 3.48519 5.39369 4.20951 209 k - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40492 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.19704 1.77813 4.61657 0.31611 1.30555 0.48576 0.95510\n- 202 2.71638 4.87724 2.48572 1.81154 4.39579 1.73056 3.80308 3.84343 2.69839 3.45008 4.31926 2.86903 3.80277 2.99773 3.14000 2.73115 3.04568 3.45582 5.60957 4.28177 211 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 203 2.82517 4.36155 4.15555 3.81916 3.56577 3.74654 4.61705 2.04867 3.68727 2.24889 3.52743 4.00555 4.30569 4.04542 3.89771 3.25128 3.18610 0.99792 5.35395 4.08700 212 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 204 2.25318 4.19195 3.22725 2.98530 4.20760 1.59020 4.11455 3.55416 3.06448 3.29461 4.16279 3.21362 3.67641 3.38457 3.37946 2.42328 1.95720 3.07697 5.54653 4.32516 213 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 205 3.27820 4.75839 3.87018 3.60348 2.29349 3.85534 3.62826 3.28435 3.46036 2.73271 3.95708 3.75001 4.32860 3.76120 3.63969 3.41280 3.56494 3.15590 3.93815 0.93038 214 y - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40492 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.19704 1.77813 4.61657 0.31611 1.30555 0.48576 0.95510\n- 206 3.27820 4.75839 3.87018 3.60348 2.29349 3.85534 3.62826 3.28435 3.46036 2.73271 3.95708 3.75001 4.32860 3.76120 3.63969 3.41280 3.56494 3.15590 3.93815 0.93038 216 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 207 2.68225 4.95625 1.58930 2.23000 4.44488 3.14803 3.76405 3.93795 2.73548 3.53033 4.37984 2.76864 3.76790 2.94588 3.25759 1.99417 3.01603 3.51756 5.69959 4.27658 217 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89422 4.61657 0.61958 0.77255 0.48576 0.95510\n- 208 2.80262 5.03542 2.77417 1.70789 4.36971 3.39350 3.62945 3.79099 2.21746 3.32332 4.17675 2.92847 3.85988 2.77993 1.99528 2.78996 3.03556 3.45045 5.46303 4.16246 218 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 3.88428 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5_I_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,626 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5_I_9\n-LENG 201\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:06 2020\n-NSEQ 126\n-EFFN 17.484192\n-CKSUM 2935066586\n-GA 29.3 25.4;\n-STATS LOCAL MSV -10.2945 0.70529\n-STATS LOCAL VITERBI -11.2747 0.70529\n-STATS LOCAL FORWARD -4.8278 0.70529\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50519 4.50888 2.95351 2.63020 3.28903 2.73567 3.88547 2.99301 2.77914 2.38523 4.01976 3.29542 2.90851 3.28690 2.65343 2.66297 2.91686 2.68565 4.35588 3.38328\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.00000 *\n- 1 3.67566 5.54600 6.20612 5.60701 2.37530 5.43271 5.79749 1.88460 5.40603 0.76768 4.60935 5.60162 5.77373 5.53544 5.41805 3.81149 4.00119 1.76854 6.25927 5.08809 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 2 2.58141 3.06408 3.90492 2.94808 2.76196 4.99436 5.29908 2.42621 2.34357 1.96157 4.47206 4.98617 5.36352 4.25249 2.41981 4.04322 3.47906 1.72064 4.16535 3.31981 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 3 2.23540 5.32640 5.93747 5.32235 1.94167 3.69384 5.46928 2.28128 5.10553 0.99634 3.91266 5.30103 5.49282 5.23115 5.10817 4.44677 4.18948 1.90902 5.95207 4.38286 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 4 3.76198 4.46088 3.17059 1.43294 5.61379 4.15132 3.47636 4.20299 1.86069 3.24758 5.31083 4.00409 4.92962 2.75214 1.44638 3.42060 3.99312 4.20218 4.62519 3.94194 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 5 2.83973 5.28351 5.88942 5.27315 2.94248 5.08226 3.75997 2.42466 5.05477 0.75962 4.39962 5.24938 5.44540 5.18276 5.05761 4.39426 3.71846 1.67515 4.79093 4.03946 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 6 1.77432 6.25466 3.37481 1.87038 3.48333 4.53986 2.90469 5.07212 2.68435 3.71932 5.29741 4.01042 4.93314 3.23102 2.56142 2.31870 3.15467 3.42135 2.83565 2.72097 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 7 2.18851 5.35081 5.41272 4.82298 3.41283 1.02190 5.30908 3.46947 4.69355 3.35078 4.46678 5.00617 3.21'..b'.68940 4.42107 2.77678 2.73043 3.46371 2.40368 3.72701 3.29364 2.67788 2.69345 4.24807 2.90575 2.73969 3.18458 2.89210 2.37870 2.77253 2.98539 4.57871 3.61255\n- 1.35339 0.30051 6.73033 1.57122 0.23293 0.40592 1.09770\n- 194 1.95567 4.93071 2.55386 2.51429 3.22448 3.77446 3.79224 4.27919 2.40062 2.37444 4.59506 2.39943 3.58807 2.99124 2.94899 2.84011 3.39205 3.26176 4.50027 3.29338 368 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00258 6.35868 7.08103 0.61958 0.77255 0.16369 1.89050\n- 195 3.08016 6.20569 3.26042 2.48632 3.98849 1.75031 3.91406 2.27911 2.89330 2.93356 4.40134 3.66619 3.44558 3.37242 2.40123 2.64418 3.11115 2.69255 6.65618 3.57490 369 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 196 2.08389 4.48448 4.21204 3.53738 3.34936 3.30145 5.26313 2.47949 3.05958 1.85504 3.88995 4.08833 3.45708 4.79570 2.84285 3.03783 2.87136 1.84178 3.91655 3.27426 370 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 197 3.55528 5.61829 3.63835 2.30477 2.92296 4.24640 3.97188 1.51408 3.05381 2.32636 3.41820 3.50002 4.58254 3.88989 3.12404 3.57754 3.13331 2.44390 4.04266 2.57130 371 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 198 1.97684 6.26362 1.93745 2.23229 3.06321 3.56630 3.61032 4.15256 2.59411 3.30263 3.46848 3.18189 4.43560 2.96336 2.66074 3.18276 2.82634 3.44371 4.17515 3.69314 372 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 199 3.35393 4.86647 2.97856 3.89143 2.81629 2.98295 5.32131 2.31090 4.73387 2.06836 2.29316 3.62421 3.24619 3.48284 3.88170 3.95876 3.46985 1.41681 5.95436 3.76395 373 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 200 3.54900 6.24324 3.86748 3.11512 5.57275 3.47196 4.73911 4.49925 2.78563 4.24650 4.59545 3.68741 0.49968 3.52132 3.64862 3.58880 3.43899 4.62558 6.68496 5.28455 374 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00226 6.49068 7.21303 0.61958 0.77255 0.48576 0.95510\n- 201 2.15398 4.99187 2.49501 2.07539 4.35947 3.75575 4.29475 2.36513 3.17437 2.88011 4.18394 3.43885 3.36294 3.29726 2.73965 2.93794 3.14645 1.95601 6.64034 5.25343 375 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00152 6.48994 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5a_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5a_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,875 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5a_I-A_1\n-LENG 284\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 6\n-EFFN 0.958008\n-CKSUM 2269776311\n-GA 115 115;\n-STATS LOCAL MSV -10.7716 0.70173\n-STATS LOCAL VITERBI -11.6945 0.70173\n-STATS LOCAL FORWARD -5.4338 0.70173\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50508 4.34494 3.13274 2.63450 3.25888 2.99026 3.83249 2.80136 2.71812 2.44690 3.63663 3.22896 3.05851 3.16366 2.89878 2.71031 2.85054 2.49976 4.72359 3.19952\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12810 4.16673 2.25635 0.61958 0.77255 0.00000 *\n- 1 2.59944 4.34706 3.58923 3.17719 3.60756 2.41585 4.08613 2.88566 3.07532 2.56193 1.57189 3.47494 3.98220 3.43835 3.35806 2.83110 2.94030 2.67895 5.12674 3.88710 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02584 4.06447 4.78681 0.61958 0.77255 0.59831 0.79793\n- 2 2.74337 4.84632 3.11913 2.58926 3.86899 3.50854 3.64412 3.51744 2.30444 3.09697 3.95205 2.46796 3.91039 2.83905 1.87066 2.78514 2.96725 3.21520 5.16601 2.79118 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02584 4.06447 4.78681 0.61958 0.77255 0.42131 1.06765\n- 3 2.82999 4.31814 4.13182 3.57752 2.99487 3.89782 4.05962 2.50039 3.44092 2.14172 2.56887 3.81172 4.25451 3.68775 3.65058 3.19697 3.06663 2.00812 4.63737 1.77660 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 4 3.26866 4.57545 4.98654 4.41638 3.20880 4.56813 4.91312 1.80785 4.29284 1.11368 2.34075 4.62562 4.76907 4.38310 4.38871 3.91215 3.49309 1.84529 5.23633 4.17131 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 5 3.50292 4.88371 4.66141 4.31265 3.27552 4.35263 4.87741 2.50513 4.07808 0.58212 3.22419 4.56000 4.74371 4.37448 4.20181 3.97378 3.78721 2.61699 5.25075 4.03867 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 6 3.17072 4.52265 4.78388 4.28537 3.45926 4.42362 4.93064 1.94635 4.13183 1.49378 3.30281 4.50272 4.74625 4.38523 4.30894 3.81022 3.43643 1.09331 5.41799 4.22102 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 7 3.26896 5.22071 3.46298 3.04214 4.67568 3.71412 3.96045 4.12662 0.69525 3.63215 4.58752 3.44965 4.2016'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 277 3.17302 4.52465 4.78603 4.28632 3.45206 4.42570 4.92888 1.95093 4.13279 1.46961 3.29468 4.50396 4.74619 4.38351 4.30863 3.81156 3.43800 1.10890 5.41272 4.21836 297 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 278 3.19170 4.88865 3.83217 3.72092 4.67420 3.56004 4.76507 4.30720 3.80581 3.89687 4.96587 3.99331 0.42617 4.18507 4.00891 3.37059 3.65809 3.91671 5.76876 4.80201 298 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21568 4.16673 1.72315 0.61958 0.77255 0.48576 0.95510\n- 279 2.86133 5.13876 3.03562 2.07888 4.52731 3.51271 3.58832 3.91828 1.61366 3.38882 4.21361 3.00463 3.91186 2.71502 1.96996 2.83712 3.05963 3.56272 5.48167 4.21763 299 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02817 3.97922 4.70157 0.61958 0.77255 0.38290 1.14534\n- 280 2.74903 5.09807 2.63654 2.04404 4.45220 2.03382 3.71919 3.90702 2.53061 3.44900 4.25308 2.88462 3.85990 2.33415 3.00460 2.34175 3.01058 3.51884 5.63326 4.24690 300 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 281 2.93938 4.67087 3.54342 3.23979 2.94061 2.36947 3.88697 3.41776 3.23586 3.01806 4.02419 3.54654 4.17740 3.55888 3.52170 3.09413 3.26049 3.16961 4.52347 1.12345 301 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 282 1.34530 4.27940 4.01422 3.61255 3.87270 3.42398 4.47045 2.52483 3.53929 2.71228 3.78561 3.74357 4.07300 3.83730 3.79485 2.85012 2.96711 1.58339 5.47191 4.25938 302 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 283 1.96713 4.63401 3.09985 2.26699 3.87893 3.44917 3.73156 3.24580 2.58081 2.91008 2.91506 3.07321 2.96725 2.92862 3.00771 2.70057 2.85826 2.96167 5.21890 3.92453 303 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 284 2.69662 5.01554 2.83345 2.07893 4.35772 2.73677 3.66766 3.79794 2.40107 3.34102 4.13722 2.92971 2.35549 2.80016 2.37959 2.68988 2.94156 3.42192 5.52071 4.16329 304 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01574 4.15917 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,806 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5f_I-F_1\n-LENG 261\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:08 2020\n-NSEQ 49\n-EFFN 1.450500\n-CKSUM 174417004\n-GA 35 35;\n-STATS LOCAL MSV -10.8636 0.70250\n-STATS LOCAL VITERBI -11.4315 0.70250\n-STATS LOCAL FORWARD -5.4347 0.70250\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51150 4.25114 3.08948 2.69872 3.26973 2.96158 3.59009 2.78963 2.71660 2.34632 3.58906 3.10761 3.29765 3.06469 2.97651 2.60030 2.87509 2.68391 4.31493 3.44493\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.00000 *\n- 1 2.60306 5.04888 3.00483 2.44527 4.34298 3.48437 3.48372 3.78774 2.16256 3.32762 4.10546 2.89653 3.87508 2.00431 2.54390 2.37874 2.92049 3.08531 5.50861 3.40326 1 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 2 4.20364 5.31871 5.03522 4.80844 1.72497 4.81229 3.11955 3.95380 4.62884 3.20519 4.49455 4.39440 5.09789 4.50243 4.59764 4.19031 4.40995 3.86151 3.76297 0.61032 2 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 3 3.45216 4.71413 5.32609 4.76704 3.11527 4.82312 5.20073 1.54809 4.64402 1.00264 3.15973 4.93445 4.99885 4.69393 4.69700 4.18863 3.67928 1.79096 5.43987 4.36751 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 4 2.65675 4.37379 3.80146 3.24013 3.19043 3.76796 2.20287 2.83093 3.14166 2.02457 3.46873 3.57070 4.14179 3.43487 3.43119 3.03531 2.99451 2.34123 4.72244 2.26553 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 5 3.15914 2.96505 4.94283 4.36250 3.02014 4.38876 4.72387 2.03032 4.20903 0.93173 3.13742 4.48836 4.66614 4.31803 4.27904 3.72064 3.39019 2.28111 5.11868 3.98013 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 6 2.72194 5.03657 2.98405 2.48668 4.38498 3.47704 3.72420 3.82563 2.23877 3.37243 4.16042 3.01077 2.37775 2.45457 2.90769 1.88065 2.77307 3.44682 5.55682 4.19937 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 7 2.88630 5.37978 2.36833 2.16246 4.71909 2.50718 3.81143 4.20962 2.67258 3.70739 4.49169 1.74105 3.94862 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 254 2.78368 4.21226 4.37573 3.78918 3.27566 3.92965 4.25538 1.70894 3.65059 1.98052 2.09008 3.95788 3.32520 3.85128 3.79490 3.09522 3.01747 2.10333 4.86423 3.68564 261 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 255 2.82592 3.41426 4.53166 3.94909 3.31880 3.99453 4.36260 2.05122 3.79791 1.26787 3.27948 4.07509 4.35444 3.98600 3.91451 2.93861 3.06698 1.95309 4.93102 3.75250 262 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 256 3.36150 4.64649 5.21345 4.64406 3.35687 4.69194 5.06294 1.61654 4.50969 1.44133 1.71934 4.79891 4.89951 4.58178 4.56803 4.04396 3.58865 1.80176 5.36066 4.28578 263 l - - -\n- 2.68628 4.42235 2.77529 2.73133 3.46364 2.40523 3.72504 3.29364 2.67751 2.69322 4.24700 2.90356 2.73683 3.18100 2.89810 2.37897 2.77522 2.98528 4.58487 3.61513\n- 0.26911 1.46952 5.13174 0.67616 0.71043 0.48576 0.95510\n- 257 3.18586 5.43484 3.53232 2.69831 4.92006 3.82005 3.75502 4.26759 1.14301 3.66211 4.49664 3.05966 4.17506 2.71000 1.63970 3.15142 3.34868 3.91213 5.68176 4.48852 266 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01823 4.40939 5.13174 0.61958 0.77255 0.48576 0.95510\n- 258 2.61457 5.09942 2.98607 2.44335 4.43075 3.13694 3.67552 3.74441 1.81089 3.40225 4.17194 2.55918 3.88154 2.78916 2.63338 2.01559 2.94200 3.48871 5.56282 4.19074 267 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03984 4.40939 3.61575 0.61958 0.77255 0.48576 0.95510\n- 259 2.40231 4.29488 3.23819 3.10603 3.41999 3.66981 3.80984 2.13762 3.04542 2.27816 3.40266 3.46913 3.72866 3.32944 3.36006 2.53832 2.78258 2.23407 4.88787 3.01588 268 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18691 4.38818 1.84478 0.61958 0.77255 0.51803 0.90558\n- 260 2.58609 5.03825 2.97717 2.34927 4.34835 3.45696 3.62419 3.78811 1.83644 3.31511 4.09696 2.75952 3.84875 2.74286 2.31892 2.31047 2.90862 3.41207 5.48049 3.59627 269 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07794 4.22327 2.80795 0.61958 0.77255 0.72107 0.66599\n- 261 2.70852 5.06709 2.02008 2.23524 3.06741 3.38639 3.41117 3.78888 2.49438 3.34066 4.13957 2.18818 3.83976 2.80775 2.99105 2.68757 2.95021 3.42103 5.51650 4.11673 270 d - - -\n- 2.68636 4.42243 2.77523 2.73050 3.46372 2.40516 3.72512 3.29372 2.67758 2.69373 4.24676 2.90360 2.73757 3.18164 2.89818 2.37891 2.77443 2.98536 4.58495 3.61452\n- 0.45715 1.00263 * 0.97691 0.47236 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,899 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5f_I-F_2\n-LENG 292\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:09 2020\n-NSEQ 7\n-EFFN 1.247559\n-CKSUM 3368152297\n-GA 84.9 75.8;\n-STATS LOCAL MSV -10.8339 0.70152\n-STATS LOCAL VITERBI -11.6977 0.70152\n-STATS LOCAL FORWARD -5.3516 0.70152\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43029 4.43799 3.03332 2.70108 3.31542 2.86324 3.54624 2.83281 2.73938 2.34705 3.73532 3.09716 3.39804 2.96410 2.91840 2.70845 2.84075 2.69939 4.45810 3.45536\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.00000 *\n- 1 3.43534 4.74796 4.80053 4.34989 1.97158 4.42453 3.90680 2.94645 4.18822 1.31177 3.54208 4.26752 4.71695 4.22310 4.24244 3.75882 3.65585 2.92945 4.10341 1.47147 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 2 2.25513 4.44877 4.67439 4.13239 3.48213 4.29590 4.73291 1.31662 4.00424 1.57954 3.33938 4.34126 4.62631 4.23085 4.17868 3.63707 3.32024 1.96016 5.29677 4.12822 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 3 3.32837 4.58368 5.21584 4.68736 3.56860 4.76480 5.25429 1.45594 4.57981 1.43708 3.35011 4.86594 4.98645 4.73869 4.69988 4.14370 3.57165 1.23932 5.59495 4.46070 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 4 3.44428 4.72295 5.23688 4.66977 2.25032 4.73947 4.97912 1.54603 4.52977 1.03913 3.00884 4.82641 4.90442 4.54190 4.56173 4.09483 3.66210 2.36002 5.18674 4.03729 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 5 2.71008 5.15080 2.37878 2.37955 4.47420 3.44544 3.02321 3.93950 2.13902 3.44109 4.20530 2.92250 2.29287 2.76299 2.53749 2.67918 2.94174 3.53233 5.58870 4.19998 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 6 3.10666 5.29534 3.46524 2.82581 4.64840 3.75911 2.54123 4.08358 2.06261 3.52641 4.37364 3.26090 4.12399 2.38632 1.23099 3.09209 3.28013 3.74987 5.55902 4.33019 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 7 3.37557 4.62777 5.24682 4.71890 3.52885 4.81111 5.29047 1.10951 4.60702 1.43703 3.30311 4.90975 5.01'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 285 3.00349 5.43201 2.60511 1.54427 4.74745 3.47305 3.82928 4.23122 2.57775 3.71849 4.55212 2.95593 4.00086 1.49530 3.00065 2.93645 3.25546 3.83830 5.84877 4.45358 341 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 286 2.72402 5.14462 2.28365 2.36249 4.45054 2.87384 3.68152 3.91359 2.19058 2.77014 4.21114 2.05197 3.86424 2.80178 2.95281 2.69469 2.96273 3.51726 5.60514 4.20880 342 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 287 3.03768 5.56392 1.30009 2.27937 4.95639 2.09566 3.92793 4.48756 2.93763 3.97755 4.81019 2.10874 3.98713 3.09007 3.53275 2.94249 3.34038 4.03033 6.12993 4.62882 343 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 288 2.67989 4.35253 3.00871 3.05258 3.48899 3.67990 3.95130 2.22182 3.00621 1.83331 3.45050 2.87991 4.05945 3.30391 3.34466 2.93754 2.91420 2.17070 4.96973 3.73906 344 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 289 4.12350 5.23157 5.02957 4.82190 1.50795 4.75059 3.62119 3.75807 4.64168 3.00679 4.32668 4.37058 5.03963 4.48345 4.58118 4.14551 4.33741 3.69937 3.72394 0.70716 345 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 290 2.86803 4.63459 3.63011 3.04175 3.59650 3.74288 3.01832 3.11948 2.57294 1.39874 3.68554 3.42759 4.12030 3.16125 2.32648 3.04277 3.08621 2.91995 5.02816 3.72294 346 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 291 3.00732 1.97519 4.81474 4.25217 3.45206 4.27653 4.69961 1.69082 4.11224 1.76633 3.34018 4.37872 4.60007 4.29667 4.22575 3.61411 3.25231 1.67174 5.20175 4.02713 347 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02003 4.31641 5.03876 0.61958 0.77255 0.48576 0.95510\n- 292 2.82161 5.08411 3.18824 2.60503 4.46174 3.56583 3.69721 3.86962 1.88432 3.38630 4.19313 3.09436 3.96156 2.82418 1.71703 2.27397 2.54879 3.50804 5.52757 4.23325 348 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01353 4.30991 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,896 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5f_I-F_3\n-LENG 291\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:09 2020\n-NSEQ 26\n-EFFN 2.421631\n-CKSUM 1023784980\n-GA 59.8 59.4;\n-STATS LOCAL MSV -10.7756 0.70153\n-STATS LOCAL VITERBI -11.6899 0.70153\n-STATS LOCAL FORWARD -5.2460 0.70153\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46437 4.36691 3.09784 2.65608 3.38333 2.90176 3.53392 2.83673 2.72877 2.37216 3.70572 3.08101 3.27566 2.98631 2.93689 2.63108 2.82473 2.70737 4.33857 3.54923\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.00000 *\n- 1 2.75860 4.86712 5.40759 4.86144 3.60228 4.87880 5.30910 1.53070 4.71159 0.81535 3.39879 5.01171 5.11634 4.81365 4.78094 4.24738 3.80945 2.34763 5.61695 4.53196 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 2 3.07896 4.42995 4.96003 4.36909 3.46403 4.30268 4.65651 1.82940 4.19344 1.28573 3.40497 4.42913 4.63126 4.33686 4.24647 3.62425 3.00117 1.57793 5.13191 3.10021 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 3 4.00916 5.21753 5.91765 5.34358 2.27010 5.37770 5.57764 1.82008 5.20528 0.63423 3.17992 5.51709 5.40132 5.05148 5.13902 4.76779 4.20979 2.83002 5.57572 4.52055 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 4 2.89212 5.36566 2.49160 2.52819 4.69972 3.60452 3.54165 4.17288 2.29719 3.65954 4.41859 2.69925 1.53646 2.93130 2.49971 2.85238 3.12511 3.75264 5.79599 4.39742 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 5 2.82353 5.23518 3.11423 2.55128 4.55403 3.60418 2.06492 4.00979 2.29732 3.52139 4.28606 2.56827 3.99420 2.77912 2.07237 2.53032 2.64246 3.61254 4.43082 4.30066 5 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 6 3.80529 5.00955 5.81118 5.28648 3.71542 5.31204 5.79533 1.07143 5.18191 1.04235 3.45708 5.46527 5.42817 5.21064 5.22308 4.72305 4.03892 1.95199 5.90700 4.86247 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 7 2.90325 5.37009 2.89470 2.30355 4.73295 3.64467 3.02502 4.19577 1.97768 3.65965 4.41583 3.11429 4.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12296 4.76347 2.23335 0.61958 0.77255 0.48576 0.95510\n- 284 2.54554 5.31274 2.31271 1.91452 4.65298 2.95809 3.74453 4.14151 2.18012 3.61594 4.35752 2.47157 2.93123 2.58310 2.99775 2.75111 3.02945 3.70133 5.74542 4.32746 373 e - - -\n- 2.68632 4.42239 2.77534 2.73100 3.46368 2.40527 3.72508 3.29368 2.67737 2.69309 4.24590 2.90339 2.73754 3.18160 2.89815 2.37879 2.77507 2.98532 4.58491 3.61517\n- 0.39919 1.73571 1.87823 0.97478 0.47365 0.69222 0.69407\n- 285 2.70465 5.09759 3.00297 2.36375 4.40009 3.04525 3.68295 3.85385 1.93693 3.15417 3.32656 2.55777 3.88686 2.66472 2.40156 2.56535 2.93487 3.46534 5.55455 3.47375 380 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49430 5.21664 0.61958 0.77255 0.29071 1.37728\n- 286 2.79237 5.18987 2.32227 2.52961 4.50308 2.26904 3.78186 3.96037 2.53980 3.10133 4.25480 2.37850 3.10246 2.89522 3.02487 2.57753 2.53390 3.06030 5.66117 4.27728 381 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 287 2.79680 4.26175 3.84400 3.71405 3.36375 3.54834 4.21187 2.21351 3.01168 1.51493 3.37697 3.59805 4.27509 3.79956 3.75077 3.19479 3.02886 1.84700 3.53772 3.68440 382 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 288 3.96155 5.19932 5.27683 4.91043 2.11476 4.86469 4.08452 3.48197 4.72909 2.42365 4.12977 4.64245 5.15516 4.67119 4.71533 4.21655 4.18069 2.78881 4.22714 0.62802 383 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 289 2.99225 4.90120 3.63321 3.02080 4.03524 3.84713 3.58640 3.46781 2.61684 1.39738 3.98320 3.45685 4.21705 2.48397 1.93584 3.10830 3.20484 3.21667 5.35523 3.63636 384 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 290 2.61883 1.83475 4.25470 3.66776 3.37802 3.89600 4.20025 2.31540 3.54713 2.21959 3.38917 3.87662 3.01698 3.76882 3.09162 2.68269 3.02766 2.39566 4.05155 3.69361 385 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76347 5.48582 0.61958 0.77255 0.48576 0.95510\n- 291 2.80388 4.38322 3.11792 2.55716 4.46213 3.59820 3.30886 3.26059 2.03914 3.44720 4.22314 3.09117 3.98873 2.55968 1.97295 2.44757 2.29419 3.53096 5.62784 4.25888 386 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00861 4.75932 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5f_I-F_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,902 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5f_I-F_4\n-LENG 293\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:09 2020\n-NSEQ 45\n-EFFN 1.579285\n-CKSUM 556852743\n-GA 40 40;\n-STATS LOCAL MSV -10.8783 0.70148\n-STATS LOCAL VITERBI -11.8692 0.70148\n-STATS LOCAL FORWARD -5.3416 0.70148\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49131 4.41491 3.06044 2.64795 3.38685 2.88206 3.58910 2.86544 2.73654 2.38504 3.62138 3.09469 3.27072 3.00657 2.93139 2.65591 2.82277 2.66659 4.17773 3.54563\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02482 4.46421 4.34290 0.61958 0.77255 0.00000 *\n- 1 3.70714 4.94777 5.51188 4.94685 3.31070 5.08270 5.41103 1.87716 4.81083 0.65283 2.90841 5.17971 5.16302 4.79304 4.84222 4.46499 3.92147 2.30260 5.51333 4.52178 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02675 4.45677 4.21323 0.61958 0.77255 0.49791 0.93598\n- 2 2.75243 4.16175 4.45375 3.55971 3.24056 3.90800 4.23324 1.92379 3.70213 1.63137 2.86721 3.97619 4.26442 3.88215 3.80702 3.21057 2.76572 1.85071 4.80409 3.23467 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01755 4.44756 5.16991 0.61958 0.77255 0.49296 0.94370\n- 3 3.53864 4.80611 5.39504 4.81779 2.42526 4.85772 5.15324 1.80213 4.67870 0.84758 3.05735 4.97441 5.00529 4.66397 4.68914 4.21645 3.75460 2.21397 5.33604 4.27175 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01741 4.45507 5.17741 0.61958 0.77255 0.47656 0.97000\n- 4 2.76010 5.16405 2.73699 2.45380 4.48399 3.50594 3.40535 3.93856 2.17467 3.45219 4.22456 2.99091 1.86456 2.81922 2.45250 2.54989 2.99066 3.54439 5.60873 4.23362 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01725 4.46421 5.18655 0.61958 0.77255 0.48576 0.95510\n- 5 2.75792 5.14890 3.04821 2.48449 4.47311 3.40689 2.15684 3.92023 2.21192 3.42936 4.20192 2.72404 3.91782 2.59442 2.17770 2.73886 2.61994 3.53010 5.57866 3.96353 5 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01725 4.46421 5.18655 0.61958 0.77255 0.48576 0.95510\n- 6 3.50652 4.76319 5.40179 4.83725 3.38657 4.88004 5.25748 1.46135 4.70879 1.03643 2.61270 5.00171 5.04191 4.73852 4.74570 4.24679 3.73084 1.90822 5.47170 4.42785 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01725 4.46421 5.18655 0.61958 0.77255 0.48576 0.95510\n- 7 2.70134 4.62636 2.98344 2.22686 4.45342 3.48387 3.01222 3.77893 2.09579 3.42437 3.88014 2.89366 3.87526 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09661 4.45176 2.52031 0.61958 0.77255 0.50597 0.92362\n- 286 2.45047 5.08663 2.62069 2.09273 4.39392 3.19217 3.57463 3.75027 2.34017 2.94414 4.13851 2.85246 2.60726 2.71169 2.88825 2.58682 2.78618 3.45702 5.54259 4.15426 546 e - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40510 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73717 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.11825 2.24995 5.09639 0.31472 1.30932 0.41075 1.08812\n- 287 2.45038 5.23143 2.24136 1.97872 4.56670 3.25593 3.68052 4.05109 2.32601 3.53275 4.27795 2.82170 3.76644 2.34082 2.93391 2.36928 2.79096 3.61744 5.66793 4.25379 548 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04047 4.46421 3.57020 0.61958 0.77255 0.48576 0.95510\n- 288 2.57431 4.29938 2.53925 2.29410 4.49007 3.45971 3.64845 3.96618 2.21046 3.39311 4.20317 2.41280 3.85328 2.48025 2.43717 2.41551 2.75756 3.54200 5.59938 4.05868 549 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09365 4.44139 2.55598 0.61958 0.77255 0.52231 0.89930\n- 289 2.80984 5.24173 2.54443 2.22486 4.56127 1.88529 3.75788 4.03129 2.58686 3.55275 4.33858 2.17756 3.91216 2.75385 3.09602 2.70849 2.58295 3.62870 5.72543 4.31318 550 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01904 4.36678 5.08912 0.61958 0.77255 0.56955 0.83421\n- 290 2.79349 4.24867 4.28927 3.69832 3.22896 3.90926 4.20363 2.52995 3.53271 1.21078 3.09516 3.89974 4.25890 3.76503 3.32946 3.20413 2.92956 2.03556 4.16916 3.65497 551 l - - -\n- 2.68620 4.42227 2.77522 2.73118 3.46356 2.40515 3.72497 3.29356 2.67736 2.69350 4.24692 2.90349 2.73742 3.18148 2.89803 2.37884 2.77522 2.98512 4.58479 3.61505\n- 0.03892 3.43702 5.11369 0.93896 0.49599 0.42280 1.06482\n- 291 4.20560 5.44980 4.76620 4.63648 2.56960 4.56186 4.05916 4.15272 4.48503 3.44454 4.76634 4.52541 5.03541 4.63430 4.53051 4.26713 4.50239 4.05401 4.22407 0.36245 557 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01725 4.46421 5.18655 0.61958 0.77255 0.48576 0.95510\n- 292 2.86543 4.53702 3.81540 3.22056 3.37147 3.83098 3.85851 2.90392 2.91117 1.37165 3.50729 3.58686 4.19732 3.36870 2.02890 3.10827 3.09145 2.63309 5.02260 3.76501 558 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01725 4.46421 5.18655 0.61958 0.77255 0.48576 0.95510\n- 293 2.68184 1.79047 4.11343 3.53321 3.29598 3.41335 4.09665 2.44558 3.41470 2.14006 3.30873 3.75037 4.15040 3.64679 3.60947 2.63564 2.92266 2.36627 4.80475 3.24773 559 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01165 4.45860 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5u_I-G_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5u_I-G_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1277 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5u_I-U_1\n-LENG 418\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:09 2020\n-NSEQ 5\n-EFFN 0.883789\n-CKSUM 2000111863\n-GA 300 300;\n-STATS LOCAL MSV -11.4082 0.69899\n-STATS LOCAL VITERBI -12.4280 0.69899\n-STATS LOCAL FORWARD -5.8050 0.69899\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36562 4.50896 2.95232 2.76085 3.39627 2.78014 3.64599 2.89826 2.76248 2.48310 3.77408 3.16953 3.06206 3.16392 2.75061 2.68450 2.87370 2.62950 4.35526 3.55218\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.00000 *\n- 1 2.35706 4.35980 3.22622 2.94535 4.42772 1.57575 4.14361 3.87922 3.07955 3.51689 4.32635 3.23422 2.34792 3.36890 3.45511 1.93349 2.81485 3.33023 5.72512 4.47063 1 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 2 2.03052 4.32401 3.59915 3.03709 3.50712 3.61445 3.93573 2.19184 2.92600 2.49442 3.45043 3.41575 4.01828 3.26879 2.61258 2.88897 2.88373 2.11744 4.99178 3.76381 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 3 2.70748 4.55444 3.40980 2.85362 3.70026 3.57036 3.80978 3.05767 2.55481 1.76155 3.63751 3.27210 2.94778 3.05806 2.28468 2.86193 2.94930 2.84194 5.10486 3.85411 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 4 2.72213 4.91398 2.64403 1.92042 4.43125 3.28619 3.84970 3.87743 2.70909 3.48006 4.32502 2.95509 3.87294 3.02812 3.15233 1.39354 3.04795 3.47933 5.67301 4.30995 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 5 1.82377 4.22835 3.61803 3.23289 4.06176 1.61951 4.21985 3.25745 3.22523 3.10506 3.99670 3.41644 3.81985 3.51895 3.53742 2.55037 2.79124 2.16059 5.47879 4.26347 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 6 1.70698 4.24345 3.60253 3.12637 3.91250 3.19579 4.09375 3.17294 3.08684 2.96822 3.84556 3.37192 3.82848 3.38722 3.42210 2.01535 2.17355 2.26102 5.32491 4.10271 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 7 2.65582 4.80050 2.90171 2.55307 4.33512 2.40448 3.80169 3.76300 2.12687 3.34966 4.17658 3.03067 1.919'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 411 2.14843 4.85917 2.00184 2.42712 4.51979 1.70941 3.88393 3.96487 2.82427 3.56093 4.38375 2.93298 3.83673 3.05910 3.32486 2.68460 3.00865 3.51717 5.76385 4.38902 501 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 412 3.00952 4.75228 3.73428 3.66936 4.79251 0.42823 4.76697 4.46061 3.88449 4.08049 5.06354 3.89959 4.15091 4.18917 4.08592 3.18982 3.51029 3.94016 5.81370 4.90545 502 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 413 3.31230 5.11891 3.83080 3.29818 4.53870 3.74198 4.03898 4.10451 2.38211 3.57475 4.57469 3.63524 4.23805 3.25234 0.65358 3.38830 3.56473 3.81908 5.52281 4.41830 503 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 414 3.63542 4.89282 4.64810 4.28887 1.53120 4.41032 2.29529 3.47787 4.14051 2.87549 4.05417 4.07307 4.71485 4.12111 4.19546 3.74952 3.84931 3.34369 1.91760 1.56649 504 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 415 2.82386 4.49933 3.68676 3.12402 2.99990 3.74374 3.77166 2.94653 2.82813 2.06297 3.55498 3.46625 4.11603 3.27431 2.49645 3.02981 3.05024 2.76313 4.55882 1.83448 505 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 416 3.00952 4.75228 3.73428 3.66936 4.79251 0.42823 4.76697 4.46061 3.88449 4.08049 5.06354 3.89959 4.15091 4.18917 4.08592 3.18982 3.51029 3.94016 5.81370 4.90545 506 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 417 3.45020 4.84197 4.59335 4.24168 3.25139 4.29934 4.81919 2.47633 4.00723 0.61709 3.20858 4.49286 4.69601 4.31433 4.13903 3.91106 3.73553 2.57773 5.21430 3.99335 507 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 418 3.00952 4.75228 3.73428 3.66936 4.79251 0.42823 4.76697 4.46061 3.88449 4.08049 5.06354 3.89959 4.15091 4.18917 4.08592 3.18982 3.51029 3.94016 5.81370 4.90545 508 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01643 4.11657 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5u_I-G_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas5u_I-G_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1511 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas5u_I-U_2\n-LENG 496\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:09 2020\n-NSEQ 5\n-EFFN 1.274414\n-CKSUM 4236828398\n-GA 78.6 78.6;\n-STATS LOCAL MSV -11.8034 0.69807\n-STATS LOCAL VITERBI -12.6152 0.69807\n-STATS LOCAL FORWARD -5.5717 0.69807\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48836 4.48204 2.98452 2.72877 3.52751 2.78160 3.68153 2.88356 2.72056 2.44711 3.75992 3.18536 2.97937 3.12382 2.82262 2.63234 2.88822 2.60012 4.20364 3.53156\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.00000 *\n- 1 2.69897 4.68859 3.21816 2.25086 2.63293 3.56236 3.76474 3.23632 1.95198 2.35165 3.75935 3.15416 3.95082 2.97432 2.98621 2.79671 2.92797 2.97653 5.19084 3.89042 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 2 2.90187 4.41160 4.09569 3.54232 2.20094 3.92021 3.89643 2.83789 3.39917 1.85811 3.46771 3.76403 4.27662 3.65039 2.51372 3.20543 3.13026 2.67322 4.41067 1.91091 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 3 2.69476 4.91465 2.28093 2.47700 4.14046 3.47225 2.39678 3.58092 2.51843 2.55509 3.99883 3.00178 3.88959 2.86509 2.98132 2.71833 2.38435 3.25319 5.40633 4.05365 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 4 2.43585 4.35042 3.67267 3.30717 4.27324 1.35881 4.32839 3.62259 3.32263 3.36208 4.21396 3.49239 3.90256 3.61263 3.64467 1.86041 2.89185 2.19786 5.65436 4.43291 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 5 3.02561 5.19695 3.46178 2.81218 4.62519 3.71670 3.73542 3.98350 1.75466 3.46839 4.30921 3.24992 4.09276 2.86698 1.36567 3.02986 2.28647 3.64818 5.56344 4.34717 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 6 3.08808 4.63094 4.06758 3.58442 1.83959 4.00594 3.80271 3.11725 3.50350 2.68545 3.73415 3.79062 1.69297 3.72202 3.74779 3.31227 3.32948 2.94613 4.21635 1.96547 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 7 2.72478 4.99470 2.38560 2.46958 4.06132 3.48835 2.57431 3.68984 2.48326 3.25317 4.06608 2.99649 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 489 3.67366 4.92562 4.89801 4.52478 1.69608 4.55194 3.75981 3.24883 4.35493 1.85366 3.84722 4.30217 4.84285 4.32225 4.37131 3.89983 3.89077 3.20288 3.90946 1.03998 579 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 490 3.33334 5.03837 4.09777 4.06536 5.15196 0.27845 5.13181 4.88809 4.30690 4.47327 5.46984 4.26454 4.44073 4.59568 4.46903 3.52187 3.84875 4.32755 6.10135 5.27758 580 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 491 2.62892 2.66569 4.13584 3.60857 3.44014 3.60653 4.22292 2.67292 3.46680 1.38353 3.44411 3.76570 4.11512 3.72908 3.66681 2.27662 2.94298 2.47322 4.98384 3.77621 581 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 492 3.33334 5.03837 4.09777 4.06536 5.15196 0.27845 5.13181 4.88809 4.30690 4.47327 5.46984 4.26454 4.44073 4.59568 4.46903 3.52187 3.84875 4.32755 6.10135 5.27758 582 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 493 3.58452 4.85000 5.29542 4.76256 3.27093 4.91310 5.25729 1.67290 4.59229 0.75826 3.05336 4.99546 5.05192 4.66765 4.66467 4.30832 3.81128 2.28080 5.43310 4.36676 583 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 494 3.06676 2.50196 4.67344 4.23274 1.00998 4.00098 4.20569 2.78961 4.06967 2.40716 3.59675 4.19343 4.48182 4.20982 4.15555 3.42153 3.37983 2.67454 4.53028 2.97911 584 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 495 2.00058 4.42241 3.68515 3.14932 3.72883 3.58934 4.05499 2.82360 2.96392 2.72320 3.66701 3.49330 4.06700 3.36580 2.45206 2.91067 2.96985 1.53735 5.18565 3.95861 585 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 496 3.47548 5.12919 4.13419 4.05480 4.97267 3.79227 5.07127 4.66664 4.15744 4.22904 5.31352 4.30526 0.29508 4.52989 4.32867 3.66223 3.95576 4.25347 6.00510 5.10665 586 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01335 4.32280 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-A_III-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-A_III-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,761 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I-A_III-D_3\n-LENG 246\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:10 2020\n-NSEQ 12\n-EFFN 1.344727\n-CKSUM 597562039\n-GA 140 140;\n-STATS LOCAL MSV -10.6820 0.70307\n-STATS LOCAL VITERBI -11.6885 0.70307\n-STATS LOCAL FORWARD -5.3573 0.70307\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63403 4.51067 3.10908 2.68988 3.21798 2.75293 3.87021 2.77598 2.60265 2.42785 3.64859 3.12492 3.22177 3.22970 2.92443 2.65778 2.85264 2.46303 4.88526 3.44767\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32890 4.27042 1.32309 0.61958 0.77255 0.00000 *\n- 1 2.75273 4.50311 3.48832 2.98299 3.54767 3.61389 3.88462 2.79572 2.27513 2.40366 1.81528 3.37151 4.03386 3.16544 2.89659 2.95468 3.00106 2.64507 5.05775 3.81621 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.96995 4.69230 0.61958 0.77255 0.78795 0.60656\n- 2 2.68717 4.22982 3.92309 3.37131 3.36603 3.76003 4.13885 1.83244 3.27165 2.02897 3.30422 3.67666 4.15171 3.56109 3.54247 2.44619 2.94222 1.86285 4.97177 3.75472 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.96995 4.69230 0.61958 0.77255 0.78795 0.60656\n- 3 2.27199 4.29255 4.24473 3.69956 3.44666 4.01937 4.44998 1.75483 3.60424 1.92775 3.31412 3.98159 4.37955 3.87699 3.85506 3.34144 3.10070 1.50049 5.18488 3.98625 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.96995 4.69230 0.61958 0.77255 0.60675 0.78772\n- 4 2.04542 3.22292 3.85937 3.30146 3.33380 3.08162 4.00535 2.56222 3.21073 2.38920 2.63942 3.55265 3.99122 3.46926 3.46092 2.85402 2.80834 2.03534 4.83507 3.63316 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08454 4.80689 0.61958 0.77255 0.69326 0.69303\n- 5 2.80138 5.19907 2.61703 1.53860 4.52615 3.37825 3.67215 3.98593 2.39344 3.49310 4.30013 2.33066 3.86271 2.80773 2.44233 2.75651 3.04406 3.59666 5.63603 4.25745 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08454 4.80689 0.61958 0.77255 0.69326 0.69303\n- 6 2.54240 4.26804 3.57587 3.04658 3.54027 3.47766 3.95364 2.48062 2.98497 2.56644 3.49783 3.39062 2.88058 3.29439 3.31402 2.31756 2.83237 1.82394 5.01326 3.78311 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08454 4.80689 0.61958 0.77255 0.69326 0.69303\n- 7 2.64324 4.82984 2.94299 2.15192 3.09625 3.42688 3.64304 3.48844 1.89685 3.08989 3.91468 2.96210 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26137 4.98372 0.61958 0.77255 0.55780 0.84973\n- 239 1.98005 4.18234 3.86545 3.28752 3.27757 3.69457 3.97874 2.30697 3.19132 2.07640 3.27381 3.58195 4.06625 2.97975 3.44325 2.96747 2.86616 2.26478 3.34464 3.57703 313 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10901 4.26137 2.41717 0.61958 0.77255 0.55780 0.84973\n- 240 2.66030 5.08099 2.10530 2.34442 4.39566 3.40534 3.61127 3.85538 2.21069 3.05852 4.13648 2.88607 3.81516 2.38485 2.54740 2.46767 2.89199 3.45685 5.52600 4.14145 314 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02310 4.17546 4.89780 0.61958 0.77255 0.65601 0.73171\n- 241 2.71758 4.63976 3.34949 2.75264 3.84383 3.58532 3.74754 2.73450 2.13874 2.83840 3.72927 3.20178 3.96356 2.95811 2.00169 2.83781 2.93914 2.26591 5.17038 3.91813 315 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12327 4.17546 2.29650 0.61958 0.77255 0.65601 0.73171\n- 242 2.56858 4.68614 2.95150 2.52643 4.10794 2.60619 2.79300 3.53942 2.55640 3.15239 3.97893 3.00600 2.33555 2.91655 2.98347 2.63300 2.57265 3.18355 5.38538 4.06500 316 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02550 4.07768 4.80003 0.61958 0.77255 0.74871 0.64051\n- 243 2.20972 4.37364 3.32512 2.78858 3.11030 2.77621 3.78935 2.96395 2.76303 2.66122 3.54177 3.20878 3.88565 3.07844 3.14454 2.22780 2.80648 2.71108 4.97975 3.08802 317 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02550 4.07768 4.80003 0.61958 0.77255 0.74871 0.64051\n- 244 2.59976 4.52981 3.17879 2.67668 3.00119 3.45480 3.73874 3.12283 2.66318 2.55503 3.68370 2.11969 3.88601 3.00174 3.06688 2.31667 2.85613 2.85806 5.01323 3.65620 318 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14561 4.07768 2.13232 0.61958 0.77255 0.74871 0.64051\n- 245 2.73653 4.89083 3.13100 2.54850 4.11189 3.49790 2.74586 3.57251 2.15064 2.77035 3.96644 3.02604 3.87876 2.30223 2.10543 2.76212 2.94566 3.26013 5.27875 3.97968 319 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02871 3.96077 4.68312 0.61958 0.77255 0.83955 0.56546\n- 246 2.23641 4.54530 3.11644 2.59961 2.87497 3.44567 3.68509 3.11179 2.33688 2.77128 3.64963 3.07065 3.85232 2.45584 2.90921 2.70276 2.82902 2.85075 5.07666 3.78396 320 a - - -\n- 2.68596 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29310 2.67745 2.69359 4.24694 2.90334 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.40023 1.10917 * 0.19908 1.71192 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-B_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-B_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,728 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_III-B_I-B_1\n-LENG 235\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:10 2020\n-NSEQ 13\n-EFFN 0.974365\n-CKSUM 1125870514\n-GA 90 90;\n-STATS LOCAL MSV -10.2768 0.70354\n-STATS LOCAL VITERBI -11.4516 0.70354\n-STATS LOCAL FORWARD -5.2060 0.70354\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73140 4.33952 3.00374 2.65488 3.22119 3.14135 3.77672 2.58319 2.45671 2.39118 3.57397 2.92604 3.60973 3.10097 3.03563 2.74811 2.88359 2.63873 4.75288 3.18699\n- 2.68625 4.42232 2.77516 2.73109 3.46360 2.40519 3.72501 3.29361 2.67747 2.69342 4.24606 2.90341 2.73746 3.18153 2.89794 2.37885 2.77526 2.98525 4.58483 3.61510\n- 0.28039 1.60255 3.14362 0.67052 0.71630 0.00000 *\n- 1 2.70687 4.31402 3.77580 3.22050 3.34405 3.72577 4.02405 2.54520 3.10213 2.01395 1.91395 2.92707 4.10693 3.41815 3.38888 3.00927 2.94862 2.25431 4.91815 3.69475 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13949 4.86183 0.61958 0.77255 0.52893 0.88974\n- 2 2.62677 3.95095 2.65564 2.01243 4.37728 3.38670 3.27391 3.84205 2.08308 3.35296 4.11405 2.53868 3.79107 2.55299 2.82046 2.60064 2.85897 3.43743 5.51073 4.11866 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13949 4.86183 0.61958 0.77255 0.52893 0.88974\n- 3 2.63553 4.12325 4.02101 3.44450 2.63060 3.72928 3.99648 1.94510 3.33390 2.25681 3.21723 3.02626 4.09585 3.56511 3.53730 3.01493 2.86854 1.98003 4.67399 3.02181 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13949 4.86183 0.61958 0.77255 0.52893 0.88974\n- 4 3.41270 4.79684 4.34342 3.95001 1.52160 4.23162 3.56075 3.33910 3.84108 2.80652 3.94078 3.12948 4.57422 3.94247 3.98747 3.56580 3.64124 3.18903 3.77819 1.14609 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13949 4.86183 0.61958 0.77255 0.52893 0.88974\n- 5 2.92316 5.45753 2.16765 1.23397 4.74842 3.32233 3.76626 4.25011 2.67190 3.74224 4.56297 2.78209 3.88965 2.39052 3.20499 2.83046 3.18993 3.83131 5.89558 4.43045 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13949 4.86183 0.61958 0.77255 0.52893 0.88974\n- 6 2.98497 3.02721 4.68873 4.12634 3.29592 4.21487 4.61547 1.62917 3.97995 1.32291 3.17099 4.29149 4.53040 4.16603 4.11052 3.55217 3.22953 1.95967 5.10948 3.94736 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13949 4.86183 0.61958 0.77255 0.45969 0.99827\n- 7 2.66125 5.01959 2.74823 2.39631 4.32448 3.43374 3.61219 3.76662 2.09304 3.29767 3.31329 2.35571 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17581 4.89815 0.61958 0.77255 0.48576 0.95510\n- 228 3.86805 5.03856 4.85395 4.59193 0.94774 4.57376 3.55203 3.50880 4.42196 2.79869 4.09159 4.23379 4.87022 4.31883 4.39918 3.95524 4.08577 3.44689 3.66961 1.31874 230 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17581 4.89815 0.61958 0.77255 0.48576 0.95510\n- 229 2.84699 2.09266 4.52577 3.95900 3.35455 4.04603 4.45876 1.95441 3.82488 2.14540 2.68945 4.11803 4.40057 4.03161 3.97161 3.37194 3.09552 1.58984 5.03708 3.85603 231 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09930 4.17581 2.53625 0.61958 0.77255 0.48576 0.95510\n- 230 2.75317 4.69643 3.09069 2.75395 3.72304 3.46972 3.87277 3.21222 2.72666 2.10042 3.90147 1.60044 3.98153 3.14163 3.07884 2.86322 3.04658 2.97532 5.18183 3.78775 232 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10140 4.82375 0.61958 0.77255 0.57073 0.83267\n- 231 3.59434 4.98984 4.18437 3.96204 2.34005 4.10322 3.75023 3.57366 3.81343 2.96692 4.22573 4.01690 4.57419 4.06321 3.94766 3.70587 3.88352 3.45573 3.99070 0.65609 233 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10140 4.82375 0.61958 0.77255 0.43608 1.04006\n- 232 3.02901 5.26055 3.16193 2.67297 4.66375 3.62732 3.69392 4.06520 1.37293 3.51375 4.36548 3.13700 4.03936 1.75141 2.34210 3.00395 3.22394 3.71939 5.57910 4.33861 234 k - - -\n- 2.68604 4.42230 2.77512 2.73128 3.46359 2.40518 3.72499 3.29359 2.67746 2.69360 4.24695 2.90335 2.73724 3.18151 2.89806 2.37883 2.77524 2.98523 4.58482 3.61508\n- 0.26413 1.49313 4.89815 0.40036 1.10890 0.48576 0.95510\n- 233 2.67040 4.46090 3.02403 2.85327 2.79485 3.60036 3.74962 2.98769 2.60725 2.66330 3.56323 2.96973 3.98083 3.12689 3.19144 2.84165 2.90143 2.75399 3.84298 2.07575 237 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17486 4.17581 1.93058 0.61958 0.77255 0.48576 0.95510\n- 234 3.12830 4.44177 4.79814 4.26396 3.41758 4.47103 4.91889 1.60250 4.14987 1.57212 3.22395 4.50092 4.73381 4.36645 4.33042 3.82979 3.37455 1.25471 5.38856 4.22671 238 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17079 4.02777 1.97195 0.61958 0.77255 0.64292 0.74603\n- 235 2.86286 5.10514 2.74087 2.06284 4.46408 3.40619 3.62572 3.85512 1.46836 3.38036 4.23985 2.92538 3.87971 2.77471 2.46950 2.83731 3.08865 3.51545 5.50415 4.21683 239 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02091 3.87789 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-B_III_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-B_III_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,587 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_8\n-LENG 188\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:11 2020\n-NSEQ 7\n-EFFN 0.939941\n-CKSUM 852924643\n-GA 130 130;\n-STATS LOCAL MSV -10.1361 0.70611\n-STATS LOCAL VITERBI -11.0541 0.70611\n-STATS LOCAL FORWARD -4.4262 0.70611\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54381 4.26267 3.11071 2.78831 3.32882 2.67813 3.72047 2.72558 2.79519 2.17994 3.63231 3.28208 3.22955 3.09502 2.84530 2.72362 2.92738 2.55132 5.13440 3.77959\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.00000 *\n- 1 3.17301 4.46731 4.95564 4.40445 3.39635 4.52873 4.94804 1.36281 4.29088 1.69337 2.59119 4.59531 4.77158 4.44806 4.41827 3.88075 3.41026 1.46028 5.35160 4.22507 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 2 3.11344 5.70769 0.97987 1.83578 4.99365 3.29830 3.90207 4.53358 2.98431 4.03226 4.91612 2.76491 3.95333 3.08111 3.61351 2.97676 3.41706 4.09951 6.17179 4.64552 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 3 3.49020 4.87361 4.64509 4.29561 3.26962 4.33985 4.86340 2.49809 4.06105 0.59032 3.22028 4.54386 4.73225 4.36003 4.18673 3.95868 3.77473 2.60745 5.24193 4.02774 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 4 2.61688 4.51546 3.24568 2.70007 3.69610 3.51234 3.75793 3.04101 2.63918 2.17549 3.61853 2.74011 3.90869 2.50195 3.03129 2.75524 2.54271 2.44115 5.08395 3.81597 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 5 3.74663 4.97201 4.75267 4.45933 0.81484 4.49549 3.59379 3.35531 4.29816 2.65533 3.95441 4.19839 4.80593 4.25667 4.31472 3.88018 3.97272 3.30944 3.72777 1.71937 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 6 2.71655 4.93708 2.67340 1.98691 4.40693 3.31727 3.80844 3.84653 2.65437 3.43210 4.26057 2.94539 1.77975 2.97512 3.10924 2.33144 3.02033 3.45731 5.63832 4.27756 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 7 3.16839 4.52210 4.77414 4.27318 3.43850 4.41735 4.91536 1.95433 4.11941 1.44499 3.28121 4.49'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 181 3.31551 4.64304 4.91788 4.34815 3.15614 4.57513 4.88308 1.85334 4.20230 1.30308 1.55981 4.59476 4.76678 4.31742 4.31916 3.91756 3.53711 2.26082 5.21209 4.14537 194 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 182 3.05818 4.79556 3.78933 3.72944 4.84785 0.40016 4.82287 4.52598 3.94882 4.14087 5.12568 3.95488 4.19496 4.25103 4.14465 3.23972 3.56137 3.99923 5.85834 4.96261 195 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 183 2.95500 0.50991 4.52519 4.33647 4.27491 3.50933 4.92235 3.47661 4.16931 3.37398 4.50770 4.24960 4.23720 4.50397 4.23969 3.22582 3.44625 3.19916 5.61873 4.55783 196 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 184 3.05818 4.79556 3.78933 3.72944 4.84785 0.40016 4.82287 4.52598 3.94882 4.14087 5.12568 3.95488 4.19496 4.25103 4.14465 3.23972 3.56137 3.99923 5.85834 4.96261 197 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 185 3.20954 4.52234 4.95196 4.38126 2.46883 4.48887 4.80335 1.76070 4.25305 1.16654 3.00189 4.55721 4.71001 4.33860 4.33541 3.82903 3.43485 1.86974 5.13341 4.01115 198 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 186 3.64420 4.96506 4.63098 4.40782 0.64062 4.24937 4.03728 3.14306 4.31029 2.45099 3.83589 4.35220 4.70780 4.40153 4.35918 3.89335 3.94864 3.15326 4.21774 2.55558 199 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 187 2.96739 4.36321 4.54077 3.95764 3.09029 4.13598 4.40687 1.93731 3.81642 1.25394 2.52679 4.14936 4.42758 3.97404 3.94595 3.44531 3.19273 2.32276 4.88878 2.87078 200 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15660 4.87895 0.61958 0.77255 0.48576 0.95510\n- 188 2.62880 4.54497 3.37002 3.20067 4.58590 2.24351 4.39419 4.09412 3.36892 3.73727 4.61095 3.47951 0.91675 3.68100 3.68011 2.78363 3.10145 3.56744 5.79495 4.65866 201 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01591 4.14897 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,857 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I-D_2\n-LENG 278\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:10 2020\n-NSEQ 6\n-EFFN 0.565430\n-CKSUM 580446691\n-GA 300 300;\n-STATS LOCAL MSV -11.0022 0.70191\n-STATS LOCAL VITERBI -11.7532 0.70191\n-STATS LOCAL FORWARD -5.0877 0.70191\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64222 4.58823 3.07995 2.74029 3.03908 2.91424 3.84131 2.66094 2.59846 2.42549 3.66203 3.12669 3.21570 3.25877 2.91705 2.77649 2.91464 2.48346 4.63486 3.21947\n- 2.68629 4.42236 2.77512 2.73117 3.46365 2.40524 3.72505 3.29365 2.67720 2.69366 4.24548 2.90338 2.73750 3.18157 2.89811 2.37898 2.77513 2.98486 4.58488 3.61514\n- 0.28883 1.73729 2.59208 1.30735 0.31544 0.00000 *\n- 1 2.83201 4.39515 3.83680 3.32837 2.71330 3.79104 3.80992 2.61294 3.15967 2.11622 2.39322 3.60582 4.16304 3.47422 3.40725 3.10598 3.07314 2.51914 4.37158 1.95421 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85219 4.57454 0.61958 0.77255 0.54633 0.86529\n- 2 2.68158 4.76994 2.89832 2.53395 4.20284 3.31783 3.69144 3.61059 1.77708 3.20304 4.07679 2.99893 2.25850 2.86789 2.63616 2.72951 2.96275 3.27267 5.37933 4.10623 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85219 4.57454 0.61958 0.77255 0.54633 0.86529\n- 3 3.13274 4.60115 4.15684 3.79683 3.12837 3.95620 4.45894 2.33158 3.56477 0.90057 3.15808 4.07425 4.39521 3.93796 3.74406 3.52504 3.42801 2.36361 5.00007 3.71863 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85219 4.57454 0.61958 0.77255 0.54633 0.86529\n- 4 2.97863 4.35657 4.52008 4.02586 3.44996 4.22280 4.77711 1.45063 3.90111 1.97908 3.28268 4.27450 4.57538 4.18938 4.12419 3.60308 3.25281 1.27037 5.37743 4.16161 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85219 4.57454 0.61958 0.77255 0.54633 0.86529\n- 5 2.95117 5.00939 3.34539 2.74053 4.41481 3.56919 3.58278 3.78408 1.68119 3.27394 4.16117 3.14254 3.96420 2.73233 1.43590 2.96920 3.13814 3.48026 5.35089 4.16788 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85219 4.57454 0.61958 0.77255 0.54633 0.86529\n- 6 3.10250 4.47201 4.53965 4.02642 3.19207 4.32143 4.69189 1.42990 3.84913 1.39445 3.05173 4.30342 4.60132 4.11628 4.04313 3.69128 3.35092 1.87120 5.17969 3.97706 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85219 4.57454 0.61958 0.77255 0.54633 0.86529\n- 7 2.70103 4.76211 3.03034 2.60709 4.20551 3.36710 3.67634 3.50375 1.51839 3.14919 4.04471 3.04689 3.85777 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 271 3.31832 4.70621 4.30337 4.02674 0.93760 3.99723 3.89812 2.83610 3.93256 2.19524 3.55923 4.07231 4.45469 4.08752 4.04064 3.58589 3.61944 2.83027 4.13306 2.49410 277 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 272 2.19604 4.23818 3.99134 3.60249 3.68732 3.53005 4.46427 2.14176 3.51056 2.42017 3.58031 3.77745 4.12691 3.83639 3.75903 2.95801 2.97974 1.23172 5.38623 4.15751 278 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 273 2.84267 5.15250 2.62387 1.73295 4.49508 3.37027 3.64034 3.90892 1.70294 3.43069 4.27661 2.87315 3.86113 2.78712 2.60829 2.80341 3.07793 3.55228 5.56414 4.23797 279 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 274 3.08081 4.45166 4.57238 4.04771 3.26429 4.31141 4.71930 1.24268 3.88173 1.73653 2.61870 4.31247 4.60157 4.14044 4.07392 3.67286 3.33085 1.85983 5.23175 4.06072 280 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 275 2.73996 4.81560 3.06841 2.63091 4.26676 3.40338 3.69063 3.57163 1.42178 3.20127 4.09098 3.07138 3.88703 2.85596 2.48321 2.79258 2.50373 3.25370 5.40576 4.15131 281 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 276 2.16921 4.20064 3.58027 3.13584 2.01799 3.35885 3.92914 2.78243 3.09404 2.52566 3.50229 3.40252 3.90018 3.38188 3.38400 2.35484 2.81318 2.55020 4.80395 3.43869 282 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02993 3.91964 4.64199 0.61958 0.77255 0.48576 0.95510\n- 277 2.74173 5.14923 1.85029 2.19809 4.48899 2.77226 3.65928 3.95889 1.97399 3.48816 4.30217 2.75631 3.78866 2.80645 2.99780 2.69165 3.00771 3.56038 5.65453 4.24228 283 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19169 3.91964 1.86700 0.61958 0.77255 0.48576 0.95510\n- 278 2.19931 4.49053 2.82408 2.22997 3.98382 3.18553 3.75337 3.21998 2.59667 2.98590 3.87540 2.96834 3.74650 2.96201 2.98502 2.58402 2.19149 2.90542 5.31923 4.02860 284 t - - -\n- 2.68621 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29332 2.67744 2.69358 4.24693 2.90333 2.73743 3.18128 2.89804 2.37880 2.77523 2.98522 4.58480 3.61507\n- 0.19893 1.71262 * 0.66035 0.72706 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_III-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_III-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,827 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_III-D_4\n-LENG 268\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:10 2020\n-NSEQ 9\n-EFFN 0.610840\n-CKSUM 2938348994\n-GA 46 46;\n-STATS LOCAL MSV -10.7335 0.70220\n-STATS LOCAL VITERBI -11.6767 0.70220\n-STATS LOCAL FORWARD -5.4226 0.70220\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.35264 4.46183 2.93534 2.80365 3.45792 2.70418 3.71047 2.90636 2.89036 2.41501 3.62156 3.27385 3.20188 3.22290 2.81031 2.59589 2.75712 2.59059 4.17932 3.75050\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12735 3.95155 2.29906 0.61958 0.77255 0.00000 *\n- 1 2.95655 4.50795 4.03195 3.62430 3.20089 3.82189 4.36324 2.37486 3.39323 1.79814 1.40962 3.90378 4.28251 3.77625 3.60044 3.30389 3.26159 2.37905 5.03945 3.79971 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03192 3.85612 4.57847 0.61958 0.77255 0.57190 0.83116\n- 2 2.73026 4.49016 3.33569 3.17248 4.16881 3.17861 4.25117 3.71015 3.22841 3.33871 4.38796 3.48076 0.85859 3.61770 3.47567 2.89727 3.17057 3.35737 5.35971 4.28930 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03192 3.85612 4.57847 0.61958 0.77255 0.57190 0.83116\n- 3 1.53151 4.09490 3.37649 3.05010 4.10484 2.91099 4.09660 3.40382 3.06370 3.17330 4.02949 3.22695 3.63566 3.37163 3.37597 1.88897 2.28632 2.94316 5.47435 4.25891 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03192 3.85612 4.57847 0.61958 0.77255 0.57190 0.83116\n- 4 2.23235 4.15457 3.29158 2.99578 4.05674 2.96023 4.06310 3.35287 2.99087 3.13522 4.02264 3.21398 3.67149 3.33928 3.29561 1.98784 1.56563 2.92986 5.43829 4.19535 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03192 3.85612 4.57847 0.61958 0.77255 0.57190 0.83116\n- 5 2.44625 4.27367 4.15657 3.66627 3.53545 3.85443 4.48938 1.79105 3.55869 2.19551 3.39375 3.92239 4.30836 3.87121 3.82036 3.22441 3.06730 1.30074 5.30175 4.08200 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03192 3.85612 4.57847 0.61958 0.77255 0.57190 0.83116\n- 6 3.16134 4.54736 4.28330 3.82781 1.54065 4.09203 3.58843 2.79847 3.69211 1.96055 3.43365 3.86438 4.41011 3.81406 3.83732 3.41618 3.38695 2.73895 3.83251 1.80584 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03192 3.85612 4.57847 0.61958 0.77255 0.57190 0.83116\n- 7 2.90066 4.37219 4.26954 3.81490 3.39171 3.98952 4.57465 1.91490 3.64461 1.86422 3.30865 4.06305 4.42190'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02898 3.95155 4.67389 0.61958 0.77255 0.48576 0.95510\n- 261 2.33802 4.26755 4.07170 3.69088 3.69440 3.60661 4.54064 2.09191 3.59252 2.40019 3.58233 3.85935 4.19498 3.92129 3.83198 3.04007 3.03277 1.13274 5.42494 4.19324 261 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02898 3.95155 4.67389 0.61958 0.77255 0.48576 0.95510\n- 262 3.13920 4.48836 4.64183 4.15164 3.31302 4.38400 4.81466 1.14498 3.96711 1.66699 3.17978 4.40596 4.68229 4.25394 4.15569 3.77585 3.39725 1.79759 5.29701 4.07019 262 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02898 3.95155 4.67389 0.61958 0.77255 0.48576 0.95510\n- 263 3.07547 5.21474 0.81096 2.38639 4.60259 3.27139 4.00207 4.20895 3.10137 3.80334 4.78346 2.94662 3.92981 3.24156 3.62810 3.02911 3.41583 3.83982 5.75576 4.46281 263 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02898 3.95155 4.67389 0.61958 0.77255 0.48576 0.95510\n- 264 1.64031 4.14891 3.63538 3.21677 3.80873 3.16080 4.14200 2.82655 3.16564 2.80571 3.75097 3.40901 3.81336 3.47159 3.46016 2.29757 2.74954 1.87301 5.28281 4.06410 264 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02898 3.95155 4.67389 0.61958 0.77255 0.48576 0.95510\n- 265 2.76020 4.33393 3.77812 2.86772 3.52076 3.80620 4.18602 1.99552 3.18600 2.31997 3.42253 3.64709 4.20313 3.53343 3.48898 3.12442 3.01698 1.38911 5.14980 3.91464 265 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02898 3.95155 4.67389 0.61958 0.77255 0.48576 0.95510\n- 266 1.13954 4.19715 3.37519 3.09953 4.15369 2.99753 4.17181 3.43596 3.13402 3.20598 4.11012 3.29721 2.89162 3.45536 3.43662 2.46468 2.75011 3.00560 5.53091 4.31545 266 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02898 3.95155 4.67389 0.61958 0.77255 0.48576 0.95510\n- 267 2.10583 4.49505 2.60617 2.65399 3.76070 3.42389 3.78159 2.88085 2.67621 2.52230 3.66400 3.11683 3.86997 3.00452 3.09294 2.70636 2.83472 2.28613 5.17197 3.88651 267 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23162 3.95155 1.67382 0.61958 0.77255 0.48576 0.95510\n- 268 2.17765 4.54687 2.25501 2.37450 4.22164 2.12009 3.77974 3.62474 2.73089 3.28339 4.13251 2.84582 3.67779 2.98194 3.18949 2.51662 2.82131 3.20792 5.51480 4.18034 268 g - - -\n- 2.68610 4.42229 2.77523 2.73127 3.46357 2.40508 3.72498 3.29358 2.67744 2.69358 4.24693 2.90350 2.73720 3.18150 2.89804 2.37882 2.77523 2.98522 4.58481 3.61507\n- 0.24415 1.52955 * 0.55682 0.85104 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_III-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_III-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,971 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_III-D_5\n-LENG 316\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:10 2020\n-NSEQ 13\n-EFFN 0.587158\n-CKSUM 1644406730\n-GA 300 300;\n-STATS LOCAL MSV -11.2664 0.70086\n-STATS LOCAL VITERBI -11.9593 0.70086\n-STATS LOCAL FORWARD -5.4192 0.70086\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41928 4.44909 2.90720 2.72120 3.46263 2.63883 3.58140 3.00769 2.81148 2.47618 3.79088 3.21231 3.11675 3.16827 2.72981 2.71168 2.81270 2.63962 3.97036 3.75007\n- 2.68621 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24663 2.90350 2.73730 3.18150 2.89804 2.37890 2.77508 2.98495 4.58480 3.61506\n- 0.40383 1.93238 1.67429 0.65958 0.72788 0.00000 *\n- 1 2.82842 4.33916 4.10870 3.59957 3.25299 3.90060 4.38006 2.01519 3.44181 1.82032 2.48853 3.89138 4.29669 3.75919 3.68831 3.25831 3.10756 1.55859 5.10400 3.89495 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 3.73908 4.46143 0.61958 0.77255 0.64531 0.74338\n- 2 2.59149 4.36505 3.18525 3.00950 4.00608 3.06037 4.09395 3.52159 3.05606 3.16144 4.20957 3.32699 1.11829 3.44933 3.31243 2.75611 3.02391 3.18195 5.22499 4.12681 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 3.73908 4.46143 0.61958 0.77255 0.64531 0.74338\n- 3 2.71949 4.63855 3.34905 2.77402 3.77817 3.47103 3.66026 3.15034 2.17924 2.72796 3.31233 3.16972 3.90117 2.86886 1.72034 2.82767 2.96373 2.93679 5.10742 3.83508 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 3.73908 4.46143 0.61958 0.77255 0.64531 0.74338\n- 4 2.86287 4.70118 3.34071 2.88750 4.02181 3.36954 3.74334 3.55861 2.20767 3.09946 4.10849 3.25488 3.88343 2.97505 1.20502 2.95656 3.14118 3.28969 5.16238 3.98338 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 3.73908 4.46143 0.61958 0.77255 0.64531 0.74338\n- 5 3.13007 4.54970 3.89713 3.57385 2.55300 3.58860 3.75380 3.15232 3.30035 2.56815 3.79198 3.75095 4.09672 3.69567 3.45078 3.33467 3.42494 3.03907 1.20464 2.56303 7 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 3.73908 4.46143 0.61958 0.77255 0.64531 0.74338\n- 6 2.35035 4.19316 3.31782 3.07014 3.85854 3.03509 4.09653 2.96991 3.01036 2.83770 3.90176 3.29761 3.73030 3.41350 3.27227 2.55072 1.42116 2.67948 5.30876 4.07679 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 3.73908 4.46143 0.61958 0.77255 0.42866 1.05378\n- 7 2.66003 4.33642 4.23367 3.73287 3.42438 3.97262 4.50736 1.95920 3.59787 1.71600 3.29071 3.99938 4.38'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 309 2.90185 5.38109 1.94008 1.24826 4.67581 3.21542 3.74453 4.16847 2.72610 3.70519 4.56681 2.69968 3.82484 2.91471 3.28289 2.80610 3.18849 3.76780 5.85938 4.39664 312 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 310 3.33825 4.72169 4.32445 4.05088 0.91467 4.01328 3.90549 2.85428 3.95635 2.20996 3.57524 4.08982 4.47051 4.10711 4.06062 3.60494 3.63943 2.84956 4.13613 2.49535 313 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 311 2.70269 4.99019 2.15373 2.11623 4.43376 1.83111 3.74076 3.89137 2.68268 3.46652 4.30229 2.77701 3.78616 2.91372 3.19820 2.48676 3.01134 3.49255 5.67431 4.27173 314 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 312 2.74361 4.51287 3.43020 3.33754 4.47874 0.63878 4.45401 4.09355 3.52732 3.73985 4.71609 3.59446 3.90602 3.84652 3.75652 2.91732 3.22971 3.60979 5.55739 4.58274 315 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 313 1.97537 4.25298 3.49795 3.04728 3.75657 3.26554 4.02839 2.78820 2.96606 2.40534 3.68228 3.34165 3.85492 3.31807 3.28783 2.64405 1.84960 2.53304 5.23580 3.99993 316 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 314 3.22554 4.66928 4.28987 3.93004 3.15985 4.06150 4.56614 2.36736 3.69717 0.80187 3.16334 4.19945 4.48612 4.05054 3.86299 3.63969 3.51696 2.42093 5.06180 3.79956 317 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 315 3.33825 4.72169 4.32445 4.05088 0.91467 4.01328 3.90549 2.85428 3.95635 2.20996 3.57524 4.08982 4.47051 4.10711 4.06062 3.60494 3.63943 2.84956 4.13613 2.49535 318 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93504 4.65738 0.61958 0.77255 0.48576 0.95510\n- 316 3.05711 5.19466 0.83233 2.37485 4.58014 3.25833 3.98664 4.18261 3.08267 3.77983 4.75934 2.93434 3.91555 3.22592 3.60735 3.01244 3.39703 3.81516 5.73657 4.44276 319 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01993 3.92550 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,971 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_III_1\n-LENG 316\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 17\n-EFFN 1.896729\n-CKSUM 1099065928\n-GA 66 66;\n-STATS LOCAL MSV -11.1965 0.70086\n-STATS LOCAL VITERBI -11.8252 0.70086\n-STATS LOCAL FORWARD -5.3569 0.70086\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51861 4.06786 3.17499 2.69754 3.34041 2.72420 3.59727 2.95550 2.73232 2.34615 3.62324 3.20514 3.22431 2.99226 2.76708 2.72592 2.84516 2.72309 4.49331 3.46240\n- 2.68641 4.42249 2.77485 2.73126 3.46341 2.40524 3.72413 3.29378 2.67764 2.69360 4.24361 2.90370 2.73763 3.18140 2.89802 2.37896 2.77516 2.98542 4.58500 3.61449\n- 0.93260 1.06766 1.33690 0.91221 0.51356 0.00000 *\n- 1 2.65426 4.77315 3.09626 2.54196 3.99221 3.49489 3.16038 3.39780 2.30156 2.80407 2.62057 2.48659 2.91433 2.86729 2.93047 2.71077 2.88447 3.09649 5.28420 3.97051 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02058 4.28970 5.01205 0.61958 0.77255 0.76970 0.62204\n- 2 2.06290 4.52701 3.31987 2.76413 3.73111 3.53983 3.81838 2.77592 2.73545 2.78641 3.18992 2.83633 2.59967 3.06386 3.14019 2.78057 2.44004 2.83330 5.12263 3.85693 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33952 5.06186 0.61958 0.77255 0.82963 0.57307\n- 3 2.18988 4.83180 2.77619 2.26137 4.06523 3.48460 3.69314 2.74439 2.32045 2.77542 3.90569 3.02137 3.87637 2.84840 2.96018 2.50673 2.66241 3.15902 5.33982 4.00946 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33952 5.06186 0.61958 0.77255 0.60807 0.78614\n- 4 2.23960 4.25757 3.21089 3.23643 2.49090 3.71271 3.99010 2.72537 3.16188 2.27149 2.59750 3.56183 3.12431 3.43011 3.44278 2.97739 2.66031 2.51873 3.71980 3.64501 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43914 5.16149 0.61958 0.77255 0.46075 0.99645\n- 5 2.54517 4.27963 3.88141 3.30533 2.97566 3.75613 3.43705 2.54127 3.22651 2.28990 2.37075 3.61938 3.41179 3.05425 3.49736 2.34829 2.93926 2.32869 4.87999 3.21854 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54416 5.26651 0.61958 0.77255 0.56235 0.84367\n- 6 2.49193 4.24713 3.96800 3.38896 3.35841 3.77316 3.44426 2.34240 3.29831 1.91389 3.35941 3.67281 2.97240 3.54980 3.54291 2.64072 2.46388 2.30889 3.53196 3.64929 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54416 5.26651 0.61958 0.77255 0.56235 0.84367\n- 7 2.49097 4.93758 2.53263 2.35933 4.18301 3.53614 3.73911 3.60402 2.53279 2.89186 4.00638 3.06055 2.43019 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01523 4.58773 5.31007 0.61958 0.77255 0.48576 0.95510\n- 309 2.58524 5.20673 3.06079 2.49610 4.53847 3.17017 2.66452 3.99629 2.09658 3.49412 4.25580 3.03047 3.94092 1.93396 2.32493 2.75409 3.00501 3.59157 5.63543 3.59967 319 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01523 4.58773 5.31007 0.61958 0.77255 0.48576 0.95510\n- 310 2.82536 4.26603 4.38060 3.79640 3.27494 3.95134 4.23870 2.32482 3.65609 2.00101 3.32853 3.96486 3.46788 3.86124 3.80523 3.24821 3.05849 1.90365 4.84120 1.66400 320 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05948 4.58773 3.04553 0.61958 0.77255 0.48576 0.95510\n- 311 2.54123 5.19277 2.71616 2.23210 4.52564 3.49048 2.94512 3.44780 2.26891 3.09210 4.23683 2.70846 3.88381 2.36228 2.38388 2.51500 2.94385 3.57688 5.63244 4.22972 321 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54416 5.26651 0.61958 0.77255 0.56235 0.84367\n- 312 3.12639 4.45369 4.99825 4.42039 2.89483 4.39632 4.77201 1.42830 4.26630 1.45438 3.32930 4.51362 4.69578 4.40381 4.33368 3.72822 2.74772 1.77011 5.21390 4.06320 322 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54416 5.26651 0.61958 0.77255 0.56235 0.84367\n- 313 2.71041 3.97402 3.18664 2.12111 4.00844 3.56846 3.26975 3.13009 2.61365 3.04442 3.87901 3.13137 3.95641 2.69230 2.56875 2.58683 2.69189 2.38998 5.32317 3.29238 323 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54416 5.26651 0.61958 0.77255 0.56235 0.84367\n- 314 2.17704 4.48069 2.76712 2.94317 3.13765 3.66703 3.91320 2.71241 2.90528 2.47516 3.58124 3.37016 3.37475 3.21576 3.27908 2.65021 2.51798 2.59558 5.05576 2.82836 324 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 4.54416 5.26651 0.61958 0.77255 0.56235 0.84367\n- 315 1.90773 4.94832 2.52681 2.35609 4.19810 3.53524 3.74290 3.61869 2.53569 2.44468 4.01971 3.05961 3.92933 2.88681 2.72844 2.53419 2.94915 2.97523 5.44734 4.10470 325 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24763 4.54416 1.56674 0.61958 0.77255 0.56235 0.84367\n- 316 2.44757 5.10883 2.63029 2.19682 4.42726 3.42795 3.20790 3.89553 2.18496 3.40330 4.15995 2.90618 3.31566 2.73963 2.87356 2.09971 2.61619 3.48577 5.55891 4.16249 326 s - - -\n- 2.68611 4.42275 2.77520 2.73135 3.46404 2.40550 3.72545 3.29368 2.67721 2.69357 4.24668 2.90315 2.73677 3.18168 2.89793 2.37835 2.77550 2.98545 4.58527 3.61508\n- 0.52213 0.89957 * 1.70428 0.20077 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_IV-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_IV-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,799 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME cas6_IV-D_1\n-LENG 259\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:29 2019\n-NSEQ 8\n-EFFN 1.113281\n-CKSUM 1518384217\n-STATS LOCAL MSV -10.6364 0.70259\n-STATS LOCAL VITERBI -11.6513 0.70259\n-STATS LOCAL FORWARD -5.2254 0.70259\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62700 4.40445 3.12039 2.73353 3.08500 2.90402 3.54737 2.67179 2.66276 2.40661 3.54136 3.06540 3.38774 3.15779 3.01619 2.65362 2.87786 2.58493 4.70208 3.32462\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21354 4.24977 1.72588 0.61958 0.77255 0.00000 *\n- 1 3.12848 4.64946 4.25829 3.87007 3.30485 3.97844 4.56143 2.50003 3.62659 1.87435 1.05604 4.12293 4.44354 3.99796 3.80883 3.49555 3.43933 2.52736 5.16862 3.94525 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02590 4.06213 4.78448 0.61958 0.77255 0.69101 0.69529\n- 2 3.18105 4.55255 4.59694 4.22322 3.50863 4.26497 4.91978 0.86973 4.05504 2.06025 3.41898 4.44255 4.68168 4.38633 4.23047 3.78215 3.47838 1.86992 5.43584 4.18784 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02590 4.06213 4.78448 0.61958 0.77255 0.69101 0.69529\n- 3 1.55677 4.84432 1.78172 2.42033 4.41957 3.22511 3.87403 3.78163 2.82128 3.46006 4.32111 2.92906 3.83787 3.05946 3.31318 2.70397 3.01683 3.38951 5.69686 4.32747 3 a - - -\n- 2.68636 4.42243 2.77488 2.73142 3.46372 2.40531 3.72513 3.29372 2.67669 2.69282 4.24708 2.90365 2.73758 3.18165 2.89819 2.37905 2.77538 2.98476 4.58495 3.61521\n- 0.24463 1.56709 4.78448 1.52962 0.24414 0.69101 0.69529\n- 4 2.65179 4.66016 3.00009 2.60070 3.58394 3.41449 3.71929 3.35753 2.64260 2.98839 3.86334 2.26418 3.88581 2.99044 3.05031 2.21255 2.92178 3.06220 5.01731 2.35377 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02590 4.06213 4.78448 0.61958 0.77255 0.69101 0.69529\n- 5 2.54542 4.33004 3.49216 2.99224 3.64854 3.43596 3.96354 2.21492 2.92598 2.62186 3.58433 3.35080 2.41325 3.26292 3.26694 2.76224 2.13912 2.53920 5.12181 3.88322 11 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02590 4.06213 4.78448 0.61958 0.77255 0.69101 0.69529\n- 6 3.13628 4.43905 4.87931 4.38779 3.60410 4.50393 5.09689 1.19842 4.27708 2.09569 3.40342 4.59810 4.81039 4.53781 4.46911 3.89798 3.40293 1.20939 5.58777 4.38402 12 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02590 4.06213 4.78448 0.61958 0.77255 0.69101 0.69529\n- 7 3.29603 4.61101 4.88448 4.35698 3.20914 4.57742 4.93701 1.49340 4.18900 1.07636 3.02416 4.60667 4.79316 4.36755 4.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26633 4.24977 1.51618 0.61958 0.77255 0.48576 0.95510\n- 252 2.70482 4.93548 2.54791 1.70240 4.39459 3.25385 3.77145 3.83901 2.62817 3.43419 4.27799 2.87518 3.82665 2.94403 3.08110 1.73603 3.01429 3.45056 5.62703 4.25255 263 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 4.01072 4.73307 0.61958 0.77255 0.73507 0.65291\n- 253 2.86593 4.65005 3.61408 3.02775 3.61208 3.68508 3.85205 2.96436 2.45316 1.65281 3.60053 3.40626 4.08315 3.10832 1.87473 3.03483 3.09739 2.82902 5.08907 3.82567 264 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 4.01072 4.73307 0.61958 0.77255 0.73507 0.65291\n- 254 2.89230 4.89039 3.31882 2.77809 4.06139 3.59647 3.71899 3.38388 1.31899 2.44014 3.97622 3.20702 4.00868 2.89952 2.44253 2.95760 3.11178 3.15240 5.29996 4.03305 265 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 4.01072 4.73307 0.61958 0.77255 0.73507 0.65291\n- 255 2.81290 4.48009 3.64802 3.12383 2.08879 3.75609 3.85444 2.74683 2.99707 1.94741 3.34690 3.49116 4.12403 2.33259 3.30193 3.03971 3.04602 2.64923 4.62272 3.17293 266 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 4.01072 4.73307 0.61958 0.77255 0.73507 0.65291\n- 256 1.97710 4.31417 3.40784 2.92904 3.48767 3.40406 3.86858 2.89972 2.87304 2.64719 3.56997 3.29056 3.89799 3.20718 3.20947 2.73045 2.41870 2.65186 4.95701 2.34158 267 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 4.01072 4.73307 0.61958 0.77255 0.73507 0.65291\n- 257 2.58781 4.48517 3.14876 2.73170 2.39651 3.39589 3.76356 3.15789 2.76624 2.82919 3.72981 2.17436 3.88399 3.08864 3.15259 2.33863 2.87649 2.88377 4.90913 3.48482 268 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 4.01072 4.73307 0.61958 0.77255 0.73507 0.65291\n- 258 2.84526 4.60513 3.54719 3.46509 4.60134 0.54443 4.57525 4.23621 3.66506 3.87250 4.85065 3.71174 4.00061 3.97843 3.88430 3.02143 3.33727 3.73786 5.65827 4.70851 269 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 4.01072 4.73307 0.61958 0.77255 0.73507 0.65291\n- 259 2.66880 4.70547 2.85205 2.20056 3.78860 2.40844 3.71043 3.34341 2.59441 2.98481 3.85414 2.99957 3.86449 2.93889 3.01234 2.73717 2.92348 3.05598 5.16295 2.40605 270 e - - -\n- 2.68637 4.42244 2.77539 2.73143 3.46333 2.40517 3.72514 3.29373 2.67760 2.69259 4.24709 2.90366 2.73739 3.18133 2.89727 2.37892 2.77539 2.98538 4.58496 3.61522\n- 0.32104 1.29241 * 1.41238 0.27914 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_IV-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_IV-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,787 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME cas6_IV-D_2\n-LENG 255\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:33 2019\n-NSEQ 3\n-EFFN 0.424805\n-CKSUM 2679885176\n-STATS LOCAL MSV -10.8913 0.70274\n-STATS LOCAL VITERBI -11.7807 0.70274\n-STATS LOCAL FORWARD -5.4326 0.70274\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48867 4.20298 2.99926 2.68644 3.27763 2.87188 3.68547 2.65160 2.81304 2.36110 3.60273 3.14121 3.52622 3.15067 2.89995 2.76522 2.87548 2.49420 4.86967 3.42733\n- 2.68606 4.42259 2.77529 2.73110 3.46388 2.40478 3.72335 3.29304 2.67775 2.69389 4.24507 2.90381 2.73750 3.18143 2.89807 2.37887 2.77529 2.98552 4.58511 3.61537\n- 0.16979 1.92797 4.53618 2.47995 0.08746 0.00000 *\n- 1 3.04986 4.51352 4.28066 3.74976 3.04988 4.13960 4.44252 2.16988 3.54014 1.31900 1.96512 4.06310 4.43812 3.83528 3.75153 3.48824 3.29299 2.22447 5.00742 3.82063 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 2 1.10177 4.16502 3.40478 3.19480 3.99556 2.99082 4.22354 3.11247 3.20957 2.99660 4.03602 3.35870 3.72463 3.55645 3.46337 2.51639 2.78975 2.77712 5.42865 4.22264 24 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 3 3.16474 4.67747 3.75264 3.47215 2.29881 3.76257 3.59483 3.18235 3.33135 2.65114 3.86384 3.65289 4.23836 3.65148 3.52662 3.30688 3.45147 3.05030 3.93994 1.06920 25 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 4 2.83681 4.81832 2.86692 2.62218 3.97868 3.32870 3.77948 3.60172 2.44741 3.10979 4.14071 3.08086 3.88222 1.34223 2.73216 2.88770 3.13449 3.33549 5.26185 3.95211 26 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 5 2.90424 4.99977 2.46690 1.11190 4.33903 3.23793 3.82135 3.78132 2.69465 3.40852 4.38650 2.90349 3.84014 3.03913 3.09635 2.89349 3.20849 3.47175 5.52180 4.24551 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 6 3.09063 4.57102 4.09469 3.73558 3.11554 3.90648 4.40975 2.31798 3.50385 0.95102 3.15920 4.01658 4.35282 3.88627 3.68899 3.47237 3.38807 2.33983 4.97224 3.68161 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 7 2.45780 4.49275 2.78324 2.54828 4.10370 3.10150 3.81689 3.49115 2.66081 3.19975 4.08107 1.88102 3.72783 3.03347 3.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 248 2.90424 4.99977 2.46690 1.11190 4.33903 3.23793 3.82135 3.78132 2.69465 3.40852 4.38650 2.90349 3.84014 3.03913 3.09635 2.89349 3.20849 3.47175 5.52180 4.24551 271 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 249 3.09063 4.57102 4.09469 3.73558 3.11554 3.90648 4.40975 2.31798 3.50385 0.95102 3.15920 4.01658 4.35282 3.88627 3.68899 3.47237 3.38807 2.33983 4.97224 3.68161 272 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 250 1.47577 4.09730 3.41029 3.10512 4.00992 2.95565 4.13024 3.08065 3.08639 2.99292 3.94038 3.27472 3.67505 3.42033 3.37525 2.40910 2.08319 2.71747 5.44255 4.22613 273 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 251 2.92029 4.87918 3.09224 2.72633 4.25217 3.41473 3.72996 3.67805 1.12162 3.25662 4.22243 3.15295 3.92022 2.92567 2.42511 2.96684 3.17857 3.38957 5.33193 4.13669 274 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 252 3.09063 4.57102 4.09469 3.73558 3.11554 3.90648 4.40975 2.31798 3.50385 0.95102 3.15920 4.01658 4.35282 3.88627 3.68899 3.47237 3.38807 2.33983 4.97224 3.68161 275 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 253 3.08546 4.53101 4.34157 3.80703 3.03626 4.19461 4.48931 2.15162 3.60164 1.16184 2.24997 4.12011 4.47489 3.88038 3.80633 3.54293 3.32482 2.21905 5.02005 3.84657 276 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 254 2.90424 4.99977 2.46690 1.11190 4.33903 3.23793 3.82135 3.78132 2.69465 3.40852 4.38650 2.90349 3.84014 3.03913 3.09635 2.89349 3.20849 3.47175 5.52180 4.24551 277 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 3.81383 4.53618 0.61958 0.77255 0.48576 0.95510\n- 255 2.92471 4.48328 3.98706 3.57714 3.18470 3.79035 4.32591 2.35456 3.34801 1.78924 1.49520 3.86155 4.25156 3.73435 3.56001 3.26721 3.22937 2.35359 5.01707 3.77306 278 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02255 3.80306 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_IV-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_IV-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,763 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME cas6_IV-E_1\n-LENG 247\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:36 2019\n-NSEQ 2\n-EFFN 0.605469\n-CKSUM 2742656974\n-STATS LOCAL MSV -10.8167 0.70298\n-STATS LOCAL VITERBI -11.5875 0.70298\n-STATS LOCAL FORWARD -5.1549 0.70298\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70368 4.47750 2.89401 2.66812 3.13125 3.01393 3.77071 2.60759 2.51306 2.42483 3.61307 2.92621 3.43532 3.15310 2.94673 2.75958 2.95499 2.73402 4.77106 3.19226\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.00000 *\n- 1 3.02929 4.56640 4.13060 3.73005 3.24196 3.89042 4.44777 2.42513 3.49391 1.82560 1.24069 3.99815 4.35172 3.87101 3.69032 3.38612 3.33622 2.43991 5.09264 3.86088 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 2 3.02454 5.12650 3.43288 2.77681 4.57094 3.63962 3.59588 3.92172 1.39681 3.37283 4.24680 3.17842 4.01245 2.73333 1.55616 3.02384 3.19407 3.60674 5.42097 4.25150 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 3 3.19059 4.53268 4.70200 4.17968 3.19139 4.44148 4.80356 1.46931 4.00872 1.22224 3.02650 4.44401 4.68894 4.23214 4.17744 3.81177 3.43250 1.94258 5.21896 4.05313 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 4 3.05395 4.39140 4.69682 4.20183 3.51568 4.36112 4.92815 1.30979 4.08399 2.02456 3.33082 4.43198 4.68839 4.35611 4.29084 3.74662 3.32312 1.24979 5.47100 4.26399 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 5 2.72227 2.17353 4.21586 3.71463 3.29206 3.70796 4.32521 2.27784 3.52143 1.53108 3.28703 3.88132 4.19625 3.82034 3.71304 3.10593 3.03779 2.15573 4.99879 3.75399 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 6 2.70967 4.30041 3.94049 3.46932 3.52940 3.70550 4.31468 1.58807 3.34323 2.27141 3.43130 3.74596 4.19010 3.68474 3.61116 3.07686 2.03712 1.99908 5.21240 3.98632 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 7 3.35493 4.73469 4.34197 4.07100 0.89606 4.02663 3.91180 2.86958 3.97619 2.22240 3.58876 4.10443 4.48370 4.12347 4.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 240 2.90084 5.10521 2.99225 2.55172 4.46463 3.50011 3.61666 3.87736 1.57330 3.36155 4.22310 3.02385 3.93014 1.89502 2.32523 2.88678 3.10831 3.54390 5.46123 4.20301 249 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 241 3.08636 4.47071 4.55703 4.01635 3.18799 4.28990 4.65723 1.53166 3.85596 1.64730 1.95731 4.28220 4.56822 4.08451 4.03714 3.63753 3.32842 2.00968 5.15191 4.00984 250 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 242 2.82735 5.25631 1.69042 2.17917 4.53002 3.25161 3.70589 4.05239 2.60262 3.57346 4.41857 2.74601 3.81911 1.89401 3.10989 2.75854 3.10158 3.65938 5.72244 4.28228 251 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 243 2.76092 4.57248 3.40510 2.88122 3.72276 3.60895 3.83391 1.99940 1.83001 2.61046 3.64341 3.29824 4.01832 3.07035 2.78145 2.93488 2.99973 2.56865 5.15858 3.90258 252 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 244 3.02642 5.12577 3.43778 2.78010 4.57032 3.64110 3.59625 3.92069 1.42715 3.37200 4.24659 3.18062 4.01372 2.73393 1.51824 3.02621 3.19565 3.60635 5.42007 4.25156 253 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 245 2.70501 4.80672 2.87532 2.56006 4.34428 1.94860 3.76288 3.77150 1.67819 3.35320 4.20933 3.02452 3.85181 2.93911 2.73675 2.75072 3.00929 3.39595 5.49163 4.22166 254 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26109 3.94783 1.55831 0.61958 0.77255 0.48576 0.95510\n- 246 2.99228 4.50270 3.94465 3.59115 3.08960 3.78406 4.29380 2.29504 3.36006 1.08521 3.17254 3.87994 4.25021 3.76479 3.55774 3.34755 3.29632 2.29209 4.90754 3.59434 255 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03654 3.72328 4.44563 0.61958 0.77255 0.66644 0.72059\n- 247 2.91403 4.38354 4.10824 3.72423 3.28023 3.89167 4.48422 1.28633 3.54859 1.90614 3.24809 3.99046 4.34375 3.91670 3.76246 3.37837 3.21882 1.86404 5.13463 3.85488 256 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02474 3.71148 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,743 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_10\n-LENG 240\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:11 2020\n-NSEQ 8\n-EFFN 1.042969\n-CKSUM 1308282176\n-GA 50 50;\n-STATS LOCAL MSV -10.3035 0.70334\n-STATS LOCAL VITERBI -11.7853 0.70334\n-STATS LOCAL FORWARD -4.6162 0.70334\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67413 4.54018 3.06023 2.65438 2.97158 2.97778 3.72947 2.71478 2.56023 2.38202 3.56387 3.07211 3.46976 3.17495 2.93630 2.68190 2.92380 2.64698 4.93766 3.21127\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.00000 *\n- 1 2.67479 4.38506 3.79882 3.38027 3.55804 3.53590 4.20362 2.82677 3.21927 2.47576 1.30557 3.62979 4.09272 3.59374 3.46941 2.43275 3.02054 2.65250 5.14455 3.88319 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 2 3.43451 5.22172 3.96396 3.41997 4.66570 3.83824 4.13277 4.24380 2.45636 3.69773 4.70053 3.74734 4.33476 3.34633 0.56346 3.50963 3.68386 3.95568 5.61618 4.53211 2 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 3 2.89801 3.00015 4.68908 4.10388 2.34506 4.10586 4.42986 1.69424 3.94408 1.56981 3.11409 4.20253 4.42234 4.08318 4.01877 3.42650 3.13066 2.12453 4.89064 3.70701 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 4 2.45561 5.01712 2.97888 1.79094 4.31810 3.46586 3.63783 3.74478 2.13485 2.84911 4.08174 2.96535 3.86273 2.76372 2.39352 2.69628 2.92580 3.38362 5.46505 4.12260 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 5 3.28198 4.54509 5.10824 4.59184 3.57655 4.71680 5.23287 1.01801 4.48198 1.79432 3.35870 4.79788 4.95218 4.68529 4.63760 4.10194 3.53125 1.49420 5.61391 4.45350 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 6 2.68359 4.83112 3.08613 2.31611 4.09223 3.48831 3.68369 2.86974 2.40021 3.09625 3.92641 3.04120 3.88774 2.84211 1.98684 2.18722 2.91436 3.17401 5.33528 4.02737 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 7 3.48487 4.78242 5.08901 4.56192 3.20034 4.76013 5.09152 1.82775 4.37790 0.76795 3.00218 4.81'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 233 2.94884 4.36851 4.44839 3.86860 3.10189 4.09279 4.34231 2.14218 3.72669 1.65399 1.66478 4.07740 4.39889 3.91128 3.87968 3.39675 3.17537 2.37087 4.86191 2.82374 245 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 234 3.14570 4.87312 3.88794 3.83699 4.94612 0.35531 4.92244 4.64248 4.06377 4.24820 5.23645 4.05391 4.27371 4.36161 4.24923 3.32946 3.65304 4.10466 5.93727 5.06424 246 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 235 3.72773 5.03276 4.71043 4.50153 0.58481 4.31148 4.07802 3.22449 4.40391 2.52058 3.91063 4.42225 4.77124 4.48011 4.43851 3.97111 4.03350 3.23826 4.24846 2.58201 247 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 236 3.14570 4.87312 3.88794 3.83699 4.94612 0.35531 4.92244 4.64248 4.06377 4.24820 5.23645 4.05391 4.27371 4.36161 4.24923 3.32946 3.65304 4.10466 5.93727 5.06424 248 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 237 2.81708 2.87146 4.39240 3.87727 3.37424 3.81649 4.44663 2.44190 3.68306 2.10706 1.31087 4.01531 4.29901 3.95135 3.85169 3.20414 3.12973 2.33979 5.09144 3.89597 249 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 238 3.23778 4.51225 5.04300 4.52291 3.60103 4.65624 5.16818 1.58401 4.41613 1.78131 3.39343 4.72866 4.90942 4.63319 4.58204 4.03361 3.48797 0.99281 5.59466 4.42036 250 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 239 2.74066 5.05442 2.42939 2.42611 4.36871 3.43997 3.69052 3.76626 1.47909 3.34711 4.15936 2.95500 3.88169 2.82497 2.83830 2.73242 2.98129 2.88971 5.53874 4.17999 251 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 240 2.78176 4.33093 3.96512 3.44968 3.44897 3.82813 4.21482 2.33805 3.32852 1.80922 3.42321 3.00455 4.23580 3.64516 3.58890 3.14794 3.04208 1.42673 5.04882 3.80868 252 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01502 4.20580 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,890 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_11\n-LENG 289\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:11 2020\n-NSEQ 4\n-EFFN 0.371094\n-CKSUM 4171879188\n-GA 600 600;\n-STATS LOCAL MSV -10.5848 0.70166\n-STATS LOCAL VITERBI -11.9503 0.70166\n-STATS LOCAL FORWARD -5.1920 0.70166\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62292 4.12680 3.07375 2.76476 3.09963 2.68092 3.74533 2.72468 2.75573 2.35097 3.71764 3.21487 3.30678 3.31357 2.85544 2.63382 2.95747 2.59159 4.82483 3.25062\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 3.13265 4.56593 4.09695 3.79484 1.19557 3.84077 3.84007 2.67221 3.70505 2.06775 3.41987 3.90558 4.30405 3.90230 3.85001 3.40607 3.43498 2.65475 4.12499 2.50708 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 2.80593 4.78222 2.84227 2.59911 3.93602 3.30170 3.75522 3.55431 2.42807 3.06657 4.10101 3.05652 3.85605 1.42836 2.71278 2.85976 3.10475 3.29152 5.22825 3.91616 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 282 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 282 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 283 2.54708 4.32883 3.19946 3.08782 4.22483 0.90597 4.21134 3.80228 3.25469 3.46879 4.44633 3.36461 3.71668 3.58760 3.49902 2.71666 3.02051 3.35076 5.34402 4.32439 283 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 284 3.13265 4.56593 4.09695 3.79484 1.19557 3.84077 3.84007 2.67221 3.70505 2.06775 3.41987 3.90558 4.30405 3.90230 3.85001 3.40607 3.43498 2.65475 4.12499 2.50708 284 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 285 3.13265 4.56593 4.09695 3.79484 1.19557 3.84077 3.84007 2.67221 3.70505 2.06775 3.41987 3.90558 4.30405 3.90230 3.85001 3.40607 3.43498 2.65475 4.12499 2.50708 285 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 286 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.90921 2.98827 1.14741 2.98635 3.17025 3.33055 5.19059 4.01682 286 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 287 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 287 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 288 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.90921 2.98827 1.14741 2.98635 3.17025 3.33055 5.19059 4.01682 288 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 289 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 289 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,677 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_12\n-LENG 218\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:11 2020\n-NSEQ 24\n-EFFN 1.303711\n-CKSUM 2699822135\n-GA 100 100;\n-STATS LOCAL MSV -10.6562 0.70434\n-STATS LOCAL VITERBI -11.3317 0.70434\n-STATS LOCAL FORWARD -5.0384 0.70434\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68075 4.62252 3.08472 2.66004 3.12544 2.85880 3.57850 2.73651 2.55050 2.38579 3.57475 2.95794 3.49104 3.03221 2.97452 2.73847 2.90821 2.73346 4.83565 3.21717\n- 2.68633 4.42182 2.77535 2.73139 3.46347 2.40528 3.72468 3.29351 2.67746 2.69345 4.24515 2.90362 2.73729 3.18146 2.89791 2.37896 2.77485 2.98534 4.58492 3.61518\n- 0.42656 1.46098 2.16074 1.08286 0.41343 0.00000 *\n- 1 2.24387 4.42137 3.42944 2.70908 3.55884 3.59524 3.85650 2.88303 2.80022 2.45951 1.95619 3.31189 3.98839 2.94924 3.14627 2.85872 2.89424 2.66841 5.00513 3.76738 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02191 4.22769 4.95003 0.61958 0.77255 0.63352 0.75655\n- 2 2.62711 5.02344 2.62631 2.12520 4.32415 3.41547 3.60886 3.50886 2.03210 3.09493 4.07649 2.71785 3.80933 2.53753 2.84290 2.61221 2.85827 3.20485 5.48252 3.44229 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02191 4.22769 4.95003 0.61958 0.77255 0.45140 1.01263\n- 3 3.49728 4.76457 5.29056 4.72041 3.24077 4.83694 5.16806 1.45412 4.58209 1.01491 2.34400 4.92620 4.97402 4.60762 4.63042 4.20057 3.71525 2.28984 5.36346 4.33791 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31785 5.04019 0.61958 0.77255 0.52145 0.90056\n- 4 2.67858 5.15258 2.77235 2.30423 4.48743 3.43598 3.38559 3.96091 1.84847 3.44877 4.19900 2.64890 2.81522 2.52684 2.67650 2.51643 2.90913 3.53837 5.58598 4.18848 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31785 5.04019 0.61958 0.77255 0.46407 0.99079\n- 5 2.64641 4.18814 3.89897 3.31934 3.29632 3.71121 3.99614 2.18311 3.05046 2.22373 3.09757 3.60623 4.08315 3.47997 3.23620 2.98437 2.28715 2.34622 4.79224 2.36494 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 6 2.36113 3.29873 4.21237 3.62178 3.01220 3.76708 4.08205 2.38453 3.48625 1.74316 2.90137 3.78899 4.13569 3.69015 3.63439 2.69388 2.49079 2.23738 4.71886 3.53121 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 7 2.64999 4.13910 3.17880 2.49951 3.86668 3.52506 3.08330 2.45362 2.49805 2.91030 3.40731 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 211 3.95562 5.12010 5.03340 4.75657 0.76848 4.70758 3.69144 3.52162 4.57010 2.56391 4.10523 4.37787 4.98919 4.45255 4.53031 4.07858 4.16885 3.48017 3.80612 1.60217 218 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 212 3.35617 5.05840 4.12317 4.09295 5.17659 0.27055 5.15692 4.91763 4.33617 4.50021 5.49788 4.29002 4.46089 4.62388 4.49539 3.54528 3.87249 4.35441 6.12089 5.30315 219 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 213 2.36862 4.60405 3.24257 2.49902 4.03542 3.41119 3.89381 3.39891 2.76359 3.07943 3.92615 3.19685 3.91593 3.09980 3.17995 2.27492 1.55667 2.82247 5.37402 4.09072 220 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 214 3.25433 4.52745 5.14279 4.60021 3.03681 4.64561 5.08624 1.51739 4.48601 1.76342 3.34958 4.74852 4.89228 4.63609 4.59015 4.00752 3.49472 1.10415 5.46197 4.30310 221 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 215 2.64906 4.41092 3.46460 2.89702 3.38144 3.61064 3.85568 2.43496 2.44412 2.62323 3.29416 3.31937 3.99103 3.16211 2.51504 2.59217 2.72476 2.15658 4.98842 3.74687 222 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 216 2.65375 5.25867 3.34167 2.71259 4.67626 3.68302 3.70695 4.06051 1.36759 3.51623 4.33280 3.17942 4.05379 2.66215 1.74022 2.78823 3.17785 3.69952 5.59516 4.34658 223 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34302 5.06536 0.61958 0.77255 0.48576 0.95510\n- 217 2.52541 3.78889 3.99968 3.19737 3.26301 3.73171 4.02676 2.48681 3.09821 1.95683 2.75319 3.66792 4.10210 3.55044 3.20935 3.01138 2.87864 1.76311 4.76699 3.56992 224 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15795 4.34302 2.01658 0.61958 0.77255 0.48576 0.95510\n- 218 2.64630 5.00205 2.92984 2.21047 4.29824 3.42787 3.61926 3.48516 1.86596 3.09875 4.06212 2.46734 3.32076 2.73954 2.81242 2.63804 2.71395 3.36640 5.46340 4.09725 225 k - - -\n- 2.68626 4.42248 2.77503 2.73088 3.46342 2.40488 3.72517 3.29331 2.67727 2.69370 4.24713 2.90358 2.73747 3.18137 2.89806 2.37910 2.77543 2.98531 4.58436 3.61506\n- 0.45109 1.01318 * 1.17954 0.36733 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,998 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_13\n-LENG 325\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:11 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 2949651933\n-GA 300 300;\n-STATS LOCAL MSV -11.0571 0.70067\n-STATS LOCAL VITERBI -12.0571 0.70067\n-STATS LOCAL FORWARD -5.5331 0.70067\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.27354 4.37351 2.96524 2.89198 3.37291 2.55506 3.91245 2.84015 2.94001 2.34080 3.69594 3.31703 3.05568 3.29703 2.72568 2.74638 2.86244 2.65963 4.36266 3.76130\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.91983 4.31695 3.91799 3.86633 3.42132 3.45025 2.66908 4.12393 2.50391 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 318 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 318 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 319 3.19506 4.60025 3.95953 3.64530 2.58598 3.63407 3.79869 3.21704 3.37022 2.62631 3.85478 3.81293 4.14504 3.76277 3.51358 3.39944 3.49153 3.10493 1.08678 2.59319 319 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 320 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.91983 4.31695 3.91799 3.86633 3.42132 3.45025 2.66908 4.12393 2.50391 320 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 321 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 321 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 322 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 322 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 323 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 323 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 324 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 324 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 325 2.89761 5.00462 1.05533 2.28844 4.37075 3.14652 3.85898 3.93947 2.92732 3.56508 4.54379 2.83917 3.79336 3.09992 3.42916 2.87201 3.23525 3.58914 5.55658 4.26178 325 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,743 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_14\n-LENG 240\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:11 2020\n-NSEQ 15\n-EFFN 2.237549\n-CKSUM 2097783916\n-GA 128 128;\n-STATS LOCAL MSV -10.4461 0.70331\n-STATS LOCAL VITERBI -11.7999 0.70331\n-STATS LOCAL FORWARD -4.6927 0.70331\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73947 4.58447 3.11932 2.59215 2.87808 2.94533 3.77835 2.75851 2.48385 2.45108 3.54829 3.02856 3.46455 3.15569 2.88898 2.65705 2.93997 2.68374 5.00684 3.30403\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06732 4.70529 2.88140 0.61958 0.77255 0.00000 *\n- 1 3.82545 5.27538 5.03947 4.76357 3.86040 4.52596 5.32041 3.13614 4.48928 2.38805 0.41606 4.92641 5.04335 4.83944 4.58736 4.22126 4.17538 3.22449 5.75088 4.56962 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01427 4.65225 5.37459 0.61958 0.77255 0.58876 0.80971\n- 2 4.13929 5.78755 4.72297 4.14371 5.36241 4.38339 4.71923 5.02811 2.97798 4.39757 5.42568 4.41876 4.89362 3.94669 0.25702 4.22056 4.38127 4.72668 6.15090 5.18629 2 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01427 4.65225 5.37459 0.61958 0.77255 0.58876 0.80971\n- 3 3.10159 3.22671 5.04263 4.44700 2.23489 4.33535 4.68366 1.86779 4.26275 1.25796 3.28454 4.48477 4.64400 4.36880 4.28430 3.66197 3.33266 1.94051 5.10291 3.95601 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01427 4.65225 5.37459 0.61958 0.77255 0.58876 0.80971\n- 4 3.01771 5.32586 3.33852 2.11837 4.68849 3.74526 3.81873 4.09405 1.27319 2.37880 4.38450 3.23499 4.12210 2.93818 2.34092 3.00113 3.22115 3.73036 5.69460 4.40485 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01427 4.65225 5.37459 0.61958 0.77255 0.58876 0.80971\n- 5 2.47891 4.59851 5.25677 4.71945 3.81289 4.71447 5.20838 1.30496 4.60020 1.73057 3.64853 4.83851 5.00122 4.79265 4.71184 4.07666 3.56737 1.27672 5.65449 4.47182 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01427 4.65225 5.37459 0.61958 0.77255 0.58876 0.80971\n- 6 2.77898 5.14682 3.07752 2.34983 4.44742 3.56504 3.74933 3.89425 1.90416 3.42824 4.20417 3.05715 3.95784 2.86671 2.70839 1.76255 2.64299 3.51456 5.60346 3.11129 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01427 4.65225 5.37459 0.61958 0.77255 0.58876 0.80971\n- 7 3.56916 4.85004 5.48786 4.89109 1.89216 4.85277 5.15420 2.17901 4.72822 0.96970 2.47266 5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01353 4.70529 5.42764 0.61958 0.77255 0.48576 0.95510\n- 233 3.64120 4.86584 5.62966 5.10935 3.76764 5.12835 5.64222 1.88259 5.00327 1.16526 3.52823 5.26972 5.30856 5.11090 5.08359 4.52702 3.88282 1.02518 5.87273 4.77003 271 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01353 4.70529 5.42764 0.61958 0.77255 0.48576 0.95510\n- 234 2.46722 5.28380 2.66390 1.98526 4.61569 3.54873 3.75589 4.09434 1.84015 3.58325 4.33080 2.20131 3.95548 2.85915 2.99706 2.76172 3.03095 2.82151 5.72330 4.31613 272 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01353 4.70529 5.42764 0.61958 0.77255 0.48576 0.95510\n- 235 2.79326 4.38418 3.96363 3.40552 3.53142 3.81914 4.15846 2.80962 3.32160 1.60144 3.51734 3.16992 2.43352 3.59764 3.59448 3.10382 2.65496 1.88848 5.02444 3.81580 273 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01353 4.70529 5.42764 0.61958 0.77255 0.48576 0.95510\n- 236 2.77397 4.65291 3.08841 2.36052 3.81926 3.69208 3.92571 2.18560 2.49264 2.57700 3.74780 3.33593 4.07675 3.17487 3.25399 2.60877 3.00573 1.92375 5.21532 3.94975 274 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11530 4.70529 2.30403 0.61958 0.77255 0.48576 0.95510\n- 237 2.80370 5.31042 2.54351 1.91466 4.65799 3.53081 3.73445 4.14000 1.62370 3.60952 4.35578 2.74036 3.94292 2.53230 2.56418 2.75995 3.03519 3.70352 5.73208 4.32633 275 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16886 4.60496 1.92849 0.61958 0.77255 0.66848 0.71844\n- 238 2.71078 5.15056 2.64795 1.85614 4.46275 2.91191 3.67956 3.92961 2.43906 3.44187 4.20203 2.40491 3.87574 2.58464 2.92991 2.68410 2.94410 2.99229 5.60167 3.19387 276 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01744 4.45354 5.17589 0.61958 0.77255 0.86924 0.54347\n- 239 2.69805 5.08663 2.99300 2.18351 4.38890 3.48646 3.67374 3.84137 1.98273 3.37060 4.14038 2.64366 3.87874 2.78790 2.48351 2.30782 2.92804 2.91710 5.54294 3.26776 277 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12799 4.45354 2.22101 0.61958 0.77255 0.86924 0.54347\n- 240 2.73389 5.15337 2.97439 2.26361 4.49286 2.86653 3.65370 3.94625 1.96688 3.44072 4.20807 2.66094 3.88250 2.76325 2.03170 2.70708 2.58825 3.54371 5.57776 4.21072 278 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.33869 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,845 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_15\n-LENG 274\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 13\n-EFFN 4.592529\n-CKSUM 1548635222\n-GA 50 50;\n-STATS LOCAL MSV -10.6920 0.70205\n-STATS LOCAL VITERBI -11.4580 0.70205\n-STATS LOCAL FORWARD -5.2548 0.70205\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55226 4.57309 3.22847 2.72658 3.12117 2.75357 3.71579 2.95275 2.73969 2.32860 3.76171 3.24178 3.11019 3.11869 2.82886 2.63914 2.77105 2.63377 4.49770 3.40632\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26064 5.11786 1.49854 0.61958 0.77255 0.00000 *\n- 1 1.78728 4.45224 4.44440 3.87129 3.51775 4.05154 4.42788 2.74810 3.74646 1.37005 2.63177 4.07433 4.44007 3.96933 3.92911 3.35760 2.17727 2.59974 5.10195 3.92375 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01148 4.86869 5.59104 0.61958 0.77255 0.71521 0.67156\n- 2 2.88679 4.46055 4.05834 3.48328 3.58038 3.93490 4.21967 2.41457 3.40303 2.65789 2.72054 3.79863 4.31037 2.44305 3.67540 2.28482 2.24947 1.70759 5.06822 3.86004 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01055 4.95246 5.67481 0.61958 0.77255 0.88024 0.53560\n- 3 2.13896 4.39681 4.23092 3.65026 3.49313 3.96367 4.25782 2.85343 3.54581 1.53329 3.51196 3.90079 2.58883 3.78546 3.76309 2.56109 3.11785 2.65493 3.14368 2.85542 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01055 4.95246 5.67481 0.61958 0.77255 0.88024 0.53560\n- 4 2.19617 5.22025 3.20033 2.64273 4.51584 3.67324 3.86724 3.95809 2.05360 3.50572 4.28581 2.35136 4.06701 2.98840 2.54812 2.87388 1.91438 2.78685 5.69391 4.32849 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01055 4.95246 5.67481 0.61958 0.77255 0.88024 0.53560\n- 5 2.98949 4.89625 3.61169 2.19606 4.06928 3.87386 4.06483 3.37358 2.84150 1.93602 3.96751 3.49676 4.25480 3.28784 1.67404 3.11946 3.21493 2.12168 5.43763 4.18015 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01055 4.95246 5.67481 0.61958 0.77255 0.88024 0.53560\n- 6 2.89155 4.82189 3.50898 2.94171 4.00320 3.78826 4.00654 3.37949 2.16177 1.71510 3.91546 3.41107 4.17332 3.23275 2.62674 2.23298 2.56538 2.52456 5.37043 4.09891 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01055 4.95246 5.67481 0.61958 0.77255 0.88024 0.53560\n- 7 2.88338 4.74878 3.57835 3.02604 2.92771 2.49324 4.06181 3.30237 2.19858 2.99548 3.87000 3.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00764 5.27424 5.99659 0.61958 0.77255 0.48576 0.95510\n- 267 3.08043 4.46160 4.98330 4.37453 2.48962 4.24845 4.58045 1.80135 4.17484 2.63985 3.57884 4.38996 2.79854 4.31864 4.20651 3.55837 2.40080 1.41225 5.09009 2.72631 301 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00764 5.27424 5.99659 0.61958 0.77255 0.48576 0.95510\n- 268 3.41797 5.86149 2.74242 2.12404 5.26543 4.05413 4.19514 4.70454 1.76080 4.13141 4.91658 3.51877 4.47376 3.30676 0.97729 3.36417 3.63061 4.29002 6.20300 4.87201 302 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00764 5.27424 5.99659 0.61958 0.77255 0.48576 0.95510\n- 269 2.04361 4.62014 5.07212 4.48037 3.75137 4.44757 4.80259 1.74249 4.30352 1.84263 3.72900 4.55558 4.79873 4.48038 2.67217 3.76256 3.48286 1.36669 5.33674 4.15517 303 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00764 5.27424 5.99659 0.61958 0.77255 0.48576 0.95510\n- 270 3.00244 5.50893 2.47016 2.24590 4.85282 3.77551 3.96254 4.33737 2.37254 2.70994 4.55013 3.24354 2.83883 2.01328 2.18944 2.96530 2.35942 3.89898 5.94185 4.53242 304 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00764 5.27424 5.99659 0.61958 0.77255 0.48576 0.95510\n- 271 3.02330 5.34279 3.34587 2.29547 4.61159 3.82380 4.01872 4.05810 2.24075 3.61717 4.40418 3.32634 1.84095 3.14581 3.25071 1.89392 3.25421 3.69702 2.99025 2.85429 305 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10798 5.27424 2.33068 0.61958 0.77255 0.48576 0.95510\n- 272 3.00778 4.51754 4.38282 3.82203 3.58835 4.07153 3.00636 2.93735 3.67982 1.02076 3.61720 4.04873 4.46357 3.94061 3.87846 2.34963 3.25194 2.15119 5.11749 3.90175 306 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00936 5.07141 5.79375 0.61958 0.77255 0.78694 0.60740\n- 273 2.23096 5.34528 3.17942 1.43620 4.68811 3.71400 3.96226 4.14398 2.73326 3.67613 4.44635 2.26257 4.13761 3.07986 3.22000 2.23848 3.20387 2.65538 5.85006 4.46463 307 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20395 5.07141 1.72472 0.61958 0.77255 0.78694 0.60740\n- 274 2.84283 2.43814 3.57690 3.02837 3.94351 2.13123 4.06261 3.31771 2.98422 2.26190 3.87654 3.46451 2.51881 2.28894 3.37387 2.99899 3.09988 3.05695 5.33939 4.08061 308 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00766 4.87512 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_16.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_16.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,641 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_16\n-LENG 206\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 6\n-EFFN 0.829102\n-CKSUM 4171614588\n-GA 100 100;\n-STATS LOCAL MSV -10.4752 0.70500\n-STATS LOCAL VITERBI -11.2675 0.70500\n-STATS LOCAL FORWARD -5.0216 0.70500\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71074 4.45409 2.96448 2.65397 2.87777 3.03951 3.84070 2.69563 2.59743 2.31565 3.61306 3.17442 3.50065 3.15852 2.93019 2.72604 2.97422 2.62296 4.58940 3.23128\n- 2.68620 4.42228 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67722 2.69357 4.24608 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61506\n- 0.44931 1.72940 1.68987 0.27384 1.42900 0.00000 *\n- 1 3.04885 4.47190 4.41990 3.88333 3.14841 4.20162 4.55904 1.77883 3.71239 1.61706 1.79197 4.16955 4.49820 3.96765 3.91204 3.54731 3.29419 2.07974 5.10036 3.94503 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03059 3.89802 4.62036 0.61958 0.77255 0.66865 0.71826\n- 2 2.57855 4.68398 2.92978 2.52120 4.17033 2.68540 3.69274 3.55242 1.82714 3.16838 4.00825 2.98389 3.79437 2.86263 2.73594 2.63969 2.36255 3.19595 5.38474 4.09411 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03059 3.89802 4.62036 0.61958 0.77255 0.66865 0.71826\n- 3 2.61790 3.37247 2.05045 2.03905 4.13727 3.29836 3.64963 3.52858 2.49964 3.16017 3.99207 2.85435 3.77862 2.81135 2.97528 2.63448 2.87820 3.19348 5.40070 4.04445 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03059 3.89802 4.62036 0.61958 0.77255 0.66865 0.71826\n- 4 2.68199 4.91425 1.53577 2.27438 4.37615 3.18237 3.77065 3.74082 2.71800 3.41348 4.28985 2.80812 3.78461 2.95242 3.22179 2.68440 2.33223 3.37026 5.64839 4.25227 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03059 3.89802 4.62036 0.61958 0.77255 0.66865 0.71826\n- 5 2.87210 5.10893 2.76057 2.09459 4.47139 3.41613 3.62907 3.86050 1.43506 3.38421 4.24484 2.93679 3.88757 2.77790 2.45794 2.84738 3.09657 3.52180 5.50513 4.22223 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03059 3.89802 4.62036 0.61958 0.77255 0.66865 0.71826\n- 6 2.70935 4.40126 3.58255 3.01651 3.38327 3.66655 3.89154 2.60602 2.40160 1.93570 2.33998 3.40728 4.03666 3.19866 3.04035 2.95053 2.94021 2.48041 4.95276 3.72758 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03059 3.89802 4.62036 0.61958 0.77255 0.54338 0.86936\n- 7 2.65344 4.19846 3.89169 3.33022 3.32842 3.72422 4.07948 2.02394 3.23651 2.23370 2.76506 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09212 4.81447 0.61958 0.77255 0.48576 0.95510\n- 199 2.67309 4.37954 3.71946 3.31527 1.65738 3.51225 3.92164 2.99611 3.27720 2.64232 3.67500 3.54617 4.05741 3.54920 3.54958 1.82887 3.01273 2.77771 4.57769 3.04710 201 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09212 4.81447 0.61958 0.77255 0.48576 0.95510\n- 200 2.77392 1.85367 4.07326 3.59392 2.84415 3.68617 3.93332 2.79848 3.42334 2.51937 3.54970 3.74041 4.16636 3.69932 3.61793 3.06660 3.07287 2.60815 4.44709 1.82172 202 y - - -\n- 2.68627 4.42141 2.77580 2.73156 3.46242 2.40415 3.72555 3.29365 2.67801 2.69310 4.24380 2.90275 2.73773 3.18207 2.89861 2.37870 2.77551 2.98579 4.58537 3.61499\n- 0.27301 1.46618 4.81447 2.51834 0.08403 0.48576 0.95510\n- 201 2.90974 5.47778 1.51320 1.86902 4.76667 3.29016 3.74915 4.27772 2.68100 3.76132 4.57931 2.74466 3.86525 2.12549 3.23718 2.80911 3.17911 3.84843 5.91319 4.43125 220 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09212 4.81447 0.61958 0.77255 0.48576 0.95510\n- 202 2.93367 4.41688 4.25049 3.69182 3.21742 4.03378 4.37393 2.31421 3.53992 1.37207 2.02557 3.97787 4.36688 3.80095 3.75607 3.34807 2.64323 2.29069 5.02845 3.88031 221 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09212 4.81447 0.61958 0.77255 0.48576 0.95510\n- 203 3.74400 4.94901 4.73305 4.44309 1.10841 4.47440 3.50718 3.40865 4.28179 2.72062 3.99885 4.14611 4.77712 4.21615 4.28863 3.84898 3.96386 3.33969 3.63585 1.23331 222 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09212 4.81447 0.61958 0.77255 0.48576 0.95510\n- 204 2.58908 3.30002 3.80421 3.23331 2.41335 3.63390 3.18527 2.60963 3.13899 2.06482 3.26224 3.52139 4.01438 3.40021 3.39293 2.52337 2.82545 2.40821 4.66715 3.39428 223 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09212 4.81447 0.61958 0.77255 0.48576 0.95510\n- 205 2.84945 4.27847 4.33568 3.76115 3.03444 3.98028 4.20379 2.08935 3.60908 1.70974 3.10671 3.95813 4.30774 3.81722 3.77066 3.28485 3.08057 2.02891 2.21152 3.45136 224 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09212 4.81447 0.61958 0.77255 0.48576 0.95510\n- 206 3.13218 5.24397 3.56139 2.86770 4.72462 3.73260 3.65105 4.06235 1.17422 3.48310 4.35578 3.25979 4.09415 2.78327 1.61747 3.12162 3.28962 3.74264 5.50492 4.35249 225 k - - -\n- 2.68646 4.42253 2.77519 2.73098 3.46382 2.40522 3.72523 3.29336 2.67664 2.69356 4.24597 2.90375 2.73741 3.18175 2.89829 2.37895 2.77461 2.98547 4.58505 3.61531\n- 0.26487 1.45804 * 1.81440 0.17785 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_17.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_17.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,989 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_17\n-LENG 322\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 107\n-EFFN 5.221344\n-CKSUM 1287378029\n-GA 100 100;\n-STATS LOCAL MSV -11.0301 0.70073\n-STATS LOCAL VITERBI -11.7744 0.70073\n-STATS LOCAL FORWARD -5.4928 0.70073\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54017 4.15185 3.14875 2.67303 3.16576 2.70392 3.63193 3.00311 2.74179 2.32762 3.70852 3.25215 3.19177 2.98889 2.74799 2.71280 2.84123 2.80038 4.47395 3.48481\n- 2.68600 4.42243 2.77540 2.73128 3.46361 2.40588 3.72464 3.29305 2.67762 2.69282 4.23824 2.90316 2.73704 3.18189 2.89854 2.37896 2.77555 2.98597 4.58575 3.61581\n- 1.74055 0.88186 0.89022 1.34266 0.30266 0.00000 *\n- 1 2.58876 5.14617 2.95650 2.33506 4.42179 3.27157 3.39078 3.24367 2.44799 2.74439 3.12230 2.81071 3.16707 2.65469 2.88181 2.48175 2.73509 3.15522 4.78700 3.70128 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01159 4.85904 5.58139 0.61958 0.77255 1.15487 0.37848\n- 2 2.37384 5.24184 3.00279 2.30643 3.59545 2.97360 3.63991 3.56489 2.52062 3.14581 2.71413 2.58175 3.81669 2.69452 2.72433 2.47462 2.71881 3.44253 5.70488 4.32544 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94972 5.67206 0.61958 0.77255 0.98810 0.46566\n- 3 2.45760 4.28767 3.45682 2.69145 3.66311 3.49092 3.76786 3.01046 2.85096 2.19050 2.59395 3.16894 3.00001 3.10933 3.19807 2.75569 2.71126 2.45848 4.69884 3.63269 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00951 5.05569 5.77803 0.61958 0.77255 0.82752 0.57471\n- 4 2.49316 4.82141 3.18577 2.73720 2.96880 3.49456 3.59775 2.99823 2.99143 1.77586 2.65606 3.08552 3.04302 3.38776 3.46583 2.61991 3.00965 2.93544 5.38402 4.12344 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00857 5.16010 5.88244 0.61958 0.77255 0.63204 0.75823\n- 5 2.45620 4.46391 3.11334 2.51595 2.94213 3.12156 3.76846 3.04150 2.85316 2.83886 2.52571 3.17341 2.65187 2.79524 3.07458 2.50445 3.12274 3.06063 4.85089 4.30432 10 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00773 5.26264 5.98499 0.61958 0.77255 0.67059 0.71622\n- 6 2.42476 4.85488 2.46936 2.37551 4.40944 3.17203 3.33165 4.11069 2.28894 3.67085 3.41167 2.76621 3.06787 2.73496 2.58853 2.41138 2.72948 3.46869 5.95033 3.82018 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00745 5.29954 6.02189 0.61958 0.77255 0.41144 1.08676\n- 7 2.85833 4.16202 5.09211 4.47670 2.32979 4.29558 4.62926 1.99914 4.26117 1.19369 2.49639 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00684 5.38386 6.10620 0.61958 0.77255 0.48576 0.95510\n- 315 3.34041 4.70050 5.25113 4.65845 2.65806 4.51076 4.73620 2.07950 4.45493 2.37797 3.73677 4.64073 4.18536 4.56915 4.46809 3.82723 3.57169 2.20052 5.15437 0.95547 329 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 5.38386 4.75734 0.61958 0.77255 0.48576 0.95510\n- 316 2.92844 4.70964 2.89821 2.02488 4.89639 3.46810 3.33185 3.74366 2.22094 3.65154 4.59533 3.19256 4.21779 2.52247 1.73128 2.55138 2.83373 3.19847 4.99032 4.57890 330 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00689 5.37748 6.09983 0.61958 0.77255 0.51175 0.91491\n- 317 3.12403 4.08842 5.08490 4.47046 3.24735 4.29517 4.62963 1.90081 4.25677 1.21458 3.44083 4.45643 3.85973 4.38873 4.26659 3.42118 2.83302 1.71009 5.12346 3.52578 331 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00689 5.37748 6.09983 0.61958 0.77255 0.51175 0.91491\n- 318 2.60643 4.43311 3.09739 1.84865 4.79110 3.27464 3.44861 2.91990 2.44691 3.30901 4.00400 2.92433 4.23203 2.66681 2.80697 2.43199 2.80350 2.81360 4.42273 3.91424 332 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08844 5.37748 2.52539 0.61958 0.77255 0.51175 0.91491\n- 319 2.39675 3.61736 3.02841 2.47803 3.06623 2.82395 3.83320 3.71017 2.52309 2.82115 3.75610 3.16292 2.82337 2.86666 3.10013 2.67366 2.72815 2.95381 4.90941 3.29327 333 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12958 5.29650 2.14962 0.61958 0.77255 0.78308 0.61064\n- 320 2.22060 3.97741 3.06548 2.67087 4.00134 2.86939 3.58885 3.48119 2.42375 2.42589 3.27860 3.12067 3.32964 3.07727 3.12574 2.42867 3.19432 2.46327 4.53729 4.27768 334 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21416 5.17536 1.67595 0.61958 0.77255 1.06182 0.42438\n- 321 2.40381 4.14451 2.70783 2.32948 4.14917 2.78498 3.62147 3.79123 2.40196 3.28399 4.36201 2.67669 2.96659 2.94256 2.88937 2.24470 2.65401 3.18487 5.76249 4.36683 335 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12577 4.97155 2.19600 0.61958 0.77255 1.36064 0.29638\n- 322 2.45432 5.29876 2.71696 2.15878 4.15960 2.68675 3.55728 3.54858 2.29577 3.59858 4.34280 2.80759 3.13710 2.57245 2.84387 2.50873 2.87838 3.04614 4.71476 4.33609 336 e - - -\n- 2.68611 4.42291 2.77534 2.73089 3.46293 2.40482 3.72509 3.29329 2.67791 2.69344 4.24756 2.90378 2.73719 3.18200 2.89810 2.37856 2.77508 2.98533 4.58543 3.61557\n- 0.87518 0.53920 * 1.14125 0.38481 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_19.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_19.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,623 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_19\n-LENG 200\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 4\n-EFFN 0.660156\n-CKSUM 215539135\n-GA 220 220;\n-STATS LOCAL MSV -10.5058 0.70534\n-STATS LOCAL VITERBI -11.1336 0.70534\n-STATS LOCAL FORWARD -4.6837 0.70534\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69756 4.36209 3.06279 2.67604 3.14537 2.95417 3.80726 2.56887 2.67313 2.28882 3.65970 3.11339 3.48790 3.20515 3.04132 2.69638 2.96498 2.49651 4.70682 3.20982\n- 2.68621 4.42228 2.77495 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24569 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.15772 1.98862 4.70743 0.65945 0.72802 0.00000 *\n- 1 3.17694 4.60122 4.49817 3.96291 3.08448 4.29786 4.60096 2.22795 3.75116 1.30227 1.61125 4.25575 4.56947 4.00791 3.93409 3.65287 3.41549 2.31330 5.08227 3.92572 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 2 3.18810 4.51824 4.74190 4.23016 3.27642 4.46449 4.86269 1.22799 4.05882 1.45719 3.11653 4.48292 4.72492 4.30077 4.23103 3.84375 3.43564 1.85280 5.29128 4.10464 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 3 3.05235 5.18319 2.53969 0.87531 4.54402 3.34895 3.94691 4.02042 2.84184 3.61994 4.59012 3.00135 3.95922 3.16093 3.26152 3.02397 3.35781 3.69307 5.69441 4.41801 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 4 3.11924 4.50820 4.49319 4.11415 3.45185 4.18608 4.82232 0.94850 3.94443 2.01613 3.37098 4.34383 4.60751 4.28183 4.12825 3.69322 3.41684 1.85489 5.36517 4.11242 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 5 2.64932 4.22848 3.91879 3.39902 3.47186 3.67625 4.19474 1.88742 3.30389 2.35564 3.40974 3.67773 4.13093 3.60313 3.57674 2.36912 2.93814 1.59394 5.06852 3.84331 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 6 2.77207 4.30177 4.07527 3.55043 3.45490 3.84622 4.34029 2.10086 3.43017 1.82990 3.34340 3.83476 4.26582 3.73751 3.69209 3.18331 2.38028 1.52151 5.15743 3.94934 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 7 2.77116 5.03819 2.90412 2.07693 4.31835 3.44920 2.37631 3.77677 2.18763 3.29715 4.12025 2.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 193 2.80515 5.12431 2.78198 2.40116 4.46924 3.41986 3.61886 3.90436 1.87383 3.40246 4.22230 2.34501 3.86846 2.00616 2.54513 2.77561 3.02990 3.53687 5.52434 4.20213 198 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 194 3.07727 5.04316 3.26060 2.86240 4.45535 3.55340 3.82529 3.89194 0.89403 3.43303 4.38948 3.28151 4.04667 3.01115 2.45813 3.11250 3.32270 3.59376 5.46457 4.29400 199 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 195 3.18801 4.51817 4.74178 4.23009 3.27662 4.46440 4.86270 1.22748 4.05872 1.45795 3.11679 4.48285 4.72491 4.30079 4.23097 3.84369 3.43558 1.85256 5.29141 4.10466 200 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 196 2.80672 4.98939 3.12227 2.58423 4.39517 2.59171 3.61942 3.78594 1.79240 3.30082 4.13533 3.04803 3.90734 2.75889 1.79509 2.81714 3.02535 3.44223 5.42556 4.17224 201 k - - -\n- 2.68625 4.42232 2.77527 2.73130 3.46361 2.40500 3.72502 3.29361 2.67721 2.69335 4.24697 2.90354 2.73747 3.18154 2.89808 2.37874 2.77527 2.98526 4.58484 3.61510\n- 0.16285 1.95721 4.70743 1.10482 0.40238 0.48576 0.95510\n- 197 2.83386 5.10172 2.75063 1.51943 4.43862 3.41008 3.66582 3.87036 2.28029 3.39483 4.24187 2.93665 3.88485 2.81372 2.09968 2.81202 3.07012 3.51921 5.52953 4.21472 206 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 198 2.56335 4.52155 3.25340 2.72072 3.88203 3.37650 3.75307 3.22092 2.48273 2.91101 3.78883 3.13944 3.85172 2.96450 2.06162 2.21283 2.84848 2.37275 5.20497 3.93774 207 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 199 3.03206 4.43552 4.51248 4.02284 3.39322 4.21565 4.72717 1.91114 3.86335 1.62828 3.26528 4.26730 4.57794 4.15850 4.07222 3.60014 3.30724 1.17853 5.30819 4.08055 208 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98508 4.70743 0.61958 0.77255 0.48576 0.95510\n- 200 2.65298 4.69441 2.98007 2.16091 3.81899 3.44350 2.48956 2.62770 2.46622 2.90831 3.78378 3.01695 3.86119 2.87228 2.85889 2.72442 2.88688 2.98682 5.16168 3.83085 209 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01894 3.97601 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_20.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_20.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,476 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_20\n-LENG 151\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 135\n-EFFN 6.562958\n-CKSUM 4246306005\n-GA 28 28;\n-STATS LOCAL MSV -9.9257 0.70931\n-STATS LOCAL VITERBI -11.0319 0.70931\n-STATS LOCAL FORWARD -4.1487 0.70931\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.82277 4.50858 3.03704 2.52508 3.00749 2.70008 3.86270 2.81864 2.44784 2.47436 3.73021 2.96577 3.31613 3.16410 2.94692 2.66824 2.90111 2.79945 4.99267 3.35288\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.00000 *\n- 1 2.72502 5.63553 2.80861 2.79015 4.44811 1.49812 3.46452 4.02606 2.80671 3.41041 4.40502 3.04088 4.33371 2.66048 2.70211 2.14406 3.02829 3.17087 6.07728 4.47175 1 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 2 3.11557 4.43751 5.12911 4.23485 2.41765 3.76060 4.52926 2.39097 3.87862 0.84997 3.43643 4.18165 4.76453 4.21148 4.35382 3.08448 3.41025 2.61238 5.24579 3.93716 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 3 3.22931 4.07763 3.73576 3.82600 2.04715 4.13048 4.63642 2.37179 3.07987 1.33183 3.13496 3.16273 4.70247 3.71790 3.45483 2.98293 3.27488 2.61671 4.83740 3.93849 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 4 2.56922 5.66937 2.78995 2.39720 4.80390 3.80320 3.60757 3.52316 1.77228 3.00218 4.20139 2.67322 4.32706 2.80508 2.67883 1.93908 2.83317 3.89288 6.10230 4.69158 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 5 3.16061 5.07623 2.44386 2.35062 3.79816 3.31734 3.71371 4.12783 2.50097 2.26829 4.44053 1.99448 4.33144 2.80512 2.66925 2.37888 3.19124 3.26166 5.63328 4.01416 5 n - - -\n- 2.68617 4.42234 2.77529 2.73124 3.46350 2.40512 3.72504 3.29355 2.67737 2.69356 4.24634 2.90356 2.73743 3.18155 2.89804 2.37876 2.77522 2.98515 4.58486 3.61493\n- 0.07455 2.65908 6.30630 0.62971 0.76088 0.48576 0.95510\n- 6 2.95324 5.67295 2.85987 2.07808 5.01915 2.50224 3.81316 4.27206 1.77429 3.73811 4.71332 3.28198 2.45608 2.45032 2.31021 2.95805 3.17723 4.06420 6.10494 4.33018 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 7 2.86534 5.65550 3.09488 1.64298 3.88174 3.73755 3.37852 3.68711 2.33537 2.63197 4.43593 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 144 2.66135 4.52626 3.88272 2.90515 4.21791 3.95966 4.35606 3.43024 2.95089 1.80499 2.44785 3.77555 4.50517 1.36365 3.69155 2.90697 3.42750 3.34465 5.61906 3.85900 280 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 145 4.31019 6.13198 5.25401 5.32619 6.61648 0.08427 6.49484 6.48769 5.80417 6.02478 6.91432 4.47294 5.60126 5.95566 5.93918 4.49965 4.88011 5.62481 7.60208 6.74639 281 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 146 3.59916 5.14372 5.57524 5.05453 0.48123 4.89724 4.33891 3.58636 4.42900 2.57870 3.22438 4.92084 5.24015 4.90041 4.83331 4.22045 4.03795 3.42405 3.63563 3.13359 282 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 147 3.93455 5.80635 5.34295 5.41144 6.46536 0.10598 6.43066 6.21033 5.76787 5.81938 6.64028 5.26292 5.37124 5.88934 5.84564 3.77494 4.52122 5.28360 7.58332 6.66082 283 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 148 3.24387 1.90959 4.81327 4.55669 1.73722 4.06660 4.73820 3.05538 4.11991 2.32186 1.46158 4.55836 4.77270 4.23378 4.37102 3.71861 3.47604 2.81634 5.24150 3.42250 284 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 149 3.04015 3.89509 5.28685 4.67320 2.62516 4.48657 4.82458 1.58016 4.45797 1.77478 3.16811 4.65375 4.84408 4.58408 4.46173 3.80062 3.53799 1.32731 3.69801 4.13306 285 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00560 5.58395 6.30630 0.61958 0.77255 0.48576 0.95510\n- 150 3.04161 5.72588 2.21942 1.10151 5.06960 3.84888 4.16150 4.55792 2.30817 3.90821 4.76863 2.12644 4.36259 3.26027 3.23871 3.02163 3.29975 3.90113 6.15764 4.74197 286 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01359 5.58395 4.63157 0.61958 0.77255 0.48576 0.95510\n- 151 2.97807 4.45046 4.87990 3.57343 3.56119 4.35991 4.67545 1.90090 2.99731 1.85742 3.52445 3.43165 2.89473 4.17974 4.24941 3.48416 3.39885 1.35198 5.27615 3.85279 287 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00380 5.57416 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_21.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_21.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,593 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_21\n-LENG 190\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 34\n-EFFN 1.871826\n-CKSUM 1506623178\n-GA 140.4 140.4;\n-STATS LOCAL MSV -10.2905 0.70601\n-STATS LOCAL VITERBI -11.0033 0.70601\n-STATS LOCAL FORWARD -4.5669 0.70601\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57010 4.15559 3.07396 2.69195 3.41048 2.74328 3.61561 2.76379 2.71757 2.20460 3.68765 3.21415 3.37679 2.99647 2.83686 2.69597 2.90456 2.65532 5.04143 3.76352\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.00000 *\n- 1 3.39070 6.12765 0.96306 1.43382 5.38991 3.53222 4.14249 4.96571 3.25662 4.40706 5.28135 2.57176 4.19806 3.31567 3.93187 3.22621 3.69451 4.49094 6.55197 4.95967 1 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 2 2.82922 4.40097 4.89808 4.30740 3.36227 4.27481 4.62283 1.91066 4.14068 1.27345 2.82155 4.38994 4.58829 4.27365 4.19968 3.59640 3.28215 1.63518 5.08271 3.55842 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 3 2.33523 4.46804 2.92118 2.40910 4.16744 3.55158 3.54656 3.27828 2.48247 2.61688 3.99804 2.99339 3.94146 2.22537 2.92915 2.52436 2.84198 2.63295 5.42934 4.09288 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 4 3.74658 3.69674 5.08391 4.72181 0.65388 4.62719 3.91298 3.44333 4.53573 2.89824 4.08823 4.44761 4.95805 4.49729 4.52689 3.98679 3.98156 3.33627 4.06592 1.95523 4 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 5 2.15705 5.19730 2.98409 2.16016 4.52670 3.23189 3.49735 4.00123 2.32777 3.49543 4.24250 2.73305 2.69242 2.61139 2.56616 2.44717 2.95700 3.57958 5.63898 3.97045 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 6 3.56395 4.79109 5.54346 5.01649 3.65980 5.04029 5.53335 1.34276 4.90957 1.14314 3.42088 5.17762 5.21603 5.00442 4.98321 4.43387 3.80283 1.49018 5.76126 4.66878 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 7 2.45341 5.19238 2.36185 2.30577 3.99041 3.50190 3.29253 3.69857 2.29348 3.36555 4.2374'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 183 3.75979 5.40968 4.56665 4.57179 5.59813 0.16664 5.58686 5.42680 4.84086 4.96030 5.97946 4.73442 4.81198 5.11048 4.94630 3.95894 4.28949 4.82005 6.45274 5.74151 294 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 184 3.05995 4.40968 4.93827 4.34013 3.09813 4.26589 4.57859 1.84808 4.15831 1.30844 3.19873 4.39485 4.57300 4.26200 4.18890 3.58687 3.28815 1.81961 2.71110 3.83528 295 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 185 4.10280 5.33132 5.24920 5.01820 0.49194 4.85207 4.18703 3.32768 4.83368 2.38378 3.97095 4.74850 5.19517 4.78262 4.80380 4.34725 4.36984 3.40476 4.29900 2.60014 296 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 186 2.87138 4.24933 4.68527 4.09040 3.32551 4.06025 4.39988 1.65681 3.91912 1.91800 3.10345 4.16579 4.40775 4.08050 3.99109 3.37216 2.80426 1.73113 4.92249 2.37562 297 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01537 4.57857 5.30092 0.61958 0.77255 0.48576 0.95510\n- 187 2.35121 4.59229 3.75774 3.61007 4.94468 2.42636 4.76654 4.39396 3.79955 4.06984 4.88725 3.73637 0.71501 4.05351 4.08778 2.82033 3.16522 3.74110 6.24988 5.07162 298 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 4.57857 3.76523 0.61958 0.77255 0.48576 0.95510\n- 188 2.38462 4.95998 3.00174 2.53262 3.92925 3.53750 2.14470 3.41203 2.40492 3.22393 3.81404 2.90441 3.56918 2.67616 2.90858 2.48014 2.94684 2.95014 5.45371 3.83642 299 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01566 4.56023 5.28257 0.61958 0.77255 0.51884 0.90439\n- 189 2.78627 5.13308 3.11071 2.54388 4.46048 3.00343 3.73540 3.54407 1.46750 3.42527 4.20661 3.06655 3.95737 2.85375 2.38864 2.41790 2.72576 3.51985 5.58903 4.23889 300 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01566 4.56023 5.28257 0.61958 0.77255 0.51884 0.90439\n- 190 2.62783 5.21415 2.56601 2.01734 4.54985 2.60849 3.29105 4.02987 2.42817 3.51550 4.25818 2.80530 3.69509 2.78728 2.37194 2.35873 2.95587 3.30875 5.65236 4.24592 301 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01057 4.55513 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_22.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_22.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,359 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_22\n-LENG 112\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:12 2020\n-NSEQ 206\n-EFFN 8.169464\n-CKSUM 4034068272\n-GA 22 22;\n-STATS LOCAL MSV -9.7342 0.71494\n-STATS LOCAL VITERBI -10.4662 0.71494\n-STATS LOCAL FORWARD -3.7254 0.71494\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61336 4.63086 3.18772 2.79218 3.06300 2.43878 3.75250 3.06569 2.78765 2.35253 3.80230 3.19284 3.13166 3.23979 2.73607 2.66090 2.77959 2.74624 4.34481 3.39578\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.00000 *\n- 1 3.37155 4.74623 4.85728 4.36461 2.60238 4.54103 4.87464 1.95784 4.50507 1.20077 3.10446 3.71833 4.90463 4.63616 3.88223 3.85236 3.49842 1.56308 4.82845 4.19224 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04760 5.78046 3.13739 0.61958 0.77255 0.48576 0.95510\n- 2 3.14819 5.75598 3.24759 2.12276 5.09964 3.84052 3.08214 4.09307 2.16503 3.28631 4.79701 2.87070 4.41642 2.63164 1.85150 2.47444 2.67219 2.62647 5.11526 4.16894 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00480 5.73766 6.46001 0.61958 0.77255 0.36514 1.18450\n- 3 2.91853 4.25041 3.88235 4.34298 0.76212 4.52410 4.85135 2.86324 4.14356 2.09531 3.47846 4.64711 4.88898 4.57020 4.06661 3.67492 3.36953 2.83992 5.38147 3.98707 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 4 2.82578 4.12423 3.59391 2.60924 3.38159 4.22608 3.17317 2.62751 3.08682 1.65334 3.81054 3.57573 4.29543 3.17311 2.40604 2.57761 2.91838 2.80446 5.77088 3.37403 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.78046 5.29932 0.61958 0.77255 0.48576 0.95510\n- 5 3.09016 5.17079 4.11416 3.42996 4.37449 3.08279 4.56637 3.74676 3.52325 3.44135 4.05897 3.98671 4.67272 3.84172 3.90990 1.55944 0.94016 3.39871 4.45650 4.29428 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00461 5.77696 6.49931 0.61958 0.77255 0.47268 0.97639\n- 6 3.30109 5.43633 5.66649 5.46600 5.87010 3.95924 6.12517 4.60449 5.32378 4.98852 4.76335 5.06576 0.20902 5.54154 5.42084 3.56759 3.68950 4.21514 7.26866 6.17357 6 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 7 2.56169 4.24223 5.31418 4.70072 3.55104 4.54127 4.87421 3.12568 4.49106 1.66792 3.28431 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 105 2.71879 5.68447 3.45480 3.01644 4.98781 3.08221 3.32144 3.12893 1.36380 3.97177 4.07991 3.55668 4.46328 3.27056 2.17441 2.48343 2.57998 3.09299 6.14295 3.58876 213 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 106 2.81757 5.15293 3.35084 2.90089 4.57598 1.90319 3.94199 4.58550 1.76383 3.55194 3.77110 1.97753 4.44511 3.02407 3.01600 2.15630 3.50634 4.15401 5.44075 3.97315 214 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 107 2.40668 4.43138 3.78729 3.22683 4.71069 4.16277 4.38879 4.11748 3.08096 3.73660 4.56116 3.58372 4.56199 3.25507 1.45049 3.01589 1.24538 3.16257 5.99500 4.67844 215 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 108 1.59349 5.58887 3.66588 3.11139 4.90147 2.66633 4.16435 4.33883 3.10845 3.90571 4.69345 3.04207 3.54606 3.46222 3.15767 1.89620 1.73895 2.87695 6.11224 4.75421 216 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 109 2.16739 4.76894 5.16363 4.55916 1.61874 4.51684 4.36114 2.09072 3.64363 2.26540 2.14285 3.74282 4.88225 3.47527 3.49137 3.65611 2.93805 2.95569 4.15438 3.54303 217 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 110 3.03282 5.54371 5.54637 5.61400 6.46810 0.15103 6.46060 6.01973 5.84528 5.70492 6.43352 5.14939 5.19429 5.88763 5.86179 3.60192 4.21997 5.01236 7.78340 6.77196 218 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 111 3.29618 3.78728 4.90444 4.64776 1.54215 4.53010 4.20061 3.18892 4.29553 1.19334 2.03882 3.73435 4.89454 4.07382 4.27617 3.83813 3.46661 3.00309 5.37585 3.64584 219 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00460 5.78046 6.50281 0.61958 0.77255 0.48576 0.95510\n- 112 5.90161 7.18352 6.68421 6.76803 7.47544 0.01948 7.47288 7.67365 7.03092 6.92873 8.09780 6.88599 6.52438 7.27195 6.88834 6.15603 6.43440 7.02519 7.95324 7.69394 220 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00310 5.77896 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6_I_II_III_IV_V_VI_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,605 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6_I_II_III_IV_V_VI_7\n-LENG 194\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:10 2020\n-NSEQ 61\n-EFFN 12.379456\n-CKSUM 2859965930\n-GA 40 40;\n-STATS LOCAL MSV -10.3691 0.70573\n-STATS LOCAL VITERBI -11.3624 0.70573\n-STATS LOCAL FORWARD -4.1468 0.70573\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.81672 4.67492 3.09810 2.63077 2.91229 2.67228 3.89455 2.72150 2.52021 2.41808 3.94664 3.01912 3.11506 3.29546 2.87716 2.66155 2.88707 2.82789 4.63100 3.37386\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.00000 *\n- 1 3.53585 5.87372 3.16926 2.46364 2.06040 3.00747 2.96490 2.97665 3.30183 3.34750 4.93214 3.54356 2.01633 3.12512 2.66761 3.16782 2.77613 3.04960 6.34750 2.92918 1 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 2 3.21323 6.32784 4.17523 3.58783 5.73752 3.81028 2.86038 5.17512 0.53439 4.61121 5.38253 2.90448 5.00643 3.82281 2.69197 3.12003 4.11130 4.75966 6.68847 5.36331 2 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 3 2.99280 5.95595 3.21183 2.96475 2.39939 3.70864 4.51050 4.72867 2.87719 2.56258 5.00594 2.95989 1.02730 3.04685 3.74702 3.00728 3.76307 4.32783 6.40992 4.43774 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 4 4.09312 5.43519 5.97784 5.42068 0.81627 5.22143 5.21087 2.18021 3.96773 2.37260 4.51150 5.31120 5.56789 5.27258 5.18283 4.54234 4.32249 3.30513 3.30929 1.79422 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 5 2.23078 2.64431 5.19408 4.60294 3.46569 3.96258 5.06416 2.64567 4.46777 3.28435 4.20632 3.46996 5.12153 4.67208 3.03983 2.58217 1.16091 2.14391 5.70429 4.51631 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 6 3.70251 5.07145 5.67748 5.06378 1.00002 4.87860 5.20959 2.00457 3.81389 2.04577 4.17015 5.04350 5.23805 4.97486 4.85242 4.19181 3.39426 2.15029 5.69135 2.50254 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 7 2.33343 3.69596 3.82847 2.68614 5.25464 3.67176 4.52085 3.48710 2.67937 4.23769 5.00067 2.7'..b'.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73708 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.02053 3.95032 6.84209 0.30683 1.33096 0.81603 0.58373\n- 187 2.46165 5.88531 3.83705 3.28327 5.21357 2.01095 4.52414 4.66701 2.97573 4.20315 4.97261 2.98863 3.05725 3.64015 3.76498 1.09073 2.36668 3.73132 6.38173 4.00487 315 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00327 6.11975 6.84209 0.61958 0.77255 0.32372 1.28537\n- 188 3.64439 5.04618 5.44360 4.14591 2.19562 4.79480 5.11916 2.03310 4.65806 1.59031 2.12743 4.90136 5.16009 1.93222 3.08273 2.83127 3.87650 3.29456 5.66498 3.37361 316 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 189 6.56028 7.69857 7.24251 7.33069 7.97411 0.01093 7.96472 8.23935 7.56969 7.42953 8.64727 7.48003 7.01165 7.82360 7.38154 6.83641 7.07830 7.63491 8.37902 8.20688 317 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 190 3.80881 6.13110 6.70257 6.18852 0.67581 6.04310 5.80852 3.99653 5.99349 1.63452 1.96370 6.08346 6.24033 5.89394 5.91259 5.39693 5.08962 4.15856 5.94536 2.75887 318 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 191 6.56028 7.69857 7.24251 7.33069 7.97411 0.01093 7.96472 8.23935 7.56969 7.42953 8.64727 7.48003 7.01165 7.82360 7.38154 6.83641 7.07830 7.63491 8.37902 8.20688 319 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 192 2.55264 2.73347 4.42965 2.61097 1.97862 3.73953 4.81112 3.84483 2.53747 2.80015 1.74042 4.28041 4.94191 2.52013 3.57775 3.01941 3.82482 3.34463 4.36171 4.08434 320 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 193 2.32345 3.50218 5.62955 5.01325 2.92343 4.82187 5.15639 1.38320 4.79477 2.14257 4.14185 4.98924 5.18530 4.92313 4.79762 4.13387 2.81480 1.58293 3.83066 2.64652 321 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00313 6.16405 6.88639 0.61958 0.77255 0.48576 0.95510\n- 194 3.33824 6.03659 2.72605 1.48074 5.38215 4.29852 4.48547 4.07352 1.79285 4.34200 4.13934 2.40067 4.69204 3.58170 1.68027 3.13111 3.75621 3.26148 6.46890 5.05782 322 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00211 6.16302 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6e_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6e_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,653 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6e_I_II_III_IV_V_VI_1\n-LENG 210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:13 2020\n-NSEQ 6\n-EFFN 1.415039\n-CKSUM 2076556644\n-GA 95.2 95.2;\n-STATS LOCAL MSV -10.5162 0.70476\n-STATS LOCAL VITERBI -11.3351 0.70476\n-STATS LOCAL FORWARD -4.5766 0.70476\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55312 4.53078 3.06829 2.64844 3.21667 2.87305 3.67121 3.01453 2.59186 2.33601 3.65808 3.13667 3.32070 2.88373 2.71365 2.71571 2.91169 2.74084 4.34528 3.65654\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.00000 *\n- 1 3.48062 4.96042 4.67200 4.33798 3.56698 4.26515 4.95261 2.80264 4.07279 2.10686 0.64124 4.54146 4.75439 4.43204 4.20973 3.86899 3.81020 2.86493 5.45607 4.25451 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 2 3.42248 4.74633 4.75558 4.31289 2.35083 4.37045 3.80384 2.18325 4.12266 2.69660 3.81927 4.19510 4.69492 4.18955 4.18218 3.70110 3.64613 3.04587 2.36228 1.07577 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 3 2.17896 4.60649 4.39840 3.97270 3.50379 4.01141 4.68323 2.54025 3.81599 0.85920 3.38872 4.17450 4.49886 4.10681 4.00849 3.42480 3.37214 2.50063 5.34828 4.17392 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 4 2.45716 4.40157 3.73648 3.43325 4.55654 3.18213 4.48151 3.94665 3.44993 3.66071 4.49396 3.56520 3.93547 3.75342 3.75285 1.07741 1.54102 3.39985 5.90217 4.68772 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 5 3.06594 5.20328 3.55610 2.86490 4.56689 3.77917 3.75651 3.92150 1.39128 3.41646 2.71480 3.29799 4.13303 2.89255 1.60620 3.07771 3.24578 3.61186 5.54296 4.33154 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 6 3.43965 4.68730 5.33763 4.80191 3.51052 4.86965 5.32718 1.34000 4.68750 1.16751 3.28109 4.98154 5.05738 4.79396 4.77624 4.25150 3.67695 1.61363 5.59171 4.49855 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 7 2.72010 4.42318 3.62870 3.07134 3.58418 3.70091 3.99401 2.27822 2.99593 2.57839 3.52841 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 203 3.44109 5.13273 4.21733 4.19506 5.26743 0.24344 5.24954 5.02677 4.44438 4.59952 5.60139 4.38445 4.53559 4.72813 4.59258 3.63234 3.96064 4.45379 6.19277 5.39748 245 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 204 2.94893 4.53358 4.02031 3.43387 3.41737 3.96852 4.19640 2.67792 2.34060 1.26484 2.36175 3.77786 4.31044 3.55823 3.38965 3.25842 3.17399 2.61525 5.07883 3.90119 246 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 205 2.25115 4.53836 4.55468 3.99537 3.30570 4.22014 4.58970 2.43045 3.85162 1.03143 2.39216 4.23295 4.54625 4.05923 4.02515 3.54531 3.33851 2.42916 5.14844 4.02249 247 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 206 2.71510 4.41673 3.61306 3.05219 3.50927 3.68921 3.94889 2.85648 2.94966 1.71354 2.54872 3.44526 4.07148 2.55626 3.27674 2.42100 2.94941 2.66428 4.99332 3.76578 248 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 207 2.90165 4.31369 4.48589 3.92265 3.46230 2.65927 4.47458 1.46795 3.79976 1.93837 3.39367 4.11552 4.44367 4.02691 3.97354 3.40328 3.14698 1.65768 5.10487 3.91304 249 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 208 2.31464 5.01726 3.04754 2.12889 4.30098 3.52727 3.71450 3.70483 1.67236 2.53541 4.09108 3.04168 3.92871 2.85060 2.82685 2.76493 2.98317 3.36441 5.48794 4.15412 250 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 209 2.74988 4.85507 3.23222 2.80068 4.47936 2.35130 3.95574 3.91337 2.64228 3.48983 4.31256 3.23927 1.54777 3.12210 2.12557 2.81976 3.07403 3.50487 5.66133 4.38177 251 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01852 4.39376 5.11610 0.61958 0.77255 0.48576 0.95510\n- 210 2.80488 4.66986 3.40539 2.90774 3.87281 2.68024 3.90931 3.21625 2.07006 1.49817 3.80383 3.33589 4.06767 3.15368 2.97267 2.94981 3.05235 2.97642 5.24527 3.99505 252 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01251 4.38774 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6e_I_II_III_IV_V_VI_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6e_I_II_III_IV_V_VI_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,659 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6e_I_II_III_IV_V_VI_2\n-LENG 212\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:13 2020\n-NSEQ 51\n-EFFN 3.315125\n-GA 64.0 64.0;\n-CKSUM 2921230092\n-STATS LOCAL MSV -10.4541 0.70466\n-STATS LOCAL VITERBI -11.1472 0.70466\n-STATS LOCAL FORWARD -4.5458 0.70466\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52524 4.55957 3.02198 2.64390 3.35540 2.72817 3.56516 3.13422 2.64537 2.40581 3.70993 3.15357 3.26652 2.91392 2.65831 2.67394 2.83071 2.80506 4.32749 3.68198\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.00000 *\n- 1 3.14361 4.70966 5.12286 4.53506 3.58890 4.55254 4.90115 2.38546 4.37437 1.71515 0.99855 4.65135 4.85936 4.50907 4.45130 3.87494 2.65597 2.49697 5.35926 4.22828 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 2 4.76899 5.78736 5.78643 5.64901 1.64918 5.38264 2.74691 3.11450 5.42965 3.69202 4.97934 4.97777 5.64823 5.13168 5.25538 4.76987 4.96832 4.33505 2.32505 0.70829 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 3 2.85951 5.18861 5.76107 5.16876 3.17789 5.19741 5.48919 2.64388 5.01771 0.47961 2.71631 5.32666 5.33416 4.97444 5.00756 4.55195 4.12227 2.97715 5.65350 4.64369 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 4 2.90712 4.66079 3.86687 3.32151 3.89890 3.83933 3.82820 2.42578 3.26634 2.96916 3.86373 3.69209 4.28978 3.57586 3.61103 1.17070 2.04793 2.77340 5.34181 4.10775 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 5 2.79737 5.32447 3.20906 2.48810 4.64055 3.69847 3.34574 3.63137 1.79542 3.15470 3.68337 3.18186 4.08840 2.88245 1.57481 2.57653 3.14325 3.69999 5.76851 4.39208 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 6 3.20372 4.83230 5.52746 4.94343 2.80839 4.83860 5.20930 1.52062 4.77316 1.08504 3.16615 5.00023 5.09392 4.84005 4.78052 4.18272 3.76763 1.73607 5.54031 4.43306 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 7 2.69604 4.68682 3.66612 2.97766 3.83524 3.84494 3.49469 2.71485 3.06559 2.73272 3.38118 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 205 2.75822 1.23894 4.83934 4.24128 2.36844 4.15730 4.43084 2.77582 4.05131 2.25316 3.11488 4.27147 4.51653 4.19421 4.09764 3.46689 3.23717 2.60975 4.91384 2.71350 303 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 206 4.52353 6.06049 5.37294 5.42518 6.32951 0.07275 6.32894 6.31737 5.71762 5.74660 6.81453 5.54247 5.45012 5.96171 5.72016 4.74118 5.06585 5.65529 7.02531 6.50392 304 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 207 4.50680 5.65851 6.37467 5.81110 3.57721 5.92200 6.14812 2.85650 5.63614 0.39591 1.98332 6.10492 5.78803 5.39430 5.52542 5.38457 4.69219 3.22890 5.93281 5.04146 305 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 208 4.43044 5.58444 6.36620 5.77897 3.57917 5.88234 6.11487 2.42156 5.64861 0.62398 1.43795 6.05536 5.75206 5.37665 5.52805 5.31237 4.61371 3.14558 5.92122 5.04937 306 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 209 2.90992 4.63846 3.78725 3.22335 3.78207 3.87974 4.14915 3.13881 3.16575 1.94931 2.67397 3.62671 4.26774 2.87650 3.51619 1.70950 2.02680 2.91566 5.22943 3.99578 307 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 210 3.95218 5.14205 6.02453 5.51488 3.96664 5.51346 6.05790 1.38174 5.42870 0.93237 3.69968 5.68137 5.63253 5.47518 5.47689 4.93568 4.19043 1.49855 6.16493 5.10483 308 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 211 1.52743 5.19360 3.24023 2.58969 4.46779 3.24657 3.89693 3.47543 2.17720 3.46796 4.25880 3.21050 4.09359 3.02633 2.13637 2.65926 3.12565 3.02410 5.67474 4.31900 309 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00591 5.72825 0.61958 0.77255 0.48576 0.95510\n- 212 2.83422 5.31467 3.25298 2.55533 4.63234 3.47820 3.91279 4.07497 2.46359 3.35672 4.38246 3.22946 1.48283 3.03089 1.94713 2.74084 3.04063 3.69466 5.77125 4.41250 310 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00674 5.00265 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6e_I_II_III_IV_V_VI_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6e_I_II_III_IV_V_VI_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,629 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6e_I_II_III_IV_V_VI_3\n-LENG 202\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:13 2020\n-NSEQ 113\n-EFFN 3.107086\n-CKSUM 1304056737\n-GA 16.7 16.2; \n-STATS LOCAL MSV -10.6869 0.70523\n-STATS LOCAL VITERBI -11.4345 0.70523\n-STATS LOCAL FORWARD -4.2692 0.70523\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49845 4.56419 3.00551 2.67574 3.28104 2.68871 3.55573 3.12646 2.66762 2.41256 3.78012 3.17084 3.25031 2.95263 2.66671 2.66619 2.83597 2.80986 4.35743 3.66632\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.00000 *\n- 1 3.51103 4.90353 4.85837 4.35930 2.08523 4.50937 3.29684 3.39678 4.21860 2.97290 4.03702 4.06716 4.85337 3.92666 4.33556 3.76368 2.74516 3.22116 2.46957 0.95926 1 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 2 2.98671 4.39686 4.69774 3.73798 2.67692 4.13139 3.71613 2.56201 3.93161 0.88960 3.01938 4.20547 4.22101 4.10129 4.02363 3.43386 3.21724 2.61353 4.98674 3.80465 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 3 2.58534 4.67194 3.90730 3.36897 4.02301 3.77513 4.31777 2.91242 3.31998 2.74458 3.96995 3.71500 4.27952 3.62666 3.67100 1.03712 2.15434 2.92960 5.46197 4.22910 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 4 3.00017 5.45154 3.38851 2.70682 4.81944 3.81668 3.36414 3.96536 1.69365 3.56756 4.50264 3.29657 4.19343 2.83372 1.25265 2.78157 3.27901 3.55991 5.83201 4.50771 4 r - - -\n- 2.68613 4.42227 2.77522 2.73125 3.46356 2.40515 3.72482 3.29356 2.67743 2.69348 4.24692 2.90349 2.73737 3.18149 2.89798 2.37889 2.77522 2.98514 4.58479 3.61505\n- 0.02614 3.79983 5.67683 0.89956 0.52214 0.48576 0.95510\n- 5 2.52797 3.53079 5.07019 4.47285 3.09757 4.32338 4.68660 1.55455 4.27821 1.60612 3.20389 4.48165 4.66552 4.41558 4.30168 3.64587 3.33213 1.57665 5.16012 3.98644 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 6 2.57085 4.96521 3.33051 2.42047 3.83619 3.71862 3.56941 3.01106 2.76024 2.90718 3.75101 3.27762 3.04319 2.81046 2.05042 2.56754 2.40040 2.82711 4.78082 4.01706 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 7 3.30945 4.65180 5.21179 4.61011 2.96032 4.52490 4.85511 1.82739 4.42762 0.96844 3.0653'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 195 2.81758 1.23095 4.66915 4.07584 2.32351 4.07125 4.35131 2.77154 3.90349 2.41378 3.24138 3.78005 4.43874 4.07270 3.98775 3.37572 3.13911 2.58726 4.88133 2.95371 814 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 196 4.43094 5.98262 5.27787 5.32582 6.24516 0.08006 6.24381 6.21494 5.61734 5.65710 6.71871 5.44693 5.37452 5.86368 5.63187 4.64635 4.97254 5.55722 6.95900 6.41599 815 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 197 4.44386 5.60386 6.29772 5.73554 3.54016 5.84754 6.07859 2.81508 5.55614 0.39369 2.06940 6.02324 5.73212 5.33679 5.45754 5.30461 4.63157 3.17810 5.88636 4.98574 816 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 198 4.29987 5.47929 6.22402 5.63049 3.17493 5.70666 5.93850 2.66519 5.50291 0.65044 1.44791 5.87083 5.63377 5.26157 5.39610 5.11297 4.48642 2.90571 5.81881 4.91745 817 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 199 2.90070 4.46307 4.11403 3.53948 3.57132 3.95032 4.24875 2.85264 3.44596 1.47680 2.85342 3.83875 4.32978 3.46784 3.70412 2.07426 1.95675 2.71405 5.07180 3.86869 818 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 200 3.79419 5.00393 5.85584 5.34556 4.00113 5.32599 5.88600 1.06936 5.25119 1.18387 3.75291 5.48681 5.50547 5.36580 5.32706 4.73320 3.79150 1.60386 6.10754 4.99598 819 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95448 5.67683 0.61958 0.77255 0.48576 0.95510\n- 201 1.62998 5.10111 3.28162 2.71782 4.35739 3.47098 3.89922 3.51490 2.13983 3.31554 4.02709 3.23453 4.09564 3.04408 1.86801 2.80652 3.11511 3.03632 5.59659 4.26414 820 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.93954 5.66188 0.61958 0.77255 0.48576 0.95510\n- 202 2.60763 5.31281 3.07814 2.57057 4.63194 3.67493 3.51937 4.08809 2.41006 3.47033 4.36548 3.15795 1.67217 2.94417 1.90888 2.71586 3.08623 3.69054 5.75601 4.37898 821 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00721 4.93605 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6f_I_II_III_IV_V_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6f_I_II_III_IV_V_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,581 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6f_I_II_III_IV_V_VI_1\n-LENG 186\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:13 2020\n-NSEQ 7\n-EFFN 1.295410\n-CKSUM 695797475\n-GA 131.0 125.1;\n-STATS LOCAL MSV -10.1831 0.70628\n-STATS LOCAL VITERBI -11.2768 0.70628\n-STATS LOCAL FORWARD -4.6686 0.70628\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58899 4.45228 3.03684 2.66924 3.22136 2.91691 3.53801 2.88779 2.65496 2.42390 3.71562 3.10053 3.34144 2.98241 2.84000 2.60613 2.84721 2.69807 4.71085 3.31579\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.00000 *\n- 1 2.71173 4.64129 2.42882 2.74685 3.85694 3.53643 3.89337 3.13935 2.80501 2.84738 1.75620 3.21555 3.98973 3.12636 3.21783 2.83950 2.44647 2.89590 5.27022 3.98876 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 2 2.70548 4.97749 2.24197 2.44705 4.21995 3.45744 3.71165 3.68454 2.51937 3.26332 4.06941 2.05317 3.88584 2.85734 2.99413 2.71419 2.48839 3.33659 3.12407 4.09464 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 3 3.71579 5.08963 4.49152 4.09901 1.66759 4.45743 1.17792 3.68488 3.97369 3.05512 4.23748 4.07667 4.78080 4.07988 4.13598 3.78580 3.93362 3.54621 3.83836 1.73071 3 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 4 3.98987 5.28615 4.56318 4.40079 2.47336 4.40191 3.94131 3.94551 4.24888 3.27238 4.57302 4.34637 4.87404 4.43432 4.32580 4.06950 4.28389 3.84035 4.12725 0.44359 4 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 5 2.69947 4.34499 3.69966 3.12414 2.79637 3.70737 3.95530 2.35744 3.01591 1.84453 3.38118 3.49238 4.07710 2.61723 2.56270 2.96611 2.92927 2.58134 4.90964 3.68443 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 6 2.96955 5.50648 1.49587 1.60990 4.82034 3.40161 3.84660 4.31353 2.77017 3.81443 4.62246 2.86703 3.96203 2.99069 3.32850 2.88374 2.32326 3.88626 5.97494 4.50397 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 7 3.44200 4.70498 5.21158 4.71516 3.51446 4.83024 5.29901 0.86142 4.55235 1.61814 3.32196 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 179 2.32541 4.88204 3.02160 2.51114 4.21931 3.44650 3.72655 3.63944 2.22156 3.23086 4.03629 2.01378 3.87884 2.87143 2.96026 2.26284 2.91457 2.80069 5.45436 4.11457 202 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 180 1.70354 4.51720 3.36253 2.92793 4.30106 3.26253 4.07051 3.71233 2.95665 3.36055 4.18007 2.60285 3.88466 3.27565 3.35947 2.12303 1.70269 3.27468 5.61117 4.34006 203 t - - -\n- 2.68635 4.42242 2.77495 2.73140 3.46371 2.40504 3.72512 3.29308 2.67758 2.69334 4.24707 2.90317 2.73757 3.18164 2.89818 2.37876 2.77499 2.98536 4.58494 3.61520\n- 0.28961 1.40607 5.06147 1.13972 0.38553 0.48576 0.95510\n- 181 1.65595 4.50743 3.44208 2.94928 3.82855 3.51991 3.98089 3.03046 2.88448 2.83265 3.75495 3.34987 4.00566 2.41945 3.24546 2.83323 2.95112 1.95643 5.25256 3.99995 208 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 182 2.08797 4.32946 3.96146 3.50885 3.95212 3.41501 4.38564 2.84109 3.43942 2.90298 3.87627 3.67984 4.05357 3.73373 3.72276 2.81642 1.30231 1.94851 5.45908 4.25318 209 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 183 3.32348 4.57987 5.19281 4.68051 3.69953 4.77876 5.32199 1.63181 4.57741 1.83408 3.48268 4.87219 5.02268 4.79108 4.73419 4.16651 3.57501 0.87781 5.71620 4.53987 210 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 184 3.49343 5.14433 4.15320 4.07577 4.99132 3.80692 5.09036 4.68927 4.17953 4.24984 5.33533 4.32489 0.28857 4.55153 4.34867 3.68069 3.97453 4.27466 6.01974 5.12570 211 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 185 2.34079 4.47822 3.42327 2.86703 3.51869 3.61228 2.95492 3.00284 2.79937 2.23334 3.58135 2.61848 3.99728 3.13783 3.16784 2.85639 2.91090 2.76652 2.64153 3.65264 212 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01957 4.33913 5.06147 0.61958 0.77255 0.48576 0.95510\n- 186 3.27921 4.60113 4.82626 4.34268 1.40218 4.32690 3.97152 2.05552 4.16225 2.25507 3.46794 4.25572 4.63509 4.20802 4.19378 3.65845 3.50401 2.76711 2.07453 2.58545 213 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01322 4.33277 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6f_I_II_III_IV_V_VI_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6f_I_II_III_IV_V_VI_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,578 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6f_I_II_III_IV_V_VI_2\n-LENG 185\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:13 2020\n-NSEQ 33\n-EFFN 2.034302\n-CKSUM 2995035208\n-GA 103 103;\n-STATS LOCAL MSV -10.3342 0.70633\n-STATS LOCAL VITERBI -11.2628 0.70633\n-STATS LOCAL FORWARD -4.4573 0.70633\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59885 4.51816 3.08061 2.64107 3.16940 3.01531 3.50432 2.89091 2.60629 2.45479 3.69635 3.09266 3.22137 2.94192 2.79827 2.59969 2.88795 2.73006 4.80184 3.38188\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.00000 *\n- 1 2.74265 4.69793 3.05634 2.61904 3.22842 3.63742 3.86179 3.26028 2.59795 2.79068 1.80627 2.96608 4.02320 2.86582 3.17208 2.77057 2.68142 2.85541 5.24494 3.96416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 2 2.74768 5.22119 2.19166 2.45139 4.55217 3.52333 3.71271 4.02720 2.16332 3.51979 4.26650 2.37568 3.91784 2.81449 2.35954 2.36621 2.58505 3.60446 4.26968 4.26109 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 3 2.95563 4.87202 2.89196 2.95811 2.66729 3.80853 1.77843 3.45588 2.95614 3.06402 3.97425 3.40460 4.19618 3.26821 3.36662 2.62634 3.18738 3.20222 4.79668 1.96674 3 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 4 4.50482 5.67910 5.04543 4.95912 2.72558 4.78193 4.23731 4.44521 4.81150 3.69031 5.03881 4.77471 5.25800 4.90989 4.81379 4.54149 4.80513 4.35453 4.37982 0.27567 4 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 5 2.82550 4.26670 4.39729 3.80526 2.23016 3.95135 4.25559 1.85697 3.65918 1.67409 3.29014 3.97275 4.30782 2.79626 3.33056 3.24611 3.05636 2.33629 4.86701 3.68426 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 6 2.74426 4.13646 1.99078 1.73923 4.37790 3.54233 3.73978 3.82195 2.50547 3.37291 3.64195 2.94591 3.93581 2.86098 2.98546 2.74027 2.78675 3.18624 5.56557 3.60937 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 7 3.48209 4.73450 5.41034 4.88441 3.38810 4.92304 5.41754 0.72243 4.77720 2.00749 3.55744 5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 178 2.41935 5.16784 3.03059 2.47399 4.47970 3.53244 3.54640 3.94102 2.24542 3.15447 4.21826 2.48780 3.92492 2.61689 2.47975 2.12875 2.39659 3.41361 5.62042 4.23326 237 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 179 2.41441 5.21254 2.91565 2.31547 4.54118 2.98017 3.71087 4.01548 2.14407 3.51075 4.25794 2.33247 3.91503 2.73489 2.60637 2.48947 2.46081 3.09249 5.65527 4.25471 238 k - - -\n- 2.68626 4.42267 2.77523 2.73078 3.46396 2.40545 3.72461 3.29357 2.67749 2.69341 4.24732 2.90314 2.73782 3.18048 2.89795 2.37898 2.77510 2.98531 4.58519 3.61489\n- 0.43711 1.05155 5.35920 1.39161 0.28592 0.48576 0.95510\n- 180 1.39229 4.66480 3.51635 3.02386 4.26987 1.89549 4.13312 3.67083 3.02072 3.32741 4.16112 3.40751 4.03857 2.96038 3.42705 2.42483 2.90238 2.77134 5.60420 4.33367 246 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 181 1.98917 4.42398 3.77015 3.21407 3.43385 3.70301 4.07958 2.94348 3.15707 2.69315 3.59623 3.56586 4.13239 3.44802 3.48124 2.82238 1.46886 2.40533 5.08104 3.47975 247 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 182 3.55125 4.76522 5.56571 5.07768 3.97401 5.11000 5.74846 1.65175 4.99634 2.00365 3.72704 5.24610 5.32487 5.20886 5.14175 4.52612 3.80578 0.68741 6.06254 4.87914 248 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 183 4.05440 5.61273 4.73981 4.71869 5.55968 4.26163 5.66713 5.38829 4.85700 4.88461 6.00281 4.92957 0.14959 5.21223 4.95670 4.25730 4.55665 4.92871 6.46053 5.70723 249 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 184 2.62309 4.89043 2.96600 2.36873 4.11379 3.58751 3.26859 3.52208 2.27375 2.68470 3.13504 2.90776 3.97663 2.95721 3.06086 2.79482 2.97592 3.21414 2.23353 4.08057 250 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01450 4.63686 5.35920 0.61958 0.77255 0.48576 0.95510\n- 185 3.55793 4.84724 5.20155 4.71348 0.95481 4.64350 4.29677 2.60881 4.52652 1.64970 3.49348 4.60230 4.91090 4.51422 4.51337 3.98241 3.77648 2.96529 3.05801 2.90538 251 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00978 4.63214 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6f_I_II_III_IV_V_VI_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas6f_I_II_III_IV_V_VI_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,578 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas6f_I_II_III_IV_V_VI_3\n-LENG 185\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:13 2020\n-NSEQ 51\n-EFFN 2.356384\n-CKSUM 4069978864\n-GA 43.8 43.1;\n-STATS LOCAL MSV -10.2095 0.70634\n-STATS LOCAL VITERBI -11.3083 0.70634\n-STATS LOCAL FORWARD -4.3560 0.70634\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58389 4.55942 3.07747 2.62796 3.25496 2.98661 3.50337 2.87944 2.61118 2.45461 3.76580 3.13512 3.22807 2.92173 2.77441 2.59189 2.86066 2.74874 4.84516 3.36345\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.00000 *\n- 1 4.68744 5.82060 5.21509 5.15342 2.83279 4.91590 4.35453 4.62659 5.01011 3.84465 5.20767 4.92825 5.39375 5.07764 4.98665 4.70965 4.98958 4.54015 4.48638 0.23362 1 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.48576 0.95510\n- 2 2.80540 4.31013 4.16595 3.58251 2.78078 3.89129 4.18467 1.95466 3.47056 1.78883 3.40586 3.83053 4.26013 2.21044 3.15401 3.03603 3.03714 2.33938 4.91656 3.72055 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.48576 0.95510\n- 3 3.34838 6.00715 1.29293 1.12169 5.30031 3.62831 4.15737 4.84211 3.17120 4.29943 5.12941 2.84967 4.24431 3.31299 3.78639 3.21906 2.93937 4.38147 6.44404 4.90853 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.48576 0.95510\n- 4 3.60674 4.85142 5.56027 5.01954 3.32983 5.03803 5.48672 0.70751 4.90380 1.79185 3.30655 5.16723 5.23344 4.99723 4.97194 4.41575 3.65265 2.04729 5.75266 4.64700 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.48576 0.95510\n- 5 2.80246 5.23513 3.00132 2.45158 4.55647 3.58142 3.52006 4.01873 2.36526 3.41320 4.28411 2.89896 3.97366 2.49398 2.10982 2.72939 1.71257 3.61341 5.67760 4.02780 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.48576 0.95510\n- 6 2.57637 4.28757 4.70241 4.10513 2.92293 4.07196 4.41036 2.18120 3.93257 1.28946 3.35505 4.17848 4.42684 4.09381 4.00427 2.79733 3.13301 1.82121 4.94238 3.76616 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.48576 0.95510\n- 7 2.81348 4.34399 4.10135 3.51058 3.44982 3.87831 4.15172 2.16090 3.02799 1.23180 3.34801 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74324 5.46558 0.61958 0.77255 0.48576 0.95510\n- 178 2.46590 5.24525 3.04660 2.49019 4.57276 3.56004 3.47551 4.04558 2.22855 3.24307 4.29081 2.40495 3.75053 2.29381 2.22691 2.33695 2.87067 3.41947 5.68806 3.92056 256 r - - -\n- 2.68610 4.42229 2.77524 2.73128 3.46358 2.40513 3.72499 3.29358 2.67718 2.69359 4.24694 2.90351 2.73744 3.18151 2.89805 2.37875 2.77524 2.98523 4.58481 3.61507\n- 0.26219 1.90317 2.50665 0.19940 1.71047 0.48576 0.95510\n- 179 2.30024 5.10971 2.83983 2.34267 4.39715 2.92839 3.54199 3.39110 2.50684 3.39022 4.16643 2.79838 3.94118 2.63964 2.98763 2.31977 2.32288 2.76520 5.57895 4.20578 258 a - - -\n- 2.68644 4.42251 2.77510 2.73073 3.46380 2.40497 3.72520 3.29362 2.67717 2.69361 4.24608 2.90348 2.73765 3.18172 2.89826 2.37883 2.77534 2.98514 4.58503 3.61461\n- 0.23945 1.56852 5.38512 1.35626 0.29790 0.44253 1.02837\n- 180 1.52862 4.43851 3.21703 2.66090 4.19080 3.31019 3.83876 3.60227 2.35404 3.21604 4.03516 3.17015 4.00880 2.72174 3.00527 2.24973 2.95794 2.89436 5.46943 4.14476 266 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01323 4.72794 5.45028 0.61958 0.77255 0.51834 0.90512\n- 181 2.13585 4.76514 3.40679 2.46793 4.14198 3.59490 4.02183 3.51071 2.89555 3.18773 4.03473 3.34425 4.07437 3.22796 3.31817 2.54550 1.35795 2.70069 5.48577 4.20116 267 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01323 4.72794 5.45028 0.61958 0.77255 0.51834 0.90512\n- 182 3.22325 4.55361 5.04611 4.49949 3.79448 4.52467 4.99183 1.72422 4.36774 2.22727 3.68253 4.62963 4.85830 4.58371 4.49980 2.87963 3.47432 0.85614 5.52457 4.32574 268 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01323 4.72794 5.45028 0.61958 0.77255 0.51834 0.90512\n- 183 4.23028 5.75767 4.92023 4.91431 5.73198 4.40283 5.83958 5.60324 5.06283 5.07678 6.20541 5.11531 0.12328 5.41204 5.13974 4.43813 4.73737 5.13008 6.59255 5.88380 269 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01323 4.72794 5.45028 0.61958 0.77255 0.51834 0.90512\n- 184 2.68472 4.57916 3.53641 2.32342 2.89237 3.72412 2.88600 3.09753 2.73537 2.56034 3.03510 3.18455 4.10583 3.25187 3.31909 2.85562 3.00865 2.77773 2.28686 3.89809 270 w - - -\n- 2.68595 4.42231 2.77525 2.73129 3.46360 2.40519 3.72500 3.29360 2.67747 2.69331 4.24695 2.90352 2.73715 3.18152 2.89806 2.37893 2.77525 2.98524 4.58483 3.61509\n- 0.07929 2.63205 5.45028 0.91583 0.51113 0.51834 0.90512\n- 185 3.40350 4.72822 5.09829 4.58047 0.85361 4.51186 4.33201 2.49532 4.39514 2.32971 3.55035 4.51581 4.81725 4.44366 4.41063 3.84216 3.62985 2.31531 3.40572 3.03876 274 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00892 4.72363 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,845 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-A_1\n-LENG 274\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:14 2020\n-NSEQ 8\n-EFFN 1.308594\n-CKSUM 2798775504\n-GA 174.4 171.4;\n-STATS LOCAL MSV -10.9490 0.70206\n-STATS LOCAL VITERBI -11.6787 0.70206\n-STATS LOCAL FORWARD -5.3771 0.70206\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46116 4.44958 3.07318 2.59610 3.35076 2.89136 3.67283 2.87574 2.63985 2.48493 3.67344 3.04741 3.36866 3.14413 2.87292 2.63047 2.85131 2.53451 5.07188 3.41815\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.00000 *\n- 1 2.17423 4.65947 3.23786 2.72987 4.27132 2.70867 3.89500 3.69470 2.70903 3.30560 4.11320 3.16435 3.87752 3.06323 2.57262 1.62049 2.43757 3.28886 5.53668 4.23299 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 2 1.68538 4.32452 3.82408 3.46841 4.31779 1.24239 4.44094 3.56079 3.46689 3.37936 4.25151 3.57984 3.92207 3.74498 3.76096 2.63032 2.90311 2.39723 5.71983 4.51953 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 3 3.63085 5.38295 4.17730 3.61897 4.86456 3.99145 4.28942 4.46450 2.58783 3.89355 4.90240 3.93089 4.49038 3.50507 0.44836 3.70613 3.87671 4.17252 5.76531 4.71415 3 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 4 2.87948 4.25555 4.61464 4.03773 2.18867 4.05180 4.27683 1.98733 3.87691 2.14580 3.24277 4.11795 4.38886 4.02767 3.96011 3.36562 3.11200 1.48508 4.73184 2.73271 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 5 2.72907 4.77186 3.23175 2.13226 3.96355 3.57536 3.75371 3.33511 2.49574 2.25666 3.05577 3.14703 3.95828 2.93649 2.03846 2.80661 2.95375 3.06889 5.27737 3.99294 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 6 2.48060 4.44274 4.66192 4.14038 3.60022 4.24260 4.77789 2.05111 4.01739 1.65204 3.46213 4.33386 4.62162 4.26627 4.20525 3.60072 3.31222 1.12616 5.38893 4.20132 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 7 3.03170 5.31511 2.65953 2.51485 4.63190 3.47308 3.94294 4.24286 2.72119 3.76143 4.62985 1.04353 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 267 2.74269 5.09385 2.90417 1.54591 4.39929 3.47350 3.69497 3.83762 2.42478 3.37995 4.17001 2.56614 3.89489 2.82100 2.49181 2.72919 2.97686 2.82705 5.55741 4.19190 301 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 268 2.30235 4.63426 3.27415 2.70928 3.82776 3.56389 3.78643 3.16495 1.83257 2.50262 2.98995 3.18213 3.95343 3.00054 3.01942 2.79478 2.54945 2.90705 5.18983 3.91460 302 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 269 2.68772 4.98526 3.02986 2.47178 4.27882 3.48251 3.67108 3.70960 2.16777 3.26751 4.05975 2.52614 3.87695 2.79950 2.13741 2.40479 2.52851 2.84825 5.46273 4.11505 303 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 270 2.36220 4.66435 3.31472 2.73407 3.85606 3.59200 3.77885 2.73186 1.95712 2.23059 3.74941 3.20010 3.97275 2.99009 2.44552 2.82727 2.94005 2.94894 5.19614 3.92980 304 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 271 2.94531 5.45510 2.11573 1.55496 4.78938 3.40266 3.84335 4.28780 2.75466 3.78748 4.59139 2.87942 3.95753 2.98657 3.30395 1.60616 3.21651 3.85865 5.94619 4.48510 305 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 272 2.70705 4.39432 3.62681 3.05783 3.54187 3.70344 3.96577 2.28614 2.24697 2.22877 3.48821 3.45457 4.08020 3.29885 3.30829 2.95799 2.13718 2.22485 5.02055 3.79074 306 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 273 1.96468 4.37487 4.61683 4.05860 3.50926 4.22790 4.63817 1.76171 3.94652 1.72125 3.39413 4.25985 4.56261 4.16775 4.12340 3.55326 3.23965 1.53404 5.23583 4.05353 307 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01945 4.34530 5.06764 0.61958 0.77255 0.48576 0.95510\n- 274 2.83560 5.31793 2.30119 2.35165 4.65738 2.77628 3.74542 4.13845 1.46212 3.62727 4.40527 2.46082 3.91553 2.86868 3.01643 2.78114 3.08299 3.71567 5.76891 4.35162 308 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.33898 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1037 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-A_2\n-LENG 338\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:15 2020\n-NSEQ 18\n-EFFN 6.165527\n-CKSUM 981143936\n-GA 341 341;\n-STATS LOCAL MSV -10.8263 0.70037\n-STATS LOCAL VITERBI -11.8551 0.70037\n-STATS LOCAL FORWARD -5.4041 0.70037\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60506 4.67020 2.94208 2.43899 3.35736 2.87718 3.82924 2.88193 2.53303 2.50955 3.68486 2.99791 3.43897 3.22278 2.92747 2.67750 2.85349 2.54880 5.03997 3.33438\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12935 5.48536 2.14401 0.61958 0.77255 0.00000 *\n- 1 3.07907 5.17444 2.88846 2.98289 4.38781 3.92701 4.14189 2.83143 2.12903 3.42031 1.26355 2.82607 4.31892 3.31804 3.41156 3.14400 2.66562 3.48849 5.69766 4.38719 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00699 5.36300 6.08535 0.61958 0.77255 0.29018 1.37883\n- 2 2.14063 4.82262 4.12062 2.69066 3.95165 4.15539 4.41628 2.64203 2.70132 3.02988 1.47364 3.93009 4.53289 3.78519 2.91746 3.40718 3.38540 2.31690 5.41108 2.98845 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00618 5.48536 6.20771 0.61958 0.77255 0.48576 0.95510\n- 3 3.14022 4.97001 3.86446 2.64227 1.87932 3.37717 4.31539 3.49570 2.12163 3.18990 4.06705 3.74728 4.45982 3.58810 3.66149 2.14324 2.72240 2.56634 3.46851 2.66671 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00618 5.48536 6.20771 0.61958 0.77255 0.48576 0.95510\n- 4 2.07308 4.73103 4.37268 3.79388 3.84701 2.99550 4.50454 2.24698 2.74932 2.11079 3.84276 4.09789 4.59699 3.96693 2.07082 3.49358 3.40169 1.71900 5.33457 4.12898 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00618 5.48536 6.20771 0.61958 0.77255 0.48576 0.95510\n- 5 2.19192 5.32814 3.54159 2.98408 4.56961 3.96376 4.16971 3.98869 2.96083 2.64970 4.40609 2.33170 4.35603 3.32132 1.81599 1.82798 3.36750 3.66586 5.83305 2.61130 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00618 5.48536 6.20771 0.61958 0.77255 0.48576 0.95510\n- 6 2.51294 4.59127 5.13484 4.52571 2.90856 2.25942 4.72388 1.65598 4.32346 2.77341 2.71740 4.53404 4.74870 4.46529 4.35026 3.69725 2.52347 1.51365 5.23018 4.05243 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06724 5.48536 2.79885 0.61958 0.77255 0.48576 0.95510\n- 7 2.59138 4.72364 4.22618 3.65235 2.37075 2.91234 4.42998 3.19594 2.67712 1.66236 3.83312 3.98948 4.5307'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05355 5.43683 3.04102 0.61958 0.77255 0.68218 0.70423\n- 331 2.58525 5.42037 2.64016 2.17100 2.78939 3.86068 4.05500 2.67885 2.25077 3.70055 4.47678 3.35532 4.25255 3.17422 1.86202 3.05548 2.68385 3.00602 5.88936 4.51642 386 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23110 5.39008 1.60057 0.61958 0.77255 0.83386 0.56981\n- 332 2.63828 5.00221 5.85133 5.34729 4.31320 5.29191 5.89358 1.56306 5.25160 1.76816 4.10045 5.45309 5.54436 5.45710 5.36200 4.68778 4.02752 0.82405 6.26392 5.06723 387 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08031 5.16748 2.63842 0.61958 0.77255 1.29562 0.31983\n- 333 2.05634 5.47736 2.16143 1.70994 4.82100 3.70709 3.91257 4.30851 2.16494 3.78127 4.52055 2.60622 4.11412 3.01185 2.42748 2.91935 3.19434 3.86765 5.90840 4.49375 388 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00913 5.09630 5.81865 0.61958 0.77255 1.39266 0.28557\n- 334 2.93275 5.43560 2.61085 2.08791 4.77593 3.69784 2.92844 4.25961 1.77479 3.73867 4.47825 2.46268 4.09623 2.99097 3.12486 2.39297 3.16460 2.34854 5.87030 4.46040 389 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00913 5.09630 5.81865 0.61958 0.77255 1.39266 0.28557\n- 335 2.46019 4.59116 5.00501 4.44038 1.34232 4.34822 4.48185 2.90480 4.25548 2.68956 3.68897 4.43545 4.70958 4.38223 4.29948 3.66693 3.45133 1.44063 4.87953 2.40751 390 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00913 5.09630 5.81865 0.61958 0.77255 1.39266 0.28557\n- 336 2.31649 4.52501 4.11040 3.53536 3.64282 3.99221 4.27470 2.30807 3.45748 2.72770 3.63711 3.85275 4.36794 2.83401 3.73172 2.58351 2.08597 2.28102 5.12693 1.97079 391 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00913 5.09630 5.81865 0.61958 0.77255 1.39266 0.28557\n- 337 3.30765 5.89630 1.84377 1.38315 5.21603 1.87467 4.18796 4.73030 3.06304 4.19338 4.97027 3.25675 4.32916 2.44582 3.61263 2.48957 3.56461 4.27835 6.32719 4.85505 392 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00913 5.09630 5.81865 0.61958 0.77255 1.39266 0.28557\n- 338 2.30400 4.64769 3.85225 2.03390 3.78260 3.93158 4.19083 3.13488 3.23650 2.36608 3.75265 3.68305 2.36086 3.53623 3.58148 3.18030 3.17819 1.80975 3.23772 4.00322 393 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00616 5.09332 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,713 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-B_1\n-LENG 230\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:14 2020\n-NSEQ 14\n-EFFN 3.893066\n-CKSUM 2735641706\n-GA 33.7 33.7;\n-STATS LOCAL MSV -10.4227 0.70375\n-STATS LOCAL VITERBI -11.2175 0.70375\n-STATS LOCAL FORWARD -5.3724 0.70375\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57831 4.72810 2.94022 2.58193 3.33462 2.82589 3.76745 2.98289 2.57022 2.53813 3.68275 2.95725 3.34876 3.11958 2.82781 2.58816 2.81818 2.63037 4.93672 3.41323\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.00000 *\n- 1 2.20350 4.39119 4.85480 4.24916 2.84739 4.16398 4.49656 1.98204 4.06042 1.96263 3.51030 4.28916 4.52776 4.21413 4.11028 2.81477 1.96513 1.82441 5.02429 3.84518 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 2 2.55478 5.05170 3.40996 2.49952 4.26498 3.79966 4.00995 3.66697 2.24214 2.79788 3.22750 3.35734 2.59494 3.18310 2.74328 3.00850 2.20444 2.11303 5.57239 4.25912 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 3 3.04810 4.42648 4.94779 4.34253 2.04517 4.21043 4.50652 2.81908 4.14025 1.61848 3.51093 4.34804 4.56957 4.27436 4.16600 2.54108 3.28013 1.46783 3.24872 3.76248 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 4 2.49919 5.44235 3.18277 2.12288 4.78242 3.02369 3.90412 4.26505 2.19453 3.74530 4.48482 1.92406 4.10927 2.31006 3.13329 2.55455 3.17428 3.83040 5.87762 2.72539 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 5 2.32912 4.86553 3.63305 3.07773 4.08884 2.22600 4.14318 3.46693 3.05501 2.31853 4.01037 2.06346 4.26217 3.38138 3.46572 2.59251 2.36634 2.37758 5.47201 4.20285 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 6 2.08222 5.38496 3.20747 2.15239 4.70410 3.04949 2.24555 4.17110 2.66716 3.68050 3.18236 2.35326 4.11955 3.02550 3.15506 2.13655 3.17591 3.76234 5.83700 4.44307 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 7 1.97257 5.08639 3.52368 2.98654 4.55058 2.93108 4.16605 3.97288 2.98297 3.58056 3.14327 2.43046 4.23'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 223 2.97801 4.38116 3.27766 4.16457 2.55270 4.12778 4.45188 2.12931 3.98637 1.84701 3.49873 4.23125 4.49311 4.14988 4.05572 2.70685 2.67845 1.79463 5.00055 2.46373 359 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 224 2.53504 5.24259 2.43765 2.72449 4.51132 3.74918 3.94658 3.08596 2.41920 2.82193 4.30426 3.25551 4.14036 2.65025 2.34837 2.37423 2.72895 2.24443 5.72390 4.36448 360 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 225 2.30647 5.25617 2.38042 2.40280 4.52959 3.03344 3.94471 3.16391 2.71667 3.53057 4.31740 3.25088 4.13894 3.07161 2.05901 2.94464 2.72779 2.11616 5.73545 4.37292 361 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13703 5.13628 2.10228 0.61958 0.77255 0.48576 0.95510\n- 226 2.49223 4.74155 3.62963 3.06513 3.90098 3.00148 4.07752 3.26327 1.51415 2.51688 3.84156 3.51061 4.22442 3.34674 3.39661 3.07521 3.14038 2.01903 5.30897 3.04314 362 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00997 5.00921 5.73156 0.61958 0.77255 0.32531 1.28122\n- 227 2.54757 5.15217 3.36355 2.81719 4.43907 3.76935 3.15163 3.08554 2.81400 3.45901 4.26834 2.25492 4.17952 3.16401 3.27618 1.38813 2.32913 3.52306 5.69721 4.36133 363 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 228 3.00370 5.50648 2.37963 2.09078 4.84291 3.73692 2.56660 4.32673 2.70512 3.80751 4.55339 3.20455 1.60488 3.05674 2.69429 2.96251 2.69956 3.89331 5.94159 4.52876 364 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 229 2.96005 4.82548 2.98098 3.07776 2.44161 3.88343 4.11308 3.36080 1.80220 2.60826 3.92007 3.53428 4.26656 3.37115 2.84648 3.11217 3.19137 2.36422 5.37614 2.24075 365 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13628 5.85862 0.61958 0.77255 0.48576 0.95510\n- 230 2.54935 4.43131 4.87596 4.27255 1.70455 4.20412 4.53676 2.38735 4.08870 2.53878 2.34992 4.32366 2.03708 4.24219 4.14446 3.51247 3.27399 2.04408 5.06229 3.88585 366 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00591 5.13342 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,899 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-B_10\n-LENG 292\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:15 2020\n-NSEQ 9\n-EFFN 0.645996\n-GA 61.0 60.1;\n-CKSUM 4260414450\n-STATS LOCAL MSV -11.0247 0.70147\n-STATS LOCAL VITERBI -11.9212 0.70147\n-STATS LOCAL FORWARD -5.4124 0.70147\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50266 4.07577 2.99681 2.66158 3.38682 2.73860 3.76149 2.85809 2.69496 2.44138 3.77348 3.12080 3.08322 3.13181 2.85002 2.71114 2.86828 2.66436 4.88470 3.41641\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13132 3.97557 2.26052 0.61958 0.77255 0.00000 *\n- 1 2.91787 4.43312 4.19644 3.69244 3.19722 3.96227 4.42883 2.17299 3.50949 1.72204 1.72576 3.97256 4.35238 3.81769 3.73344 3.32871 3.19694 1.95875 5.08877 3.89794 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03130 3.87555 4.59789 0.61958 0.77255 0.57775 0.82362\n- 2 1.41072 4.11693 3.46088 3.14668 4.04706 2.97575 4.16347 3.13842 3.12729 3.04020 3.97599 3.30692 3.69741 3.45451 3.41684 2.42686 2.02423 2.76498 5.47364 4.26061 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03130 3.87555 4.59789 0.61958 0.77255 0.57775 0.82362\n- 3 2.23029 4.16185 3.29664 2.99052 4.08874 2.95926 4.06474 3.41131 2.99500 3.17078 4.04431 3.21166 3.67046 3.33434 3.30836 1.76709 1.70198 2.97114 5.45954 4.21838 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03130 3.87555 4.59789 0.61958 0.77255 0.57775 0.82362\n- 4 2.66853 4.44377 3.34295 3.24269 4.38514 0.72437 4.36287 3.98542 3.42439 3.63919 4.61488 3.50722 3.83501 3.74829 3.66019 2.84052 3.15000 3.51314 5.47957 4.48711 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03130 3.87555 4.59789 0.61958 0.77255 0.57775 0.82362\n- 5 3.15863 4.61993 4.19447 3.83424 3.13672 3.98612 4.48900 2.34083 3.60196 0.87141 3.15854 4.10942 4.42088 3.96955 3.77756 3.55720 3.45270 2.37898 5.01722 3.74128 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03130 3.87555 4.59789 0.61958 0.77255 0.57775 0.82362\n- 6 2.32825 4.26483 3.20581 2.88839 4.05280 3.04679 3.99762 3.35449 2.88787 3.09079 3.99883 3.18344 1.98814 3.25068 3.21738 2.48980 1.94343 2.96783 5.41603 4.17203 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03130 3.87555 4.59789 0.61958 0.77255 0.57775 0.82362\n- 7 2.69628 4.79352 2.91207 2.53993 4.22649 3.33341 3.69364 3.63487 1.73299 3.22158 4.09233 3.00616 2.26'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97557 4.69792 0.61958 0.77255 0.48576 0.95510\n- 285 2.25224 4.40198 3.93189 3.50447 3.37794 3.71848 4.32493 2.36111 3.35186 1.24517 3.30155 3.77730 4.21162 3.70245 3.59572 3.11863 3.10623 2.27508 5.14654 3.92049 298 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97557 4.69792 0.61958 0.77255 0.48576 0.95510\n- 286 2.58827 4.74575 2.82582 2.46278 4.20488 3.27752 3.71381 3.64631 2.48287 3.23484 4.06401 2.94941 2.46367 2.16157 2.88853 2.24610 2.88579 3.27239 5.44120 4.11215 299 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97557 4.69792 0.61958 0.77255 0.48576 0.95510\n- 287 1.60690 4.42120 3.16793 2.75806 4.00540 3.22246 3.86796 3.28586 2.40026 3.02703 3.90037 3.14147 3.79819 3.08906 3.03816 2.59649 2.31789 2.94833 5.34176 4.08242 300 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21479 3.97557 1.74572 0.61958 0.77255 0.48576 0.95510\n- 288 3.07756 4.48102 4.41911 3.90650 3.11796 4.24351 4.58531 1.68602 3.71760 1.24646 2.99458 4.20060 4.53313 3.99926 3.92156 3.60977 3.32618 1.95888 5.09866 3.88553 301 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03398 3.79476 4.51711 0.61958 0.77255 0.64058 0.74863\n- 289 1.64390 4.33909 2.89130 2.66070 4.07265 3.02318 3.89181 3.42770 2.78529 3.17177 4.05414 2.28730 3.68810 3.13056 3.14549 2.48418 2.76553 3.02697 5.41877 4.11934 302 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03398 3.79476 4.51711 0.61958 0.77255 0.64058 0.74863\n- 290 2.38989 4.42801 2.75364 2.55013 4.12387 3.02270 3.83835 3.64243 2.72426 3.29098 4.14516 2.25926 3.68304 3.06478 3.10382 1.71798 2.79389 3.19737 5.44354 4.10365 303 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03398 3.79476 4.51711 0.61958 0.77255 0.64058 0.74863\n- 291 1.80965 4.51813 2.97327 2.62508 4.03535 3.22142 3.76011 3.30429 2.03582 3.03191 3.93739 3.04228 3.78152 2.96580 2.77954 2.63471 2.85766 2.98581 5.32471 4.05599 304 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03398 3.79476 4.51711 0.61958 0.77255 0.64058 0.74863\n- 292 2.55124 4.60786 2.85329 2.53206 4.11881 3.20720 3.71199 3.53589 2.00000 3.16742 4.03444 2.97322 3.76624 2.90480 2.72697 1.86513 2.87454 3.17518 5.36002 4.06320 305 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02300 3.78378 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1076 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-B_14\n-LENG 351\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:15 2020\n-NSEQ 28\n-EFFN 0.755371\n-CKSUM 2157298954\n-GA 504 365;\n-STATS LOCAL MSV -11.2053 0.70009\n-STATS LOCAL VITERBI -12.0330 0.70009\n-STATS LOCAL FORWARD -5.4729 0.70009\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48165 4.35021 2.88637 2.64446 3.29616 3.03278 3.78923 2.78988 2.66109 2.43540 3.66099 3.05255 3.42414 3.04925 2.89406 2.61380 2.86111 2.65467 4.52739 3.50234\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18285 4.04681 1.89957 0.61958 0.77255 0.00000 *\n- 1 2.59431 4.48593 2.95120 2.63239 3.66187 3.44336 3.70812 3.00700 2.43943 2.68659 2.26550 3.09232 3.86076 2.84988 2.92247 2.72924 2.75526 2.76404 5.04967 3.78379 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03070 3.89466 4.61700 0.61958 0.77255 0.46021 0.99736\n- 2 2.64759 4.79940 2.98408 2.47303 4.05063 3.43124 3.62896 3.45640 2.07808 3.05747 2.91303 2.29132 3.83689 2.66985 2.73178 2.63785 2.87689 3.14454 5.28996 3.98010 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02735 4.00868 4.73103 0.61958 0.77255 0.52563 0.89449\n- 3 2.60755 4.76752 2.79286 2.44117 4.15894 3.29995 3.29100 3.61011 2.52159 3.20774 4.03575 2.50474 2.10866 2.88454 2.94966 2.49875 2.80276 3.25055 5.41929 4.08028 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02735 4.00868 4.73103 0.61958 0.77255 0.52563 0.89449\n- 4 2.67732 4.25773 3.78159 3.23544 2.54971 3.68286 3.83551 2.64622 3.14903 2.34048 3.33757 3.52851 4.06688 3.41377 3.42055 2.96652 2.26157 2.36128 4.51414 2.19378 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02735 4.00868 4.73103 0.61958 0.77255 0.52563 0.89449\n- 5 3.18899 4.51818 4.74772 4.24798 3.32614 4.46684 4.89019 1.12255 4.07073 1.60103 3.17520 4.49551 4.74190 4.33235 4.24726 3.85540 3.44189 1.81693 5.33247 4.12625 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02735 4.00868 4.73103 0.61958 0.77255 0.52563 0.89449\n- 6 3.44885 4.88248 4.04159 3.79812 2.30978 3.99058 3.68981 3.43959 3.65180 2.85794 4.10081 3.89463 4.46201 3.92488 3.80688 3.57133 3.73662 3.31681 3.95821 0.76621 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02735 4.00868 4.73103 0.61958 0.77255 0.52563 0.89449\n- 7 3.21632 4.53921 4.81757 4.27626 3.23258 4.51210 4.89212 1.53688 4.13619 1.16109 3.03417 4.53077 4.73'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02631 4.04681 4.76916 0.61958 0.77255 0.48576 0.95510\n- 344 1.58721 4.56885 2.72531 2.57851 4.11809 3.23275 3.81909 3.51823 2.69967 3.16360 3.99756 3.03006 3.79195 2.89708 3.13425 2.26691 2.63657 3.14491 5.42476 4.12018 350 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02631 4.04681 4.76916 0.61958 0.77255 0.48576 0.95510\n- 345 3.54375 4.83749 4.55292 4.22196 0.91615 4.33691 3.59301 3.13749 4.07430 2.45900 3.75856 4.08376 4.66520 4.10848 4.14290 3.72172 3.77874 3.10044 3.75585 1.87045 351 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02631 4.04681 4.76916 0.61958 0.77255 0.48576 0.95510\n- 346 2.95678 5.45663 1.11846 2.14956 4.76053 3.24516 3.80463 4.29138 2.62285 3.81405 4.67550 2.57141 3.87359 2.97890 3.38203 2.85590 3.25529 3.87194 5.96224 4.46775 352 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02631 4.04681 4.76916 0.61958 0.77255 0.48576 0.95510\n- 347 3.54203 4.89670 4.34815 4.03133 1.97080 4.24939 3.54176 3.33715 3.88302 2.71318 3.97431 3.97395 4.61672 4.00262 4.00603 3.65338 3.78932 3.24541 3.73145 0.83821 353 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02631 4.04681 4.76916 0.61958 0.77255 0.48576 0.95510\n- 348 2.89700 5.33672 2.17010 1.16029 4.65746 3.27257 3.77547 4.10841 2.71571 3.66972 4.52372 2.76574 3.86629 2.94086 3.24599 2.82080 3.02432 3.71719 5.85345 4.40208 354 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02631 4.04681 4.76916 0.61958 0.77255 0.48576 0.95510\n- 349 2.71428 5.00123 2.60788 2.33888 4.22004 3.36827 3.20981 3.71448 2.40100 3.27994 4.10018 1.72820 3.83481 2.81385 2.90385 2.70468 2.86917 3.36572 5.45258 3.82907 355 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05216 4.04681 3.40080 0.61958 0.77255 0.48576 0.95510\n- 350 2.92032 5.04382 2.86624 2.58174 4.30825 3.45045 3.75760 3.82832 2.25232 3.34745 4.27602 3.06132 3.96285 1.27665 2.61242 2.92974 3.17959 3.51577 5.47715 4.16705 356 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04481 4.02164 3.65351 0.61958 0.77255 0.51243 0.91389\n- 351 2.64762 3.94233 3.87085 3.29531 2.85897 3.72112 4.00372 2.20250 2.69615 1.73961 3.19193 3.59982 4.08128 3.46089 3.44799 2.99793 2.88022 2.22507 4.79522 3.58780 357 l - - -\n- 2.68612 4.42228 2.77522 2.73122 3.46357 2.40513 3.72497 3.29350 2.67737 2.69358 4.24692 2.90344 2.73738 3.18149 2.89803 2.37886 2.77522 2.98517 4.58480 3.61506\n- 0.23740 1.55435 * 0.26086 1.47138 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,938 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-B_6\n-LENG 305\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:14 2020\n-NSEQ 12\n-EFFN 3.665039\n-CKSUM 867769361\n-GA 44.7 44.0;\n-STATS LOCAL MSV -11.1210 0.70115\n-STATS LOCAL VITERBI -11.8240 0.70115\n-STATS LOCAL FORWARD -5.4881 0.70115\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61219 4.78552 2.89340 2.47437 3.33086 2.89981 3.81044 2.89758 2.54086 2.54750 3.74026 2.96527 3.34430 3.12712 2.83643 2.62939 2.84444 2.66305 4.91554 3.40846\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.00000 *\n- 1 2.94951 4.40403 4.49897 3.90806 3.50442 4.06542 4.37513 2.13320 3.77373 2.30276 2.02590 4.08055 3.01667 3.97978 3.92561 2.55137 1.82498 2.65352 5.01826 2.98337 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 2 2.94336 4.67419 2.47158 3.23239 3.81253 3.91368 2.97843 2.11268 3.19475 1.48379 3.77754 3.64355 4.29658 3.49795 3.55246 2.67177 2.71848 2.94482 5.25612 4.01923 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 3 2.97233 4.42537 4.51863 3.92934 3.53336 4.09193 4.40606 2.13827 3.03098 1.69843 3.54232 4.10544 4.46020 4.00476 3.94892 2.63710 1.86580 1.89140 5.05279 3.86391 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 4 1.78552 4.55498 4.02271 3.45017 2.75508 3.96866 4.24462 2.58118 2.39104 2.76014 3.66582 3.79462 3.11663 3.65926 3.68054 2.57737 3.17432 1.84265 5.15360 3.93877 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 5 2.94072 4.60923 3.90715 2.61144 2.18240 3.94192 3.08023 3.09517 3.27624 2.34968 3.71509 3.71672 4.31953 3.57161 2.68020 2.72849 3.17237 1.62531 5.19582 3.96995 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 6 2.45562 5.35725 2.72235 2.03725 4.67149 2.94269 3.89858 4.13657 2.64945 3.64978 4.40748 2.60816 4.09900 3.00655 3.13745 2.07406 3.15475 2.79012 5.80970 2.40444 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 7 2.16746 4.79888 3.61362 3.05164 3.96794 2.20890 4.09324 3.34254 3.02446 3.02936 2.90481 2.74449 4.238'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 298 2.50206 5.38238 2.33198 1.84241 4.70990 3.69418 3.88376 4.18359 2.05602 3.68019 3.13434 3.16871 3.01732 2.98610 3.11559 2.88505 2.52606 2.90076 5.82582 4.42565 402 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 299 2.52618 4.42194 4.63281 4.03943 3.52585 4.12996 4.45147 1.72441 3.88653 1.73558 3.53285 4.17793 2.55227 4.08364 2.86794 3.42825 3.22608 1.87741 5.05744 3.87257 403 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 300 2.92087 3.25844 3.17636 1.94052 4.75490 3.69563 3.15919 4.23514 2.00456 3.71617 4.45688 3.16559 4.08853 2.58076 2.27183 2.19410 2.58924 3.80272 5.84839 4.44383 404 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 301 2.91829 5.34120 2.67892 2.64558 4.65195 3.70480 2.95349 3.02121 1.65150 3.63129 4.39138 3.18711 4.09775 2.44445 3.12767 2.21602 3.14936 2.52263 5.79456 4.40628 405 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 302 2.02499 5.09426 2.79530 1.88461 3.07856 2.84254 3.96331 3.73745 2.43777 2.68404 4.16716 3.29541 4.14694 3.11948 3.23191 2.96194 3.15140 2.82099 3.64549 4.27315 406 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 303 2.42853 4.44552 4.54991 3.96171 3.55772 4.12331 4.44072 2.36987 2.89775 1.72387 3.56072 4.13787 2.95710 4.03759 3.97970 3.41728 3.23091 1.36450 5.08526 3.89639 407 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 304 3.19725 5.65358 3.31241 1.22508 5.04132 3.87931 4.02519 4.49179 1.88535 3.93312 4.70473 2.24620 4.28786 3.13258 2.11091 3.15008 3.41432 4.07183 6.01993 4.67080 408 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08685 5.80920 0.61958 0.77255 0.48576 0.95510\n- 305 2.92056 5.42373 2.29812 1.80556 4.76609 3.69164 3.88032 4.24961 1.79596 2.87602 4.46560 3.16012 4.08657 2.97808 2.62257 2.51573 2.59682 3.81301 5.85733 4.44866 409 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00622 5.08385 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-B_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,881 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-B_8\n-LENG 286\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:14 2020\n-NSEQ 4\n-EFFN 0.800781\n-CKSUM 1882472348\n-GA 178.2 178.0;\n-STATS LOCAL MSV -10.8132 0.70167\n-STATS LOCAL VITERBI -11.7361 0.70167\n-STATS LOCAL FORWARD -5.3521 0.70167\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59473 4.50764 2.65373 2.53930 3.46925 2.95260 3.78423 2.84111 2.63867 2.49895 3.75875 3.00939 3.49280 3.06308 2.82478 2.70679 2.87608 2.56856 4.93195 3.47826\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.00000 *\n- 1 2.74798 4.75933 3.36499 2.82423 4.24604 3.46178 3.77812 3.58920 2.27302 3.19924 4.09110 3.21801 3.94919 2.95371 1.44742 2.83348 2.17682 3.26759 5.40870 4.17675 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 2 2.60512 4.64903 3.18845 2.74989 4.23103 3.31286 3.82890 3.68356 2.46971 3.28298 4.13416 3.15152 3.86675 3.01509 2.05420 1.49250 2.93912 3.29662 5.45077 4.17115 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 3 3.14130 5.27978 2.59253 0.76816 4.65368 3.41539 4.02607 4.14872 2.93333 3.73531 4.70547 3.06734 4.03112 3.24070 3.35956 3.10595 3.44872 3.81350 5.78690 4.51537 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 4 2.83123 4.25837 4.29793 3.74129 3.15935 3.98281 4.25133 1.62874 3.61013 2.10050 3.23705 3.95474 4.32633 3.84328 3.79722 3.29360 3.07030 1.72523 4.83232 2.48291 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 5 3.18288 4.56700 4.67911 4.17297 3.25485 4.36639 4.80579 2.07033 4.00296 1.04033 3.09577 4.41770 4.67138 4.23450 4.17364 3.74718 3.44262 1.64893 5.25849 4.09388 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 6 3.36914 4.70809 4.71640 4.25684 1.34540 4.41704 4.19570 2.48401 4.10303 1.36722 3.13863 4.34028 4.68605 4.19636 4.20266 3.79145 3.60308 2.57173 4.41598 2.86051 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 7 3.19021 4.49259 4.89340 4.35225 3.35913 4.53618 4.96054 1.56570 4.23547 1.32710 3.15551 4.57953 4.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 279 2.71982 5.06959 2.10797 2.29487 4.34812 3.32300 2.56963 3.86607 2.54168 3.41273 4.22175 2.84249 3.82690 2.84108 3.03675 1.92759 2.98330 3.48157 5.57073 4.15849 303 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 280 2.86099 5.32618 1.59205 2.18858 4.72289 2.24240 3.78661 4.23533 2.76064 3.74675 4.57280 2.10127 3.85322 2.94660 3.32875 2.78712 3.15933 3.79583 5.90819 4.43744 304 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 281 2.56647 4.44923 3.35097 2.82403 3.77968 3.41361 3.82822 3.08264 2.64087 2.81903 3.71049 3.22335 3.89225 3.07456 2.35011 2.15144 2.85569 1.98988 5.15628 3.90078 305 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 282 3.17670 4.55926 4.67909 4.17218 3.26355 4.36462 4.80609 2.06022 4.00420 1.06384 3.10443 4.41590 4.67036 4.23644 4.17577 3.74450 3.43637 1.61244 5.26277 4.09703 306 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 283 2.99980 5.20346 3.13291 2.65052 4.59965 3.59117 3.65834 3.99842 1.25453 3.45507 4.31604 3.10867 4.00629 2.12452 2.29144 2.97980 3.19475 3.66166 5.52558 4.29136 307 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 284 3.09916 4.46485 4.65924 4.11094 1.92041 4.28680 4.48148 2.19585 3.98258 1.44113 3.05025 4.29235 4.56275 4.12302 4.11422 3.61921 3.33249 1.73461 4.86292 3.55172 308 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 285 1.93651 4.45231 3.12007 2.75315 4.16954 3.17545 3.93532 3.52709 2.81106 3.21977 4.06070 2.21995 3.79049 3.14448 3.20579 2.56405 1.84523 3.12489 5.48734 4.20783 309 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 286 2.80383 5.19741 2.53784 1.90087 4.44085 3.35487 2.22995 3.95939 2.47629 3.48096 4.29654 2.17947 3.85695 2.83250 2.93045 2.75672 3.05227 3.57853 5.61652 4.20760 310 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.06668 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-C_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-C_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,872 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-C_13\n-LENG 283\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:15 2020\n-NSEQ 4\n-EFFN 0.800781\n-CKSUM 3447867227\n-GA 280 280;\n-STATS LOCAL MSV -11.1044 0.70178\n-STATS LOCAL VITERBI -11.7166 0.70178\n-STATS LOCAL FORWARD -5.3056 0.70178\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57945 4.50950 2.78932 2.61217 3.37782 2.89466 3.77892 2.81314 2.59887 2.51476 3.65141 2.99141 3.51696 3.12827 2.87116 2.58358 2.86485 2.56303 4.84661 3.60857\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16309 4.07496 2.01373 0.61958 0.77255 0.00000 *\n- 1 3.02381 4.56192 4.12334 3.72218 3.23870 3.88539 4.44144 2.42119 3.48644 1.82325 1.25229 3.99113 4.34657 3.86392 3.68365 3.37999 3.33056 2.43521 5.08855 3.85625 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02928 3.94116 4.66350 0.61958 0.77255 0.61682 0.77579\n- 2 2.50203 4.55029 2.84418 2.59217 4.18100 3.15458 3.86218 3.57275 2.70774 3.26648 4.13506 1.75813 3.77541 3.07112 3.09154 2.59664 2.08906 3.18138 5.48833 4.16545 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02928 3.94116 4.66350 0.61958 0.77255 0.41175 1.08615\n- 3 2.72140 4.33112 3.80191 3.25322 3.35673 3.73866 4.08103 2.04271 3.15003 2.15557 2.51063 3.59870 2.32195 3.45677 3.44241 3.03148 2.97232 2.33648 4.97758 3.77080 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 4 3.17415 4.55609 4.67901 4.17184 3.26724 4.36384 4.80624 2.05603 4.00465 1.07395 3.10817 4.41513 4.66995 4.23727 4.17660 3.74338 3.43382 1.59736 5.26460 4.09830 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 5 2.81893 5.32774 1.99089 1.85284 4.64109 3.32385 3.68493 4.12498 1.76036 3.61329 4.41017 2.78602 3.84208 2.81889 3.00121 2.74541 3.07088 3.70668 5.75699 4.32355 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 6 2.85157 5.01955 2.74147 2.49378 3.87358 3.41154 1.70674 3.84245 2.53763 3.38075 4.26253 2.12762 3.93545 2.97553 2.90894 2.85343 3.12450 3.49878 5.24208 3.75538 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 7 3.11630 5.22817 3.53797 2.85320 4.70305 3.71851 3.64475 4.04378 1.17585 3.46922 4.34190 3.24761 4.0826'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 276 2.51850 4.30811 3.48666 3.02397 3.65561 2.46398 3.98100 2.89622 2.95535 1.81250 3.61573 3.35535 3.91419 3.29665 3.27795 2.73250 2.22729 2.64941 5.12007 3.88265 298 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 277 2.73734 4.54470 3.46064 2.89484 3.67534 3.64097 3.85878 2.76535 1.88197 2.12814 3.58292 3.32097 4.02873 3.10357 2.92451 2.91925 2.97134 2.12851 5.13450 3.88486 299 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 278 2.81647 4.87049 2.88601 1.52161 3.96381 3.49056 3.81679 3.24411 2.61773 2.13759 3.90998 3.07808 3.96482 3.01557 3.00971 2.87495 3.06949 3.02929 5.36675 4.03385 300 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 279 1.84774 4.30071 4.20510 3.68536 3.57045 3.89411 4.46508 1.70410 3.59666 2.31472 3.44883 3.93953 4.33113 3.87941 3.85524 3.24145 3.08346 1.57470 5.26523 4.05612 301 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 280 2.74025 4.52814 3.38289 2.01688 3.59635 3.66524 3.92306 2.17046 2.81820 2.04514 3.49960 3.33228 4.05167 3.18040 3.18649 2.93866 2.97630 2.46580 5.13655 3.87819 302 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 281 2.93662 5.52681 1.77908 1.73429 4.81508 3.26600 3.76684 4.33688 2.74640 3.81973 4.64761 1.74120 3.86448 2.92195 3.33147 2.82528 3.21521 3.90051 5.97348 4.47025 303 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 282 2.93645 4.68705 3.65132 3.57877 4.70837 0.47538 4.68228 4.36157 3.78732 3.98881 4.96946 3.81627 4.08438 4.09579 3.99690 3.11490 3.43344 3.85076 5.74553 4.81866 304 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02557 4.07496 4.79731 0.61958 0.77255 0.48576 0.95510\n- 283 2.72729 4.95247 2.82831 1.80408 4.17551 3.42972 3.66738 3.58815 2.39722 2.48789 4.01761 2.94769 3.86721 2.29213 2.80328 2.73677 2.96105 3.27747 5.41251 4.07310 305 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.06668 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-C_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-C_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,857 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-C_7\n-LENG 278\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:14 2020\n-NSEQ 10\n-EFFN 0.883789\n-CKSUM 2217602349\n-GA 175.7 174.4;\n-STATS LOCAL MSV -10.9686 0.70196\n-STATS LOCAL VITERBI -11.7212 0.70196\n-STATS LOCAL FORWARD -5.3635 0.70196\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50963 4.51307 2.83159 2.65295 3.24958 2.79587 3.70108 2.90176 2.60984 2.58722 3.62443 2.99536 3.45408 3.08680 2.85958 2.63112 2.84795 2.61474 4.88728 3.56862\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.00000 *\n- 1 3.17567 5.27696 3.63508 2.91209 4.77248 3.76952 3.66398 4.10024 1.33134 3.51026 4.38547 3.29408 4.12377 2.79524 1.34580 3.16367 3.32550 3.78286 5.52247 4.38236 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 2 2.82958 4.36137 3.92693 3.40070 2.74131 3.82166 3.14288 1.78470 3.24910 2.44305 3.44670 3.64376 4.18911 3.53261 3.48155 3.11593 3.06093 2.59685 4.34032 1.96479 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 3 3.06639 5.67459 1.15684 1.61308 4.95707 3.28004 3.85988 4.49327 2.91936 3.98377 4.85250 2.74027 3.92311 3.03239 3.54130 2.93262 3.36326 4.05599 6.12821 4.60167 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 4 3.59759 4.92746 4.58598 4.35490 0.67469 4.21436 4.01532 3.09807 4.25755 2.41277 3.79475 4.31287 4.67219 4.35738 4.31455 3.84980 3.90134 3.10619 4.20193 2.54239 4 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 5 2.19971 4.29014 4.18966 3.65401 3.46435 3.87547 4.37493 2.15730 3.54685 2.23404 2.53289 3.90252 4.29390 3.81886 3.78545 3.20958 3.06016 1.39530 5.13572 3.94088 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 6 2.86394 4.31450 4.24480 3.69526 3.09141 3.97827 4.19269 2.28806 3.55312 1.84162 3.25925 3.92077 4.32635 3.80108 3.75162 3.28824 3.10308 1.43339 4.76501 2.57775 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 7 2.90347 4.32285 4.40018 3.82904 2.79915 4.07065 4.39040 1.84961 3.71171 1.41716 3.11106 4.05774 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 271 2.30408 5.01260 2.63771 2.23472 4.31132 3.39062 3.59834 3.76376 2.03579 3.00501 4.07026 2.87859 3.22803 2.53534 2.82930 2.60938 2.85786 3.37875 5.47253 4.09294 313 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 272 3.00952 4.75228 3.73428 3.66936 4.79251 0.42823 4.76697 4.46061 3.88449 4.08049 5.06354 3.89959 4.15091 4.18917 4.08592 3.18982 3.51029 3.94016 5.81370 4.90545 314 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 273 2.84142 4.32431 4.11781 3.06085 3.36120 3.97027 4.29028 2.03558 3.44893 1.51568 3.25985 3.86512 4.31173 3.72559 3.69775 3.26638 3.07798 1.70095 5.04391 3.85464 315 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 274 2.64049 4.90477 2.85334 1.84958 4.19771 3.01355 3.65197 3.62057 2.43797 3.20327 4.00947 2.92330 3.82318 2.55957 2.89911 2.65209 2.39485 2.95400 5.42227 4.06982 316 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 275 2.64879 4.31693 3.60778 3.05863 3.46605 3.63212 3.93398 2.62192 2.67108 2.09174 3.42041 3.43115 3.23323 3.28271 3.23894 2.91206 2.89298 1.72984 4.95752 3.73169 317 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 276 2.66601 4.67536 3.11870 1.89531 3.85578 3.50892 3.72466 2.79165 2.38264 2.29026 3.73793 3.09068 3.90516 2.91959 2.92143 2.75721 2.89648 2.89392 5.20954 3.91933 318 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 277 2.63543 4.61139 3.17149 1.98787 3.80192 3.51200 3.73017 2.55605 2.36191 2.59893 3.68947 3.10834 3.90009 2.93416 2.97249 2.74347 2.86647 2.58601 5.16855 3.88353 319 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 278 2.66067 4.27766 3.71645 3.13134 3.35215 3.67960 3.92680 2.24712 2.63966 1.74055 3.00817 3.48261 4.04532 3.30926 2.90888 2.94729 2.88923 2.45866 4.86642 3.65976 320 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01643 4.11657 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-E_16.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-E_16.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1100 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-E_16\n-LENG 359\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:16 2020\n-NSEQ 67\n-EFFN 2.097839\n-CKSUM 34674177\n-GA 111 111;\n-STATS LOCAL MSV -11.1397 0.69995\n-STATS LOCAL VITERBI -12.1720 0.69995\n-STATS LOCAL FORWARD -5.2728 0.69995\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.32065 4.54829 2.85813 2.62599 3.38889 2.92456 3.66709 3.03206 2.64672 2.53139 3.72672 3.06706 3.48994 3.00109 2.80332 2.58940 2.79331 2.70201 4.93890 3.58133\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.00000 *\n- 1 3.57423 4.79357 5.60019 5.08310 3.80186 5.08566 5.62272 1.23484 4.98643 1.44166 3.41580 5.23023 5.27609 5.11278 5.07242 4.48349 3.81732 1.24772 5.87938 4.75925 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 2 3.03824 5.61556 1.62912 1.60670 4.93365 3.55447 3.92289 4.44315 2.78442 3.90960 4.68458 2.57670 4.07022 2.04821 3.32600 2.95679 2.94900 3.99563 6.04441 4.57984 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 3 2.87817 4.36332 4.90388 4.30392 2.48073 4.21051 4.54206 1.33273 4.11848 1.66250 3.16682 4.34611 4.53651 4.23921 4.15120 3.52906 3.23798 2.10222 4.99547 3.27724 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 4 3.12414 5.17391 3.21774 2.88649 3.74519 3.78305 0.97082 3.87913 2.80966 3.44011 4.34071 3.14376 4.25290 3.18242 3.15595 2.85662 3.37302 3.58466 5.20214 3.29736 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 5 2.20025 3.80369 4.50680 3.90655 3.27327 3.90950 4.23321 1.81430 3.73858 2.04058 2.94927 3.99610 4.27488 3.91151 3.82552 2.88963 2.37437 2.05013 4.79887 3.36571 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 6 3.79678 5.01304 5.73134 5.18669 3.52766 5.24263 5.64839 1.57202 5.06490 0.72408 3.27259 5.38363 5.33452 5.04797 5.08444 4.64338 4.02104 2.07506 5.73204 4.72212 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 7 2.69994 4.94678 3.21062 2.66935 4.18958 3.61885 3.24925 3.04137 2.59869 3.20959 4.03970 3.17457 4.0193'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01624 4.52450 5.24684 0.61958 0.77255 0.36725 1.17972\n- 352 2.41058 4.99156 3.08117 2.57773 4.27352 3.39453 3.78659 3.70019 2.57449 3.16560 3.70429 2.41321 3.75833 2.92631 2.98116 1.92567 2.06910 3.35537 5.51180 4.16565 677 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 353 3.14032 4.56073 5.15233 4.55201 2.37944 4.46458 4.79215 1.79106 4.37131 1.12649 2.82326 4.61035 4.73845 4.43797 4.38050 3.79323 3.45757 2.03829 5.15515 3.84201 678 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 354 2.36428 5.27963 2.32193 2.19871 4.62045 3.02546 3.72745 4.10610 2.22921 3.58318 4.32292 2.74079 2.80266 2.45696 2.96747 2.40789 3.00358 3.66828 5.71375 4.30084 679 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 355 2.18015 5.29409 2.34045 1.63703 4.63123 3.45737 3.74180 4.11600 2.36369 3.59592 4.33948 2.93560 3.84418 2.60235 2.87530 2.58115 2.94135 3.68098 5.72936 4.31570 680 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 356 2.60937 4.23656 4.54297 3.94406 3.20142 3.97294 4.29175 2.39859 3.78042 1.12439 3.14428 4.04970 4.32857 3.66134 3.87353 3.27495 2.85347 2.17701 4.14406 3.67532 681 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 357 2.25172 3.67310 4.21059 3.17754 3.25886 3.55495 4.15769 2.00259 3.14713 2.15528 3.23569 3.83378 4.22443 3.72589 3.68729 2.87009 2.87619 1.80329 4.84330 3.65110 682 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 358 2.38849 5.27681 2.05123 1.95539 4.61735 3.46580 3.37163 4.10258 2.37483 3.58009 4.31988 2.79983 3.92820 2.51936 2.89132 2.45095 2.78677 3.66525 5.71091 4.29858 683 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01418 4.65876 5.38110 0.61958 0.77255 0.48576 0.95510\n- 359 2.00949 5.01726 3.06203 2.36641 3.87489 2.95878 3.76552 3.70359 2.38925 3.18808 4.08221 2.95158 3.95697 2.72690 2.73568 2.65643 2.86970 3.36014 2.66666 4.15518 684 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00957 4.65415 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-E_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-E_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,998 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-E_2\n-LENG 325\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:13 2020\n-NSEQ 7\n-EFFN 1.227051\n-CKSUM 2535199420\n-GA 90.8 88.7;\n-STATS LOCAL MSV -11.1425 0.70067\n-STATS LOCAL VITERBI -11.9338 0.70067\n-STATS LOCAL FORWARD -4.8007 0.70067\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.28110 4.50590 2.85517 2.64488 3.34986 2.91172 3.64918 2.94558 2.64447 2.52228 3.72840 3.07211 3.54868 3.03451 2.82727 2.64675 2.84687 2.67781 4.93391 3.58842\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.00000 *\n- 1 2.69527 4.90005 3.07608 2.52115 4.16248 3.50076 3.68604 3.57563 2.40941 2.64905 3.97897 2.55914 3.89377 2.46724 2.41098 2.72352 2.10454 3.24864 5.38685 4.06375 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 2 3.19973 4.75001 4.15170 3.69334 0.96984 4.02649 3.95227 3.14946 3.36589 2.61346 3.77643 3.89367 4.44599 3.77411 2.51305 3.42481 3.45978 3.03369 4.41756 2.81510 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 3 3.32660 4.57154 5.23598 4.72065 3.65525 4.79967 5.33528 1.13673 4.62193 1.74727 3.43013 4.90287 5.02563 4.80988 4.76037 4.18839 3.57459 1.29011 5.68996 4.53281 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 4 2.90892 5.47917 2.08362 1.70783 4.78972 3.39341 3.78168 4.29742 2.65539 3.76912 4.55489 2.30405 3.92305 1.86003 3.19610 2.82379 3.16592 3.85647 5.90871 4.44295 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 5 3.34353 4.63546 5.11438 4.56128 2.00046 4.62698 4.84308 1.25887 4.42047 1.50251 3.10563 4.69644 4.83911 4.48558 4.48008 3.97862 3.56956 2.22013 5.10840 3.86073 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 6 3.59940 5.29715 3.67404 3.49805 3.69474 3.90228 0.48745 4.37451 3.33478 3.80121 4.89585 3.88098 4.48794 3.87634 3.56284 3.67305 3.92677 4.10142 5.14631 3.63779 6 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 7 2.30703 4.21555 4.09763 3.52721 3.35225 3.81228 4.16404 2.10814 3.42408 1.71804 3.32245 3.77587 4.193'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 318 2.32160 4.47606 3.39443 2.43260 3.62346 3.59106 3.81755 2.99633 2.73140 1.96792 3.57129 3.26598 3.97315 3.09296 2.64495 2.83197 2.88933 2.75903 3.32677 3.78054 350 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 319 2.30884 5.25045 2.20716 1.51105 4.58080 3.40156 3.74678 4.04696 2.58635 3.57015 4.35641 2.88790 3.89387 2.87690 3.10292 2.75630 2.52394 3.63824 5.74030 4.31915 351 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 320 3.09897 5.34171 3.42542 2.79103 4.80585 3.74063 3.71205 4.16959 1.27141 3.58619 4.41991 2.54860 4.10816 2.83289 1.66737 3.07136 3.27320 3.81444 5.62175 4.41333 352 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 321 2.83662 4.35450 4.08739 3.50713 3.32283 3.91966 4.20074 2.48787 2.68459 1.38092 2.63428 3.80656 4.26478 3.64291 3.58437 3.20518 3.06702 2.04420 4.96492 3.78793 353 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 322 1.95023 5.18359 2.35064 2.09088 4.50316 3.41934 3.67227 3.97574 2.44892 3.48018 4.24574 2.49570 3.85644 2.78716 2.49807 2.68594 2.96256 3.56329 5.63493 4.22829 354 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 323 2.17677 5.07836 2.84742 2.11511 4.39588 2.79391 3.66857 3.85272 2.44195 3.38370 4.15844 2.48685 3.85055 2.43426 2.92706 2.66914 2.53413 3.46065 5.55948 4.17337 355 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 324 2.62012 4.46676 3.38996 2.88945 3.76062 2.71448 3.91628 3.06961 2.84604 2.81089 3.69720 3.29781 3.96371 2.61432 3.21445 2.79357 2.38402 1.71910 5.16854 3.91857 356 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30652 5.02886 0.61958 0.77255 0.48576 0.95510\n- 325 2.41531 4.63417 4.26471 3.78455 2.45623 4.08474 3.76145 3.14359 3.62983 2.72271 3.76891 3.89237 4.45423 3.83774 3.81535 3.40198 3.40129 2.96988 2.69967 1.14212 357 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01366 4.29995 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-F_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-F_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,968 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-F_11\n-LENG 315\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:15 2020\n-NSEQ 6\n-EFFN 0.448242\n-CKSUM 248409337\n-GA 373.7 372.5;\n-STATS LOCAL MSV -11.4889 0.70091\n-STATS LOCAL VITERBI -11.8947 0.70091\n-STATS LOCAL FORWARD -5.4755 0.70091\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58209 4.35312 2.85324 2.72056 3.17111 2.79875 3.69699 2.76669 2.65136 2.45677 3.70444 3.02472 3.51983 3.10653 2.96034 2.66521 2.84378 2.64188 4.88431 3.34343\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.00000 *\n- 1 2.93847 4.49386 4.00661 3.59759 3.19154 3.80412 4.34207 2.36318 3.36765 1.79281 1.45723 3.87988 4.26500 3.75248 3.57758 3.28313 3.24325 2.36449 5.02667 3.78457 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 2 2.79499 5.08829 2.48578 1.86254 4.36966 3.29391 3.63757 3.82421 2.35354 3.35933 4.22769 2.80726 3.81552 1.94101 2.73564 2.75921 3.04671 3.47970 5.52885 4.17117 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 3 2.93637 4.89717 3.10960 2.73947 4.27440 3.42943 3.73869 3.70130 1.09471 3.27552 4.23978 3.16548 3.93315 2.93293 2.42647 2.98137 3.19297 3.41159 5.34610 4.15333 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 4 2.96054 4.34993 4.47686 3.98388 3.43739 4.18779 4.74202 1.48976 3.85702 1.97255 3.27528 4.23637 4.54811 4.15024 4.08406 3.56764 3.23668 1.27303 5.35766 4.13844 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 5 2.39232 4.23708 3.39361 3.14456 3.93453 3.07748 4.16479 3.05681 3.08673 2.92170 3.97537 3.35992 3.77831 3.48374 3.34694 2.59321 1.24195 2.75608 5.37591 4.15136 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 6 2.61676 4.39540 3.28222 3.17692 4.31850 0.79394 4.29902 3.90892 3.35265 3.56797 4.54392 3.44670 3.78523 3.68010 3.59248 2.78764 3.09490 3.44506 5.42362 4.41927 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 7 2.99988 4.43068 4.27721 3.89204 3.34783 4.02201 4.62809 1.12916 3.71934 1.94289 3.29025 4.14305 4.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 308 3.30937 4.65908 4.29229 3.91023 1.35354 4.13199 3.45350 3.02067 3.77838 2.40299 3.64553 3.86167 4.46425 3.86296 3.89868 3.48680 3.54045 2.94416 3.65051 1.54159 308 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 309 1.07332 4.17318 3.42273 3.21295 4.01323 2.99864 4.23962 3.13281 3.22819 3.01619 4.05304 3.37242 3.73413 3.57321 3.48106 2.52413 2.79874 2.79422 5.44444 4.24037 309 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 310 2.56253 4.53599 3.08007 2.63005 3.83870 3.34440 3.73227 3.10147 2.48819 2.79875 3.74507 3.07272 3.82760 2.11248 2.83726 2.67553 2.55231 2.51044 5.20699 3.92329 310 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 311 3.19028 4.69555 3.77943 3.50187 2.29620 3.78372 3.60171 3.20523 3.36055 2.66938 3.88463 3.67484 4.25881 3.67624 3.55225 3.33076 3.47695 3.07397 3.93821 1.03536 311 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 312 3.20819 4.62203 4.18339 3.89081 1.07991 3.90622 3.86109 2.73747 3.79899 2.11714 3.47402 3.97428 4.36618 3.97824 3.92863 3.47981 3.50954 2.72510 4.12317 2.49567 312 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 313 2.73406 4.69283 2.86808 2.05878 3.35130 3.42499 3.64983 3.24662 2.58610 2.87090 3.81657 3.02957 3.89116 2.97321 2.95688 2.80661 2.98237 2.99916 4.83119 2.16938 313 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 314 1.55223 4.09856 3.46769 3.09071 3.90646 2.99963 4.07661 3.05604 3.05625 2.93651 3.85125 3.27850 3.68968 3.37442 3.36028 2.09878 2.66340 2.35929 5.33649 4.11028 314 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03271 3.83226 4.55461 0.61958 0.77255 0.48576 0.95510\n- 315 2.88031 5.02221 2.97079 2.55273 4.36657 3.46131 3.59355 3.78025 1.40184 3.28205 4.16779 3.01156 3.90431 2.41986 2.27268 2.87957 3.09285 3.46455 5.39210 4.14347 315 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 3.82169 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-G_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-G_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,545 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-G_4\n-LENG 174\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:14 2020\n-NSEQ 5\n-EFFN 1.118164\n-CKSUM 2811148112\n-GA 147.6 146.2;\n-STATS LOCAL MSV -10.3329 0.70718\n-STATS LOCAL VITERBI -11.0750 0.70718\n-STATS LOCAL FORWARD -4.5140 0.70718\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34065 4.42696 2.94154 2.75551 3.44822 2.81944 3.72565 2.80252 2.72957 2.42814 3.80454 3.01390 3.31585 3.16486 2.90995 2.60948 2.83442 2.52860 4.86916 3.83354\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.00000 *\n- 1 1.75405 4.35411 4.21010 3.68314 3.52833 3.89227 4.42304 2.24752 3.58045 1.76438 3.42995 3.93245 4.32859 3.85526 3.82562 3.23266 3.11080 1.65226 5.20260 4.00425 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 2 0.58064 4.42995 3.89656 3.72643 4.47845 3.24077 4.69625 3.66494 3.75400 3.52716 4.52963 3.76454 4.01737 4.06159 3.96493 2.78362 3.08830 3.24979 5.86480 4.71544 2 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 3 2.10764 4.41265 4.48504 3.93800 3.39923 4.16016 4.57197 1.68477 3.81402 1.39935 3.26841 4.17367 4.50433 4.04910 4.00887 3.49009 3.24010 2.05107 5.18544 4.01875 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 4 2.72023 4.29662 4.00610 3.47949 3.47606 3.74014 4.22492 2.42755 3.37241 1.85239 3.43852 3.74462 4.18816 3.66220 3.62756 2.20405 3.00262 1.55272 5.05767 3.83789 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 5 2.92704 4.58258 3.77412 3.25495 3.72454 3.85399 4.11747 1.33376 2.04022 2.56192 3.64721 3.62543 4.25510 3.40884 3.09354 3.20091 3.16973 2.39480 5.25384 4.01977 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 6 3.00882 5.27525 3.28809 2.69822 4.70790 3.66528 3.68526 4.09104 1.64538 3.53032 4.35557 2.19831 4.04557 2.80712 1.56837 2.98354 3.19636 3.73060 5.58916 4.35162 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 7 2.11837 5.09520 2.73758 1.67778 4.38621 3.42158 2.48862 3.84753 2.51517 3.40157 4.21025 2.93379 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 167 3.12286 4.58005 4.64053 4.33149 3.86188 4.10554 5.07903 2.11367 4.20660 2.49190 3.78342 4.45685 4.65678 4.54628 4.38092 3.64612 3.48243 0.65010 5.70503 4.45425 174 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 168 2.07013 4.51145 3.44283 2.89306 2.48885 3.56503 3.85101 3.05719 2.72738 2.72944 3.65388 3.30527 3.99044 3.13705 1.96838 2.84428 2.93359 2.82073 5.04661 3.74227 175 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 169 2.53006 4.35240 3.63383 3.16242 3.86467 3.37543 4.13049 2.99053 3.10875 2.86491 3.79840 3.45403 1.95908 3.43084 3.43981 2.74278 2.03599 1.96962 5.31736 4.08777 176 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 170 2.08131 4.37105 4.34724 3.81570 3.47607 4.00015 4.50058 2.19290 3.70175 1.47798 3.36369 4.04768 4.40607 3.95935 3.92027 3.34093 3.16492 1.61670 5.19980 4.01528 177 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 171 1.97049 4.65559 3.14843 2.69759 4.15046 3.36653 3.86180 3.52104 2.66562 3.17338 4.01862 3.14247 3.88820 2.19922 3.06488 2.69246 1.83451 3.17216 5.44619 4.15310 178 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 172 2.80987 5.01787 3.15285 2.61045 4.31922 3.54265 2.48511 3.79243 2.27080 3.32766 4.15075 3.09337 3.95443 2.84541 1.76090 2.12469 3.03807 3.44562 5.45365 4.14193 179 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 173 2.36262 4.32486 3.53833 3.23959 4.49319 1.36048 4.34060 3.91953 3.31372 3.59069 4.40193 3.41705 3.82836 3.59593 3.64537 2.00615 1.85264 3.34963 5.81826 4.60169 180 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 174 1.32670 4.28966 3.63081 3.32006 4.52594 1.89179 4.39065 3.96016 3.38669 3.62936 4.43168 3.45049 3.81593 3.65212 3.71033 1.70076 2.82905 3.35963 5.85221 4.64821 181 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01443 4.24534 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-G_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I-G_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,527 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I-G_9\n-LENG 168\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:14 2020\n-NSEQ 5\n-EFFN 1.059570\n-CKSUM 3422005731\n-GA 200 200;\n-STATS LOCAL MSV -10.0970 0.70763\n-STATS LOCAL VITERBI -11.2304 0.70763\n-STATS LOCAL FORWARD -4.4531 0.70763\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47747 4.52499 2.90234 2.70449 3.42284 2.81530 3.72668 2.85132 2.76282 2.42878 3.73190 3.02517 3.21821 3.12063 2.86154 2.60536 2.87511 2.56557 4.74184 3.57244\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.00000 *\n- 1 1.90781 4.27836 3.69922 3.27348 4.06862 3.19627 4.24175 3.27312 3.24147 3.11487 4.00434 3.46554 3.87357 3.53949 3.55855 1.35759 2.83550 2.12493 5.48727 4.26859 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 2 1.55979 4.59121 3.25018 2.79060 4.24726 2.33627 3.91439 3.65078 2.67717 3.27941 4.10872 3.19044 3.86990 3.10156 2.20350 2.65669 2.90077 3.25160 5.51079 4.23703 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 3 3.31086 4.59096 5.09145 4.54792 3.38402 4.68056 5.10266 1.61745 4.42819 1.13314 3.16837 4.75447 4.89073 4.56171 4.54541 4.04721 3.54758 1.55154 5.43105 4.32888 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 4 2.72865 4.29056 4.04161 3.51877 3.47509 3.75888 4.25340 2.36382 3.40588 1.90119 3.43462 3.77535 4.20646 3.69714 3.65442 2.36198 3.01212 1.44000 5.06995 3.84862 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 5 3.28083 4.54325 5.12526 4.59829 3.52959 4.70809 5.19602 1.20304 4.49066 1.56782 3.31208 4.79354 4.93439 4.66513 4.62716 4.08580 3.52524 1.43306 5.55746 4.41687 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 6 2.89439 5.25311 2.98277 1.55344 4.63426 3.54295 3.67188 4.05308 1.84866 3.51653 4.32150 3.02337 3.95783 2.79265 2.10725 2.85755 3.10481 3.67162 5.61209 4.30556 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 7 1.19930 4.77762 2.86816 2.07188 4.34291 3.33611 3.97309 3.64792 2.84605 3.36202 4.24376 3.11167 3.93373'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 161 3.19900 4.54159 4.84659 4.35657 3.53204 4.46820 5.00610 1.93457 4.20328 1.62729 3.37538 4.56392 4.79707 4.46496 4.38001 3.86282 3.46851 0.97400 5.49196 4.28391 189 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 162 2.66549 4.98311 2.41096 2.41522 3.04471 3.44305 3.63714 3.70111 1.89624 3.25429 4.04720 2.94453 3.84309 2.76643 2.41757 2.66431 2.89547 3.34117 5.43912 4.07723 190 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 163 2.45521 4.36163 3.49522 3.06686 4.03032 3.24427 4.10374 3.34288 3.04812 3.09271 3.97053 3.35779 1.75469 3.37122 3.39692 1.95832 2.85305 2.20648 5.42382 4.17818 191 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 164 2.28619 4.35832 4.64167 4.09200 3.53084 4.26862 4.70403 1.60087 3.98567 1.86259 3.39461 4.30072 4.59399 4.21674 4.17122 3.60224 3.24534 1.36172 5.29611 4.10829 192 v - - -\n- 2.68630 4.42237 2.77491 2.73135 3.46366 2.40497 3.72506 3.29366 2.67753 2.69367 4.24702 2.90358 2.73751 3.18158 2.89767 2.37899 2.77499 2.98481 4.58489 3.61515\n- 0.29985 1.37855 4.94416 0.89868 0.52274 0.48576 0.95510\n- 165 3.07735 5.23895 3.38675 2.80319 4.63376 3.70063 3.71993 4.04895 2.06424 3.49272 4.35948 3.23589 4.09300 1.55272 1.54000 3.06963 3.26518 3.71900 5.55017 4.33376 197 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 166 2.68438 4.73915 3.04167 2.72515 4.00507 3.35798 2.53284 3.75530 2.74018 3.35106 4.21367 3.16117 3.93261 3.14159 3.11170 1.26188 3.02550 3.37291 5.37018 3.95594 198 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 167 1.80304 4.27263 3.61887 3.31022 4.43844 1.34484 4.36505 3.81010 3.35897 3.52636 4.35119 3.44384 3.81244 3.63670 3.67189 2.51234 2.00065 3.26573 5.78366 4.58216 199 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 168 2.69627 4.96997 2.97628 2.48430 4.35380 2.29323 3.68801 3.78719 2.37429 3.33171 4.13006 2.99348 3.87230 2.35095 2.23825 2.23546 2.94559 3.41106 5.50688 4.17107 200 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.21467 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7_I_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,818 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7_I_15\n-LENG 265\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:15 2020\n-NSEQ 30\n-EFFN 3.248291\n-CKSUM 1515115217\n-GA 72 72;\n-STATS LOCAL MSV -10.6784 0.70236\n-STATS LOCAL VITERBI -11.5427 0.70236\n-STATS LOCAL FORWARD -5.6494 0.70236\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51468 4.56629 3.00485 2.60253 3.27658 2.89106 3.66116 2.91424 2.63939 2.55559 3.64861 2.99896 3.36324 3.11660 2.85274 2.61050 2.83283 2.56652 4.94078 3.38049\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.00000 *\n- 1 3.08544 4.44111 5.02808 4.42708 2.63898 3.16722 4.64407 1.26184 4.23260 2.14387 2.75984 4.44364 4.63762 4.36854 4.25965 3.61178 3.31913 1.68146 5.12364 3.95230 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 2 2.49468 4.01951 3.64756 3.08772 3.92592 2.54250 4.10329 3.29742 3.05548 2.73992 3.86602 3.52127 4.21323 3.37393 2.95594 1.94844 1.81871 2.45057 5.33440 4.08022 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 3 1.74385 4.37734 4.47714 3.88956 2.55969 1.92178 4.36034 2.78868 3.75628 2.42447 2.64456 4.05896 4.40763 3.96199 3.90862 3.32832 3.15666 2.08626 5.00272 3.81424 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 4 2.97584 5.27163 2.56038 2.74812 4.59364 3.74282 3.95829 3.48637 2.67140 3.57506 4.37346 3.26853 4.15571 3.08795 1.27073 2.98055 1.98521 3.64895 5.76801 4.42042 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 5 2.15464 4.37379 4.91637 4.31176 2.11043 4.18764 4.52376 2.23216 4.11563 2.15802 3.46088 4.33009 4.54222 4.25674 4.14738 3.50106 3.23634 1.32507 5.02002 3.28926 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 6 2.90385 4.38378 4.35247 3.17096 3.48805 4.00479 4.30653 2.19171 3.64556 1.98810 3.26976 3.97962 4.37403 3.87014 2.26285 3.28996 2.52697 1.67353 4.99686 3.34956 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 7 2.51604 4.35899 4.93384 4.32186 1.71157 4.16509 4.49624 2.43082 4.11419 1.82538 3.06133 4.32090 4.51764 '..b'.68630 4.42237 2.77508 2.73136 3.46366 2.40498 3.72507 3.29366 2.67729 2.69318 4.24702 2.90359 2.73752 3.18159 2.89813 2.37899 2.77532 2.98531 4.58489 3.61379\n- 0.38367 1.15410 5.71202 0.08990 2.45368 0.48576 0.95510\n- 258 2.77786 5.40173 2.12557 2.03888 4.74302 2.45917 3.85104 4.22851 2.19856 3.70544 4.44443 2.61280 3.63085 2.94980 3.08856 2.50819 3.12567 3.79054 5.83570 2.84961 460 e - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40514 3.72495 3.29355 2.67742 2.69356 4.24691 2.90348 2.73740 3.18147 2.89802 2.37876 2.77520 2.98519 4.58478 3.61504\n- 0.03738 3.39981 5.71202 0.40874 1.09209 0.48576 0.95510\n- 259 3.16555 5.73517 1.41802 2.12197 5.05939 2.01110 4.06379 4.56624 2.54704 4.03249 4.79895 2.32763 3.28456 3.18391 3.44069 2.95958 3.41596 4.11789 6.16504 4.70816 462 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 260 3.41955 5.00345 4.35683 3.82341 2.72693 4.34488 4.17172 3.47627 2.02532 3.08973 4.10364 4.08170 4.70806 3.95220 3.87393 3.63283 3.64747 2.75635 4.68195 0.87708 463 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 261 2.47447 3.74720 4.54405 3.94936 3.44334 4.03667 4.35487 1.67326 3.44988 2.44692 3.45974 4.08539 4.40474 3.99226 3.42686 2.89171 2.48603 1.54234 4.96240 3.77704 464 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 262 2.68599 5.45298 1.78761 1.63088 4.79469 3.13113 3.88030 4.28422 2.29101 3.75669 4.49735 2.98822 4.07739 2.55655 2.97832 2.67729 3.16621 3.84236 5.88457 4.46580 465 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 263 2.48768 5.31620 2.39357 1.82827 4.63360 3.65740 3.84825 4.10058 2.37702 3.08666 4.36430 2.79601 4.05068 2.81279 3.08283 2.84942 2.67109 2.30858 5.76574 3.84123 466 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 264 2.60124 5.25510 3.17671 1.85105 4.55107 3.15875 3.86365 3.53746 2.41326 3.53989 4.31069 2.66693 4.06193 2.97933 3.10452 2.39501 2.08137 2.62896 5.72034 4.34197 467 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98967 5.71202 0.61958 0.77255 0.48576 0.95510\n- 265 2.57010 5.18595 3.21301 2.42325 4.45721 3.68312 3.61668 3.36329 2.05711 3.22396 4.24687 3.04239 3.37940 2.66368 2.80705 2.88014 2.34945 2.48813 5.66548 2.83177 468 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00685 4.98636 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7b_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7b_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,899 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7b_I-B_1\n-LENG 292\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:16 2020\n-NSEQ 4\n-EFFN 0.457031\n-CKSUM 207819177\n-GA 361 361;\n-STATS LOCAL MSV -10.8968 0.70155\n-STATS LOCAL VITERBI -11.6403 0.70155\n-STATS LOCAL FORWARD -5.2846 0.70155\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46986 4.46070 2.75109 2.68835 3.19688 2.80019 3.76881 2.88014 2.69124 2.47876 3.66864 3.00128 3.57472 3.17917 2.85251 2.64324 2.88650 2.64827 5.07356 3.41291\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.00000 *\n- 1 2.93939 4.39159 4.30191 3.81605 3.30446 4.06021 4.55617 1.93236 3.64945 1.59437 3.19896 4.08425 4.44449 3.96685 3.87671 3.44126 3.21975 1.36607 5.19671 3.95384 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 2 1.06298 4.17628 3.42942 3.21976 4.01981 3.00159 4.24565 3.14039 3.23517 3.02347 4.05941 3.37758 3.73771 3.57952 3.48768 2.52708 2.80216 2.80060 5.45032 4.24697 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 3 2.70879 4.47114 3.31245 3.14707 4.14422 3.16056 4.22689 3.68151 3.20160 3.31180 4.36057 3.45689 0.89209 3.59141 3.45050 2.87535 3.14784 3.33064 5.33949 4.26460 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 4 3.21662 4.62838 4.19281 3.90138 1.06798 3.91336 3.86368 2.74490 3.80935 2.12290 3.48031 3.98187 4.37304 3.98667 3.93731 3.48799 3.51791 2.73306 4.12345 2.49497 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 5 2.92457 5.02739 2.47512 1.07382 4.36958 3.25324 3.83783 3.81687 2.71422 3.43961 4.41567 2.91550 3.85641 3.05454 3.11919 2.91071 3.22874 3.50437 5.54749 4.27033 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 6 2.69660 4.69123 2.69138 2.57374 4.04960 3.16223 3.89547 3.75327 2.79664 3.40409 4.35992 1.21856 3.81270 3.16858 3.14980 2.76533 3.07762 3.37886 5.35942 4.00066 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 7 2.95987 4.78241 3.09458 2.85163 3.26246 3.42026 1.21490 3.65757 2.69565 3.15554 4.19627 3.26212 3.97120'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 285 2.98318 4.36350 4.51239 4.02074 3.42030 4.21927 4.76793 1.32634 3.89023 1.93889 3.25459 4.27072 4.57059 4.17834 4.11039 3.60157 3.25745 1.42258 5.35827 4.14475 285 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 286 2.69667 4.51172 3.35294 2.83570 3.59622 3.53726 3.77872 2.85148 2.09266 2.48046 2.23651 3.24689 3.95327 3.02926 2.76301 2.86386 2.93955 2.67744 5.05393 3.80292 286 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 287 2.39567 4.24050 3.39936 3.15042 3.94026 3.08073 4.17017 3.06336 3.09272 2.92802 3.98110 3.36480 3.78204 3.48935 3.35271 2.59662 1.22979 2.76191 5.38103 4.15704 287 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 288 3.21662 4.62838 4.19281 3.90138 1.06798 3.91336 3.86368 2.74490 3.80935 2.12290 3.48031 3.98187 4.37304 3.98667 3.93731 3.48799 3.51791 2.73306 4.12345 2.49497 288 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 289 1.73503 4.51548 2.92095 2.60866 4.00337 3.20091 3.79238 3.35770 2.57292 3.02257 3.94206 3.03316 3.77796 2.31890 2.91817 2.61860 2.85520 3.03362 5.33574 4.04180 289 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 290 2.92457 5.02739 2.47512 1.07382 4.36958 3.25324 3.83783 3.81687 2.71422 3.43961 4.41567 2.91550 3.85641 3.05454 3.11919 2.91071 3.22874 3.50437 5.54749 4.27033 290 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 291 1.60886 4.16007 3.69194 3.30810 3.74232 3.22502 4.23500 2.49128 3.23650 2.58105 3.66562 3.49074 3.87652 3.56503 3.51380 2.65283 2.80436 1.83454 5.32689 4.09696 291 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03248 3.83909 4.56144 0.61958 0.77255 0.48576 0.95510\n- 292 3.21662 4.62838 4.19281 3.90138 1.06798 3.91336 3.86368 2.74490 3.80935 2.12290 3.48031 3.98187 4.37304 3.98667 3.93731 3.48799 3.51791 2.73306 4.12345 2.49497 292 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02198 3.82859 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7b_I-B_I-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7b_I-B_I-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,785 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7b_I-B_I-C_2\n-LENG 254\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:16 2020\n-NSEQ 136\n-EFFN 2.701904\n-CKSUM 1754753174\n-GA 77 78;\n-STATS LOCAL MSV -10.9478 0.70275\n-STATS LOCAL VITERBI -11.7968 0.70275\n-STATS LOCAL FORWARD -5.0873 0.70275\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53874 4.48568 2.79734 2.63580 3.28877 2.88377 3.74389 2.90221 2.57129 2.63945 3.64767 2.91090 3.38276 3.05937 2.82401 2.62774 2.82560 2.68582 4.88255 3.52223\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.00000 *\n- 1 2.93085 5.37020 3.20127 2.63224 4.72547 3.48269 3.29984 4.18076 1.85765 3.50717 4.29175 1.43188 4.07410 2.68936 2.57355 2.88901 3.15195 3.72120 5.77482 4.41188 1 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 2 2.98792 5.39204 3.15540 2.69243 4.75406 3.73235 3.85783 4.19535 1.82352 3.67131 4.44517 2.81307 4.11856 2.96664 1.26105 2.74700 3.02071 3.79579 5.78605 4.02805 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 3 2.59967 4.48912 3.80780 3.23768 3.61694 2.97757 2.88023 2.16297 2.97165 2.69620 3.59552 3.61342 4.20998 3.42230 3.27374 2.71699 3.05938 2.19876 5.07854 2.15814 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 4 2.86411 5.30259 1.71820 1.64105 3.69654 3.61264 3.83087 4.07914 2.59671 3.59290 4.35540 3.09089 4.02452 2.84453 3.08950 2.71459 2.82023 3.67485 5.75289 3.26562 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 5 2.86423 4.34987 4.59685 4.00903 1.42349 2.32168 4.34656 2.01343 3.85203 2.28672 3.36857 4.12247 4.42717 4.03070 3.95991 3.36848 3.16471 2.53465 4.89384 3.48466 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 6 2.26428 3.46935 4.70585 3.90231 3.25489 4.01330 4.34382 2.24489 3.57271 1.63972 2.96741 4.13835 4.37674 4.06287 3.95846 3.29391 2.98256 1.60237 4.87099 3.69200 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 7 2.85363 4.36646 4.90668 4.29971 1.96854 4.17702 4.49330 2.53047 4.10197 1.44683 3.11175 4.31904 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01256 4.77913 5.50148 0.61958 0.77255 0.57731 0.82418\n- 247 2.48690 5.31022 2.43127 1.91967 4.65401 3.10924 3.71340 4.13962 2.34013 3.58016 4.35154 2.74993 3.96618 2.54042 2.75703 2.15098 2.76246 3.70023 5.74336 4.33224 856 e - - -\n- 2.68620 4.42194 2.77521 2.73118 3.46355 2.40514 3.72496 3.29356 2.67740 2.69345 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.06744 2.79374 5.51640 0.33645 1.25283 0.41977 1.07059\n- 248 3.01534 5.62231 0.93793 2.31276 4.92367 3.65540 4.00768 4.41562 2.86194 3.44392 4.69297 2.71421 4.15916 2.92361 3.39231 2.92902 3.35709 3.99370 6.06366 4.07473 858 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 249 2.83730 4.41584 3.99417 3.38824 3.21621 3.68160 4.15361 2.65724 2.76288 2.61667 3.52661 3.73619 4.25487 3.60295 3.39471 2.94331 3.06910 2.28773 5.00533 1.36941 859 y - - -\n- 2.68621 4.42228 2.77515 2.73125 3.46357 2.40508 3.72498 3.29347 2.67733 2.69358 4.24693 2.90330 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.11926 2.22005 5.56837 0.23131 1.57744 0.48576 0.95510\n- 250 2.47240 5.23338 2.59285 2.00260 4.64835 3.59085 3.64635 3.90763 2.13586 3.46971 4.35217 2.89136 3.98420 2.58055 2.66708 2.59514 2.42364 2.87796 5.74636 4.33941 861 e - - -\n- 2.68612 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67731 2.69357 4.24692 2.90345 2.73741 3.18148 2.89793 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.07038 2.74662 5.56837 0.31903 1.29775 0.48576 0.95510\n- 251 2.87909 4.28440 3.45785 4.02861 3.00750 3.84920 4.35860 1.42037 3.86200 1.93271 3.38934 4.11971 4.39492 3.93946 3.94928 3.33653 3.11174 1.73863 4.82596 3.69241 863 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 252 2.70710 5.09927 2.29854 2.10329 4.35332 3.59691 3.55976 3.72387 2.19745 3.28580 4.31997 2.92141 3.66815 2.80827 2.97985 2.59436 2.16644 2.93918 5.49787 4.32148 864 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 253 2.66449 4.08068 4.70869 4.00094 2.82804 3.99300 4.21176 1.92905 3.90349 1.75643 2.99439 3.64026 4.35755 4.05136 3.94296 2.83270 2.84272 1.76159 4.70878 3.44753 865 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84603 5.56837 0.61958 0.77255 0.48576 0.95510\n- 254 2.64452 5.31257 1.94490 2.26537 4.65194 3.25547 3.54290 3.70255 2.42019 3.42565 4.35476 2.62970 3.90040 2.64062 2.95105 2.30057 2.53599 3.70015 5.74864 4.01528 866 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00792 4.84220 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7f_I-F_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7f_I-F_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1040 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7f_I-F_1\n-LENG 339\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:16 2020\n-NSEQ 7\n-EFFN 1.069824\n-CKSUM 3544250112\n-GA 186.8 181.2;\n-STATS LOCAL MSV -11.0881 0.70034\n-STATS LOCAL VITERBI -11.9508 0.70034\n-STATS LOCAL FORWARD -5.2598 0.70034\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47077 4.44783 2.84637 2.64587 3.30557 2.90203 3.79805 2.85653 2.60660 2.52464 3.80095 2.96781 3.41733 3.02106 2.91256 2.65640 2.85750 2.68907 4.43384 3.43096\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.00000 *\n- 1 2.79201 5.27012 2.29450 2.08262 4.59516 3.39686 3.69434 4.07072 1.55762 3.56322 4.34314 2.86651 3.87172 2.81766 2.95234 2.40674 3.03546 3.65513 5.70787 4.29504 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 2 2.67600 4.29930 3.72727 3.17637 3.42418 3.68803 4.00337 2.28879 3.08256 1.68626 3.38980 2.93946 4.08111 3.39194 3.38111 2.96877 2.31058 2.40378 4.94040 3.71950 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 3 1.69602 4.38030 3.52135 3.27375 4.42552 3.14730 4.37333 3.75961 3.33490 3.49448 4.38326 3.46612 1.18059 3.65125 3.63790 2.62680 2.93065 3.28159 5.77569 4.56670 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 4 2.53182 4.62595 2.97159 2.71580 4.52198 2.27124 4.03243 3.99255 2.92948 3.59008 4.39500 2.22161 3.84652 3.22003 3.36177 1.39874 2.93923 3.47921 5.77797 4.45981 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 5 2.43604 4.26703 3.68014 3.27985 3.93401 2.27366 4.21942 3.17566 3.26431 3.00232 3.89576 3.48179 3.90077 3.55360 3.56485 2.02712 2.84983 1.46706 5.37114 4.15424 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 6 3.57999 4.94539 4.75907 4.41503 3.31236 4.42918 4.96181 2.54890 4.18053 0.53544 3.24971 4.65712 4.81260 4.46128 4.29247 4.06494 3.86293 2.67563 5.30448 4.10496 6 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 7 1.46073 4.27076 3.65160 3.37537 4.48127 3.05124 4.42190 3.86553 3.42296 3.59037 4.42150 3.47543 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 332 3.16812 4.89293 3.91312 3.86444 4.97105 0.34486 4.94775 4.67211 4.09306 4.27545 5.26463 4.07920 4.29380 4.38980 4.27580 3.35245 3.67648 4.13151 5.95723 5.09005 366 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 333 3.16812 4.89293 3.91312 3.86444 4.97105 0.34486 4.94775 4.67211 4.09306 4.27545 5.26463 4.07920 4.29380 4.38980 4.27580 3.35245 3.67648 4.13151 5.95723 5.09005 367 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 334 3.19989 4.54258 4.84958 4.36232 3.54652 4.46936 5.01566 1.93048 4.20862 1.66657 3.39106 4.56835 4.80189 4.47443 4.38672 3.86605 3.47086 0.95090 5.50517 4.29296 368 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 335 3.49467 4.77978 4.78150 4.37072 1.18699 4.42585 3.75828 3.04693 4.20611 1.79769 3.64803 4.21847 4.71965 4.20961 4.24406 3.76681 3.71398 3.01096 3.92879 1.73500 369 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 336 2.63440 4.77432 2.89641 2.60101 4.42604 1.65297 3.90172 3.88077 2.72261 3.46753 4.28598 3.06635 3.87713 2.26919 3.14228 2.10041 2.98140 3.44802 5.66193 4.33223 370 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 337 2.44797 5.20326 2.74956 1.62582 4.53107 3.43123 3.67533 3.98652 2.12932 3.48755 4.27259 2.90847 3.87863 2.27095 2.82780 2.73838 3.01283 3.58853 5.63354 4.25261 371 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 338 2.30966 4.81718 3.00102 2.54696 4.34708 2.53986 3.77121 3.77956 1.79015 3.35139 4.15060 3.03109 3.85183 2.91722 2.94924 2.07127 2.91349 3.37511 5.54686 4.21571 372 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22721 4.94956 0.61958 0.77255 0.48576 0.95510\n- 339 2.98515 5.48433 1.98141 1.79838 4.82962 1.49186 3.86417 4.33399 2.84958 3.84406 4.67892 2.82307 3.94144 3.02608 3.42485 2.89559 3.27518 3.90705 6.01009 4.53384 373 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01481 4.22010 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7f_I-F_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7f_I-F_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1010 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7f_I-F_2\n-LENG 329\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:16 2020\n-NSEQ 24\n-EFFN 1.333008\n-CKSUM 3637589405\n-GA 157.0 135.1; \n-STATS LOCAL MSV -11.1421 0.70056\n-STATS LOCAL VITERBI -11.9461 0.70056\n-STATS LOCAL FORWARD -5.3021 0.70056\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46032 4.38256 2.94771 2.64560 3.30050 2.94966 3.75771 2.88952 2.61950 2.46470 3.75603 2.97856 3.48762 2.98785 2.89059 2.65119 2.85687 2.69569 4.35723 3.39440\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.00000 *\n- 1 2.76578 4.27713 4.08962 3.52237 3.38672 3.85414 4.19386 2.11625 3.41019 1.59248 3.34621 3.54337 4.23116 3.67433 3.64429 3.14798 2.00420 2.19257 4.95665 3.75804 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 2 1.40128 2.31806 4.03184 3.61263 4.17539 3.20352 4.45701 3.49319 3.53964 3.25873 4.12987 3.65087 1.77812 3.80798 3.79783 2.63606 2.88392 3.07729 5.59694 4.41383 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 3 2.64145 4.85789 3.03363 2.57065 4.37835 2.76001 3.80894 3.81963 2.59227 3.38980 4.18265 2.43509 3.88398 2.95214 2.72667 1.57662 2.67321 3.41128 5.58828 4.24649 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 4 2.65886 4.45348 3.41637 2.87019 3.61458 3.08418 3.33300 2.98213 2.81635 2.49714 3.56898 3.29909 3.98828 2.87894 3.18524 2.49518 2.89667 1.71734 5.03527 3.78660 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 5 3.75099 5.08447 4.96869 4.63655 3.40008 4.59411 5.14640 2.65209 4.40352 0.44749 3.31606 4.86864 4.96239 4.64949 4.48946 4.26531 4.03142 2.81009 5.42551 4.25244 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 6 1.70725 4.81312 3.06389 2.58679 4.27433 3.40343 3.80559 3.69994 2.38763 3.29463 4.10055 2.54754 3.88804 2.95905 3.05321 2.07807 2.65047 3.32176 5.51826 4.18799 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 7 3.83475 5.03297 5.01730 4.69776 1.11475 4.65459 3.72905 3.41044 4.51624 2.13859 3.99819 4.36612 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 322 2.85625 3.40253 4.50383 3.94650 3.48795 4.03115 4.47593 1.19083 3.81373 2.39277 3.43297 3.37887 4.41552 4.04493 3.97724 3.36016 3.11353 1.70546 5.10716 3.90691 379 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 323 3.40702 5.47352 3.93920 3.13328 5.03155 3.96194 3.78829 4.32694 1.39020 3.69380 4.58019 3.48154 4.29882 2.91696 1.01972 3.38701 3.53185 4.01532 5.66677 4.56816 380 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 324 3.37881 5.07823 4.14831 4.12023 5.20092 0.26298 5.18172 4.94682 4.36511 4.52681 5.52558 4.31524 4.48085 4.65176 4.52141 3.56849 3.89601 4.38097 6.14017 5.32840 381 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 325 3.37881 5.07823 4.14831 4.12023 5.20092 0.26298 5.18172 4.94682 4.36511 4.52681 5.52558 4.31524 4.48085 4.65176 4.52141 3.56849 3.89601 4.38097 6.14017 5.32840 382 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 326 3.28865 4.59375 5.03859 4.49232 3.47244 4.61955 5.04326 2.04010 4.35799 1.52437 2.77970 4.68884 4.87003 4.52964 4.48943 3.97755 3.52956 1.02088 5.44479 4.31347 383 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 327 3.84290 5.04251 5.01361 4.69432 0.86993 4.66124 3.73812 3.39595 4.51225 2.23895 3.98418 4.37161 4.94371 4.42268 4.48807 4.02202 4.05713 3.35763 3.86396 1.60743 384 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 328 2.74141 5.00914 2.83340 2.50507 4.51470 1.78208 3.84030 3.97291 2.64624 3.52454 4.32353 2.70707 3.92013 2.15904 3.10507 2.15852 3.03821 3.55516 5.70641 4.33989 385 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 329 2.57695 4.04438 2.61808 1.73080 4.45500 3.11454 3.63699 3.92618 2.24576 3.42653 4.17901 2.91523 3.83912 2.52085 2.66611 2.64228 2.90348 3.51059 5.57543 4.17726 386 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01299 4.35037 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7f_I-F_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas7f_I-F_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1004 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas7f_I-F_3\n-LENG 327\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:17 2020\n-NSEQ 43\n-EFFN 1.115417\n-CKSUM 1242212560\n-GA 313.7 3143.4;\n-STATS LOCAL MSV -11.0940 0.70062\n-STATS LOCAL VITERBI -11.9948 0.70062\n-STATS LOCAL FORWARD -5.3300 0.70062\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47219 4.48186 2.90641 2.65221 3.28543 2.93471 3.79059 2.85952 2.61444 2.48651 3.75137 2.95909 3.47583 3.02290 2.89607 2.65768 2.85976 2.66375 4.41866 3.41289\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.00000 *\n- 1 2.62201 4.27120 3.53644 2.98633 3.40181 3.63256 3.89984 2.48954 2.89336 2.00015 3.18013 3.35566 4.01022 3.28070 3.30624 2.84549 2.04996 2.40005 4.86959 3.64800 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 2 1.23270 4.34597 3.53470 3.23470 4.42907 2.90425 4.32747 3.81965 3.29655 3.51729 4.35079 3.42835 1.74103 3.59036 3.62327 2.57118 2.87369 3.30044 5.76489 4.55088 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 3 2.61479 4.77778 2.90826 2.47640 4.37726 2.75113 3.86391 3.81615 2.71078 3.40730 4.21582 2.56222 3.86311 3.02839 3.16539 1.45046 2.63149 3.39754 5.62207 4.28580 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 4 2.59177 4.25814 3.81041 3.30861 3.56091 2.85914 4.11884 2.68248 3.22863 2.32729 3.53778 3.57559 4.04240 3.52305 3.50655 2.49883 2.90313 1.40363 5.05896 3.84109 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 5 3.61064 4.97010 4.79733 4.45529 3.32749 4.45921 4.99516 2.56681 4.22091 0.51820 3.26066 4.69542 4.83974 4.49545 4.32817 4.10103 3.89308 2.69931 5.32599 4.13134 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 6 1.19361 4.39419 3.38747 3.07389 4.40698 3.13569 4.22025 3.82842 3.16004 3.49674 4.31749 2.83512 3.84223 3.45796 3.52110 1.72835 2.86966 3.31647 5.73031 4.48336 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 7 3.66486 4.90696 4.85813 4.49894 0.98985 4.52316 3.69601 3.23552 4.32727 2.13684 3.83356 4.25944 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 320 3.52756 4.88489 4.92667 4.47489 3.18177 4.63262 4.99099 2.29450 4.21548 0.62112 3.05758 4.71591 4.89518 4.43929 4.33213 4.08192 3.78381 2.48222 5.27575 4.08646 425 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 321 3.27491 4.53813 5.14250 4.66262 3.75145 4.72011 5.36581 0.99037 4.56209 2.21251 3.52893 4.84865 5.00122 4.81344 4.73736 4.13115 3.54081 1.24242 5.78582 4.58238 426 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 322 3.30559 5.34351 3.78977 3.06256 4.85201 3.86528 3.75857 4.18239 1.72087 3.59178 4.48633 3.41898 4.22860 2.89663 0.92309 3.30284 3.45331 3.87655 5.59126 4.47272 427 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 323 3.20580 4.92619 3.95538 3.91048 5.01274 0.32813 4.99011 4.72174 4.14214 4.32102 5.31180 4.12163 4.32747 4.43704 4.32028 3.39109 3.71584 4.17650 5.99055 5.13323 428 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 324 3.20580 4.92619 3.95538 3.91048 5.01274 0.32813 4.99011 4.72174 4.14214 4.32102 5.31180 4.12163 4.32747 4.43704 4.32028 3.39109 3.71584 4.17650 5.99055 5.13323 429 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 325 3.22926 4.54280 4.94372 4.44229 3.62260 4.57029 5.11567 1.82832 4.30203 1.87282 3.44612 4.65317 4.87522 4.56735 4.48743 3.95863 3.49401 0.85902 5.59787 4.38453 430 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25087 4.97321 0.61958 0.77255 0.48576 0.95510\n- 326 3.60725 4.87216 4.82826 4.44538 0.94002 4.50029 3.75114 3.12476 4.27593 2.03466 3.72618 4.26114 4.78925 4.26429 4.30672 3.84970 3.82604 3.10200 3.90660 1.90048 431 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03796 4.25087 3.77245 0.61958 0.77255 0.48576 0.95510\n- 327 2.61310 4.70830 2.92888 2.67392 4.44628 1.42196 3.97908 3.90468 2.82753 3.50532 4.33105 3.11353 3.88382 2.55398 3.23501 2.11050 2.98948 3.45323 5.70282 4.38571 432 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.22760 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1154 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a1_I-A_1\n-LENG 377\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:17 2020\n-NSEQ 4\n-EFFN 0.472656\n-CKSUM 3127382138\n-GA 260 260;\n-STATS LOCAL MSV -11.6244 0.69958\n-STATS LOCAL VITERBI -11.9622 0.69958\n-STATS LOCAL FORWARD -5.6755 0.69958\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57104 4.56797 2.98052 2.61557 3.22873 2.82576 3.90000 2.71570 2.69314 2.29864 3.59378 3.17905 3.43527 3.20935 2.96755 2.71279 2.90393 2.60736 4.48622 3.30666\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.00000 *\n- 1 3.02077 4.47014 4.30179 3.77847 2.31463 4.09799 4.27724 2.27987 3.64645 1.58643 1.84313 4.03493 4.40510 3.85195 3.84033 3.43583 3.26200 2.33378 4.73071 3.38569 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 2 2.30490 4.22488 3.18826 3.00329 4.05515 2.95518 4.11362 3.57499 3.07561 3.29696 4.22500 3.23133 3.69228 3.42665 3.36213 1.12372 2.78348 3.11477 5.42940 4.13862 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 3 3.30082 4.68298 4.05895 3.75994 2.64541 3.70659 3.87436 3.32373 3.48270 2.72220 3.95849 3.91336 4.22260 3.87144 3.61473 3.50470 3.60019 3.21347 0.92950 2.64867 3 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 4 2.96098 4.35381 4.47826 3.98834 3.45446 4.18269 4.74837 1.55069 3.86021 1.99622 3.29530 4.23785 4.55011 4.15715 4.08789 3.56494 3.23971 1.20893 5.37024 4.14653 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 5 2.79130 4.34007 4.09556 3.75826 3.53475 3.70154 4.56376 2.05217 3.62571 2.22566 3.50338 3.95145 4.26341 3.98716 3.84023 3.20392 3.15347 1.05228 5.31550 4.04568 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 6 2.95272 4.50496 4.02662 3.61867 3.19888 3.81816 4.35876 2.37236 3.38784 1.79695 1.41949 3.89874 4.27882 3.77123 3.59562 3.29951 3.25770 2.37595 5.03673 3.79651 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 7 2.88427 5.38076 1.38917 1.76446 4.66855 3.16162 3.71802 4.16643 2.73699 3.70533 4.57640 2.64300 3.78'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 370 2.81472 5.14441 2.39966 1.52446 4.42137 3.26999 3.65920 3.88597 2.43034 3.42040 4.29122 2.77625 3.81420 2.34808 2.84191 2.76607 3.07483 3.53316 5.59234 4.21183 370 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 371 2.85855 5.34131 1.80979 1.41707 4.63058 3.17551 3.70229 4.12052 2.68721 3.65874 4.51885 2.65690 3.78395 2.87203 3.24800 2.76282 3.14440 3.72104 5.81915 4.35319 371 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 372 2.97222 4.79304 3.10556 2.86358 3.27031 3.42992 1.18836 3.67181 2.70724 3.16836 4.20983 3.27368 3.98139 3.22960 2.97411 3.04317 3.27495 3.40737 4.73560 3.22182 372 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 373 3.13155 4.60029 4.15509 3.79510 3.12799 3.95481 4.45755 2.33117 3.56305 0.90195 3.15808 4.07262 4.39402 3.93650 3.74251 3.52355 3.42687 2.36291 4.99928 3.71758 373 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 374 2.74954 4.97764 2.39543 1.43815 4.42392 2.44223 3.74805 3.87548 2.63784 3.46684 4.33474 2.80419 3.78942 2.93268 3.09438 2.73522 3.05839 3.49458 5.62036 4.26834 374 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 375 2.79130 4.34007 4.09556 3.75826 3.53475 3.70154 4.56376 2.05217 3.62571 2.22566 3.50338 3.95145 4.26341 3.98716 3.84023 3.20392 3.15347 1.05228 5.31550 4.04568 375 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 376 3.13155 4.60029 4.15509 3.79510 3.12799 3.95481 4.45755 2.33117 3.56305 0.90195 3.15808 4.07262 4.39402 3.93650 3.74251 3.52355 3.42687 2.36291 4.99928 3.71758 376 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 377 3.12954 4.51752 4.50666 3.99066 3.11697 4.31011 4.64751 1.72207 3.80270 1.14954 2.98034 4.27851 4.58341 4.06395 3.99403 3.67785 3.37497 2.00196 5.12086 3.92595 377 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02171 3.84073 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,911 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a1_I-A_2\n-LENG 296\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:17 2020\n-NSEQ 4\n-EFFN 0.652344\n-CKSUM 3925943240\n-GA 238 238;\n-STATS LOCAL MSV -10.7476 0.70138\n-STATS LOCAL VITERBI -11.9349 0.70138\n-STATS LOCAL FORWARD -5.4505 0.70138\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51634 4.32247 2.95236 2.63555 3.31991 2.88896 3.97230 2.71623 2.63478 2.40900 3.67665 3.04178 3.38308 3.20713 2.93178 2.63776 2.90209 2.56080 4.81394 3.46947\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.00000 *\n- 1 3.10002 4.50885 4.53535 4.03260 3.23497 4.25790 4.69960 2.03570 3.86233 1.14461 3.09113 4.29033 4.58410 4.12137 4.05289 3.63540 3.36394 1.63160 5.20861 4.02261 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 2 3.04742 5.17761 2.53691 0.88188 4.53773 3.34527 3.94258 4.01306 2.83682 3.61336 4.58362 2.99780 3.95524 3.15662 3.25607 3.01949 3.35279 3.68619 5.68910 4.41251 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 3 3.11510 4.50531 4.48604 4.10669 3.44810 4.18065 4.81570 0.95411 3.93687 2.01329 3.36788 4.33708 4.60245 4.27471 4.12127 3.68716 3.41273 1.85411 5.36043 4.10733 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 4 2.81920 5.31801 1.72216 1.76120 4.62497 3.24653 3.70038 4.11580 2.62973 3.62842 4.44633 2.71941 2.67861 2.85056 3.18162 2.73903 3.09041 3.70181 5.79636 4.33721 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 5 3.10744 5.24909 0.77547 2.40707 4.64112 3.29424 4.02922 4.25426 3.13422 3.84386 4.82522 2.96848 3.95473 3.26919 3.66431 3.05833 3.44863 3.88232 5.78864 4.49746 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 6 2.77363 5.23579 1.98534 2.20362 4.55044 3.28992 3.65703 4.03201 1.87953 3.53748 4.34144 2.25713 3.80935 2.79596 2.96457 2.71092 3.02897 3.62500 5.68838 4.26549 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 7 2.83201 5.09947 2.73837 1.50693 4.43468 3.40458 3.66666 3.86733 2.28737 3.39363 4.24177 2.93198 3.882'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 289 2.81262 5.18854 1.98855 2.27795 4.51726 3.32123 3.68424 3.98100 1.55600 3.50981 4.33940 2.82649 3.84221 2.83251 2.87896 2.76382 3.06898 3.59705 5.64638 4.26374 314 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 290 3.04742 5.17761 2.53691 0.88188 4.53773 3.34527 3.94258 4.01306 2.83682 3.61336 4.58362 2.99780 3.95524 3.15662 3.25607 3.01949 3.35279 3.68619 5.68910 4.41251 315 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 291 2.64650 4.85822 2.13875 2.37382 3.00391 3.37249 3.63723 3.50273 2.09236 3.10643 3.94800 2.90140 3.81412 2.80664 2.92412 2.66456 2.88823 3.18449 5.30256 3.92119 316 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 292 2.55644 2.56398 3.63192 3.08525 3.50527 3.50005 3.93998 2.61262 2.37561 2.51085 3.46328 3.41350 3.96044 3.28557 3.19233 2.81636 2.83914 1.99666 4.98398 3.75852 317 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 293 3.05728 5.13204 3.48209 2.82248 4.57775 3.66306 3.61821 3.92884 1.60326 3.38273 4.26465 3.21392 4.03872 2.75895 1.30076 3.06182 3.22650 3.61955 5.42896 4.26752 318 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 294 2.67756 4.85531 2.17453 2.36295 4.05005 3.34308 3.68898 3.48060 2.56088 2.22910 3.98432 2.39243 3.82780 2.87050 3.02688 2.70035 2.93452 3.17188 5.36495 3.99363 319 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 295 2.69966 4.51876 3.29077 2.80778 3.13291 3.56139 3.69418 3.01819 2.73075 2.17481 3.61977 2.28407 3.96830 3.09490 3.08364 2.84556 2.93961 2.79548 4.65859 2.53112 320 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 296 2.82808 5.13103 2.94313 1.88614 4.50258 3.47694 3.59313 3.90670 1.77485 3.38754 4.20655 2.96700 3.88931 2.72046 2.05272 2.80140 3.03530 3.54502 5.49388 4.20662 321 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01904 3.97073 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1154 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a1_I-A_3\n-LENG 377\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:17 2020\n-NSEQ 4\n-EFFN 0.472656\n-CKSUM 3496745331\n-GA 175 175;\n-STATS LOCAL MSV -11.6244 0.69958\n-STATS LOCAL VITERBI -11.9622 0.69958\n-STATS LOCAL FORWARD -5.6755 0.69958\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57104 4.56797 2.98052 2.61557 3.22873 2.82576 3.90000 2.71570 2.69314 2.29864 3.59378 3.17905 3.43527 3.20935 2.96755 2.71279 2.90393 2.60736 4.48622 3.30666\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.00000 *\n- 1 3.02077 4.47014 4.30179 3.77847 2.31463 4.09799 4.27724 2.27987 3.64645 1.58643 1.84313 4.03493 4.40510 3.85195 3.84033 3.43583 3.26200 2.33378 4.73071 3.38569 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 2 2.30490 4.22488 3.18826 3.00329 4.05515 2.95518 4.11362 3.57499 3.07561 3.29696 4.22500 3.23133 3.69228 3.42665 3.36213 1.12372 2.78348 3.11477 5.42940 4.13862 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 3 3.30082 4.68298 4.05895 3.75994 2.64541 3.70659 3.87436 3.32373 3.48270 2.72220 3.95849 3.91336 4.22260 3.87144 3.61473 3.50470 3.60019 3.21347 0.92950 2.64867 3 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 4 2.96098 4.35381 4.47826 3.98834 3.45446 4.18269 4.74837 1.55069 3.86021 1.99622 3.29530 4.23785 4.55011 4.15715 4.08789 3.56494 3.23971 1.20893 5.37024 4.14653 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 5 2.79130 4.34007 4.09556 3.75826 3.53475 3.70154 4.56376 2.05217 3.62571 2.22566 3.50338 3.95145 4.26341 3.98716 3.84023 3.20392 3.15347 1.05228 5.31550 4.04568 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 6 2.95272 4.50496 4.02662 3.61867 3.19888 3.81816 4.35876 2.37236 3.38784 1.79695 1.41949 3.89874 4.27882 3.77123 3.59562 3.29951 3.25770 2.37595 5.03673 3.79651 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 7 2.88427 5.38076 1.38917 1.76446 4.66855 3.16162 3.71802 4.16643 2.73699 3.70533 4.57640 2.64300 3.78'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 370 2.81472 5.14441 2.39966 1.52446 4.42137 3.26999 3.65920 3.88597 2.43034 3.42040 4.29122 2.77625 3.81420 2.34808 2.84191 2.76607 3.07483 3.53316 5.59234 4.21183 370 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 371 2.85855 5.34131 1.80979 1.41707 4.63058 3.17551 3.70229 4.12052 2.68721 3.65874 4.51885 2.65690 3.78395 2.87203 3.24800 2.76282 3.14440 3.72104 5.81915 4.35319 371 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 372 2.97222 4.79304 3.10556 2.86358 3.27031 3.42992 1.18836 3.67181 2.70724 3.16836 4.20983 3.27368 3.98139 3.22960 2.97411 3.04317 3.27495 3.40737 4.73560 3.22182 372 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 373 3.13155 4.60029 4.15509 3.79510 3.12799 3.95481 4.45755 2.33117 3.56305 0.90195 3.15808 4.07262 4.39402 3.93650 3.74251 3.52355 3.42687 2.36291 4.99928 3.71758 373 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 374 2.74954 4.97764 2.39543 1.43815 4.42392 2.44223 3.74805 3.87548 2.63784 3.46684 4.33474 2.80419 3.78942 2.93268 3.09438 2.73522 3.05839 3.49458 5.62036 4.26834 374 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 375 2.79130 4.34007 4.09556 3.75826 3.53475 3.70154 4.56376 2.05217 3.62571 2.22566 3.50338 3.95145 4.26341 3.98716 3.84023 3.20392 3.15347 1.05228 5.31550 4.04568 375 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 376 3.13155 4.60029 4.15509 3.79510 3.12799 3.95481 4.45755 2.33117 3.56305 0.90195 3.15808 4.07262 4.39402 3.93650 3.74251 3.52355 3.42687 2.36291 4.99928 3.71758 376 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03209 3.85111 4.57345 0.61958 0.77255 0.48576 0.95510\n- 377 3.12954 4.51752 4.50666 3.99066 3.11697 4.31011 4.64751 1.72207 3.80270 1.14954 2.98034 4.27851 4.58341 4.06395 3.99403 3.67785 3.37497 2.00196 5.12086 3.92595 377 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02171 3.84073 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1223 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a1_I-A_4\n-LENG 400\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:17 2020\n-NSEQ 4\n-EFFN 0.699219\n-CKSUM 1576869273\n-GA 63 63;\n-STATS LOCAL MSV -11.4090 0.69924\n-STATS LOCAL VITERBI -12.3029 0.69924\n-STATS LOCAL FORWARD -5.7099 0.69924\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64122 4.57213 2.95780 2.68977 3.22580 3.04298 3.87931 2.67893 2.63583 2.22701 3.60233 3.08010 3.50580 3.17602 2.94981 2.64474 2.88832 2.60338 4.95968 3.28980\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15436 4.01087 2.08009 0.61958 0.77255 0.00000 *\n- 1 2.98078 4.52713 4.06537 3.65984 3.21399 3.84520 4.39151 2.39107 3.42714 1.80630 1.34955 3.93552 4.30578 3.80797 3.63073 3.33150 3.28632 2.39895 5.05688 3.82003 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03093 3.88744 4.60978 0.61958 0.77255 0.42008 1.07001\n- 2 2.17602 4.34043 3.98129 3.43522 3.28501 3.82787 4.20631 2.34294 3.30941 1.69830 2.16650 3.74794 4.21061 3.60254 3.56958 3.13898 3.03931 2.25776 5.00007 3.81661 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 3 2.86577 5.15571 3.03626 2.03503 4.54570 3.51872 3.59718 3.93985 1.61200 3.40715 4.22864 3.00837 3.91801 2.72236 1.98270 2.83946 3.06491 3.58014 5.49826 4.22977 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 4 3.13634 4.53974 4.58123 4.07890 3.22630 4.29511 4.73259 2.06324 3.90497 1.07065 3.07790 4.33376 4.61358 4.15473 4.08766 3.67530 3.39908 1.69688 5.21674 4.03892 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 5 2.91187 5.19208 2.78445 2.00391 4.56332 3.45575 3.66315 3.96327 1.36962 3.46584 4.31453 2.96277 3.92404 2.80561 2.50518 2.87705 3.13438 3.61083 5.57456 4.28238 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 6 3.31325 4.73556 4.41118 4.05353 3.19323 4.15675 4.66597 2.40681 3.81991 0.72184 3.17631 4.31552 4.56952 4.15502 3.97258 3.74655 3.60188 2.47972 5.12080 3.87545 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 7 2.43359 4.33871 3.27441 2.85542 3.83761 2.43659 3.91627 3.21406 2.83983 2.19332 3.80674 3.20764 3.8082'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 393 2.76167 4.43216 3.65080 3.11471 3.37397 3.73094 4.00292 2.55225 2.93998 1.63924 3.30194 3.50260 4.10994 2.57919 3.23998 3.02324 3.00246 2.06560 5.00118 3.76977 412 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 394 2.80972 4.95185 3.22843 2.63460 4.32944 3.53017 3.62398 3.69695 1.79689 3.23646 4.07985 3.08726 3.92557 2.76732 1.80118 2.83370 2.31742 3.37277 5.38614 4.14295 413 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 395 2.88045 5.23331 2.55020 1.41572 4.56732 3.36882 3.69362 3.99874 1.95236 3.51985 4.36442 2.86543 3.88428 2.84282 2.76216 2.82891 3.12601 3.63067 5.65729 4.30226 414 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 396 3.10557 4.43045 4.78344 4.29454 3.53721 4.42816 5.00876 1.12347 4.17258 2.02709 3.34721 4.51510 4.74846 4.43956 4.36921 3.82155 3.37520 1.39216 5.51742 4.31400 415 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 397 1.73475 4.17923 3.41338 3.14870 4.29062 2.95321 4.23014 3.65325 3.20624 3.39381 4.24441 3.30688 3.70465 3.50625 3.51159 1.23073 2.72752 3.13344 5.64910 4.42267 416 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 398 2.80201 4.52459 3.56417 3.00887 2.86765 3.68982 3.65332 3.05619 2.15183 2.67539 3.63002 3.36590 4.06196 3.18025 3.02984 2.96735 3.02537 2.84100 2.46154 2.31200 417 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15486 4.01087 2.07667 0.61958 0.77255 0.48576 0.95510\n- 399 1.74439 4.13711 3.45133 3.12972 4.03545 2.99920 4.15041 3.12649 3.10455 3.02619 3.96430 3.30651 3.71221 3.43843 3.39793 2.44684 1.61218 2.76193 5.46213 4.24556 418 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03094 3.88695 4.60930 0.61958 0.77255 0.60107 0.79456\n- 400 3.17134 4.62922 4.21279 3.85254 3.14095 4.00065 4.50372 2.34559 3.62015 0.85757 3.15907 4.12663 4.43340 3.98502 3.79392 3.57294 3.46486 2.38672 5.02567 3.75238 419 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02093 3.87694 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a1_I-A_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1154 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a1_I-A_5\n-LENG 377\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:17 2020\n-NSEQ 3\n-EFFN 0.395508\n-CKSUM 1341895007\n-GA 607.7 607.6;\n-STATS LOCAL MSV -11.1298 0.69965\n-STATS LOCAL VITERBI -12.0654 0.69965\n-STATS LOCAL FORWARD -5.5006 0.69965\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53988 4.50677 2.99749 2.64426 3.22884 2.65400 3.91450 2.75430 2.75269 2.31069 3.58207 3.22070 3.44266 3.24689 2.96156 2.69475 2.89522 2.62429 4.38860 3.36735\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.00000 *\n- 1 2.90739 4.47013 3.96211 3.55124 3.17646 3.77266 4.30552 2.34405 3.32305 1.78541 1.54528 3.83830 4.23451 3.71145 3.53765 3.24703 3.21198 2.34011 5.00517 3.75855 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 2 2.27843 4.19650 3.13862 2.95281 3.99538 2.92807 4.06386 3.50788 3.02088 3.23537 4.17001 3.18940 3.66057 3.37723 3.30794 1.22218 2.75281 3.06115 5.37502 4.07899 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 3 3.20590 4.60870 3.96982 3.65713 2.59177 3.64157 3.80631 3.22790 3.38181 2.63607 3.86532 3.82324 4.15304 3.77394 3.52399 3.41023 3.50264 3.11598 1.06888 2.59855 3 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 4 2.74366 4.31136 4.00946 3.67231 3.49244 3.63630 4.48895 2.06258 3.53870 2.19551 3.47249 3.87463 4.20300 3.90547 3.75867 3.13646 3.10826 1.13581 5.26217 3.98762 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 5 2.74366 4.31136 4.00946 3.67231 3.49244 3.63630 4.48895 2.06258 3.53870 2.19551 3.47249 3.87463 4.20300 3.90547 3.75867 3.13646 3.10826 1.13581 5.26217 3.98762 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 6 2.90739 4.47013 3.96211 3.55124 3.17646 3.77266 4.30552 2.34405 3.32305 1.78541 1.54528 3.83830 4.23451 3.71145 3.53765 3.24703 3.21198 2.34011 5.00517 3.75855 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 7 2.90481 5.01398 1.04358 2.29163 4.38093 3.15151 3.86441 3.95117 2.93395 3.57530 4.55381 2.84288 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 370 2.81998 4.79889 2.85340 2.60938 3.95578 3.31407 3.76609 3.57614 2.43658 3.08648 4.11916 3.06743 3.86795 1.38807 2.72135 2.87239 3.11820 3.31172 5.24374 3.93271 370 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 371 2.88568 4.97363 2.46013 1.14857 4.31023 3.22391 3.80664 3.74784 2.67705 3.37936 4.35944 2.89311 3.82532 3.02561 3.07547 2.87805 3.19012 3.44112 5.49758 4.22242 371 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 372 2.91178 4.74023 3.05188 2.80569 3.23193 3.38215 1.32847 3.60165 2.65125 3.10516 4.14342 3.21750 3.93132 3.17149 2.92083 2.98385 3.21325 3.33856 4.69776 3.18557 372 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 373 3.06499 4.55292 4.05625 3.69808 3.10822 3.87549 4.37965 2.31070 3.46653 0.98368 3.16114 3.98122 4.32660 3.85467 3.65512 3.44008 3.36392 2.32622 4.95535 3.65896 373 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 374 2.70402 4.89908 2.39830 1.57541 4.35468 2.35116 3.72748 3.79755 2.61276 3.40162 4.27333 2.79449 3.76051 2.91682 3.05846 2.70188 3.01702 3.42270 5.56274 4.22187 374 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 375 2.74366 4.31136 4.00946 3.67231 3.49244 3.63630 4.48895 2.06258 3.53870 2.19551 3.47249 3.87463 4.20300 3.90547 3.75867 3.13646 3.10826 1.13581 5.26217 3.98762 375 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 376 3.06499 4.55292 4.05625 3.69808 3.10822 3.87549 4.37965 2.31070 3.46653 0.98368 3.16114 3.98122 4.32660 3.85467 3.65512 3.44008 3.36392 2.32622 4.95535 3.65896 376 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 377 3.06499 4.55292 4.05625 3.69808 3.10822 3.87549 4.37965 2.31070 3.46653 0.98368 3.16114 3.98122 4.32660 3.85467 3.65512 3.44008 3.36392 2.32622 4.95535 3.65896 377 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02310 3.77928 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1010 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a2_I-A_1\n-LENG 329\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:18 2020\n-NSEQ 9\n-EFFN 0.856934\n-CKSUM 1013448063\n-GA 530 530;\n-STATS LOCAL MSV -10.8043 0.70059\n-STATS LOCAL VITERBI -12.1867 0.70059\n-STATS LOCAL FORWARD -5.6327 0.70059\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56563 4.18232 3.05367 2.73853 3.16802 2.98530 3.77747 2.60940 2.67264 2.36224 3.65989 3.07741 3.43819 3.12528 2.96712 2.64615 2.84038 2.60346 4.84836 3.40615\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24549 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.15622 1.99036 4.83106 0.31572 1.30661 0.00000 *\n- 1 2.58989 4.33052 3.65254 3.21183 3.55174 3.45101 4.08456 2.83310 3.08129 2.50927 1.60340 3.49537 3.99788 3.44640 3.35907 2.18197 2.92768 2.63402 5.09628 3.83752 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 2 3.26530 4.57003 4.89929 4.39682 3.37326 4.58200 5.01424 1.04683 4.22546 1.57742 3.20553 4.63069 4.83576 4.46157 4.38495 3.97456 3.51542 1.84267 5.40674 4.21839 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 3 2.60795 4.58633 3.21691 2.67054 3.87249 3.44966 3.74111 3.21744 2.51701 2.90137 3.76338 2.86107 3.88079 2.94611 2.23342 2.71718 2.21294 2.37084 5.19933 3.92608 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 4 3.43080 4.82671 4.56803 4.21537 3.24275 4.27953 4.79767 2.46600 3.98100 0.63065 3.20325 4.46801 4.67833 4.29205 4.11576 3.88791 3.71654 2.56347 5.20095 3.97667 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 5 3.70801 4.97320 4.58884 4.28527 1.79605 4.41654 3.53355 3.42968 4.13400 2.76153 4.03894 4.09714 4.74478 4.15027 4.19941 3.80158 3.93883 3.35173 3.68330 0.79827 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 6 2.55817 4.40147 3.65797 3.42939 4.19745 3.23087 4.42609 3.35439 3.37708 3.20927 4.24974 3.59474 3.95570 3.76134 3.61975 2.76277 0.82623 3.02299 5.61377 4.41615 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 7 3.09640 4.80730 3.73014 3.60794 4.57225 3.48177 4.66043 4.18559 3.68690 3.78375 4.84788 3.88786 0.48'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 322 3.60605 4.99853 4.19576 3.97517 2.34301 4.11221 3.75536 3.58452 3.82640 2.97577 4.23587 4.02671 4.58317 4.07430 3.95894 3.71668 3.89536 3.46698 3.99381 0.64816 358 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 323 2.73937 4.26505 4.12436 3.60693 3.52087 3.80925 4.34849 1.88119 3.50284 2.37529 3.44900 3.85162 4.25535 3.79079 3.74972 2.52913 3.02691 1.30603 5.14981 3.92934 359 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 324 2.83247 4.99224 3.12969 2.60297 4.25053 3.54920 3.66374 3.65640 1.93221 2.69551 4.06622 3.08024 3.94849 1.69483 2.49537 2.85127 3.04417 3.35424 5.39348 4.11067 360 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 325 3.17696 5.31672 2.61485 0.73050 4.69588 3.44203 4.05822 4.19817 2.97036 3.78004 4.75078 3.09467 4.05999 3.27344 3.39869 3.13926 3.48531 3.86017 5.82249 4.55360 361 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 326 2.55817 4.40147 3.65797 3.42939 4.19745 3.23087 4.42609 3.35439 3.37708 3.20927 4.24974 3.59474 3.95570 3.76134 3.61975 2.76277 0.82623 3.02299 5.61377 4.41615 362 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 327 2.44782 4.36784 3.43031 3.26398 4.32166 3.09426 4.36370 3.87977 3.35409 3.58388 4.49415 3.44549 3.85397 3.68570 3.62792 0.78337 2.94688 3.36193 5.67620 4.40844 363 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10871 4.83106 0.61958 0.77255 0.48576 0.95510\n- 328 2.56434 4.69736 3.01707 2.55346 4.17884 3.32162 3.74660 3.59235 2.18368 3.19802 4.01597 3.02532 3.26723 2.90994 2.93512 1.77727 2.41781 3.22142 5.42610 4.11371 364 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16725 4.10871 1.98354 0.61958 0.77255 0.48576 0.95510\n- 329 2.73503 5.21122 2.26802 1.88357 4.51619 2.61939 3.63624 3.99450 2.11946 3.50057 4.29330 2.51774 3.79022 2.76964 2.98275 2.67493 2.98636 3.58613 5.66232 4.23526 365 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 3.96070 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1079 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a2_I-A_2\n-LENG 352\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:18 2020\n-NSEQ 6\n-EFFN 1.497070\n-CKSUM 3573301459\n-GA 105 105;\n-STATS LOCAL MSV -11.1950 0.70009\n-STATS LOCAL VITERBI -11.9216 0.70009\n-STATS LOCAL FORWARD -5.7613 0.70009\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58149 4.53148 3.05822 2.63385 3.27329 2.94142 3.73011 2.71334 2.66805 2.29303 3.65817 3.10932 3.49147 3.15154 2.96841 2.69846 2.86817 2.59393 4.66342 3.21471\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.00000 *\n- 1 3.27929 4.58916 5.06231 4.51447 2.47780 4.56822 4.88513 2.16084 4.37954 1.60241 3.28616 4.65090 4.83191 4.50655 4.47202 3.91861 3.51685 1.04009 5.24185 4.00564 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 2 2.68273 2.60070 3.27875 2.72080 3.84250 3.56599 3.80607 3.22301 2.23214 2.89090 2.89709 2.64011 2.72234 3.02374 3.07563 2.79765 2.91997 2.95447 5.20211 3.92396 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 3 2.84448 4.48305 3.80652 1.94266 3.49442 3.86709 4.13134 2.06192 3.17703 1.97579 2.41317 3.63542 4.22466 3.47635 3.50209 3.12848 3.07550 2.50231 5.09247 3.88760 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 4 3.50977 4.79107 5.26465 4.71342 1.32243 4.76336 4.85884 1.85610 4.56377 1.32691 3.10298 4.82342 4.94446 4.57054 4.58833 4.11735 3.72773 2.49844 5.05599 3.75732 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 5 2.76630 4.98354 3.00384 2.17411 4.20572 3.52894 3.74909 3.65855 2.17262 3.24618 4.06541 3.05306 3.94508 2.90336 2.94402 2.18764 2.99927 3.33015 5.45185 2.06121 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 6 2.53685 4.46232 3.77763 3.54800 4.65701 1.92452 4.60920 4.03779 3.61520 3.76570 4.61137 3.65906 4.00618 3.90505 3.89419 2.72337 0.85981 3.48514 5.99031 4.81030 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17402 4.42956 1.91191 0.61958 0.77255 0.48576 0.95510\n- 7 3.38085 5.04924 4.03380 3.94395 4.87395 3.71497 4.97011 4.54717 4.04066 4.11903 5.19822 4.20161 0.33'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 345 3.64074 4.88455 5.44272 4.91067 3.36456 5.01811 5.39085 1.38252 4.75319 0.85787 3.13674 5.12554 5.14516 4.80561 4.80864 4.41905 3.86825 2.25023 5.53709 4.48004 397 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 346 1.36704 4.70105 3.22461 2.30389 3.97291 3.56004 3.94069 3.22607 2.80733 2.38646 3.88296 3.25874 4.02839 3.16356 3.20382 2.87443 3.02532 2.96864 5.36160 4.07933 398 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 347 3.06245 5.66299 2.00208 1.16729 4.96190 3.44936 3.90087 4.48225 2.82690 3.94923 4.75674 2.89964 4.02007 2.10618 3.38811 2.95791 3.33040 4.03766 6.08989 4.59955 399 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 348 2.76084 4.22781 4.20271 3.63173 3.05501 2.56272 4.03287 1.74600 3.49631 2.39659 3.34040 3.81116 4.21365 3.71321 3.66721 3.13766 2.99384 2.47937 3.03018 2.35241 400 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 349 3.65599 4.90930 5.45406 4.88550 2.32071 4.96690 5.16705 1.92657 4.74651 0.73769 3.00838 5.05980 5.06937 4.69329 4.74658 4.33466 3.86511 2.56383 5.28388 4.16402 401 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 350 1.80239 2.89063 3.87019 3.33682 2.54229 2.60585 4.13604 2.98660 3.27019 2.71646 3.61178 3.58364 4.02932 3.53864 3.55644 2.09637 2.90375 2.72655 5.09142 3.88244 402 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 351 2.72141 4.97131 2.98351 1.71657 4.23916 3.49786 3.73418 3.65488 2.52246 3.24706 2.74741 2.51498 3.91348 2.87759 2.98485 2.73814 2.40382 3.31636 5.47633 4.12773 403 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42956 5.15191 0.61958 0.77255 0.48576 0.95510\n- 352 2.77495 4.32801 3.96381 3.38685 2.53070 3.81121 3.99202 2.76329 3.23301 2.45059 3.41081 3.67073 4.17976 3.53163 1.93056 3.08825 3.00575 2.03282 2.91602 3.36972 404 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01206 4.42376 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1088 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a2_I-A_3\n-LENG 355\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:18 2020\n-NSEQ 7\n-EFFN 1.883301\n-CKSUM 3236598109\n-GA 60 60;\n-STATS LOCAL MSV -11.2700 0.70002\n-STATS LOCAL VITERBI -12.2454 0.70002\n-STATS LOCAL FORWARD -5.2023 0.70002\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53335 4.53030 3.06545 2.64229 3.29179 2.93219 3.73686 2.76133 2.69288 2.26005 3.68397 3.16453 3.51403 3.17924 2.92136 2.70636 2.85738 2.57996 4.66353 3.20781\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.00000 *\n- 1 3.00489 4.38354 4.73727 4.16123 2.58582 4.20784 4.56946 2.31037 4.01535 1.84039 3.37654 4.28782 4.54768 4.19398 4.12688 3.52773 2.34635 1.21690 5.09993 3.91262 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 2 2.72547 2.93192 3.46811 2.90426 3.70583 3.66303 3.90930 3.07016 2.33065 2.76996 2.85002 2.70093 2.55895 3.18614 3.24675 2.89942 2.95931 2.28069 5.11959 3.86712 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 3 2.74114 4.72049 3.29024 1.87571 3.91097 3.62246 3.85323 2.51270 2.72271 2.47377 3.80907 3.22644 2.80060 3.06253 3.14904 2.84817 2.37796 2.98572 5.27498 3.98861 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 4 3.65871 4.92143 5.55699 4.96163 1.92768 4.95685 5.22649 1.90812 4.80624 0.98439 2.12074 5.09921 5.07926 4.73446 4.77071 4.31402 3.86611 2.71232 5.36217 4.33784 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 5 2.88010 4.72689 3.47974 2.40946 2.46745 3.76160 3.87926 3.27033 2.36951 2.91963 3.82517 3.39691 4.14937 3.24661 3.26511 3.01639 3.10986 3.03018 4.90414 1.59614 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 6 2.58045 4.50470 3.99722 3.75002 4.74294 3.29953 4.74800 4.12542 3.76224 3.86282 4.70247 3.78626 4.08314 4.05423 4.01918 1.87401 0.73187 3.55343 6.10493 4.91387 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 7 3.02914 4.91959 3.92059 3.82575 5.19789 1.94207 5.00564 4.77152 4.06720 4.39154 5.25611 4.01528 0.5671'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 348 3.59905 4.82720 5.56239 5.02922 3.60761 5.06076 5.52826 1.40407 4.91757 1.01594 3.36636 5.19703 5.22141 4.98702 4.97890 4.45309 3.83445 1.62613 5.72864 4.65628 416 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 349 1.49068 4.54604 3.58824 2.48506 3.73723 3.73036 4.04390 2.88125 3.01802 2.29314 3.67256 3.47452 4.13885 3.33989 3.38447 2.99803 3.03387 2.14076 5.19765 3.95363 417 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 350 3.18867 5.81484 2.00942 0.98932 5.10974 3.53261 4.01158 4.63959 2.96510 4.09981 4.91527 2.98009 4.12051 2.19057 3.54158 3.07359 3.46187 4.18842 6.23889 4.73247 418 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 351 2.74155 4.24827 4.09799 3.52029 3.29559 2.67833 4.09751 1.80065 3.41109 2.44504 3.36539 3.76095 4.19373 3.64882 3.62218 2.39590 2.97536 2.50667 3.14583 2.58427 419 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 352 3.84033 5.06813 5.68842 5.11772 2.36230 5.18076 5.37362 1.97486 4.97913 0.63706 3.07472 5.29520 5.23635 4.87020 4.94452 4.56118 4.04416 2.70249 5.42118 4.33467 420 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 353 2.14327 2.95830 4.16596 3.59648 2.52045 2.79838 4.17283 2.73349 3.48632 2.48650 3.40331 3.79279 4.17477 3.71343 3.68316 2.32635 2.96296 1.89529 4.89874 3.70582 421 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 354 2.75017 5.11178 3.04048 1.77104 4.40795 3.53574 3.72829 3.85331 2.47005 3.39331 2.88709 2.54614 3.93136 2.84741 2.37576 2.74150 2.42386 3.47644 5.57486 4.20554 422 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01531 4.58280 5.30515 0.61958 0.77255 0.48576 0.95510\n- 355 2.21008 4.31013 3.93005 3.35251 2.68854 3.78911 4.05943 2.76734 3.24858 2.49702 3.41731 3.65818 4.16403 3.52557 2.04260 3.06005 2.97539 2.09767 2.98338 3.65474 423 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01033 4.57782 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1064 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a2_I-A_4\n-LENG 347\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:18 2020\n-NSEQ 4\n-EFFN 0.605469\n-CKSUM 3959192883\n-GA 400 400;\n-STATS LOCAL MSV -11.1698 0.70016\n-STATS LOCAL VITERBI -11.9784 0.70016\n-STATS LOCAL FORWARD -5.3819 0.70016\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57605 4.60422 2.97510 2.67908 3.18521 2.86649 3.79411 2.72024 2.63088 2.35195 3.67654 3.07918 3.42252 3.19432 3.00691 2.67700 2.91641 2.59670 4.51358 3.27894\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40517 3.72499 3.29359 2.67745 2.69360 4.24581 2.90351 2.73744 3.18112 2.89805 2.37891 2.77524 2.98491 4.58482 3.61508\n- 0.15229 2.02576 4.67017 0.89277 0.52682 0.00000 *\n- 1 3.02929 4.56640 4.13060 3.73005 3.24196 3.89042 4.44777 2.42513 3.49391 1.82560 1.24069 3.99815 4.35172 3.87101 3.69032 3.38612 3.33622 2.43991 5.09264 3.86088 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 2 2.75980 4.91375 2.89528 2.52596 4.27146 3.38046 3.68047 3.77307 2.26840 3.32112 4.17679 1.78078 3.87304 2.84757 2.02902 2.78070 3.02387 3.41860 5.42156 4.10892 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 3 2.86871 5.05688 2.95839 2.01067 4.41710 3.47426 3.63777 3.82109 2.12834 3.33716 4.19717 3.01712 3.91569 2.78566 1.57501 2.86347 3.08699 3.48941 5.45397 4.19227 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 4 3.35682 4.81526 3.94980 3.69352 2.29796 3.91816 3.65517 3.35560 3.54888 2.79004 4.02286 3.81683 4.39035 3.83681 3.71706 3.48595 3.64392 3.22974 3.94453 0.84915 7 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 5 3.25957 4.63225 4.51705 4.06704 1.40645 4.26868 4.05894 2.45538 3.91738 1.50318 3.14708 4.17384 4.56975 4.05264 4.04830 3.64427 3.50129 2.51099 4.31035 2.73469 8 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 6 3.10964 4.43145 4.73750 4.20272 3.35344 4.43629 4.86931 1.38391 4.08395 1.55808 3.15936 4.45293 4.69571 4.30229 4.26939 3.79369 3.35499 1.51840 5.33930 4.18200 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 7 2.85317 4.59780 3.46851 3.31855 4.30697 3.28106 4.38968 3.87190 3.38231 3.49052 4.54371 3.61758 0.69'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 340 2.86764 4.38963 4.22930 3.89498 3.60564 3.80147 4.68382 2.04826 3.76390 2.27975 3.55958 4.07264 4.35794 4.11837 3.96910 3.30991 3.22745 0.93504 5.40273 4.13892 377 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 341 3.08371 4.50551 4.48451 3.98546 3.21097 4.22239 4.66132 2.04688 3.80987 1.13254 3.07420 4.24899 4.55554 4.07827 4.00509 3.60134 3.34968 1.70002 5.18242 3.98945 378 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 342 2.83828 5.05023 2.82815 2.48345 4.43047 3.41216 3.65498 3.87480 1.43385 3.39847 4.25076 2.32736 3.89322 2.80794 2.48914 2.82999 3.08033 3.51983 5.49564 4.19889 379 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 343 2.71587 4.58991 3.14662 2.79613 2.37538 3.46059 3.73544 3.17408 2.84294 2.80953 3.80838 1.75569 3.95947 3.17279 3.20916 2.83511 3.00816 2.93675 4.66605 3.11863 380 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 344 2.86764 4.38963 4.22930 3.89498 3.60564 3.80147 4.68382 2.04826 3.76390 2.27975 3.55958 4.07264 4.35794 4.11837 3.96910 3.30991 3.22745 0.93504 5.40273 4.13892 381 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 345 2.73360 4.86543 2.54046 1.92907 4.42511 1.50352 3.85915 3.87560 2.76051 3.48764 4.36099 2.92165 3.83202 3.06053 3.19367 2.75944 3.07517 3.48152 5.63928 4.32545 382 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 346 3.03759 4.38669 4.65837 4.16560 3.52443 4.32677 4.90141 1.46054 4.04621 2.04648 3.34579 4.39782 4.66670 4.32645 4.25891 3.71244 3.30996 1.13314 5.46665 4.25241 383 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15229 3.94783 2.10400 0.61958 0.77255 0.48576 0.95510\n- 347 2.29466 4.21404 3.16941 2.98393 4.03278 2.94480 4.09462 3.54979 3.05469 3.27374 4.20408 3.21527 3.68013 3.40765 3.34154 1.15955 2.77163 3.09458 5.40899 4.11627 384 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 3.81775 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1400 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a2_I-A_5\n-LENG 459\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:18 2020\n-NSEQ 5\n-EFFN 0.864258\n-CKSUM 735107250\n-GA 183 183;\n-STATS LOCAL MSV -11.7417 0.69845\n-STATS LOCAL VITERBI -12.5415 0.69845\n-STATS LOCAL FORWARD -6.0381 0.69845\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71411 4.37523 2.90804 2.57422 3.28856 3.14977 3.88458 2.66554 2.53577 2.31716 3.59875 2.89261 3.68591 3.16255 3.01912 2.66844 2.86124 2.63311 4.98676 3.26894\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28804 4.11303 1.45280 0.61958 0.77255 0.00000 *\n- 1 2.95713 4.50841 4.03276 3.62517 3.20119 3.82246 4.36392 2.37525 3.39405 1.79832 1.40812 3.90455 4.28308 3.77701 3.60117 3.30456 3.26218 2.37953 5.03987 3.80020 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03190 3.85688 4.57923 0.61958 0.77255 0.71882 0.66811\n- 2 2.07807 4.67893 2.98755 2.59710 4.15952 3.30875 3.71316 3.45530 1.66988 3.12921 4.01960 3.03654 3.82793 2.89313 2.62909 2.70445 2.92704 3.13282 5.37295 4.10430 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03190 3.85688 4.57923 0.61958 0.77255 0.71882 0.66811\n- 3 2.64657 4.55998 3.14885 2.72439 3.71265 3.42218 3.79026 2.96661 2.54489 2.65185 3.68974 3.15730 3.90134 2.03122 2.86853 2.77846 2.92668 2.19162 5.16008 3.85584 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03190 3.85688 4.57923 0.61958 0.77255 0.71882 0.66811\n- 4 3.13793 4.60490 4.16441 3.80434 3.13002 3.96223 4.46497 2.33339 3.57223 0.89462 3.15810 4.08131 4.40037 3.94430 3.75079 3.53149 3.43294 2.36665 5.00350 3.72317 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03190 3.85688 4.57923 0.61958 0.77255 0.71882 0.66811\n- 5 2.95809 4.92097 3.13303 2.75759 4.30384 3.44908 3.75094 3.73216 1.05980 3.30072 4.26313 3.18270 3.95063 2.94339 2.42918 3.00118 3.21259 3.44088 5.36500 4.17557 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03190 3.85688 4.57923 0.61958 0.77255 0.71882 0.66811\n- 6 2.97723 4.35689 4.51737 4.02395 3.45561 4.21894 4.77663 1.48011 3.89898 1.98768 3.28947 4.27208 4.57419 4.18880 4.12281 3.59971 3.25225 1.24214 5.38061 4.16307 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03190 3.85688 4.57923 0.61958 0.77255 0.71882 0.66811\n- 7 3.13793 4.60490 4.16441 3.80434 3.13002 3.96223 4.46497 2.33339 3.57223 0.89462 3.15810 4.08131 4.400'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 452 2.81360 5.13739 2.48789 1.78765 4.42504 3.30947 3.65426 3.88394 2.37964 3.41055 4.26993 2.81442 3.83104 1.91209 2.77267 2.77094 3.06486 3.52968 5.57352 4.20746 466 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 453 2.82158 5.24329 1.68078 2.12317 4.56565 3.17595 3.72981 4.11306 2.71941 3.65556 4.51019 1.77337 3.79116 2.90567 3.27362 2.74849 3.12423 3.69858 5.78787 4.31810 467 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 454 1.65610 4.22429 3.23765 2.95164 4.11431 3.00020 4.06601 3.41852 2.99555 3.16290 4.06409 3.21029 1.91951 3.32901 3.32105 2.45851 2.73916 3.00002 5.47772 4.24450 468 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 455 2.49215 4.21757 3.74870 3.32374 3.68486 3.36899 4.23174 2.39483 3.22100 2.50798 3.60118 3.54932 3.96969 3.56590 3.50132 2.77540 1.86843 1.69334 5.28384 4.05308 469 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 456 2.83055 5.14467 2.54548 1.60543 4.47476 3.33480 3.64476 3.89279 1.88888 3.42741 4.27859 2.83945 3.84324 2.79675 2.67648 2.78886 3.07370 3.53730 5.57282 4.23241 470 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 457 2.79517 5.18840 1.68662 2.19497 4.50082 3.25161 3.67397 3.97311 1.91173 3.51412 4.35337 2.75408 3.80204 2.83071 2.98453 2.73707 3.06265 3.58828 5.66367 4.25607 471 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 458 3.00665 4.36857 4.58772 4.09283 3.47793 4.27535 4.83474 1.41884 3.97116 2.00081 3.30387 4.33432 4.61867 4.25343 4.18848 3.65727 3.27885 1.23716 5.41443 4.20170 472 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03083 3.89050 4.61285 0.61958 0.77255 0.69417 0.69212\n- 459 1.65761 4.18295 3.77490 3.37869 3.73567 3.29950 4.28510 2.42218 3.30504 2.56064 3.65100 3.55944 3.93722 3.62642 3.57824 2.72245 2.84636 1.67945 5.33652 4.11094 473 a - - -\n- 2.68647 4.42254 2.77548 2.73015 3.46383 2.40542 3.72523 3.29323 2.67770 2.69318 4.24718 2.90294 2.73768 3.18175 2.89829 2.37843 2.77548 2.98503 4.58506 3.61532\n- 0.20553 1.68317 * 2.13093 0.12639 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a2_I-A_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1088 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a2_I-A_6\n-LENG 355\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:19 2020\n-NSEQ 7\n-EFFN 1.746582\n-CKSUM 2086633073\n-GA 112 112;\n-STATS LOCAL MSV -11.2217 0.70002\n-STATS LOCAL VITERBI -12.2037 0.70002\n-STATS LOCAL FORWARD -5.4261 0.70002\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52511 4.50409 3.01719 2.65384 3.29210 2.90071 3.73953 2.80858 2.70435 2.27229 3.68151 3.13688 3.50638 3.18082 2.91607 2.66903 2.85055 2.60913 4.72452 3.23269\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.00000 *\n- 1 2.71826 2.98550 3.28431 2.72733 3.92271 3.59040 3.82931 3.30727 2.23665 2.96689 2.96662 2.67564 2.12839 3.03513 3.08853 2.82048 2.95624 3.03099 5.26826 3.98324 1 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 2 2.75722 4.45772 3.65061 2.01331 3.57565 3.74778 4.00613 2.26574 3.03336 2.22560 2.62554 3.48978 4.12289 3.33853 3.38179 2.99714 2.33976 2.61969 5.05913 3.83031 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 3 3.64525 4.90634 5.46164 4.89983 1.43112 4.92858 5.06207 1.89709 4.74959 1.09203 3.10384 5.01852 5.06865 4.70810 4.74245 4.29024 3.85778 2.60905 5.20904 3.98584 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14046 4.53120 2.11796 0.61958 0.77255 0.48576 0.95510\n- 4 2.91701 5.02301 3.05398 2.19484 4.01435 3.61757 3.80817 3.66128 2.12776 3.25263 4.11854 3.15632 4.05215 3.01465 2.88863 2.94925 3.14482 3.36682 5.33541 1.53952 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01824 4.40898 5.13132 0.61958 0.77255 0.38543 1.13992\n- 5 2.54803 4.47231 3.93324 3.67861 4.67936 3.26831 4.68389 4.05541 3.68938 3.79522 4.63861 3.73434 4.04568 3.98658 3.95257 1.89644 0.76635 3.49840 6.04274 4.84650 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 6 2.97251 4.86724 3.84411 3.73890 5.11690 1.97450 4.92235 4.68094 3.97093 4.30406 5.16901 3.94122 0.59819 4.24393 4.24326 3.14205 3.48431 4.05299 6.26919 5.21499 6 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 7 2.90191 4.93312 3.15050 2.78945 3.90193 1.32677 3.93701 3.65508 2.80168 3.26586 4.14430 3.26504 4.10'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 348 3.55042 4.78437 5.49763 4.96328 3.57960 5.00215 5.46645 1.42320 4.85044 1.04680 3.34227 5.13241 5.17184 4.93052 4.91875 4.39095 3.78635 1.59316 5.68660 4.60777 449 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 349 1.48271 4.87455 3.12113 1.86622 4.15951 3.57058 3.91178 3.45601 2.74426 2.54214 4.03565 3.19473 4.03087 3.09604 3.17392 2.87198 3.06376 3.17028 5.49114 4.17828 450 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 350 2.96184 5.51541 2.20264 1.34724 4.83370 3.49422 3.85439 4.33625 2.70736 3.81153 4.58834 2.95185 4.00418 2.25661 3.24123 2.17446 3.21504 3.89668 5.95148 4.49631 451 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 351 2.74725 4.17405 4.38838 3.79792 3.16256 2.69093 4.14178 1.78255 3.64077 1.92455 3.27927 3.91793 4.23781 3.82692 3.75570 3.17156 2.97918 2.41593 3.15748 2.55709 452 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 352 3.48953 4.76391 5.38506 4.80821 2.47987 4.81022 5.13873 1.93416 4.66392 0.92136 3.14498 4.93923 4.99199 4.67870 4.67916 4.16524 3.71077 1.80427 5.36866 4.29402 453 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 353 2.18882 3.19040 3.49925 2.94011 2.73857 2.84296 3.93213 3.07785 2.90006 2.77639 3.65519 3.36038 4.03111 3.21741 2.28935 2.30677 2.94104 2.82900 5.12483 3.87663 454 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 354 2.23232 4.97081 3.05584 1.82219 4.23957 3.52527 3.74898 3.66000 2.53864 3.25062 2.86264 2.58336 3.92963 2.89020 3.00616 2.74376 2.42910 3.31974 5.47881 4.13159 455 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.48576 0.95510\n- 355 2.84832 4.36796 4.11266 3.53697 2.52239 3.89517 4.04427 2.79650 3.36765 2.47686 3.44900 3.78281 4.26134 3.65248 2.18232 3.17942 3.07926 2.08394 2.03797 3.30759 456 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01088 4.52596 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1172 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a3_I-A_1\n-LENG 383\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:19 2020\n-NSEQ 3\n-EFFN 0.413086\n-CKSUM 1920079783\n-GA 165 165;\n-STATS LOCAL MSV -11.3727 0.69952\n-STATS LOCAL VITERBI -12.5366 0.69952\n-STATS LOCAL FORWARD -5.6972 0.69952\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57027 4.14105 2.95512 2.78764 3.36929 2.93596 3.94390 2.63694 2.79077 2.28636 3.62245 2.97871 3.59591 3.25708 2.92763 2.62787 2.86582 2.51211 4.80680 3.29658\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.00000 *\n- 1 2.91780 4.47801 3.97715 3.56682 3.18136 3.78334 4.31779 2.35031 3.33808 1.78762 1.51487 3.85230 4.24478 3.72522 3.55112 3.25918 3.22242 2.34818 5.01230 3.76727 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 2 2.28434 4.20294 3.14998 2.96422 4.00932 2.93421 4.07517 3.52347 3.03331 3.24960 4.18257 3.19889 3.66775 3.38836 3.32034 1.19844 2.75967 3.07356 5.38765 4.09287 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 3 2.66965 4.66129 2.67570 2.55514 4.01438 3.14034 3.87062 3.71164 2.76948 3.36679 4.32368 1.28447 3.78963 3.14460 3.12065 2.74031 3.05010 3.34075 5.32838 3.96864 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 4 3.08043 4.56380 4.07946 3.72069 3.11259 3.89422 4.39779 2.31499 3.48903 0.96383 3.15985 4.00254 4.34243 3.87371 3.67555 3.45955 3.37845 2.33433 4.96552 3.67261 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 5 2.75478 4.31790 4.02974 3.69238 3.50216 3.65175 4.50638 2.05953 3.55904 2.20225 3.47936 3.89263 4.21720 3.92449 3.77778 3.15229 3.11874 1.11553 5.27454 4.00117 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 6 2.97827 4.41805 4.23573 3.85029 3.33010 3.99030 4.59213 1.16646 3.67696 1.93203 3.27805 4.10523 4.42953 4.03328 3.88141 3.48038 3.27930 1.84902 5.20565 3.93693 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 7 2.89683 4.98944 2.46410 1.12632 4.32764 3.23234 3.81544 3.76807 2.68758 3.39697 4.37575 2.89927 3.83'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 376 2.93151 4.77232 3.41551 2.94300 4.10969 3.43048 3.77990 3.64801 2.21716 3.17647 4.17997 3.30716 3.93777 3.00497 1.08772 3.01988 3.20304 3.37529 5.22126 4.05338 377 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 377 3.15190 4.66842 3.73909 3.45716 2.30048 3.75187 3.59153 3.17087 3.31663 2.64199 3.85345 3.64184 4.22804 3.63902 3.51369 3.29486 3.43868 3.03842 3.94114 1.08686 378 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 378 3.08043 4.56380 4.07946 3.72069 3.11259 3.89422 4.39779 2.31499 3.48903 0.96383 3.15985 4.00254 4.34243 3.87371 3.67555 3.45955 3.37845 2.33433 4.96552 3.67261 379 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 379 2.91780 4.47801 3.97715 3.56682 3.18136 3.78334 4.31779 2.35031 3.33808 1.78762 1.51487 3.85230 4.24478 3.72522 3.55112 3.25918 3.22242 2.34818 5.01230 3.76727 380 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 380 2.93151 4.77232 3.41551 2.94300 4.10969 3.43048 3.77990 3.64801 2.21716 3.17647 4.17997 3.30716 3.93777 3.00497 1.08772 3.01988 3.20304 3.37529 5.22126 4.05338 381 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 381 3.08043 4.56380 4.07946 3.72069 3.11259 3.89422 4.39779 2.31499 3.48903 0.96383 3.15985 4.00254 4.34243 3.87371 3.67555 3.45955 3.37845 2.33433 4.96552 3.67261 382 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 382 2.28434 4.20294 3.14998 2.96422 4.00932 2.93421 4.07517 3.52347 3.03331 3.24960 4.18257 3.19889 3.66775 3.38836 3.32034 1.19844 2.75967 3.07356 5.38765 4.09287 383 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80449 4.52684 0.61958 0.77255 0.48576 0.95510\n- 383 3.15190 4.66842 3.73909 3.45716 2.30048 3.75187 3.59153 3.17087 3.31663 2.64199 3.85345 3.64184 4.22804 3.63902 3.51369 3.29486 3.43868 3.03842 3.94114 1.08686 384 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02277 3.79362 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,905 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a3_I-A_2\n-LENG 294\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:19 2020\n-NSEQ 5\n-EFFN 0.903320\n-CKSUM 2077339322\n-GA 300 300;\n-STATS LOCAL MSV -10.8795 0.70147\n-STATS LOCAL VITERBI -11.6647 0.70147\n-STATS LOCAL FORWARD -5.3556 0.70147\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45720 4.44125 2.98958 2.67385 3.22141 3.07254 3.86828 2.78579 2.67814 2.37284 3.55089 3.09793 3.72370 3.20426 2.79969 2.62305 2.92076 2.53165 4.68896 3.27112\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.00000 *\n- 1 3.19804 4.70931 4.34425 3.96579 3.35251 4.03765 4.64014 2.55584 3.71729 1.91410 0.94974 4.20828 4.50659 4.08558 3.88999 3.57090 3.51219 2.59106 5.22362 4.00517 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 2 2.41858 4.38383 3.27286 3.04740 4.37366 3.09478 4.21700 3.84608 3.14822 3.51409 4.36836 3.31083 1.26050 3.47641 3.47610 1.92945 2.88613 3.33169 5.69954 4.44147 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 3 3.32746 5.13180 3.84733 3.31318 4.55464 3.75397 4.05044 4.12190 2.39094 3.59008 4.59032 3.64904 4.25004 3.26376 0.64146 3.40330 3.57946 3.83613 5.53444 4.43246 3 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 4 1.69183 4.67310 3.35048 2.85270 4.23494 3.39705 3.86024 3.58400 2.44683 3.22134 4.10237 3.23744 3.92934 3.04720 1.62725 2.77389 2.99045 3.23918 5.45097 4.20762 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 5 3.23412 5.18962 3.42638 3.00882 4.63713 3.68531 3.93493 4.08537 0.72656 3.59681 4.55189 3.41854 4.17348 3.11707 2.52004 3.26350 3.47155 3.78119 5.58894 4.44389 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 6 2.67028 4.82941 3.05464 2.58189 4.30505 3.39617 3.73180 3.70074 1.56622 3.28548 4.10936 3.05278 3.87479 2.88394 2.73566 2.26034 2.37053 3.33329 5.47696 4.17866 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 7 2.71867 5.11203 1.99730 2.29763 4.45951 2.49592 3.69188 3.92367 2.52569 3.45723 4.24949 2.84854 3.831'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 287 3.25874 4.63384 4.77032 4.26656 3.24594 4.44161 4.87571 2.12773 4.08868 0.91563 3.07941 4.50650 4.73239 4.30207 4.24402 3.82926 3.51702 1.78025 5.28179 4.13172 308 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 288 2.93807 5.48658 1.38574 1.80227 4.79916 3.29304 3.79577 4.30920 2.77163 3.80691 4.63385 2.76011 3.88825 2.95157 3.35182 2.24019 3.21985 3.87795 5.96924 4.47824 309 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 289 2.20123 4.93326 3.04113 2.50809 4.30332 2.70336 3.65584 3.71730 1.84472 3.26754 4.07611 3.00519 3.86838 2.79195 2.27497 2.71240 2.93567 3.35881 5.44416 4.13232 310 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 290 3.46419 4.85302 4.61152 4.26060 3.25771 4.31357 4.83469 2.48388 4.02611 0.60755 3.21257 4.51074 4.70872 4.33037 4.15576 3.92774 3.74924 2.58808 5.22395 4.00538 311 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 291 3.08955 4.41945 4.81429 4.24849 2.30996 4.35794 4.68404 1.85427 4.12160 1.52960 3.09294 4.41606 4.62125 4.25457 4.22954 3.69207 3.32125 1.48652 5.08982 3.91586 312 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 292 1.01579 4.23906 3.55688 3.32646 4.43806 1.96450 4.39568 3.80330 3.42000 3.54279 4.38710 3.43770 3.78579 3.69053 3.70705 2.49788 2.81635 3.25310 5.78072 4.59543 313 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 293 2.90714 4.60131 3.67047 3.13322 2.15400 3.80018 2.63286 3.14504 3.01256 2.74109 3.71539 3.46627 4.16592 3.33160 2.54482 3.06289 3.13344 2.93352 4.25200 1.85652 314 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 294 2.21346 4.37199 4.41796 3.88343 3.44868 4.12774 4.57180 1.38699 3.76244 1.77688 3.31585 4.13341 4.48409 4.02631 3.97887 3.46463 3.20470 1.89699 5.22991 4.04235 315 i - - -\n- 2.68623 4.42231 2.77525 2.73129 3.46359 2.40518 3.72500 3.29359 2.67719 2.69360 4.24695 2.90352 2.73745 3.18152 2.89806 2.37872 2.77525 2.98487 4.58482 3.61509\n- 0.26806 1.44759 * 0.47215 0.97727 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1031 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a3_I-A_3\n-LENG 336\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:19 2020\n-NSEQ 4\n-EFFN 0.972656\n-CKSUM 317639679\n-GA 98 98;\n-STATS LOCAL MSV -10.9196 0.70040\n-STATS LOCAL VITERBI -11.9675 0.70040\n-STATS LOCAL FORWARD -5.4393 0.70040\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60253 4.43320 2.91935 2.63531 3.31097 3.08765 3.82606 2.65767 2.68230 2.34227 3.63879 2.89091 3.65601 3.21969 2.87986 2.65793 2.90145 2.58038 4.70599 3.31643\n- 2.68597 4.42243 2.77538 2.73142 3.46372 2.40531 3.72513 3.29372 2.67759 2.69373 4.24522 2.90268 2.73758 3.18165 2.89819 2.37848 2.77495 2.98537 4.58495 3.61522\n- 0.37593 1.81771 1.89078 1.63026 0.21800 0.00000 *\n- 1 2.64791 4.55849 3.15292 2.74136 3.69652 3.43588 3.82536 3.07841 2.67853 2.75468 2.36063 1.93296 3.92019 3.08109 3.03415 2.78115 2.93118 2.84419 5.13944 3.81288 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.01998 4.74232 0.61958 0.77255 0.39576 1.11831\n- 2 2.57132 4.39216 3.46624 2.95424 3.68810 3.44905 3.94080 2.96708 2.88140 2.67533 2.51592 3.32938 2.18250 3.22576 3.23105 2.76403 2.18936 2.72642 5.13878 3.89861 9 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 3 2.82108 5.28285 1.73389 2.26691 4.60508 3.34712 3.73621 4.09446 2.59758 3.60414 4.40471 2.83121 2.45587 2.15399 3.11473 2.76224 3.08282 3.68205 5.76464 4.33179 10 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 4 2.98263 5.30189 2.84060 1.90692 4.68615 3.52305 3.72425 4.09604 1.26229 3.57581 4.41449 3.01939 3.98894 2.86104 2.56923 2.93842 3.20317 3.72963 5.66925 4.37072 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 5 2.78412 5.17555 2.70731 1.72310 4.51847 3.40903 3.68583 3.96904 1.90623 3.48144 4.27828 2.90229 3.87644 2.81586 2.83401 2.13978 3.02639 3.57685 5.63267 4.25768 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 6 1.68533 4.25157 3.69583 3.37248 4.24574 3.10852 4.36128 3.39205 3.34748 3.26443 4.17554 3.49142 3.84380 3.65984 3.62932 2.56037 1.20357 2.98600 5.65973 4.45833 13 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 7 2.56938 4.66946 3.12305 2.68623 4.32275 1.98250 3.85063 3.75535 2.58025 3.34666 4.16278 3.11553 3.85113'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 329 3.19152 4.54250 4.79588 4.23050 3.22640 4.43371 4.77996 2.14650 4.09282 1.35753 1.85906 4.45989 4.67940 4.24568 4.22980 3.77015 3.42255 1.65447 5.19649 4.09640 368 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 330 2.57609 4.67863 3.12344 2.68363 4.32526 1.98691 3.84516 3.75728 2.56686 3.34670 4.16308 3.11448 3.85384 3.01302 2.09782 2.00842 2.91174 3.34075 5.53969 4.24637 369 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02311 4.17486 4.89721 0.61958 0.77255 0.48576 0.95510\n- 331 2.63392 4.62921 3.17579 2.70256 3.99678 2.13027 3.81323 3.31209 2.03892 3.01871 3.88612 3.15006 3.90526 3.01543 2.95391 2.73971 2.91689 2.21649 5.31497 4.03723 370 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20212 4.17486 1.78600 0.61958 0.77255 0.48576 0.95510\n- 332 1.61258 4.33570 3.73251 3.30123 3.55497 3.49831 4.19651 2.54065 3.18834 1.75488 3.50687 3.57792 4.04995 3.54137 3.46896 2.89230 2.96892 2.37841 5.18955 3.94492 371 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00031 4.72266 0.61958 0.77255 0.66632 0.72071\n- 333 1.92128 4.40500 3.48404 3.07657 3.08162 3.49017 3.84176 2.95703 3.01045 2.65793 3.65892 3.39574 3.99995 3.34943 3.31127 2.86038 2.97089 2.73369 4.64696 1.81308 372 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00031 4.72266 0.61958 0.77255 0.66632 0.72071\n- 334 3.12363 4.72067 3.78388 3.37037 1.65633 3.90428 1.74842 3.24594 3.25558 2.70549 3.82471 3.60381 4.29911 3.54115 3.51525 3.25149 3.36764 3.08776 3.96746 2.28716 373 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00031 4.72266 0.61958 0.77255 0.66632 0.72071\n- 335 2.80944 4.79578 2.89482 1.93003 3.39023 3.48426 3.69953 3.37108 2.65437 2.98037 3.92011 3.07337 3.95297 3.02754 3.03703 2.86799 3.05726 3.11604 4.87573 1.90409 374 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00031 4.72266 0.61958 0.77255 0.66632 0.72071\n- 336 1.92128 4.40500 3.48404 3.07657 3.08162 3.49017 3.84176 2.95703 3.01045 2.65793 3.65892 3.39574 3.99995 3.34943 3.31127 2.86038 2.97089 2.73369 4.64696 1.81308 375 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01865 3.99138 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a3_I-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1241 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a3_I-A_4\n-LENG 406\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:19 2020\n-NSEQ 3\n-EFFN 0.659180\n-CKSUM 1210445840\n-GA 560 560;\n-STATS LOCAL MSV -11.3825 0.69917\n-STATS LOCAL VITERBI -12.5283 0.69917\n-STATS LOCAL FORWARD -6.0410 0.69917\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39293 4.10834 3.07799 2.76844 3.43648 2.76950 3.95707 2.76150 2.78568 2.34891 3.62717 3.15620 3.39161 3.24233 2.87179 2.54969 2.83120 2.58347 4.99594 3.46678\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23618 3.98443 1.65152 0.61958 0.77255 0.00000 *\n- 1 2.90180 4.46593 3.95398 3.54285 3.17389 3.76686 4.29893 2.34075 3.31495 1.78435 1.56200 3.83076 4.22898 3.70406 3.53039 3.24049 3.20640 2.33582 5.00137 3.75386 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03440 3.78265 4.50500 0.61958 0.77255 0.65687 0.73079\n- 2 1.15168 4.15183 3.37475 3.16485 3.96589 2.97812 4.19705 3.07838 3.17882 2.96370 4.00786 3.33612 3.70911 3.52898 3.43394 2.50412 2.77537 2.74862 5.40223 4.19298 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03440 3.78265 4.50500 0.61958 0.77255 0.39195 1.12621\n- 3 2.74296 4.63802 3.27677 2.78331 3.63738 3.56142 3.80321 3.00870 2.54420 2.49286 2.38406 3.22732 3.97845 1.97204 2.86267 2.87331 2.98658 2.85486 5.12414 3.84209 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 4 1.34594 4.15015 3.43747 3.15790 4.24198 2.94130 4.21746 3.58770 3.20252 3.33869 4.19155 3.30493 3.69015 3.49932 3.50436 1.62103 2.70503 3.08268 5.60816 4.38829 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 5 2.27021 4.20550 3.37602 3.06041 4.16516 3.00151 4.12962 3.50457 3.06669 3.25020 4.11343 3.27105 3.71694 3.39752 3.38253 1.67920 1.57812 3.04783 5.52982 4.29352 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 6 3.08258 4.40811 4.75808 4.26429 3.53890 4.40893 4.98303 1.24019 4.14781 2.03959 3.34870 4.48785 4.72868 4.41523 4.34882 3.79745 3.35077 1.27036 5.50577 4.30109 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 7 2.71536 4.55787 3.48993 2.93223 3.79027 3.53263 3.83741 2.94900 2.46555 2.72433 3.73004 3.31237 3.98'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 399 3.13459 4.96397 3.63695 3.12596 4.34703 3.59984 3.90984 3.89732 2.28873 3.39296 4.39110 3.47670 4.09776 3.12537 0.82024 3.21389 3.39343 3.61665 5.38519 4.25099 426 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 400 2.75442 2.06467 4.38790 3.88491 3.42699 3.82329 4.49062 1.56998 3.72349 2.19070 3.36331 4.02263 4.29944 3.99611 3.90508 3.21369 3.06571 1.89807 5.14549 3.92271 427 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 401 3.05418 4.45324 4.53188 4.03172 3.33583 4.24067 4.71792 1.94550 3.87306 1.43786 3.19797 4.28071 4.58313 4.14913 4.07433 3.61805 3.32223 1.31051 5.26949 4.06213 428 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 402 2.65114 4.65279 3.14038 2.77097 4.27703 1.56247 3.87070 3.73896 2.52460 3.33343 4.20006 3.17299 3.86690 3.07202 1.98256 2.74505 2.99409 3.34993 5.45541 4.22574 429 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23618 3.98443 1.65152 0.61958 0.77255 0.48576 0.95510\n- 403 2.73766 4.30786 3.99846 3.66146 3.48722 3.62789 4.47953 2.06439 3.52771 2.19195 3.46888 3.86489 4.19530 3.89521 3.74833 3.12788 3.10262 1.14698 5.25550 3.98029 430 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03440 3.78265 4.50500 0.61958 0.77255 0.65687 0.73079\n- 404 2.87972 4.96501 2.45812 1.16078 4.30077 3.21940 3.80198 3.73685 2.67146 3.36981 4.35064 2.88991 3.82057 3.02139 3.06875 2.87314 3.18424 3.43109 5.48962 4.21490 431 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03440 3.78265 4.50500 0.61958 0.77255 0.65687 0.73079\n- 405 1.15168 4.15183 3.37475 3.16485 3.96589 2.97812 4.19705 3.07838 3.17882 2.96370 4.00786 3.33612 3.70911 3.52898 3.43394 2.50412 2.77537 2.74862 5.40223 4.19298 432 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03440 3.78265 4.50500 0.61958 0.77255 0.65687 0.73079\n- 406 2.73766 4.30786 3.99846 3.66146 3.48722 3.62789 4.47953 2.06439 3.52771 2.19195 3.46888 3.86489 4.19530 3.89521 3.74833 3.12788 3.10262 1.14698 5.25550 3.98029 433 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02329 3.77154 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a4_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a4_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1688 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a4_I-A_1\n-LENG 555\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:19 2020\n-NSEQ 2\n-EFFN 0.394531\n-CKSUM 4250697990\n-GA 95 95;\n-STATS LOCAL MSV -11.8870 0.69757\n-STATS LOCAL VITERBI -12.9496 0.69757\n-STATS LOCAL FORWARD -6.4027 0.69757\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48580 4.50908 2.87697 2.68212 3.32812 2.75663 3.74671 2.87102 2.74597 2.38829 3.64305 3.15905 3.36145 3.16400 2.80698 2.71579 2.81973 2.61451 4.69251 3.46329\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 1.14050 4.15466 3.38133 3.17137 3.97240 2.98086 4.20281 3.08585 3.18551 2.97092 4.01400 3.34102 3.71247 3.53493 3.44037 2.50673 2.77844 2.75485 5.40802 4.19948 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.56812 4.34916 3.22461 3.11481 4.25372 0.86950 4.23808 3.83505 3.28449 3.49924 4.47611 3.38949 3.73762 3.61564 3.52760 2.73807 3.04301 3.37964 5.36871 4.35359 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 2.56812 4.34916 3.22461 3.11481 4.25372 0.86950 4.23808 3.83505 3.28449 3.49924 4.47611 3.38949 3.73762 3.61564 3.52760 2.73807 3.04301 3.37964 5.36871 4.35359 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.9252'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 548 2.64876 4.41739 3.24740 3.07631 4.07449 3.10971 4.15889 3.60053 3.12685 3.23568 4.28361 3.39026 0.99745 3.51829 3.37996 2.81419 3.08434 3.25520 5.28189 4.19480 548 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 549 2.37217 4.21627 3.35826 3.10915 3.89921 3.05757 4.13230 3.01640 3.05044 2.88271 3.94056 3.33034 3.75563 3.45006 3.31175 2.57276 1.32098 2.72031 5.34452 4.11652 549 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 550 1.14050 4.15466 3.38133 3.17137 3.97240 2.98086 4.20281 3.08585 3.18551 2.97092 4.01400 3.34102 3.71247 3.53493 3.44037 2.50673 2.77844 2.75485 5.40802 4.19948 550 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 551 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 551 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 552 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 552 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 553 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 553 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 554 2.81942 4.79824 2.85295 2.60896 3.95500 3.31358 3.76565 3.57528 2.43623 3.08569 4.11844 3.06699 3.86747 1.38964 2.72100 2.87188 3.11766 3.31092 5.24313 3.93206 554 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 555 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 555 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a5_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a5_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1307 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a5_I-A_1\n-LENG 428\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:20 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 157961709\n-GA 1000 1000;\n-STATS LOCAL MSV -11.0269 0.69887\n-STATS LOCAL VITERBI -12.7556 0.69887\n-STATS LOCAL FORWARD -5.8033 0.69887\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42781 4.03543 2.94845 2.83286 3.35517 2.79191 3.89203 2.77143 2.84399 2.39518 3.72642 3.12964 3.33996 3.26161 2.81888 2.60648 2.84287 2.55483 4.53616 3.42433\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 421 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 421 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 422 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 422 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 423 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 423 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 424 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 424 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 425 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 425 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 426 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 426 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 427 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 427 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 428 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 428 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a6_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a6_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1148 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a6_I-A_1\n-LENG 375\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:20 2020\n-NSEQ 2\n-EFFN 0.378906\n-CKSUM 3593483482\n-GA 45 45;\n-STATS LOCAL MSV -10.9875 0.69964\n-STATS LOCAL VITERBI -12.2641 0.69964\n-STATS LOCAL FORWARD -5.6656 0.69964\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46119 4.12854 3.00462 2.85948 3.31245 2.56131 3.95314 2.77671 2.89838 2.23113 3.61985 3.24928 3.27754 3.30032 2.92076 2.68964 2.95662 2.58020 4.47351 3.41192\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.63387 4.40391 3.23126 3.05887 4.05692 3.09698 4.14202 3.58020 3.10839 3.21656 4.26443 3.37378 1.02669 3.50027 3.36243 2.79906 3.06862 3.23630 5.26731 4.17728 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.3113'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 368 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 368 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 369 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 369 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 370 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 370 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 371 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 371 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 372 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 372 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 373 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 373 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 374 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 374 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 375 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 375 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a7_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a7_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,992 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a7_I-A_1\n-LENG 323\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:20 2020\n-NSEQ 4\n-EFFN 0.550781\n-CKSUM 1101978562\n-GA 179 179;\n-STATS LOCAL MSV -11.1788 0.70071\n-STATS LOCAL VITERBI -12.0146 0.70071\n-STATS LOCAL FORWARD -5.6288 0.70071\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60933 4.37967 2.94355 2.60837 3.23017 3.03685 3.88391 2.70617 2.64610 2.34226 3.63446 3.00208 3.47534 3.19702 2.92460 2.64105 2.92561 2.58125 4.57966 3.40647\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20521 3.90913 1.79897 0.61958 0.77255 0.00000 *\n- 1 2.87094 4.44323 3.90829 3.49629 3.16061 3.73397 4.26245 2.32349 3.26972 1.78022 1.65958 3.78876 4.19807 3.66317 3.48974 3.20402 3.17587 2.31282 4.98084 3.72794 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03593 3.73985 4.46219 0.61958 0.77255 0.40844 1.09270\n- 2 2.92548 4.39540 4.29305 3.77154 3.25141 4.03352 4.48775 2.07601 3.61651 1.78907 1.96495 4.04215 4.40011 3.89634 3.83609 3.38685 3.19359 1.61794 5.12667 3.94892 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 3 2.95702 4.40257 4.33266 3.84819 1.81787 4.02020 4.21716 2.21712 3.73355 1.87412 3.17462 4.02769 4.39511 3.93400 3.91592 3.38222 3.22561 1.69464 4.64013 3.18271 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 4 3.00532 4.97091 3.18378 2.79817 4.36571 3.49103 3.77912 3.79723 0.98924 3.35423 4.31356 3.22108 3.98865 2.96840 2.43812 3.04481 3.25578 3.50289 5.40519 4.22316 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 5 3.05960 4.46794 4.38798 4.00503 3.39875 4.10626 4.72624 1.03366 3.83389 1.97713 3.32823 4.24522 4.53381 4.17830 4.02625 3.60496 3.35805 1.84690 5.29727 4.03883 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 6 2.78685 5.01310 2.68612 2.40263 4.37284 3.34378 3.66156 3.83568 1.80749 3.38134 4.23315 1.88415 3.85204 2.82212 2.62433 2.77802 3.04536 3.47638 5.49988 4.17141 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 7 3.19621 4.64751 4.24837 3.88821 3.14945 4.02878 4.53244 2.35530 3.65561 0.83137 3.16063 4.16015 4.457'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 316 2.72737 4.55186 3.33626 2.84897 3.51482 3.56951 3.82913 2.87100 2.60739 2.34817 2.16710 3.27410 3.98646 2.30926 2.91219 2.89101 2.97407 2.74076 5.04929 3.77851 335 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 317 2.83645 5.15317 2.57656 1.64102 4.48834 3.35057 3.64465 3.90603 1.81742 3.43402 4.28173 2.85335 3.85177 2.79394 2.65378 2.79496 3.07640 3.54874 5.57407 4.23791 336 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 318 2.75891 4.99342 2.42558 1.50448 4.45719 2.13614 3.77302 3.91333 2.66754 3.49815 4.35864 2.82815 3.81016 2.95513 3.13090 2.74630 3.07026 3.52413 5.65418 4.29818 337 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 319 2.39993 4.19892 3.53302 3.18322 3.78195 2.12181 4.14457 2.78624 3.15410 2.77487 3.76754 3.40799 3.84237 3.48144 3.44156 2.63125 2.80856 1.59503 5.27175 4.03362 338 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 320 3.29983 4.77398 3.89221 3.62832 2.29414 3.87272 3.63539 3.30390 3.48477 2.74842 3.97509 3.76843 4.34564 3.78203 3.66104 3.43294 3.58664 3.17616 3.93936 0.90696 339 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 321 2.33284 4.25382 3.23805 3.05532 4.11269 2.98301 4.16426 3.64016 3.13155 3.35749 4.28039 3.27438 3.72479 3.47797 3.41660 1.03712 2.81567 3.16725 5.48221 4.19635 340 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 322 1.61388 4.13066 3.34413 3.07298 4.19432 2.91262 4.15322 3.53862 3.12498 3.29070 4.14909 3.24515 3.65567 3.43008 3.43235 1.47352 2.67641 3.04350 5.55963 4.33015 341 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20521 3.90913 1.79897 0.61958 0.77255 0.48576 0.95510\n- 323 2.35067 4.19350 3.31842 3.07071 3.85915 3.03542 4.09705 2.97060 3.01095 2.83838 3.90233 3.29809 3.73067 3.41403 3.27285 2.55104 1.41958 2.68009 5.30929 4.07739 342 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 3.72824 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a8_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a8_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1511 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a8_I-A_1\n-LENG 496\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:20 2020\n-NSEQ 3\n-EFFN 0.600586\n-CKSUM 3153277119\n-GA 500 500;\n-STATS LOCAL MSV -11.8762 0.69808\n-STATS LOCAL VITERBI -12.5020 0.69808\n-STATS LOCAL FORWARD -6.0109 0.69808\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43420 4.47090 3.00454 2.65619 3.17972 2.81425 3.78818 2.87072 2.72824 2.37479 3.68122 3.19168 3.41861 3.07742 2.79993 2.73147 2.87237 2.64248 4.55186 3.42524\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.00000 *\n- 1 3.02649 4.56411 4.12690 3.72604 3.24029 3.88786 4.44454 2.42312 3.49010 1.82439 1.24658 3.99457 4.34910 3.86739 3.68692 3.38299 3.33333 2.43751 5.09056 3.85852 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 2 2.35704 4.29459 3.24422 2.93637 4.10959 3.07023 4.04770 3.41791 2.94033 3.15075 4.05805 3.22375 1.73002 3.30206 3.26697 2.51915 2.01349 3.02170 5.46938 4.22787 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 3 3.23626 4.67729 4.30490 3.94525 3.16375 4.07333 4.57841 2.37192 3.71229 0.79146 3.16454 4.21374 4.49643 4.06340 3.87652 3.65282 3.52730 2.42790 5.06897 3.80885 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 4 2.72347 4.82075 2.93822 2.57066 4.26471 3.35714 3.72847 3.67693 1.76926 3.26168 4.13153 3.03638 2.01462 2.90208 2.66712 2.76828 3.00437 3.33353 5.42931 4.15707 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 5 2.99086 4.43153 4.36903 3.89066 1.66975 4.04513 4.20367 2.26230 3.77296 1.88315 3.19004 4.05364 4.41942 3.96329 3.94609 3.41026 3.25979 1.77058 4.59867 3.11927 5 f - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40488 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.21866 1.67663 4.66678 0.28989 1.37969 0.48576 0.95510\n- 6 2.69587 4.71935 3.16066 2.70977 4.18132 3.36697 3.76090 3.62289 2.35194 3.20092 4.08404 3.13387 1.95048 2.94744 1.87988 2.77197 2.98920 3.28423 5.36233 4.11695 7 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 7 3.17337 4.51382 4.69361 4.17545 3.22272 4.43170 4.80818 1.36244 4.00486 1.33728 3.06207 4.43697 4.68'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 489 2.71930 4.97453 2.46622 1.50557 4.39929 3.23328 3.74193 3.84352 2.60309 3.43786 4.28903 2.82774 3.80939 2.91506 3.05898 2.09427 3.02307 3.46091 5.62699 4.24204 516 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 490 1.97027 4.84224 2.58856 1.61948 4.28800 3.25085 3.76893 3.60379 2.62233 3.28883 4.16786 2.89333 3.81720 2.94891 3.06119 2.70229 2.98314 3.26176 5.55553 4.20676 517 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 491 1.63555 4.15339 3.50156 3.17210 4.07282 3.01539 4.18457 3.18471 3.14805 3.07382 4.00037 3.33776 3.73188 3.47395 3.44188 2.46125 1.60343 2.80882 5.49392 4.28089 518 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 492 2.64084 4.71512 2.92733 2.56778 4.11628 3.31983 3.74493 3.49843 2.43990 3.11421 4.01844 3.02751 3.84254 1.79458 2.78045 2.70747 2.24681 3.17948 5.38633 4.08203 519 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 493 2.25329 4.21863 3.15536 2.96661 4.34000 1.47809 4.15869 3.81327 3.13933 3.48478 4.31666 3.19928 3.67637 3.42461 3.46817 1.76522 2.74110 3.24504 5.65920 4.41820 520 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 494 3.01483 5.14000 2.51898 0.92729 4.49534 3.32091 3.91415 3.96354 2.80376 3.56918 4.54020 2.97474 3.92895 3.12841 3.21994 2.99002 3.31966 3.64002 5.65337 4.37583 521 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 495 3.01483 5.14000 2.51898 0.92729 4.49534 3.32091 3.91415 3.96354 2.80376 3.56918 4.54020 2.97474 3.92895 3.12841 3.21994 2.99002 3.31966 3.64002 5.65337 4.37583 522 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 496 1.79145 4.49716 2.85133 2.62536 4.21640 3.10944 3.91104 3.60628 2.79460 3.30915 4.17474 1.77361 3.75882 3.12765 3.18369 2.56650 2.85813 3.19090 5.53176 4.21398 523 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01974 3.93498 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a9_I-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8a9_I-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1235 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8a9_I-A_1\n-LENG 404\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:20 2020\n-NSEQ 3\n-EFFN 0.571289\n-CKSUM 2500161207\n-GA 500 500;\n-STATS LOCAL MSV -11.3491 0.69919\n-STATS LOCAL VITERBI -12.2952 0.69919\n-STATS LOCAL FORWARD -5.9581 0.69919\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55065 4.36627 2.98190 2.78023 3.22993 2.87876 3.74951 2.68390 2.71932 2.35282 3.72691 2.87015 3.50856 3.23287 2.97481 2.66980 2.88859 2.59036 4.46981 3.34165\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21679 3.92382 1.74221 0.61958 0.77255 0.00000 *\n- 1 2.87308 4.44478 3.91152 3.49954 3.16148 3.73632 4.26500 2.32463 3.27290 1.78040 1.65248 3.79171 4.20024 3.66601 3.49260 3.20658 3.17798 2.31438 4.98225 3.72975 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03582 3.74285 4.46520 0.61958 0.77255 0.63342 0.75666\n- 2 2.25995 4.17576 3.10147 2.91622 3.94843 2.90838 4.02723 3.45569 2.98072 3.18810 4.12910 3.15892 3.63751 3.34173 3.26739 1.30550 2.73123 3.01987 5.33270 4.03235 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03582 3.74285 4.46520 0.61958 0.77255 0.63342 0.75666\n- 3 2.35191 4.19483 3.32080 3.07296 3.86156 3.03674 4.09911 2.97335 3.01326 2.84104 3.90458 3.29997 3.73214 3.41611 3.27515 2.55229 1.41338 2.68248 5.31139 4.07972 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03582 3.74285 4.46520 0.61958 0.77255 0.63342 0.75666\n- 4 3.13552 4.55393 3.90241 3.57988 2.55564 3.59245 3.75750 3.15772 3.30624 2.57300 3.79722 3.75616 4.10080 3.70131 3.45608 3.34010 3.43052 3.04457 1.19399 2.56542 4 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03582 3.74285 4.46520 0.61958 0.77255 0.63342 0.75666\n- 5 2.84919 4.91917 2.44938 1.22659 4.25065 3.19622 3.77884 3.67873 2.64345 3.31952 4.30485 2.87475 3.79630 3.00092 3.03438 2.84861 3.15438 3.37817 5.44748 4.17559 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03582 3.74285 4.46520 0.61958 0.77255 0.63342 0.75666\n- 6 3.06891 4.61053 3.64992 3.35963 2.31788 3.68133 3.57312 3.09691 3.22080 2.58333 3.78724 3.57008 4.16072 3.55836 3.42929 3.21705 3.35642 2.96206 3.95503 1.21281 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03582 3.74285 4.46520 0.61958 0.77255 0.63342 0.75666\n- 7 2.35191 4.19483 3.32080 3.07296 3.86156 3.03674 4.09911 2.97335 3.01326 2.84104 3.90458 3.29997 3.73'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 397 2.68488 4.49166 3.25381 2.91256 3.10081 2.15787 3.77360 3.21562 2.91339 2.85519 3.81662 3.27865 3.94563 3.25768 3.23775 2.83384 2.99745 2.95398 4.63686 1.80293 433 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 398 2.69181 4.96924 1.58903 2.24261 4.46441 3.16062 3.77507 3.95831 2.74411 3.54664 4.39327 2.78118 3.77933 2.95532 3.26691 1.93864 3.02534 3.53479 5.71547 4.29260 434 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 399 3.01047 4.42912 4.44052 3.94384 3.31408 4.17235 4.65048 1.94109 3.78257 1.47612 3.18672 4.20230 4.52801 4.07311 3.99434 3.54939 3.28187 1.34982 5.23399 4.01541 435 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 400 2.75752 4.90712 2.92214 2.53184 4.26513 3.38603 3.66291 3.75769 2.22929 3.30295 4.15853 1.91719 3.86937 2.82792 1.92022 2.77907 3.01616 3.40664 5.40363 4.09890 436 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 401 3.01891 4.98488 3.19833 2.81010 4.38304 3.50294 3.78757 3.81550 0.97019 3.36935 4.32798 3.23233 3.99960 2.97609 2.44136 3.05749 3.26833 3.52036 5.41656 4.23668 437 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 402 3.07106 4.47546 4.40861 4.02630 3.40880 4.12191 4.74486 1.01654 3.85543 1.98429 3.33612 4.26443 4.54814 4.19840 4.04612 3.62212 3.36929 1.84787 5.31028 4.05304 438 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 403 3.06331 4.89908 3.55919 3.05944 4.26666 3.54161 3.86144 3.81183 2.25807 3.31842 4.31715 3.41531 4.04160 3.07913 0.90279 3.14494 3.32571 3.53353 5.32884 4.18276 439 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 3.92382 4.64616 0.61958 0.77255 0.48576 0.95510\n- 404 2.64488 0.84201 4.17606 3.92731 3.90674 3.25710 4.56309 3.05903 3.75448 2.97227 4.09519 3.90059 3.96812 4.09846 3.86981 2.91665 3.11594 2.80018 5.31219 4.19410 440 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02016 3.91417 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b10_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b10_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1877 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b10_I-B_1\n-LENG 618\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:24 2020\n-NSEQ 4\n-EFFN 0.621094\n-CKSUM 1201286309\n-GA 304 304;\n-STATS LOCAL MSV -12.0984 0.69709\n-STATS LOCAL VITERBI -13.0149 0.69709\n-STATS LOCAL FORWARD -6.1405 0.69709\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66547 4.58499 2.89577 2.62924 3.10458 3.07059 3.76963 2.69845 2.59083 2.32291 3.67328 2.99813 3.53956 3.14353 2.92175 2.74379 2.97964 2.62619 4.34139 3.31018\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40514 3.72496 3.29356 2.67742 2.69357 4.24561 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58479 3.61505\n- 0.16984 1.91777 4.68096 0.32931 1.27091 0.00000 *\n- 1 3.08979 4.49268 4.51334 3.97415 3.16803 4.26476 4.62451 1.72027 3.80591 1.62595 1.73158 4.24838 4.54988 4.04347 3.99238 3.61214 3.33294 2.08247 5.13191 3.98747 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 2 2.65920 4.70884 2.81954 2.11093 3.78610 2.68339 3.68755 3.34185 2.56555 2.98037 3.84868 2.97322 3.84733 2.91200 2.98521 2.72189 2.91126 3.05361 5.15599 2.41507 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 3 2.75250 4.91963 2.50884 1.81639 4.45080 1.59367 3.84062 3.90421 2.74142 3.50543 4.37318 2.89873 3.83562 3.03466 3.18711 2.76499 3.08421 3.51026 5.65944 4.32999 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15305 3.95861 2.09700 0.61958 0.77255 0.48576 0.95510\n- 4 2.60585 4.30951 3.52559 3.15731 1.77485 2.34779 3.86481 2.90085 3.14641 2.55694 3.60354 3.42904 3.94257 3.43393 3.42575 2.82538 2.94229 2.68921 4.58465 3.09749 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83808 4.56043 0.61958 0.77255 0.59284 0.80465\n- 5 2.81565 4.97623 2.90462 2.04910 4.32028 3.42246 3.60774 3.72338 2.11719 3.25879 4.12727 2.97846 3.87164 2.76250 1.70845 2.81935 3.03949 3.40067 5.39230 4.12841 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83808 4.56043 0.61958 0.77255 0.59284 0.80465\n- 6 2.72068 4.58907 3.40853 2.82283 3.68241 3.53578 3.72331 3.01723 2.32506 2.58105 2.68991 3.22723 3.94316 2.94831 1.86451 2.85714 2.95734 2.83191 5.08243 3.82659 7 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03252 3.83808 4.56043 0.61958 0.77255 0.59284 0.80465\n- 7 2.61989 4.80752 1.76064 2.29754 4.27533 3.16495 3.74833 3.62071 2.67838 3.31167 4.18857 2.81869 3.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 611 2.29178 4.21097 3.16405 2.97847 4.02635 2.94186 4.08924 3.54257 3.04877 3.26710 4.19814 3.21073 3.67670 3.40229 3.33569 1.17007 2.76830 3.08880 5.40313 4.10985 650 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 612 2.56258 4.55117 3.04355 2.68513 4.14215 1.85460 3.78842 3.60059 2.46128 3.20917 4.08352 3.08761 3.78120 2.99717 2.05855 2.66101 2.90505 3.22454 5.34489 4.10976 651 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 613 2.70105 4.51740 3.31679 2.83489 3.47293 3.54285 3.81016 2.82488 2.59354 2.30699 2.27938 3.25643 3.96318 2.41600 2.89582 2.86908 2.95016 2.69730 5.01567 3.74187 652 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 614 2.91063 5.00855 2.46939 1.09971 4.34873 3.24274 3.82649 3.79261 2.70076 3.41838 4.39572 2.90719 3.84524 3.04391 3.10353 2.89887 3.21484 3.48210 5.52996 4.25336 653 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 615 2.29178 4.21097 3.16405 2.97847 4.02635 2.94186 4.08924 3.54257 3.04877 3.26710 4.19814 3.21073 3.67670 3.40229 3.33569 1.17007 2.76830 3.08880 5.40313 4.10985 654 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 616 2.30855 4.15898 3.43303 3.06497 3.76669 3.09307 4.04509 2.89926 3.01269 2.80366 3.77662 3.29566 3.75262 3.35757 3.31341 1.72890 2.72641 2.01329 5.24332 3.97170 655 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 617 2.91063 5.00855 2.46939 1.09971 4.34873 3.24274 3.82649 3.79261 2.70076 3.41838 4.39572 2.90719 3.84524 3.04391 3.10353 2.89887 3.21484 3.48210 5.52996 4.25336 656 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 3.82183 4.54417 0.61958 0.77255 0.60554 0.78918\n- 618 2.93681 5.05450 0.99351 2.30677 4.42515 3.17373 3.88898 4.00215 2.96394 3.61999 4.59795 2.86017 3.82307 3.12876 3.47246 2.90560 3.27466 3.64708 5.60353 4.30768 657 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02237 3.81114 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b11_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b11_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1496 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b11_I-B_1\n-LENG 491\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:25 2020\n-NSEQ 7\n-EFFN 0.974121\n-CKSUM 3955009164\n-GA 650 650;\n-STATS LOCAL MSV -11.9874 0.69812\n-STATS LOCAL VITERBI -12.7901 0.69812\n-STATS LOCAL FORWARD -5.6530 0.69812\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74312 4.20711 2.96429 2.61991 3.09448 3.08865 3.78320 2.70708 2.53602 2.34357 3.58139 2.89568 3.79811 3.04239 2.96771 2.71435 2.94839 2.64994 4.99159 3.21760\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24608 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98497 4.58479 3.61505\n- 0.31675 1.83580 2.18926 0.29111 1.37608 0.00000 *\n- 1 2.73667 4.34745 3.78625 3.20808 3.30940 3.74666 4.00422 2.23192 2.96901 2.09272 2.02279 3.55903 4.10996 3.36448 2.72461 3.03390 2.97088 2.40136 4.92574 3.72103 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98674 4.70908 0.61958 0.77255 0.59795 0.79837\n- 2 2.70235 5.15372 2.23485 1.91990 4.47551 3.33892 3.60055 3.94059 2.11886 3.43700 4.21841 2.81011 3.79497 2.72236 2.37249 2.65602 2.93934 3.53529 5.58162 4.18680 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98674 4.70908 0.61958 0.77255 0.59795 0.79837\n- 3 2.62829 4.37310 3.41985 2.44768 3.56833 3.58556 3.88799 2.08895 2.83870 2.51900 3.48687 3.31506 3.98526 3.17555 3.20231 2.85500 2.41485 2.17898 5.05125 3.80519 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02796 3.98674 4.70908 0.61958 0.77255 0.42150 1.06729\n- 4 2.65843 4.16562 3.99255 3.41900 2.60311 3.74165 4.03911 2.15006 3.31466 2.14518 2.38768 3.67754 4.10877 3.55434 3.53616 2.36850 2.89478 2.30225 4.75357 3.53647 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02502 4.09647 4.81881 0.61958 0.77255 0.48576 0.95510\n- 5 3.19124 5.15074 3.38124 2.96815 4.58889 3.64966 3.90402 4.03388 0.76774 3.55288 4.50785 3.38054 4.13878 3.08681 2.50116 3.22186 3.43056 3.73108 5.55546 4.40338 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13573 4.09647 2.20465 0.61958 0.77255 0.48576 0.95510\n- 6 2.26469 4.31904 4.10122 3.58380 3.41068 3.84820 4.36190 2.13862 3.46844 1.55660 3.29255 3.85899 4.27277 3.76208 3.72251 3.19203 3.06933 1.71832 5.14741 3.95007 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02791 3.98864 4.71099 0.61958 0.77255 0.59620 0.80051\n- 7 2.81355 4.99151 3.13323 2.59307 4.39965 2.62193 3.62160 3.78904 1.81100 3.30321 4.13907 3.05464 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10716 4.82950 0.61958 0.77255 0.56447 0.84086\n- 484 2.65932 4.78669 3.02643 1.92753 4.01686 3.46616 3.67064 3.35070 2.14365 2.57350 3.86220 3.01350 3.86649 2.83493 2.83032 2.70934 2.88930 2.66193 5.29614 3.98464 509 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10716 4.82950 0.61958 0.77255 0.56447 0.84086\n- 485 3.13218 4.54817 4.54668 4.08903 1.30258 4.17078 4.22824 2.39616 3.96082 1.95361 3.27864 4.19183 4.54206 4.11564 4.09986 3.54813 3.40285 1.91838 4.54751 3.01849 510 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13418 4.10716 2.21535 0.61958 0.77255 0.56447 0.84086\n- 486 3.21302 4.53817 4.78040 4.26174 3.25166 4.49361 4.87835 1.29876 4.09390 1.33738 3.08241 4.51356 4.73956 4.31505 4.25671 3.86955 3.45669 1.89661 5.28132 4.11318 511 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00054 4.72289 0.61958 0.77255 0.66696 0.72004\n- 487 2.71630 5.02617 2.66231 1.87586 4.33927 3.35182 3.64876 3.76491 2.39685 3.32111 4.14179 2.86492 3.82507 2.15132 2.82473 2.70036 2.41359 3.40571 5.51515 4.15459 512 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00054 4.72289 0.61958 0.77255 0.66696 0.72004\n- 488 2.77066 4.91735 2.54889 1.89920 4.47823 1.43672 3.88491 3.93416 2.79064 3.53886 4.40993 2.93922 3.86081 3.08381 3.23056 2.79049 3.11117 3.53533 5.68645 4.36700 513 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00054 4.72289 0.61958 0.77255 0.66696 0.72004\n- 489 3.26618 4.60997 4.75610 4.23249 3.14624 4.49625 4.83328 1.72645 4.05059 0.98579 2.97704 4.50076 4.72640 4.25427 4.20584 3.87003 3.50447 2.08377 5.20548 4.05679 514 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00054 4.72289 0.61958 0.77255 0.66696 0.72004\n- 490 3.16873 4.53604 4.66647 4.10335 2.05472 4.34365 4.50654 2.28077 3.97222 1.28620 2.04706 4.32247 4.57257 4.08435 4.09819 3.66919 3.38872 2.39226 4.85325 3.60556 515 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00054 4.72289 0.61958 0.77255 0.66696 0.72004\n- 491 2.54000 4.54567 3.04485 2.61021 3.95686 2.28094 3.73784 3.28732 2.10730 2.98177 3.85094 3.05223 3.80724 2.93919 2.86133 2.64234 2.83749 2.52199 5.26545 3.98457 516 k - - -\n- 2.68647 4.42254 2.77521 2.73053 3.46383 2.40503 3.72524 3.29383 2.67710 2.69384 4.24719 2.90344 2.73769 3.18118 2.89830 2.37903 2.77465 2.98524 4.58506 3.61468\n- 0.26707 1.45081 * 1.97129 0.14998 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b12_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b12_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2003 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b12_I-B_1\n-LENG 660\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:25 2020\n-NSEQ 4\n-EFFN 0.605469\n-CKSUM 739031224\n-GA 117 117;\n-STATS LOCAL MSV -12.1660 0.69686\n-STATS LOCAL VITERBI -13.2068 0.69686\n-STATS LOCAL FORWARD -6.4923 0.69686\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64545 4.23640 2.88805 2.66749 3.17820 2.99549 3.81938 2.74680 2.61213 2.32144 3.61966 2.97322 3.52040 3.15435 3.01902 2.69303 2.93421 2.66987 4.45915 3.23184\n- 2.68633 4.42240 2.77504 2.73138 3.46308 2.40528 3.72510 3.29369 2.67756 2.69342 4.24439 2.90327 2.73755 3.18161 2.89816 2.37902 2.77504 2.98533 4.58306 3.61518\n- 0.17530 1.88765 4.67017 1.65680 0.21165 0.00000 *\n- 1 2.73774 4.54998 3.40260 2.87707 3.63553 3.57968 3.81049 2.89969 2.04968 2.51662 2.03519 3.28637 3.99160 3.06020 2.77973 2.90493 2.97780 2.72623 5.08773 3.84217 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 2 2.79839 5.10526 2.77888 2.39810 4.44923 3.41178 3.60808 3.88192 1.84316 3.38258 4.20570 2.39111 3.86037 2.06079 2.52153 2.77093 3.02255 3.51828 5.50522 4.18763 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 3 3.08986 4.48802 4.44202 4.06088 3.42545 4.14725 4.77524 0.98925 3.89045 1.99641 3.34941 4.29567 4.57148 4.23115 4.07843 3.65005 3.38779 1.85007 5.33167 4.07628 11 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 4 3.00422 4.36213 4.60195 4.05479 2.34987 4.24365 4.56230 1.54512 3.94204 1.79145 3.09600 4.26111 4.53206 4.11939 4.10091 3.57958 3.24447 1.65333 5.01872 3.77651 12 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 5 2.73747 5.06982 2.58710 1.75478 4.40342 3.32583 3.64104 3.83987 2.05312 3.38014 4.19919 2.83439 3.81694 2.78570 2.79474 2.27045 2.98679 3.46869 5.55136 4.18694 13 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 6 2.65689 4.55387 3.19270 2.69974 3.28594 3.49522 2.49423 3.13826 2.60251 2.77681 3.68187 3.14074 3.90908 2.99361 2.96567 2.77395 2.34646 2.88537 4.76498 2.68184 14 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 7 3.35682 4.81526 3.94980 3.69352 2.29796 3.91816 3.65517 3.35560 3.54888 2.79004 4.02286 3.81683 4.39'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 653 2.78724 4.24805 4.14077 3.58890 3.10431 3.90677 4.15684 1.73264 3.46330 2.05987 3.20581 3.83819 4.25586 3.71677 3.67939 3.21285 3.02712 1.80798 4.77665 2.55810 685 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 654 2.73530 4.97239 2.84667 2.43525 4.32617 3.39684 3.62274 3.74932 1.95061 3.28719 4.11527 2.93712 3.84709 2.01426 2.57255 2.29588 2.97255 3.39718 5.44438 4.13368 686 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 655 2.24748 4.19057 3.32691 3.03593 4.18763 2.96751 4.12336 3.53964 3.05762 3.28030 4.14306 3.24487 3.69251 3.38923 3.37185 1.33246 2.09458 3.06480 5.54703 4.30588 687 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 656 2.83959 5.18224 2.34018 1.86233 4.50845 3.24990 3.73740 4.00323 2.60746 3.56216 4.42263 1.57577 3.83610 2.91135 3.07030 2.78815 3.12741 3.62075 5.70801 4.29300 688 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02909 3.94783 4.67017 0.61958 0.77255 0.48576 0.95510\n- 657 2.84081 5.20397 2.32899 1.77769 4.52603 3.24938 3.73066 4.01989 2.60422 3.57211 4.42828 1.64801 3.83310 2.90151 3.07453 2.78428 3.12571 3.63435 5.71972 4.29981 689 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14149 3.94783 2.18358 0.61958 0.77255 0.48576 0.95510\n- 658 3.00498 4.43373 4.28688 3.90182 3.35207 4.02939 4.63654 1.12058 3.72927 1.94558 3.29327 4.15191 4.46429 4.08133 3.92972 3.52186 3.30494 1.84644 5.23557 3.97062 690 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03249 3.83883 4.56118 0.61958 0.77255 0.58260 0.81745\n- 659 2.78832 5.18441 1.72946 2.11466 4.50717 3.15537 3.70907 4.05173 2.69299 3.60445 4.46133 1.82992 3.76880 2.88723 3.23839 2.72274 3.09217 3.64345 5.73773 4.27579 691 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03249 3.83883 4.56118 0.61958 0.77255 0.58260 0.81745\n- 660 2.92436 5.02711 2.47503 1.07421 4.36927 3.25308 3.83766 3.81651 2.71402 3.43930 4.41537 2.91538 3.85624 3.05438 3.11895 2.91053 3.22852 3.50404 5.54723 4.27007 692 e - - -\n- 2.68643 4.42250 2.77483 2.73031 3.46318 2.40537 3.72519 3.29327 2.67765 2.69323 4.24714 2.90371 2.73735 3.18171 2.89825 2.37911 2.77514 2.98505 4.58501 3.61528\n- 0.18711 1.76815 * 2.07915 0.13357 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b13_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b13_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2087 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b13_I-B_1\n-LENG 688\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:25 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 2460917795\n-GA 1000 1000;\n-STATS LOCAL MSV -12.0957 0.69672\n-STATS LOCAL VITERBI -13.1602 0.69672\n-STATS LOCAL FORWARD -6.3919 0.69672\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49190 4.29782 2.94628 2.63412 3.24150 2.77808 3.81687 2.87208 2.69460 2.38635 3.77605 3.17532 3.25127 3.23677 2.83549 2.64662 2.92996 2.63473 4.64127 3.41474\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.89761 5.00462 1.05533 2.28844 4.37075 3.14652 3.85898 3.93947 2.92732 3.56508 4.54379 2.83917 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 681 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 681 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 682 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 682 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 683 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 683 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 684 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.91983 4.31695 3.91799 3.86633 3.42132 3.45025 2.66908 4.12393 2.50391 684 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 685 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 685 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 686 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 686 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 687 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 687 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 688 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 688 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1430 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_1\n-LENG 469\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:21 2020\n-NSEQ 2\n-EFFN 0.394531\n-CKSUM 3499018514\n-GA 800 800;\n-STATS LOCAL MSV -11.5013 0.69830\n-STATS LOCAL VITERBI -12.4440 0.69830\n-STATS LOCAL FORWARD -6.1104 0.69830\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48826 4.17539 2.87619 2.77398 3.15528 2.87972 3.82908 2.79103 2.65922 2.36069 3.73160 3.05978 3.31960 3.13386 2.89195 2.70667 2.93981 2.64131 4.93448 3.42778\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 2.64876 4.41739 3.24740 3.07631 4.07449 3.10971 4.15889 3.60053 3.12685 3.23568 4.28361 3.39026 0.99745 3.51829 3.37996 2.81419 3.08434 3.25520 5.28189 4.19480 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 2.37217 4.21627 3.35826 3.10915 3.89921 3.05757 4.13230 3.01640 3.05044 2.88271 3.94056 3.33034 3.75563 3.45006 3.31175 2.57276 1.32098 2.72031 5.34452 4.11652 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 462 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 462 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 463 2.37217 4.21627 3.35826 3.10915 3.89921 3.05757 4.13230 3.01640 3.05044 2.88271 3.94056 3.33034 3.75563 3.45006 3.31175 2.57276 1.32098 2.72031 5.34452 4.11652 463 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 464 3.13146 4.65406 3.71740 3.43325 2.30367 3.73473 3.58651 3.15261 3.29315 2.62748 3.83698 3.62422 4.21158 3.61918 3.49304 3.27572 3.41836 3.01955 3.94353 1.11591 464 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 465 3.13146 4.65406 3.71740 3.43325 2.30367 3.73473 3.58651 3.15261 3.29315 2.62748 3.83698 3.62422 4.21158 3.61918 3.49304 3.27572 3.41836 3.01955 3.94353 1.11591 465 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 466 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 466 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 467 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 467 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 468 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 468 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 469 2.90401 5.01295 1.04487 2.29127 4.37980 3.15095 3.86380 3.94988 2.93321 3.57417 4.55270 2.84246 3.79820 3.10451 3.43620 2.87744 3.24166 3.59874 5.56440 4.26936 469 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,455 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_10\n-LENG 144\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:23 2020\n-NSEQ 12\n-EFFN 0.788086\n-CKSUM 296961300\n-GA 180 180;\n-STATS LOCAL MSV -9.8200 0.71011\n-STATS LOCAL VITERBI -10.8179 0.71011\n-STATS LOCAL FORWARD -4.5768 0.71011\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53424 4.64831 2.88802 2.65012 3.02363 2.72187 3.84930 2.86191 2.63655 2.32564 3.56589 3.07522 3.57717 3.00847 2.99507 2.75571 3.00199 2.69269 4.90143 3.42901\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.00000 *\n- 1 2.44406 4.38297 3.62434 3.09261 3.50510 3.58597 3.95479 2.75475 2.82559 2.39035 1.73990 3.44208 4.02710 3.27551 2.76976 2.90962 2.94092 2.58634 5.02671 3.80597 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 2 2.68929 4.94581 2.97925 2.45023 4.21689 3.44865 3.20205 3.65635 1.82059 3.20978 3.45168 2.25328 3.84761 2.75092 2.65287 2.69615 2.91270 3.31331 5.38409 4.05433 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 3 2.87193 4.43770 3.86411 2.93313 2.83616 3.88585 4.12320 2.48213 3.25418 1.22829 3.19610 3.70885 4.24170 3.55749 3.52313 3.19465 3.10784 2.42604 4.87891 3.59230 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 4 2.95912 5.52320 1.25649 1.79864 4.82428 3.25132 3.79355 4.33984 2.80944 3.84175 4.68780 2.71635 3.87130 2.95847 3.40663 2.57298 3.24937 3.90950 6.00603 4.49742 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 5 2.92173 4.31176 4.48991 3.92446 1.66441 4.04723 4.12524 2.25180 3.77742 1.73287 2.71007 4.04228 4.35491 3.90849 3.88285 3.35691 3.14685 2.42276 3.65476 3.12345 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 6 3.36299 4.69859 4.78941 4.29251 1.89554 4.48265 4.43669 2.36821 4.14550 0.98975 2.99314 4.44626 4.71305 4.23380 4.24662 3.85086 3.59042 2.49628 4.67209 3.23114 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 7 2.76882 5.25460 1.70402 2.09745 4.55945 3.31047 3.67464 4.04153 2.33597 3.54803 4.34010 2.51691 3.82'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03222 3.84721 4.56956 0.61958 0.77255 0.68384 0.70255\n- 137 2.72022 5.05840 2.45774 1.73185 4.36539 3.26784 3.62588 3.80871 2.42164 3.35890 4.18627 2.50117 3.78117 2.52547 2.86744 2.68615 2.72371 3.44256 5.54533 4.16466 140 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03222 3.84721 4.56956 0.61958 0.77255 0.68384 0.70255\n- 138 2.55544 4.69403 2.70937 2.41682 3.94391 3.03607 3.60188 3.32994 2.09114 2.96416 3.43557 2.92481 3.77508 2.76738 2.83145 2.60511 2.79421 2.80212 5.22626 3.90653 141 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03222 3.84721 4.56956 0.61958 0.77255 0.37926 1.15317\n- 139 2.71000 5.13509 1.92051 1.91497 4.42650 3.33744 3.64542 3.88649 2.46685 3.04683 4.20867 2.81529 3.81017 2.61317 2.96934 2.66989 2.69924 3.49661 5.59654 4.18901 142 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 140 2.71928 5.15507 2.11579 1.63539 4.44720 3.33181 3.65082 3.91209 2.47988 3.44106 3.55930 2.62847 3.81169 2.78239 2.98711 2.67538 2.96645 3.51831 5.61584 4.20213 143 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 141 2.54929 5.14956 2.67097 1.64803 4.49161 3.39013 3.66722 3.91283 1.84121 3.44260 4.25877 2.88719 3.86627 2.80417 2.75582 2.76014 3.03482 3.53872 5.60044 4.24279 144 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08035 4.06717 2.81206 0.61958 0.77255 0.48576 0.95510\n- 142 2.67169 4.96782 2.77237 2.21676 4.27902 2.26749 3.62537 3.71041 2.21633 3.26422 4.07035 2.64948 3.81437 2.76408 2.61431 2.66682 2.72860 3.35074 5.45551 4.10537 145 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02720 4.01402 4.73637 0.61958 0.77255 0.54160 0.87183\n- 143 2.70930 5.16940 2.16335 1.96642 4.47154 2.56204 3.63239 3.94523 2.33281 3.45828 4.24402 2.78205 3.79327 2.59175 2.97011 2.65917 2.69607 3.54090 5.62497 4.20578 146 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02720 4.01402 4.73637 0.61958 0.77255 0.54160 0.87183\n- 144 2.86302 5.41809 1.94401 1.51420 4.71802 2.82240 3.71916 4.22631 2.66904 3.71734 4.53407 2.28209 3.82670 2.86898 3.23878 2.76657 3.13605 3.79684 5.87708 4.39420 147 e - - -\n- 2.68611 4.42229 2.77511 2.73127 3.46358 2.40517 3.72499 3.29343 2.67745 2.69359 4.24694 2.90337 2.73744 3.18132 2.89805 2.37891 2.77524 2.98511 4.58481 3.61507\n- 0.17097 1.85055 * 0.66272 0.72453 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1724 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_11\n-LENG 567\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:23 2020\n-NSEQ 7\n-EFFN 0.878418\n-CKSUM 603743307\n-GA 260 218;\n-STATS LOCAL MSV -11.9590 0.69746\n-STATS LOCAL VITERBI -13.0468 0.69746\n-STATS LOCAL FORWARD -6.1590 0.69746\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73302 4.55888 2.80056 2.60303 2.99487 3.19566 3.79006 2.71093 2.48424 2.39397 3.65781 2.86891 3.86534 3.09089 2.99915 2.69146 2.97521 2.74808 4.74062 3.11066\n- 2.68638 4.42245 2.77540 2.73107 3.46298 2.40533 3.72515 3.29374 2.67745 2.69340 4.24543 2.90300 2.73760 3.18109 2.89821 2.37895 2.77519 2.98513 4.58497 3.61523\n- 0.56359 1.46889 1.60615 1.49884 0.25281 0.00000 *\n- 1 2.55342 4.36146 3.31606 2.77398 3.52760 3.46918 3.76255 2.84272 2.67941 2.54294 2.72962 3.19680 3.88057 2.63351 3.03614 2.45361 2.80168 2.33519 4.96451 3.71386 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03031 3.90717 4.62951 0.61958 0.77255 0.68934 0.69697\n- 2 2.79637 5.13807 2.61297 2.03149 4.47598 3.35506 3.61506 3.90775 1.69326 3.41699 4.24249 2.44337 3.83570 2.75606 2.62183 2.75610 3.03046 3.53853 5.55294 4.21148 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03031 3.90717 4.62951 0.61958 0.77255 0.68934 0.69697\n- 3 2.71146 5.06620 2.01558 2.18936 4.47373 3.19250 3.70614 3.96730 2.63468 3.51726 4.34314 1.90449 3.77326 2.86952 3.15915 2.25133 3.01111 3.55354 5.69230 4.26297 11 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03031 3.90717 4.62951 0.61958 0.77255 0.68934 0.69697\n- 4 2.68688 4.95200 2.77280 2.36964 4.27701 3.36356 3.60356 3.69902 2.03608 3.24940 4.06799 2.30327 3.81063 2.44048 2.65868 2.68393 2.54848 3.34664 5.42812 4.09808 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03031 3.90717 4.62951 0.61958 0.77255 0.37674 1.15867\n- 5 2.33498 4.19923 3.85411 3.30052 3.34513 3.04928 4.04014 2.05258 3.20449 2.32029 2.16363 3.59238 4.06939 3.48219 3.46647 2.95821 2.88178 2.29946 4.88072 3.67674 13 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 6 2.78845 4.29834 4.04570 3.52736 3.49576 3.88360 4.29934 1.47749 3.42519 2.35931 3.43142 2.96725 4.28210 3.72898 3.68694 3.20578 3.04941 1.62318 5.11956 3.88897 14 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 7 2.59432 4.46072 3.25149 2.49040 3.69463 3.47641 3.80711 2.36709 2.72153 2.73436 3.62275 3.19025 3.90'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 560 2.97649 4.49722 4.03179 3.54574 2.18290 3.91472 3.73638 2.91770 3.44201 2.51717 3.58463 3.73051 4.29530 3.66242 3.66761 3.22599 2.57102 2.75691 4.14138 1.36288 585 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 561 1.17362 4.53577 3.19403 2.86541 4.18287 3.27946 3.99335 3.46269 2.35617 3.20347 4.10170 3.23611 3.89176 3.21854 3.08262 2.70919 2.94971 3.11305 5.49961 4.24349 586 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 562 2.97393 5.16813 3.00912 2.62829 4.58463 3.53505 3.72587 4.02095 1.11683 3.51589 4.37451 2.59883 4.00347 2.87473 2.44649 2.96307 3.20468 3.66558 5.57828 4.31247 587 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 563 2.63861 4.93447 2.88451 2.18435 4.21369 3.40740 3.62424 3.64498 2.18864 2.80858 4.00843 2.33263 3.81750 2.75802 2.83761 2.43430 2.60196 3.29111 5.41586 4.06117 588 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 564 2.85162 4.95112 3.24356 2.67223 4.19802 3.59078 3.67494 3.57993 1.51974 2.30971 4.01482 3.13287 3.97537 2.45008 2.46034 2.88761 3.05671 3.29836 5.35575 4.09582 589 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09390 4.12133 2.61176 0.61958 0.77255 0.48576 0.95510\n- 565 2.68129 5.03524 2.72579 2.33276 4.37075 2.61893 3.63401 3.81902 2.13879 3.35176 4.14531 2.34662 3.81376 2.43558 2.82782 2.40781 2.92595 3.43563 5.52512 4.15443 590 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02613 4.05355 4.77590 0.61958 0.77255 0.55970 0.84718\n- 566 2.73376 5.02782 2.69623 2.38060 4.43993 2.50073 3.69286 3.88789 1.89278 3.42348 4.23746 2.05743 3.84671 2.83783 2.81525 2.72314 2.99946 3.49892 5.58217 4.22944 591 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02613 4.05355 4.77590 0.61958 0.77255 0.55970 0.84718\n- 567 2.66822 4.96549 2.73474 2.37152 4.37649 2.77035 3.67446 3.82263 1.98114 3.36660 4.16824 2.17406 3.81742 2.81446 2.86116 2.32715 2.93484 3.43101 5.54350 4.18381 592 k - - -\n- 2.68625 4.42232 2.77527 2.73094 3.46361 2.40494 3.72502 3.29361 2.67710 2.69362 4.24697 2.90354 2.73747 3.18153 2.89808 2.37894 2.77527 2.98525 4.58484 3.61510\n- 0.28313 1.40008 * 0.67172 0.71505 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1532 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_12\n-LENG 503\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:24 2020\n-NSEQ 5\n-EFFN 0.971680\n-CKSUM 1985560886\n-GA 50 50;\n-STATS LOCAL MSV -11.8811 0.69801\n-STATS LOCAL VITERBI -12.6884 0.69801\n-STATS LOCAL FORWARD -6.1314 0.69801\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65619 4.16684 3.02169 2.63713 3.05871 2.99100 3.83903 2.77759 2.61651 2.31578 3.61050 2.97994 3.56418 3.09103 2.96007 2.69173 2.91362 2.65809 4.55741 3.34316\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24517 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.47849 1.87109 1.48577 0.28387 1.39783 0.00000 *\n- 1 3.15971 4.57930 4.48312 3.94257 3.05710 4.29178 4.58650 2.19591 3.74187 1.19050 1.85984 4.24097 4.55279 3.98797 3.92631 3.64113 3.39484 2.28496 5.06280 3.91622 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02970 3.92732 4.64967 0.61958 0.77255 0.72499 0.66229\n- 2 1.65723 1.77420 3.97527 3.60826 3.85857 3.02984 4.35298 2.89290 3.47854 2.86276 3.83675 3.55531 3.76395 3.76108 3.67467 2.48861 2.70944 2.57078 5.35630 4.17108 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02970 3.92732 4.64967 0.61958 0.77255 0.72499 0.66229\n- 3 2.66786 4.55608 3.21007 2.77515 3.71104 3.46330 3.82933 2.92230 2.60061 2.64163 3.67950 3.20432 3.93586 2.02989 2.92502 2.81264 2.94547 2.03135 5.16944 3.87369 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02970 3.92732 4.64967 0.61958 0.77255 0.72499 0.66229\n- 4 2.69920 4.37779 3.59366 3.04264 3.53069 3.67918 3.96053 1.92510 2.26117 2.39210 3.44201 3.43654 4.06654 3.25850 3.13877 2.96782 2.94192 2.00523 5.06789 3.83170 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02970 3.92732 4.64967 0.61958 0.77255 0.72499 0.66229\n- 5 2.62452 4.62749 3.10733 2.73186 4.23077 1.70879 3.82884 3.68874 2.47961 3.28525 4.15286 3.13713 3.83770 3.02928 1.95783 2.71706 2.96218 3.30657 5.41304 4.18014 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02970 3.92732 4.64967 0.61958 0.77255 0.72499 0.66229\n- 6 1.99296 4.88890 1.56071 2.29952 4.40821 3.17408 3.80294 3.77109 2.76672 3.44811 4.32100 2.82734 3.78970 2.98753 3.27532 2.68273 3.00985 3.38748 5.68133 4.28927 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02970 3.92732 4.64967 0.61958 0.77255 0.72499 0.66229\n- 7 2.73634 4.51907 3.33136 2.94083 2.98521 3.50448 3.73306 3.13771 2.88201 2.74765 3.74258 3.30828 2.454'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 496 2.92568 5.04411 3.38031 2.73716 4.27363 3.65369 3.66565 3.74678 1.73161 3.27064 4.12385 3.18094 4.01848 2.81924 1.58646 2.94718 3.11581 3.44016 5.36527 2.75561 566 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 497 2.07227 4.71687 3.01040 2.63324 4.32397 1.83980 3.84854 3.72893 2.00676 3.33984 4.16575 3.08457 3.86342 3.02040 2.99070 2.67945 2.93792 3.33045 5.55371 4.25286 567 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 498 2.78433 5.13927 2.55423 1.86193 4.53340 3.33664 3.76691 4.00297 2.61941 3.54417 4.35536 2.32337 3.87403 2.91657 3.10928 1.66683 3.06401 3.59872 5.72133 4.31760 568 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 499 2.71761 5.07153 2.19655 2.37967 4.43571 3.38785 3.68511 3.89525 2.43164 3.42439 4.21675 2.91326 3.85295 2.81626 1.87376 2.21907 2.97057 3.50037 5.58553 4.21015 569 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 500 1.84893 4.62772 3.08104 2.62972 4.15581 2.59451 3.81944 3.56315 2.64600 3.19032 4.01413 3.08141 3.83293 2.34748 3.07034 2.62639 2.29676 3.18948 5.43909 4.13553 570 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 501 2.99231 5.60469 1.86911 1.30666 4.89342 3.31069 3.81554 4.42156 2.80022 3.89535 4.72210 2.10402 3.91219 2.96978 3.39156 2.87572 3.27147 3.97768 6.04451 4.53290 571 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 502 2.87710 5.32991 2.41266 1.46368 4.69230 2.40727 3.78797 4.18288 2.68588 3.69541 4.51141 2.10253 3.89333 2.93852 3.20889 2.81132 3.15556 3.76246 5.85701 4.41460 572 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 503 2.83876 5.20029 2.60994 1.87987 4.55510 1.84110 3.74227 4.00424 2.09466 3.53143 4.34797 2.89999 3.90129 2.88698 2.93907 2.80118 3.09535 3.61819 5.69396 4.31684 573 g - - -\n- 2.68587 4.42256 2.77516 2.73058 3.46385 2.40521 3.72526 3.29327 2.67740 2.69386 4.24721 2.90340 2.73739 3.18128 2.89832 2.37918 2.77518 2.98509 4.58508 3.61458\n- 0.28771 1.38622 * 1.78038 0.18461 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1532 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_13\n-LENG 503\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:24 2020\n-NSEQ 8\n-EFFN 0.871094\n-CKSUM 41155470\n-GA 300 300;\n-STATS LOCAL MSV -11.9332 0.69801\n-STATS LOCAL VITERBI -12.7110 0.69801\n-STATS LOCAL FORWARD -6.1485 0.69801\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69705 4.20828 2.89003 2.56380 3.26620 3.10349 3.85814 2.67600 2.48581 2.35463 3.59951 2.99049 3.62822 3.12285 2.95435 2.72940 2.93846 2.65965 4.45060 3.38712\n- 2.68634 4.42241 2.77536 2.73124 3.46370 2.40518 3.72475 3.29315 2.67695 2.69371 4.24634 2.90348 2.73743 3.18162 2.89798 2.37894 2.77509 2.98534 4.58493 3.61488\n- 0.53146 1.74021 1.44066 1.50287 0.25166 0.00000 *\n- 1 2.53311 4.27113 3.40146 2.86542 3.43042 3.47544 3.79730 2.44149 2.77844 2.47389 2.59826 2.90151 3.89260 3.12036 3.11584 2.51925 2.78635 2.48722 4.89267 3.64438 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85716 4.57951 0.61958 0.77255 0.36200 1.19166\n- 2 3.16630 4.52423 4.75116 4.18182 2.38507 4.37059 4.62106 1.94157 4.05054 1.57309 1.60521 4.38859 4.61027 4.16367 4.16580 3.69858 3.39015 2.31578 4.99194 3.81693 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 3 2.66789 4.78569 3.02853 1.90134 4.00923 3.47202 3.67894 3.34616 2.18698 2.41501 3.85883 3.02177 3.87418 2.84599 2.83628 2.72013 2.89804 2.79190 5.29470 3.98535 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 4 3.21546 4.53691 4.86838 4.31854 1.87499 4.45112 4.61863 1.54221 4.18250 1.48243 3.02660 4.47680 4.68438 4.27907 4.27602 3.79254 3.44204 2.19155 4.92390 3.62621 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 5 2.66527 4.89489 2.95809 2.10030 4.18057 3.43717 3.64519 3.56244 1.86401 3.16705 3.98500 2.96589 3.84688 2.78808 2.77780 2.68443 2.52014 2.75202 5.38969 4.05986 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 6 3.12941 4.43934 4.88253 4.32607 2.63979 4.44171 4.80424 1.34642 4.20778 1.64491 3.13337 4.50372 4.69305 4.34820 4.32389 3.78578 3.36404 1.64110 5.19914 4.03534 12 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 7 2.65194 4.90801 2.82039 2.42247 4.31602 3.35148 3.69790 3.75530 2.19757 3.31812 4.12268 2.48801 2.358'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 496 2.72574 5.15648 2.43317 2.31772 4.48359 3.38435 3.63635 3.94597 1.88148 3.44793 4.22926 2.86334 3.83270 2.05624 2.81803 2.43822 2.96276 3.54413 5.59511 4.20747 529 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 497 2.73877 4.59089 3.39819 2.82376 3.29193 3.61625 2.99547 3.14394 2.58339 2.35247 3.68529 3.24689 3.99161 3.03856 2.27730 2.86983 2.96117 2.90349 4.76642 2.30440 530 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 498 2.60734 4.63101 3.11349 2.56764 3.10051 3.05786 3.68777 2.86358 1.99322 2.87447 3.72493 2.67036 3.86131 2.88575 2.94087 2.69559 2.84073 2.94064 5.15941 3.85956 531 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 499 2.34873 4.93404 3.06458 2.52853 4.31167 2.61812 3.65497 3.71993 1.98665 3.26779 4.08142 3.01873 3.87766 2.79273 1.97235 2.73076 2.95026 3.36509 5.43944 4.13875 532 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 500 2.80654 5.26481 2.52436 1.54711 4.58798 2.92778 3.69071 4.05967 2.14763 3.56001 4.35760 2.39518 3.85616 2.82460 2.95663 2.74811 3.05611 3.65327 5.71130 4.29971 533 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 501 2.30638 4.93623 2.84820 2.43429 4.35645 2.67906 3.68938 3.78963 1.74407 3.34211 4.14489 2.54342 3.83929 2.82899 2.82947 2.67885 2.93445 3.40491 5.52321 4.17964 534 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 4.11704 4.83939 0.61958 0.77255 0.48576 0.95510\n- 502 2.82688 5.30923 2.08283 2.24413 4.62668 3.33626 3.70855 4.11423 1.97834 3.61221 4.41260 1.80727 3.85834 2.84585 3.03335 2.75979 3.08306 3.69976 5.75935 4.32860 535 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13164 4.11704 2.23449 0.61958 0.77255 0.48576 0.95510\n- 503 2.82428 5.25053 2.48769 1.56045 4.57226 3.33432 3.66873 4.03269 2.06782 3.53573 4.35162 2.38173 3.84658 2.80969 2.85047 2.76408 3.07168 3.64045 5.67953 4.28662 536 e - - -\n- 2.68630 4.42237 2.77532 2.73074 3.46366 2.40513 3.72507 3.29366 2.67732 2.69367 4.24702 2.90315 2.73752 3.18159 2.89813 2.37899 2.77511 2.98487 4.58489 3.61515\n- 0.31546 1.30732 * 1.04726 0.43217 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1763 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_14\n-LENG 580\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:24 2020\n-NSEQ 32\n-EFFN 4.144531\n-CKSUM 3422776864\n-GA 23 22.4;\n-STATS LOCAL MSV -11.9526 0.69736\n-STATS LOCAL VITERBI -13.1162 0.69736\n-STATS LOCAL FORWARD -6.0456 0.69736\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67865 4.34685 2.96998 2.55558 3.12324 2.97921 3.88393 2.80958 2.48305 2.34187 3.71521 2.94956 3.46249 3.02644 2.98307 2.68208 2.90047 2.82007 4.84120 3.32269\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.00000 *\n- 1 4.40319 5.63243 6.25523 5.71636 3.76298 5.72736 6.07972 2.92307 5.48704 1.72209 0.47461 5.92468 5.78212 5.42428 5.45757 5.16577 4.62731 2.94184 6.03857 5.04952 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 2 4.46605 5.61349 6.46995 5.94571 3.86309 6.00376 6.38621 1.11353 5.83220 0.67749 3.58462 6.19927 5.93851 5.65523 5.76588 5.47393 4.67779 2.87110 6.20947 5.27232 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 3 2.84326 5.47829 2.81850 1.42392 4.82394 3.73444 3.56421 4.31060 2.17384 3.78362 4.51912 2.33333 4.12996 2.66217 2.81498 2.77744 2.57163 3.86931 5.91016 4.49833 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 4 1.29578 5.36648 3.28903 2.23431 4.77412 2.64933 4.05542 4.23398 2.65543 3.76469 4.53276 3.31684 4.20636 3.17420 3.30790 1.99827 2.78192 3.82096 5.93609 4.55615 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 5 3.54089 4.84144 5.54761 4.96858 2.88083 4.84386 5.23667 1.06435 4.79600 1.60346 3.26694 5.00711 5.13287 4.90504 4.81789 4.18548 3.10974 1.67323 5.62642 4.48334 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 6 2.27763 4.98428 3.51219 2.52678 4.17517 3.85272 4.07113 3.25746 2.08409 2.28688 4.06958 3.44232 4.23922 3.27214 2.54501 2.89833 2.83762 2.52774 5.52192 2.46122 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 7 2.96967 5.47372 2.49714 1.58888 4.81783 3.74040 3.92697 4.30124 2.12249 2.65534 4.51533 3.20858 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 573 3.98820 5.21740 6.00466 5.45996 1.25545 5.40685 5.75925 1.05477 5.32856 1.97659 3.70797 5.56150 5.56979 5.33978 5.33284 4.78951 4.21745 2.21480 5.93040 4.78227 1526 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 574 2.24570 4.56023 4.86852 4.30765 3.73537 4.18647 4.69535 2.87146 4.14912 0.93371 3.72712 4.37153 4.62682 4.33392 4.25178 2.97297 3.05529 1.86229 5.28995 4.11087 1527 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 575 2.25728 2.69161 4.57361 4.05277 4.03604 3.92607 4.69967 3.36967 3.95195 1.74403 4.03080 4.17213 4.49635 4.18605 4.16399 1.17004 2.55176 3.11230 5.52289 4.33460 1528 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 576 4.85124 6.33370 5.70276 5.76737 6.61941 0.05228 6.62053 6.66743 6.05921 6.05144 7.14244 5.87519 5.71397 6.29749 6.02121 5.07696 5.39452 5.99564 7.25476 6.80595 1529 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 577 3.12120 4.52168 4.86681 3.02643 2.63722 4.26504 4.53029 2.46687 4.10017 2.34562 1.96011 4.34634 4.62037 4.25659 4.17602 3.56971 3.35210 2.74508 5.03677 1.31619 1530 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 578 1.73011 5.26311 3.11543 2.79796 4.59881 2.99704 4.02579 4.03739 2.80569 2.68854 4.39153 2.40138 4.18947 3.15634 3.28004 1.69517 2.71521 3.66656 5.80938 4.45114 1531 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 579 2.70283 4.43112 4.68516 4.08787 2.15759 4.14082 3.11100 2.69192 3.93060 1.84579 3.04816 4.20369 4.50740 3.63782 4.03800 2.61304 3.23848 2.68133 5.03984 1.77853 1532 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 5.18810 5.91044 0.61958 0.77255 0.48576 0.95510\n- 580 1.80221 5.40543 3.23424 2.45575 4.09339 2.48411 3.38318 4.19230 2.26072 3.20158 4.45305 2.83862 4.13623 3.03877 2.56580 2.40552 2.87896 3.57906 5.85407 3.76301 1533 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00561 5.18538 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1658 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_2\n-LENG 545\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:21 2020\n-NSEQ 5\n-EFFN 1.284180\n-CKSUM 3448146520\n-GA 31.4 29;\n-STATS LOCAL MSV -12.1171 0.69762\n-STATS LOCAL VITERBI -12.8345 0.69762\n-STATS LOCAL FORWARD -6.1732 0.69762\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76196 4.21789 2.84494 2.50984 3.07570 3.01536 3.87977 2.72529 2.45231 2.39502 3.66932 2.93826 3.73038 3.13147 2.98359 2.69234 2.96536 2.71577 4.74542 3.40402\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.00000 *\n- 1 3.40945 4.89631 4.59215 4.24647 3.51034 4.20937 4.87493 2.73789 3.98479 2.05446 0.70479 4.45930 4.69307 4.34602 4.13033 3.79491 3.73496 2.79396 5.39649 4.19089 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 2 3.53511 4.79442 5.29806 4.76755 3.33082 4.89476 5.27184 1.34812 4.60865 0.95166 3.11305 4.98541 5.04951 4.69864 4.68713 4.28843 3.76595 2.15921 5.47232 4.39291 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 3 2.88180 5.14814 2.69711 1.17623 4.57908 3.43054 3.90392 3.94965 2.74203 3.57320 4.42742 3.01761 3.98503 3.06595 3.19905 2.87600 2.10718 3.58063 5.79425 4.41924 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 4 2.20629 4.96350 2.97319 2.49581 4.34493 3.44173 3.73193 3.77344 2.05367 3.33931 4.13599 2.04948 3.88787 2.86768 2.91958 2.70788 2.31889 3.39794 5.53520 4.18683 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 5 3.33819 4.59505 5.22869 4.75701 3.79768 4.79327 5.46229 0.85623 4.65504 2.24197 3.57049 4.93700 5.07159 4.90474 4.82511 4.21322 3.60599 1.37200 5.85659 4.65413 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 6 2.75304 2.91971 3.32872 2.73440 3.92889 3.60307 3.75751 3.33229 1.80816 2.97103 3.83033 3.19674 3.98271 2.95671 2.27286 2.84686 2.97409 3.06034 5.22841 2.76800 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 7 3.09813 5.73836 1.76677 1.65010 5.02519 3.38845 3.90961 4.56300 2.91354 4.02729 4.85785 1.46872 4.00'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 538 3.22118 4.54464 4.96486 4.40829 2.24792 4.47846 4.76168 2.19291 4.27019 1.43536 3.17518 4.54953 4.73994 4.38528 4.35890 3.82075 3.45444 1.29166 5.11754 3.88633 658 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 539 2.74994 4.56023 3.69114 3.25771 3.37564 3.53702 4.03369 3.40208 3.13752 3.03561 3.98165 3.54493 4.10078 3.50525 3.43544 1.12382 3.09951 3.11407 2.49396 3.41127 659 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 540 3.34097 5.04507 4.10627 4.07459 5.16020 0.27578 5.14021 4.89798 4.31669 4.48228 5.47923 4.27306 4.44747 4.60512 4.47785 3.52970 3.85669 4.33654 6.10790 5.28614 660 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 541 3.05370 4.47499 4.50032 3.93605 3.00494 4.16435 4.29224 2.55042 3.77059 1.57176 1.64628 4.12277 4.47296 3.96342 3.91978 3.47300 3.27996 2.54094 4.74852 2.22619 661 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 542 1.44533 4.69016 3.14322 2.73851 4.31137 3.34287 3.94118 3.72941 2.75913 3.35093 4.17526 3.17321 3.90728 2.25114 3.16787 2.06835 2.95260 3.32775 5.58425 4.28173 662 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 543 3.02751 4.54800 4.15913 3.61616 2.12765 4.06627 4.19922 2.66494 3.47558 1.26322 3.23714 3.91251 4.39480 2.47496 3.71032 3.36260 3.25512 2.65494 4.80273 3.44396 663 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 544 2.65047 4.72122 3.11562 2.63693 4.00806 2.55045 3.80455 3.47097 2.65054 3.10218 3.93987 2.06265 3.91177 2.99717 3.08191 2.21202 2.92441 3.14928 2.94155 4.00652 664 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33384 5.05619 0.61958 0.77255 0.48576 0.95510\n- 545 2.69715 4.82293 3.09401 2.16183 4.05992 3.51728 3.72737 2.60377 2.10522 3.07107 3.90837 3.06936 3.91572 2.89319 2.92371 2.74980 2.08107 3.12270 5.34060 4.02833 665 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01329 4.32745 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1166 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_3\n-LENG 381\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:21 2020\n-NSEQ 8\n-EFFN 2.683594\n-CKSUM 2030155086\n-GA 50.6 35.8;\n-STATS LOCAL MSV -11.2238 0.69956\n-STATS LOCAL VITERBI -12.2430 0.69956\n-STATS LOCAL FORWARD -5.4454 0.69956\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70541 4.50801 2.92555 2.52454 3.04560 3.07860 3.84563 2.80627 2.45444 2.38585 3.76465 2.92391 3.61277 3.05578 3.00508 2.66622 2.89382 2.79297 4.74359 3.22466\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.00000 *\n- 1 2.82545 4.61823 3.62634 3.07583 3.79579 3.76107 4.05830 3.16252 3.04154 2.87032 3.75394 2.69127 4.16832 3.35499 3.41603 1.83772 2.38313 1.85786 5.22195 2.79646 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 2 2.82668 5.13366 2.02243 2.60106 3.09844 2.47049 3.83183 3.84157 2.12029 2.60438 4.19833 3.13312 4.02326 2.96147 3.08478 2.38359 3.05918 3.48487 5.61565 4.25404 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 3 2.89741 5.09909 3.24178 2.14057 4.34188 3.69381 3.89189 3.77100 2.63503 3.36231 4.18018 3.22551 4.09379 3.04282 2.47898 2.92561 1.41691 3.44554 5.58124 2.82400 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 4 2.83786 5.19791 2.45177 2.58276 4.49796 3.61928 3.83057 3.94484 2.10347 2.74120 4.26708 3.11902 4.02238 2.95099 3.07146 2.13671 1.76809 3.56641 5.67590 4.30179 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 5 3.05004 5.51194 2.98315 1.56822 4.87841 3.68212 3.94956 4.34954 1.81291 3.82831 4.60381 3.16352 4.14280 3.06791 3.11241 1.55810 3.29143 3.92652 5.95478 4.56066 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 6 2.83894 4.62573 1.93755 2.48836 2.74046 3.78836 4.02455 2.43182 3.01533 2.33614 3.72013 3.47968 4.17020 3.32673 3.39448 3.02702 3.07068 2.89883 5.16902 2.65401 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 7 2.90854 4.44632 4.14815 3.57161 3.56464 3.98150 4.27395 2.25918 2.61880 2.03128 3.54062 3.86832 1.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 374 2.93707 4.40218 4.43725 3.87404 3.38617 2.56274 4.32732 2.14204 3.74048 2.56090 3.52424 4.04657 4.41659 3.95936 3.90500 3.33727 3.18073 2.11183 4.93898 1.36226 472 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 375 3.65793 4.94227 5.32135 4.84963 1.02704 4.72956 4.33720 2.20115 4.65619 1.93244 3.73202 4.68449 5.01689 4.63788 4.62841 4.06849 3.87906 3.07860 4.52476 1.86095 473 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 376 2.08762 4.52387 4.98456 4.39650 2.42194 4.35622 4.70516 2.53930 4.22914 1.20767 3.39679 4.47591 4.68363 4.36295 4.29066 3.67849 3.39309 1.71612 5.17100 4.00886 474 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 377 2.89147 4.73601 3.60054 3.03215 3.85307 3.80066 4.01586 3.27826 2.21516 2.13190 3.84024 3.46968 4.18891 3.28428 3.23737 1.48839 3.12365 3.03501 2.95452 3.97660 475 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 378 3.21191 5.22277 3.44999 3.44290 5.40963 0.51782 4.91990 5.05432 3.99022 4.63782 5.48887 2.06955 4.48522 4.18566 4.37747 3.32335 3.70890 4.38090 6.61981 5.36844 476 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 379 2.87043 4.32671 4.39388 3.80676 3.38376 3.98395 4.27879 2.72935 3.67131 2.08746 1.96946 2.61406 4.34975 3.88284 3.82976 3.27555 3.10260 1.92010 4.91580 2.20903 477 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 380 1.98410 4.85922 3.37355 2.82566 4.12694 3.67110 3.95904 3.51929 2.80624 2.37139 4.00982 3.30747 4.09215 2.43059 3.23989 1.90764 2.20401 3.22207 5.45681 4.16017 478 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84084 5.56318 0.61958 0.77255 0.48576 0.95510\n- 381 3.02968 4.43605 4.68096 4.10112 2.39375 4.15392 4.32542 2.09650 3.93970 1.72439 3.44956 4.19102 4.50342 2.64328 4.03583 3.45758 3.25950 2.65695 4.79399 1.72570 479 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 4.83699 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1805 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_4\n-LENG 594\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:21 2020\n-NSEQ 17\n-EFFN 3.241455\n-CKSUM 1259746168\n-GA 45.4 45.2;\n-STATS LOCAL MSV -12.0863 0.69726\n-STATS LOCAL VITERBI -13.1573 0.69726\n-STATS LOCAL FORWARD -6.0962 0.69726\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74276 4.31211 2.95661 2.51690 3.10654 3.04294 3.86578 2.72104 2.42121 2.40250 3.73141 2.87460 3.61877 3.05323 3.04019 2.65426 2.91757 2.83051 4.88449 3.27589\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.00000 *\n- 1 4.01975 5.24888 5.93303 5.36662 3.66823 5.41528 5.76801 2.25253 5.22990 1.71898 0.69736 5.55505 5.50368 5.18454 5.22743 4.80132 4.23623 2.33771 5.85469 4.86212 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 2 4.15134 5.32712 6.14480 5.63432 3.79208 5.67117 6.11605 0.83905 5.51235 1.02534 3.52853 5.84754 5.70634 5.46025 5.50874 5.12141 4.37800 2.52979 6.07504 5.06797 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 3 2.61705 5.51307 2.61680 1.33546 4.85120 3.68225 3.94374 4.34015 2.72567 3.82097 4.57335 2.28007 4.12474 3.05262 3.23352 2.57211 2.21842 3.90361 5.95778 4.53361 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 4 2.20476 5.23717 3.18918 2.36288 4.53794 2.28909 3.87689 3.24597 2.21453 3.53021 4.30555 3.17355 4.06977 2.99595 3.11831 1.80658 2.74006 3.60691 5.71673 4.34332 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 5 3.61068 4.87120 5.63430 5.08314 2.24518 5.00335 5.44140 0.95934 4.94278 2.37497 2.85169 5.16170 5.24803 5.04985 4.98438 4.36817 3.84874 1.48565 5.76656 4.62384 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 6 2.31708 3.39249 4.03512 3.45989 3.59628 3.93523 4.21241 2.61029 2.42856 2.39657 3.58906 3.78476 4.30973 3.65265 2.62656 2.75887 3.12530 2.05404 5.07798 2.29805 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 7 2.94041 5.45813 2.69734 1.61127 4.80351 3.67147 3.88190 4.29068 2.13705 3.76052 4.50236 2.46669 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 587 3.58400 4.90575 5.27959 4.78043 3.29054 4.75618 4.71978 1.63055 4.59532 2.63294 3.84770 4.78089 5.07654 4.72770 4.66235 4.10651 3.82626 2.25189 5.00759 0.88089 803 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 588 3.73932 4.99912 5.72294 5.15672 1.14982 5.09062 5.42867 1.65732 5.00598 1.66905 3.50500 5.24312 5.28796 5.02931 5.00748 4.45308 3.96604 1.90405 5.65876 4.52924 804 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 589 2.59724 4.33948 4.73838 4.13875 2.52009 4.08845 4.42997 2.71117 3.96133 1.28801 3.44893 4.20229 4.45720 4.12423 4.03035 2.83657 2.74108 1.75718 4.97455 3.79489 805 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 590 2.94242 3.36984 4.48772 3.91356 3.49090 4.01269 4.38093 2.89685 3.76733 1.62606 3.56860 4.07105 4.42272 3.98808 3.92731 1.33747 3.19738 2.70532 2.86143 3.78704 806 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 591 4.49128 6.03341 5.33992 5.39071 6.30026 0.07521 6.29943 6.28187 5.68289 5.71560 6.78132 5.50927 5.42384 5.92773 5.68958 4.70815 5.03338 5.62123 7.00230 6.47343 807 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 592 3.17003 4.52540 5.10650 4.49850 2.80065 4.35990 4.67266 2.03155 4.29769 1.84620 1.73554 4.51169 4.68397 4.39614 4.30461 3.67793 3.39839 2.27514 5.09990 1.86706 808 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 593 2.25925 5.21683 3.25543 2.76787 4.70972 3.66455 4.02602 4.16675 2.80080 3.70730 4.47981 2.51511 4.13574 2.39104 3.27249 1.22353 2.71446 3.74135 5.88252 4.51493 809 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98800 5.71034 0.61958 0.77255 0.48576 0.95510\n- 594 3.06827 4.50163 4.60716 4.03480 2.19833 4.16610 3.07186 2.52604 3.89074 1.58805 3.60525 4.15837 4.52700 2.66508 4.02358 3.46286 3.29898 2.76158 4.79420 1.85576 810 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00687 4.98468 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2072 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_5\n-LENG 683\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:22 2020\n-NSEQ 7\n-EFFN 0.680176\n-CKSUM 3935199724\n-GA 300 300;\n-STATS LOCAL MSV -12.5990 0.69673\n-STATS LOCAL VITERBI -13.1280 0.69673\n-STATS LOCAL FORWARD -6.3626 0.69673\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.77369 4.35100 2.81898 2.60476 2.94968 3.20647 3.83523 2.66978 2.52661 2.37547 3.62828 2.76285 3.78810 3.14745 3.09808 2.71241 2.97558 2.74596 4.92784 3.09587\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11595 3.99838 2.39537 0.61958 0.77255 0.00000 *\n- 1 3.00067 4.54311 4.09238 3.68878 3.22520 3.86396 4.41464 2.40480 3.45470 1.81378 1.30317 3.96135 4.32472 3.83390 3.65533 3.35400 3.30672 2.41558 5.07141 3.83675 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03015 3.91257 4.63492 0.61958 0.77255 0.43785 1.03683\n- 2 3.12997 4.48252 4.67808 4.14963 3.28696 4.38363 4.79259 1.18759 3.98744 1.74593 2.51680 4.40100 4.66018 4.22489 4.16439 3.74613 3.37723 1.88476 5.26741 4.11050 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 3 2.31816 4.46007 3.17927 2.64029 3.67042 3.05343 3.71402 3.05307 2.61744 2.73156 3.03214 2.85004 3.84231 2.95111 3.02517 2.29633 2.79043 2.78783 5.05167 3.31432 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 4 2.93010 5.40170 1.19090 2.13810 4.72030 3.21039 3.80547 4.29056 2.84663 3.81901 4.68793 2.21950 3.85119 2.98682 3.43416 2.83522 3.24159 3.86151 5.93947 4.44109 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 5 3.29861 4.72438 4.39120 4.03308 3.18743 4.14109 4.64940 2.39991 3.79958 0.73442 3.17368 4.29629 4.55574 4.13771 3.95446 3.72880 3.58766 2.46966 5.11090 3.86281 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 6 3.09752 4.43379 4.74484 4.26046 3.51176 4.39636 4.97647 1.09650 4.13079 2.00147 3.32862 4.48384 4.72571 4.40332 4.32860 3.79201 3.36981 1.47143 5.49186 4.28572 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 7 2.90011 5.45512 1.57337 1.58745 4.76108 2.71400 3.74482 4.27318 2.73559 3.77044 4.60456 2.69380 3.83'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 676 2.70703 4.84026 2.97018 2.57525 4.32945 3.36230 3.71585 3.74682 1.52567 3.31972 4.16713 3.03414 3.86910 2.87787 2.61393 2.03427 2.99107 3.37951 5.47087 4.18226 692 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 677 2.64325 4.75000 2.94219 2.57789 4.27033 3.30819 3.75343 3.69421 1.85074 3.29157 4.13923 3.03170 3.84352 2.92676 2.74477 1.67777 2.95127 3.31970 5.46614 4.16816 693 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 678 2.10210 4.52722 2.86397 2.60077 4.29975 3.11845 3.89407 3.73388 2.77481 3.36916 4.19605 1.76120 3.75507 3.09029 3.19015 2.06915 2.84306 3.28085 5.58063 4.26590 694 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 679 2.68618 4.44210 3.42299 2.90070 3.24874 3.58473 3.75113 2.89619 2.36973 2.59569 3.54596 3.29564 3.98403 3.12854 3.01647 2.87228 2.92359 2.36599 4.74942 2.04777 695 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 680 2.57059 4.42921 3.27542 2.74597 3.66237 2.40747 3.77778 2.56681 2.36792 2.68863 3.58877 3.18003 3.88721 3.03082 3.02594 2.73292 2.82729 2.37110 5.06688 3.80808 696 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 681 2.37950 4.62842 3.01240 2.51627 3.89830 2.87881 3.67554 3.30348 2.27111 2.94237 3.78345 3.00401 3.81498 2.86329 2.92358 2.20212 2.82029 3.00032 5.21315 3.15526 697 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99838 4.72073 0.61958 0.77255 0.48576 0.95510\n- 682 2.80826 5.22064 2.51369 1.86869 4.54343 3.33681 3.65735 4.00005 2.02648 3.50580 4.32054 1.99521 3.84075 2.79736 2.81936 2.75316 3.05349 3.61127 5.65092 4.26537 698 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24010 3.99838 1.63421 0.61958 0.77255 0.48576 0.95510\n- 683 2.71174 4.98974 2.46942 1.84504 4.33178 2.59226 3.62745 3.75896 2.15253 3.32375 4.16403 2.78148 3.77458 2.78862 2.81231 2.69071 2.97418 3.40081 5.51039 4.15413 699 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02306 3.78134 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1730 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_7\n-LENG 569\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:22 2020\n-NSEQ 4\n-EFFN 0.589844\n-CKSUM 3356832575\n-GA 300 300;\n-STATS LOCAL MSV -11.7141 0.69746\n-STATS LOCAL VITERBI -12.8164 0.69746\n-STATS LOCAL FORWARD -6.1344 0.69746\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63084 4.34267 2.82801 2.66055 3.12885 3.02025 3.79510 2.79642 2.54062 2.42352 3.63041 2.94447 3.53756 3.13673 2.98895 2.62564 2.91699 2.71626 4.72195 3.24539\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.00000 *\n- 1 3.15240 4.57849 4.46528 3.92732 3.06604 4.27601 4.57443 2.20482 3.72213 1.25166 1.75849 4.22527 4.54512 3.97737 3.90921 3.62683 3.38952 2.28847 5.06280 3.90849 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.48576 0.95510\n- 2 3.22769 4.67089 4.29289 3.93309 3.16063 4.06387 4.56860 2.36827 3.70020 0.79977 3.16357 4.20231 4.48819 4.05312 3.86571 3.64233 3.51903 2.42232 5.06324 3.80142 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.48576 0.95510\n- 3 0.92475 4.22462 3.52832 3.32265 4.11682 3.04742 4.33704 3.25200 3.34057 3.13063 4.15545 3.45588 3.79274 3.67585 3.58662 2.57440 2.85622 2.89526 5.53754 4.34497 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.48576 0.95510\n- 4 3.30387 4.73626 4.12747 3.70095 1.68517 4.10319 2.46783 3.30078 3.58590 2.73549 3.87125 3.75630 4.43817 3.73377 3.77855 3.41956 3.52566 3.14806 3.66832 1.33127 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.48576 0.95510\n- 5 3.00807 5.13203 2.51537 0.93715 4.48638 3.31586 3.90830 3.95308 2.79695 3.55988 4.53111 2.97005 3.92351 3.12264 3.21243 2.98395 3.31281 3.63029 5.64582 4.36814 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.48576 0.95510\n- 6 3.22769 4.67089 4.29289 3.93309 3.16063 4.06387 4.56860 2.36827 3.70020 0.79977 3.16357 4.20231 4.48819 4.05312 3.86571 3.64233 3.51903 2.42232 5.06324 3.80142 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.48576 0.95510\n- 7 2.84396 4.40195 3.88638 3.41744 2.72413 3.78578 3.84496 2.58719 3.27615 2.31457 3.44541 3.65861 4.19'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02941 3.93692 4.65927 0.61958 0.77255 0.48576 0.95510\n- 562 2.03281 4.50701 2.79805 2.56150 4.29417 2.41124 3.87826 3.72499 2.77518 3.36026 4.18940 1.87418 3.72892 3.07739 3.19493 2.52731 2.82755 3.26894 5.57477 4.26204 577 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19067 3.93692 1.87022 0.61958 0.77255 0.48576 0.95510\n- 563 2.48345 4.26581 3.38389 2.96337 3.52601 2.51008 3.91742 2.78783 2.86122 2.49329 2.18911 3.29387 3.84850 3.23967 3.16364 2.69538 2.81729 2.57357 5.02948 3.77216 578 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78072 4.50306 0.61958 0.77255 0.61753 0.77495\n- 564 2.89172 4.84634 3.06137 2.70363 4.21167 3.38821 3.71527 3.63580 1.17183 3.22245 4.19149 3.13121 3.89726 2.91395 2.42425 2.94131 3.15327 3.34968 5.30630 4.10676 579 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78072 4.50306 0.61958 0.77255 0.61753 0.77495\n- 565 2.89172 4.84634 3.06137 2.70363 4.21167 3.38821 3.71527 3.63580 1.17183 3.22245 4.19149 3.13121 3.89726 2.91395 2.42425 2.94131 3.15327 3.34968 5.30630 4.10676 580 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78072 4.50306 0.61958 0.77255 0.61753 0.77495\n- 566 2.87821 4.96283 2.45763 1.16388 4.29837 3.21826 3.80082 3.73407 2.67006 3.36739 4.34842 2.88911 3.81937 3.02034 3.06706 2.87191 3.18276 3.42854 5.48761 4.21300 581 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78072 4.50306 0.61958 0.77255 0.61753 0.77495\n- 567 2.14410 4.75746 2.53083 1.72629 4.18860 3.19235 3.72552 3.47112 2.57299 3.18530 4.08961 2.84931 3.76735 2.91590 2.99202 2.66527 2.94078 3.14801 5.47521 4.13595 582 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78072 4.50306 0.61958 0.77255 0.61753 0.77495\n- 568 2.80249 4.90295 3.04112 2.57130 4.19307 3.43917 3.58241 3.65142 2.04183 3.16296 4.05654 3.02061 3.87438 1.96233 1.95592 2.82496 3.02374 3.34643 5.29738 4.03435 583 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78072 4.50306 0.61958 0.77255 0.61753 0.77495\n- 569 1.54397 4.08900 3.38259 3.07996 3.98773 2.94780 4.10957 3.04865 3.06045 2.96548 3.91868 3.25683 3.66453 3.39859 3.34977 2.40164 2.06851 2.69171 5.42324 4.20462 584 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 3.76958 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2081 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_8\n-LENG 686\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:23 2020\n-NSEQ 14\n-EFFN 1.199707\n-CKSUM 2316735805\n-GA 235 235;\n-STATS LOCAL MSV -12.4242 0.69671\n-STATS LOCAL VITERBI -13.0908 0.69671\n-STATS LOCAL FORWARD -6.4711 0.69671\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54034 4.47849 3.00715 2.59022 3.28127 2.94805 3.73948 2.85309 2.63910 2.39202 3.58629 3.14450 3.36286 3.02153 2.90637 2.68000 2.87728 2.67575 4.27264 3.36469\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07974 4.29317 2.76495 0.61958 0.77255 0.00000 *\n- 1 3.33134 4.75379 4.67927 4.17447 3.20442 4.41592 4.76588 2.37157 3.91283 1.53696 1.10738 4.43564 4.71681 4.19390 4.07393 3.80872 3.58520 2.46547 5.21123 4.02916 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02174 4.23517 4.95752 0.61958 0.77255 0.56121 0.84518\n- 2 3.59028 4.95367 4.77194 4.42856 3.31740 4.43928 4.97302 2.55488 4.19410 0.52958 3.25333 4.66999 4.82173 4.47277 4.30447 4.07706 3.87305 2.68355 5.31169 4.11381 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02174 4.23517 4.95752 0.61958 0.77255 0.56121 0.84518\n- 3 1.57460 4.37691 4.21290 3.76105 3.68833 3.80923 4.55380 1.42377 3.66279 2.43297 3.58431 3.96760 4.33052 3.96288 3.90543 3.20182 3.13962 2.06116 5.38287 4.16873 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02174 4.23517 4.95752 0.61958 0.77255 0.56121 0.84518\n- 4 3.10678 5.65336 2.02239 0.91165 4.95407 3.35959 3.92025 4.47894 2.93923 3.98368 4.84913 2.83409 3.98887 3.09161 3.52557 2.98919 3.39995 4.05369 6.11800 4.62687 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02174 4.23517 4.95752 0.61958 0.77255 0.56121 0.84518\n- 5 2.11359 4.82996 2.90830 2.51628 4.32566 3.34385 3.79050 3.76397 2.60117 3.34713 4.15343 2.36234 3.85710 2.62700 3.05206 1.74178 2.93128 3.36888 5.55667 4.21403 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02174 4.23517 4.95752 0.61958 0.77255 0.44132 1.03054\n- 6 3.36886 4.64247 5.19263 4.63209 3.32983 4.72813 5.11049 1.29462 4.50847 1.25076 2.60719 4.81901 4.91381 4.58571 4.58446 4.08828 3.59662 1.91705 5.38651 4.32036 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 7 3.30540 4.55951 5.20253 4.72524 3.79377 4.77169 5.43153 0.98389 4.62927 2.25023 3.56561 4.90645 5.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10711 4.82946 0.61958 0.77255 0.69773 0.68858\n- 679 2.45277 5.21484 2.34458 1.67939 4.52107 3.34127 3.08578 4.00174 2.46805 3.50302 4.28049 2.60660 3.81720 2.58836 2.97842 2.67706 2.97562 3.58777 5.65925 4.23524 702 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10711 4.82946 0.61958 0.77255 0.69773 0.68858\n- 680 2.24780 4.84663 2.79291 2.26032 4.10012 3.41475 3.21913 3.52368 2.29392 2.83964 3.91434 2.93362 3.80743 2.75576 2.64176 2.62160 2.83172 2.85261 5.33712 3.99320 703 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10711 4.82946 0.61958 0.77255 0.69773 0.68858\n- 681 2.59518 4.74686 2.72319 2.46080 3.33430 2.54910 3.64598 3.38836 2.21385 3.00723 3.45666 2.97385 3.82278 2.80878 2.91648 2.46933 2.82961 3.07724 5.26496 3.93968 704 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10711 4.82946 0.61958 0.77255 0.69773 0.68858\n- 682 2.17205 4.97518 2.77704 1.78436 4.29975 3.38118 3.66557 3.71612 2.21048 3.29066 4.09837 2.90885 3.83468 2.80585 2.87674 2.68128 2.63557 3.35574 5.49404 4.13646 705 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06770 4.10711 3.01590 0.61958 0.77255 0.69773 0.68858\n- 683 2.72914 5.13797 2.55814 1.95333 4.46325 2.57946 3.66568 3.92701 2.32506 3.45232 4.24819 2.18089 3.81973 2.80111 2.97041 2.42891 2.98220 3.53132 5.62607 4.22309 706 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02582 4.06524 4.78758 0.61958 0.77255 0.73532 0.65268\n- 684 1.72459 4.68344 2.84880 2.06644 4.18859 2.82139 3.78625 3.58119 2.64208 3.21860 4.04912 2.98758 3.80923 2.96436 3.08573 2.62967 2.63417 3.21136 5.46872 4.14664 707 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10151 4.06524 2.53368 0.61958 0.77255 0.73532 0.65268\n- 685 2.68267 5.05719 2.32749 1.81275 4.37327 3.30113 3.64656 3.82323 2.48704 3.37370 4.17498 2.80385 3.12226 2.78632 2.98878 2.65399 2.34366 3.44040 5.56688 4.16846 708 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02782 3.99155 4.71390 0.61958 0.77255 0.79480 0.60088\n- 686 2.03842 4.60315 2.94660 2.35991 3.98303 2.65610 3.72314 3.37068 2.57779 3.02156 3.86062 2.67507 3.79572 2.91155 3.01293 2.61509 2.82122 2.67966 5.29560 3.99002 709 a - - -\n- 2.68581 4.42250 2.77483 2.73079 3.46379 2.40508 3.72481 3.29353 2.67741 2.69380 4.24714 2.90359 2.73764 3.18127 2.89813 2.37891 2.77527 2.98543 4.58502 3.61528\n- 0.46699 0.98588 * 1.40222 0.28243 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b1_I-B_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1799 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b1_I-B_9\n-LENG 592\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:23 2020\n-NSEQ 42\n-EFFN 3.734985\n-CKSUM 2286932112\n-GA 82 60;\n-STATS LOCAL MSV -12.0437 0.69727\n-STATS LOCAL VITERBI -12.9717 0.69727\n-STATS LOCAL FORWARD -6.0603 0.69727\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73149 4.61652 2.93552 2.53782 3.08523 3.24618 3.79886 2.75290 2.36674 2.44803 3.62914 2.76799 3.68549 3.00809 3.06500 2.67622 2.94904 2.88310 4.89459 3.06391\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10227 5.82462 0.61958 0.77255 0.00000 *\n- 1 4.30240 5.60641 5.92239 5.48508 3.75559 5.39849 5.82595 3.00762 5.13149 1.92354 0.41913 5.64615 5.63223 5.27955 5.15874 4.91759 4.56773 3.23303 5.92888 4.78837 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10227 5.82462 0.61958 0.77255 0.48576 0.95510\n- 2 3.48040 4.81018 5.38140 4.78645 2.95322 4.71839 5.05371 1.37312 3.42492 0.95471 3.50500 4.85448 5.00002 4.69697 4.63130 4.04756 3.70778 2.44535 5.43863 4.31570 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10227 5.82462 0.61958 0.77255 0.48576 0.95510\n- 3 2.92071 5.42326 2.71196 2.33354 3.99209 3.69537 3.55381 3.33714 1.51925 3.72701 4.46481 2.77260 4.08874 2.38351 2.34467 2.88447 3.15176 3.81232 5.85749 3.67092 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10227 5.82462 0.61958 0.77255 0.48576 0.95510\n- 4 3.69922 6.42799 1.21165 0.92435 5.69887 3.89358 4.46556 5.26498 3.19615 4.70097 5.55241 3.03582 4.53808 3.01716 4.17784 3.54495 3.99253 4.78942 6.84028 5.26705 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10227 5.82462 0.61958 0.77255 0.48576 0.95510\n- 5 2.56077 1.97108 4.88727 4.27775 3.45683 3.70555 4.48074 1.91140 4.07645 1.53434 2.79539 4.28990 4.50879 4.21919 4.10597 3.17296 3.21143 2.45213 4.99071 3.81346 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02578 5.10227 3.94429 0.61958 0.77255 0.48576 0.95510\n- 6 2.94961 4.35250 4.74285 4.13861 3.21914 4.09935 4.42357 2.00456 3.95961 1.46553 2.88299 3.49840 4.46476 3.56419 3.60420 3.15069 2.49616 1.96315 4.97152 3.47455 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00923 5.08573 5.80807 0.61958 0.77255 0.53575 0.88003\n- 7 2.67991 5.42204 2.29738 1.59847 4.17241 3.68655 3.41697 4.25139 2.49008 3.72686 4.46305 2.25082 3.645'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00951 5.05634 5.77868 0.61958 0.77255 0.61700 0.77557\n- 585 2.49838 5.42634 2.34405 1.42436 4.76716 3.68138 3.87895 4.25175 2.02415 3.39003 4.46929 2.73490 4.08193 2.97785 3.11457 2.73661 3.15288 3.44884 5.86080 4.44955 622 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00951 5.05634 5.77868 0.61958 0.77255 0.61700 0.77557\n- 586 2.64134 5.40438 2.55020 2.12199 4.74689 3.39188 3.86165 4.23107 1.63280 3.35588 3.56283 2.37474 4.06771 2.67789 3.08973 2.71008 2.97427 3.79365 5.83856 3.79672 623 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07669 5.05634 2.69624 0.61958 0.77255 0.61700 0.77557\n- 587 2.74095 5.38973 2.77226 1.67853 4.73360 3.34496 3.83918 4.21943 1.92938 3.37266 4.43113 2.37057 4.04428 2.75144 3.06980 2.45704 2.73005 3.77981 5.82273 4.41131 624 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04777 4.98980 3.22286 0.61958 0.77255 0.77263 0.61952\n- 588 2.68398 5.36160 2.71690 2.00308 4.70430 2.88294 3.81835 3.71834 2.01422 3.66587 4.40291 2.47310 4.02442 2.64746 2.90811 2.36697 2.84162 3.03003 5.79569 4.38613 625 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03000 4.95259 3.79461 0.61958 0.77255 0.84639 0.56030\n- 589 2.53570 5.34940 2.51776 2.00425 4.69029 3.15220 3.81137 3.64734 2.32943 3.65290 3.79389 2.13222 3.59156 2.61989 3.03986 2.51273 2.87539 3.35598 5.78458 4.37612 626 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08435 4.93334 2.60793 0.61958 0.77255 0.88151 0.53471\n- 590 2.82145 5.31920 2.66904 1.85372 4.65879 3.59632 3.78448 3.34225 1.99300 3.32435 4.36138 2.45635 3.99010 2.53942 3.01322 2.39294 2.85302 3.43704 5.75507 4.34737 627 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11637 4.86057 2.28169 0.61958 0.77255 0.99897 0.45927\n- 591 2.50749 5.24014 3.05083 1.76697 4.56294 3.04352 3.75585 3.65083 2.50003 3.53589 4.28709 2.20775 3.95901 2.69065 2.80249 2.44847 2.79769 3.61884 5.68649 3.59197 628 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16756 4.75704 1.92629 0.61958 0.77255 1.13385 0.38830\n- 592 2.67574 5.34101 2.12699 1.99164 4.66552 2.67542 3.79209 4.14773 2.58637 3.64190 4.40368 1.91545 3.96853 2.90627 3.09539 2.80342 3.09160 2.94773 5.79014 4.36953 629 n - - -\n- 2.68647 4.42190 2.77498 2.72906 3.46422 2.40498 3.72524 3.29362 2.67686 2.69423 4.24616 2.90271 2.73808 3.18196 2.89837 2.37923 2.77548 2.98522 4.58545 3.61571\n- 0.96985 0.47665 * 1.35171 0.29948 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1190 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_1\n-LENG 389\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:25 2020\n-NSEQ 21\n-EFFN 1.330444\n-CKSUM 3848132950\n-GA 104 104;\n-STATS LOCAL MSV -11.6032 0.69942\n-STATS LOCAL VITERBI -12.2516 0.69942\n-STATS LOCAL FORWARD -5.3331 0.69942\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63368 4.18115 3.09727 2.60420 3.15323 3.17773 3.72311 2.68205 2.56773 2.34728 3.62300 2.87585 3.61363 3.06846 3.02416 2.64093 2.92629 2.70829 4.28394 3.38109\n- 2.68621 4.42228 2.77523 2.73115 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24602 2.90350 2.73743 3.18150 2.89804 2.37873 2.77523 2.98522 4.58480 3.61507\n- 0.64302 1.71535 1.22283 0.22912 1.58587 0.00000 *\n- 1 2.61139 4.74959 2.67143 2.19582 3.97882 3.39344 3.65150 3.37589 2.48464 3.00681 2.52298 2.72753 3.81704 2.82315 2.93789 2.65721 2.64001 3.07105 5.27464 3.94969 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02716 4.01553 4.73788 0.61958 0.77255 0.63752 0.75205\n- 2 2.49518 4.76795 2.99239 2.33128 4.00730 3.43165 3.65753 3.41629 2.37828 3.03213 2.76790 2.60687 3.52789 2.81943 2.91509 2.25457 2.84757 3.10322 5.28797 3.96390 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02396 4.13931 4.86166 0.61958 0.77255 0.45790 1.00133\n- 3 2.68561 5.13693 2.39780 1.92079 4.45248 3.42183 3.64284 3.92163 2.19719 3.42808 2.85805 2.63193 3.83772 2.58813 2.89118 2.65388 2.91983 3.51229 5.58330 4.18387 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02049 4.29392 5.01626 0.61958 0.77255 0.57039 0.83311\n- 4 2.66691 4.20994 2.27408 2.17289 4.46575 3.04447 3.30026 3.94093 2.00189 3.43640 4.18802 2.50181 3.82554 2.73225 2.86928 2.63324 2.90014 3.52059 5.58200 4.17822 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02049 4.29392 5.01626 0.61958 0.77255 0.50277 0.92849\n- 5 2.64211 4.56049 3.26750 2.70507 3.43522 3.54834 3.77542 3.11146 2.25239 2.78815 3.07349 3.17550 3.93310 3.00905 2.88391 2.16001 2.52289 2.62237 5.11313 3.46866 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01987 4.32437 5.04672 0.61958 0.77255 0.45904 0.99938\n- 6 3.46834 4.72651 5.28656 4.73953 3.39878 4.86018 5.25655 1.00055 4.60256 1.39053 2.83779 4.94528 5.02749 4.70028 4.69024 4.23598 3.69889 2.06043 5.50312 4.42656 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 4.35544 5.07778 0.61958 0.77255 0.48576 0.95510\n- 7 2.67112 4.80846 3.10210 2.15698 4.03482 3.50883 3.71145 2.73011 2.38842 3.05839 3.88540 3.05616 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 4.35544 5.07778 0.61958 0.77255 0.48576 0.95510\n- 382 2.91538 5.47184 2.19050 1.29622 4.78346 3.41539 3.79694 4.28663 2.42983 3.76406 4.54886 2.53014 3.93959 2.92751 3.20616 2.45169 3.17159 3.84968 5.90766 4.44724 405 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 4.35544 5.07778 0.61958 0.77255 0.48576 0.95510\n- 383 2.85387 4.98160 3.29321 2.69656 4.23345 3.63653 3.74098 2.85275 1.34594 2.90045 4.04048 3.17323 4.01342 2.47376 2.62668 2.89197 3.06468 3.30099 5.41929 4.14374 406 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 4.35544 5.07778 0.61958 0.77255 0.48576 0.95510\n- 384 2.54295 4.33038 3.61032 3.03771 3.45999 3.65141 3.44791 2.19969 2.95515 1.98784 3.43351 3.41974 4.02855 2.91506 2.72231 2.90415 2.76636 2.39174 4.91670 3.69195 407 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 4.35544 5.07778 0.61958 0.77255 0.48576 0.95510\n- 385 2.73875 5.00052 3.09991 2.53018 4.29474 3.16917 3.68712 3.43870 1.45582 3.27051 4.07401 3.04176 3.91559 2.66783 2.61943 2.61874 2.96286 3.03352 5.46094 4.13544 408 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 4.35544 5.07778 0.61958 0.77255 0.48576 0.95510\n- 386 2.79969 5.15933 3.07247 2.34939 4.51060 2.72325 3.67865 3.94203 1.89727 3.43913 4.22476 3.03178 3.93372 2.79463 1.81840 2.78041 2.60716 3.55881 5.57136 4.23947 409 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05963 4.35544 3.10004 0.61958 0.77255 0.48576 0.95510\n- 387 2.54054 5.09091 2.89616 1.84020 4.40086 2.85257 3.64851 3.85861 2.39290 3.37979 4.14913 2.57131 3.84875 2.76311 2.33555 2.66304 2.91645 3.46461 5.54524 3.64696 410 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14039 4.31585 2.14024 0.61958 0.77255 0.54162 0.87181\n- 388 2.18539 4.37939 3.49475 2.39304 3.27706 3.62614 3.89924 2.69144 2.89970 2.33038 3.47636 3.35761 4.01163 3.21212 3.26118 2.87963 2.88871 1.93507 5.00339 3.76195 411 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05248 4.19803 3.32132 0.61958 0.77255 0.68097 0.70548\n- 389 2.60869 4.07624 4.09155 3.50475 2.76216 3.71701 4.01433 2.31329 3.38097 1.81795 2.95348 3.38057 4.08282 3.59628 3.55425 3.00512 2.66802 2.20199 4.67516 2.75039 412 l - - -\n- 2.68631 4.42238 2.77523 2.73110 3.46367 2.40517 3.72474 3.29320 2.67754 2.69368 4.24703 2.90359 2.73752 3.18159 2.89802 2.37900 2.77522 2.98508 4.58425 3.61360\n- 0.43141 1.04866 * 0.74291 0.64575 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1025 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_2\n-LENG 334\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:26 2020\n-NSEQ 8\n-EFFN 1.785156\n-CKSUM 2085328126\n-GA 32.8 32.8;\n-STATS LOCAL MSV -10.9559 0.70047\n-STATS LOCAL VITERBI -12.2162 0.70047\n-STATS LOCAL FORWARD -5.4249 0.70047\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72236 4.00369 3.08738 2.57312 3.06315 3.17274 3.84244 2.73971 2.53648 2.29369 3.65143 2.87961 3.60092 3.11526 2.92741 2.68769 2.91114 2.74575 4.74053 3.30440\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.00000 *\n- 1 3.59718 0.22014 5.16629 5.08562 5.01227 4.03138 5.60001 4.34579 4.95250 4.18955 5.34559 4.92488 4.77618 5.26815 4.93893 3.86403 4.11866 4.02420 6.20633 5.27926 1 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 2 2.89607 4.34921 4.32605 2.45449 2.41179 4.03693 4.35524 1.50021 3.65464 2.35310 3.40113 3.99701 4.38961 3.88696 3.85746 3.33270 3.13131 1.86267 5.03478 3.83140 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 3 2.71359 4.41134 3.64357 3.08613 2.56170 3.69347 3.98112 2.22738 3.03748 2.63387 3.53359 2.17918 4.08723 3.33485 3.37693 2.50686 2.37722 2.67961 5.00967 3.77449 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 4 3.59718 0.22014 5.16629 5.08562 5.01227 4.03138 5.60001 4.34579 4.95250 4.18955 5.34559 4.92488 4.77618 5.26815 4.93893 3.86403 4.11866 4.02420 6.20633 5.27926 4 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 5 2.75821 4.57925 3.51994 2.95381 3.75549 1.71748 3.93528 2.59564 2.81571 2.78754 2.89087 3.38087 4.07505 3.20475 2.37742 2.93204 2.99886 2.85549 5.16682 3.91940 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 6 2.96268 5.47090 2.30227 1.37828 4.80338 3.53346 3.84165 4.28876 2.61462 3.76359 4.54366 2.99749 4.01941 2.96475 1.81901 2.89811 3.20688 3.86199 5.89234 4.47246 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 7 3.95642 5.64358 4.52820 3.95404 5.18547 4.24302 4.56121 4.82614 2.83061 4.21638 5.23724 4.24162 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 327 3.57612 4.85651 5.26807 4.79089 1.15276 4.77570 4.72513 1.41387 4.63774 2.00350 3.39049 4.81652 5.02404 4.67936 4.67420 4.15812 3.81362 2.45666 4.91966 3.43390 363 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 328 3.17069 4.55490 4.74584 4.19380 3.07453 4.30492 4.40920 2.58080 4.02371 1.20812 3.32782 4.31059 4.61977 4.18332 4.13232 3.62616 3.40177 2.01304 4.80294 1.78778 364 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 329 2.87781 5.15832 2.87265 1.66799 4.42218 3.55135 3.85243 2.54283 2.66537 3.42805 4.25744 1.73759 4.01480 3.00221 3.13341 2.87505 3.12411 3.46612 5.65965 4.28876 365 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 330 2.97904 5.28007 2.88763 2.61464 4.77919 1.35276 3.95514 4.23870 1.92923 3.75438 4.56727 2.28283 4.08260 3.10078 3.06817 2.96554 3.26263 3.82013 5.89238 4.53684 366 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 331 4.01417 5.30302 5.27479 4.96339 3.54930 4.83697 5.42417 2.82428 4.73686 0.34349 3.43950 5.18476 5.18621 4.92882 4.78347 4.56955 4.29150 3.02645 5.61645 4.48150 367 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 332 2.90201 4.82625 3.32343 2.87367 3.69542 3.70701 2.01066 3.39696 2.76962 1.69246 3.93412 2.35685 4.12930 3.19043 3.12492 3.00820 3.14059 3.14683 5.13570 3.72730 368 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 333 2.96117 5.40830 1.93406 2.44644 4.85955 1.83066 3.94432 4.35854 2.83848 3.85881 4.64887 2.24281 4.03241 3.08371 3.37763 1.91294 3.24976 3.90443 6.01401 4.56936 369 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54603 5.26838 0.61958 0.77255 0.48576 0.95510\n- 334 3.31070 5.40407 3.86945 3.09341 4.76231 3.97073 3.85076 4.16772 1.34683 3.61324 4.47966 3.48337 4.30484 2.98887 1.30251 3.31241 3.46187 3.86115 2.75777 4.45713 370 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01072 4.54086 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1346 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_3\n-LENG 441\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:26 2020\n-NSEQ 4\n-EFFN 0.628906\n-CKSUM 1169954216\n-GA 300 300;\n-STATS LOCAL MSV -11.9032 0.69867\n-STATS LOCAL VITERBI -12.4960 0.69867\n-STATS LOCAL FORWARD -5.7181 0.69867\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69683 4.44063 2.79586 2.56243 3.06556 3.17955 3.81692 2.69379 2.49663 2.38867 3.71252 2.88704 3.83133 3.16276 2.99966 2.70006 2.95322 2.69981 4.83069 3.16712\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.00000 *\n- 1 3.49216 4.78101 4.49939 4.15338 1.10200 4.28632 3.49233 3.16294 4.00820 2.51121 3.77437 4.00291 4.60636 4.03180 4.07910 3.65191 3.71969 3.09655 3.65502 1.56444 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 2 3.08942 5.22982 0.79521 2.39533 4.61948 3.28134 4.01388 4.22880 3.11566 3.82108 4.80172 2.95609 3.94067 3.25356 3.64388 3.04183 3.43013 3.85843 5.77019 4.47797 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 3 2.29248 2.56210 3.87877 3.46126 3.82774 3.10070 4.26356 2.90217 3.33066 2.83550 3.79763 3.51594 3.79884 3.63932 3.56644 2.53792 1.44651 2.59287 5.31228 4.11399 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 4 1.83274 4.25218 3.55488 3.05152 3.61073 3.37074 3.98704 2.71462 2.97091 2.55420 2.67896 3.36972 3.89955 3.30115 3.29516 2.71293 2.29005 2.48628 5.10450 3.88011 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 5 3.22464 4.57179 4.71185 4.18795 3.15366 4.45790 4.80177 1.64279 4.01076 1.07090 2.98740 4.45722 4.69675 4.22458 4.17397 3.82857 3.46424 2.02750 5.19756 4.04124 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 6 2.72948 4.99146 2.46854 1.47861 4.41654 3.24084 3.74873 3.86290 2.61104 3.45418 4.30405 2.83228 3.81700 2.92085 3.06929 2.09610 3.03279 3.47825 5.64151 4.25442 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 7 1.55542 4.21815 3.30089 2.95188 4.17867 2.99367 4.05738 3.57127 2.99518 3.25743 4.09039 3.20539 2.52'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 434 1.59788 4.27898 3.82668 3.38418 3.61280 3.52800 4.27295 1.85925 3.29355 2.40091 3.52887 3.64031 4.07941 3.62392 3.57533 2.91810 2.95467 2.13885 5.25175 4.01960 486 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 435 3.19793 4.81613 3.69021 3.30381 2.23902 3.91493 2.28310 3.43066 3.13709 2.87270 3.97303 3.54583 4.30503 3.47748 3.39233 3.27060 3.43079 3.24686 3.87866 1.29844 487 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 436 2.61195 4.39265 3.40014 2.95908 3.27658 3.45221 3.83441 2.92486 2.86692 2.63853 3.62063 3.31630 3.94659 3.23522 3.18429 2.80254 1.76882 2.69799 4.80259 2.45254 488 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 437 3.37615 4.75128 4.36409 4.09646 0.87313 4.04351 3.92000 2.88912 4.00131 2.23836 3.60610 4.12295 4.50043 4.14422 4.09842 3.64106 3.67753 2.88645 4.14291 2.49884 489 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 438 3.10255 4.49666 4.46428 4.08400 3.43681 4.16414 4.79564 0.97137 3.91388 2.00481 3.35862 4.31657 4.58710 4.25312 4.10006 3.66877 3.40032 1.85195 5.34613 4.09192 490 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 439 2.69024 4.63427 3.03299 2.69510 3.66881 3.40651 3.81088 3.15621 2.65911 2.17777 3.85153 1.78347 3.91974 3.07947 3.00875 2.80034 2.98470 2.91510 5.12307 3.72779 491 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 440 1.60238 4.70364 2.71916 1.96051 4.19774 3.24537 3.81828 3.48831 2.67649 3.20744 4.09491 2.96980 3.82215 3.01424 3.09227 2.68611 2.94771 3.15342 5.49918 4.17961 492 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 441 3.25866 4.69412 4.33615 3.97695 3.17207 4.09790 4.60401 2.38171 3.74379 0.77028 3.16742 4.24353 4.51787 4.09022 3.90468 3.68020 3.54895 2.44269 5.08400 3.82827 493 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01935 3.95470 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1346 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_4\n-LENG 441\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:26 2020\n-NSEQ 4\n-EFFN 0.621094\n-CKSUM 364734578\n-GA 300 300;\n-STATS LOCAL MSV -11.9357 0.69868\n-STATS LOCAL VITERBI -12.5392 0.69868\n-STATS LOCAL FORWARD -5.7471 0.69868\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69639 4.44101 2.79574 2.56417 3.06246 3.16830 3.81311 2.69286 2.50173 2.39108 3.71293 2.87987 3.83412 3.16235 2.99951 2.70094 2.95469 2.70115 4.81811 3.17307\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.00000 *\n- 1 3.48413 4.77551 4.49099 4.14335 1.10968 4.27981 3.49085 3.15604 3.99872 2.50563 3.76807 3.99727 4.60036 4.02494 4.07166 3.64498 3.71183 3.08940 3.65481 1.56595 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 2 3.08339 5.22332 0.80196 2.39145 4.61220 3.27704 4.00877 4.22025 3.10948 3.81343 4.79384 2.95198 3.93597 3.24836 3.63706 3.03633 3.42395 3.85041 5.76397 4.47143 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 3 2.29040 2.57095 3.87427 3.45654 3.82478 3.09869 4.25986 2.89840 3.32597 2.83210 3.79456 3.51254 3.79643 3.63508 3.56223 2.53574 1.45293 2.58946 5.30941 4.11084 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 4 1.83803 4.25098 3.55305 3.05001 3.60929 3.36944 3.98584 2.71136 2.96907 2.55154 2.67994 3.36831 3.89829 3.29972 3.29323 2.71180 2.29393 2.48339 5.10361 3.87918 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 5 3.22021 4.56913 4.70235 4.17875 3.15166 4.45113 4.79458 1.64701 4.00112 1.07383 2.98658 4.44893 4.69147 4.21709 4.16569 3.82158 3.46004 2.02624 5.19384 4.03590 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 6 2.72763 4.98835 2.46663 1.48176 4.41285 3.23880 3.74695 3.85871 2.60911 3.45076 4.30116 2.83059 3.81513 2.91936 3.06680 2.10193 3.03102 3.47464 5.63841 4.25164 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 7 1.56076 4.21603 3.29678 2.94851 4.17523 2.99154 4.05440 3.56733 2.99207 3.25391 4.08723 3.20248 2.525'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 434 1.60124 4.27743 3.82067 3.37863 3.61177 3.52351 4.26889 1.86537 3.28799 2.40033 3.52818 3.63537 4.07550 3.61898 3.57023 2.91377 2.95183 2.13979 5.25008 4.01752 486 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 435 3.19210 4.81173 3.68433 3.29768 2.23941 3.90974 2.29400 3.42572 3.13114 2.86893 3.96837 3.54104 4.30016 3.47229 3.38685 3.26531 3.42506 3.24164 3.87877 1.30382 487 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 436 2.60968 4.39118 3.39657 2.95579 3.27785 3.44954 3.83284 2.92291 2.86359 2.63691 3.61924 3.31344 3.94415 3.23232 3.18113 2.80002 1.77356 2.69603 4.80346 2.46260 488 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 437 3.36910 4.74576 4.35675 4.08801 0.88067 4.03791 3.91725 2.88261 3.99297 2.23303 3.60032 4.11680 4.49487 4.13732 4.09141 3.63434 3.67043 2.87956 4.14156 2.49809 489 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 438 3.09834 4.49378 4.45691 4.07634 3.43303 4.15855 4.78888 0.97726 3.90613 2.00200 3.35554 4.30965 4.58193 4.24584 4.09290 3.66257 3.39616 1.85129 5.34133 4.08673 490 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 439 2.68797 4.63268 3.02965 2.69230 3.66786 3.40351 3.80854 3.15606 2.65633 2.18505 3.85142 1.78782 3.91720 3.07700 3.00589 2.79777 2.98268 2.91443 5.12164 3.72599 491 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 440 1.60557 4.69903 2.71905 1.96624 4.19337 3.24315 3.81720 3.48260 2.67536 3.20301 4.09118 2.96913 3.82025 3.01364 3.09035 2.68417 2.94535 3.14828 5.49573 4.17674 492 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 3.95861 4.68096 0.61958 0.77255 0.48576 0.95510\n- 441 3.25251 4.68948 4.32759 3.96826 3.16976 4.09117 4.59698 2.37899 3.73515 0.77602 3.16658 4.23536 4.51199 4.08286 3.89696 3.67269 3.54300 2.43860 5.07987 3.82294 493 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 3.94930 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,218 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_5\n-LENG 65\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:26 2020\n-NSEQ 11\n-EFFN 3.187744\n-CKSUM 3254815365\n-GA 45.4 45.4;\n-STATS LOCAL MSV -8.8721 0.71883\n-STATS LOCAL VITERBI -9.5339 0.71883\n-STATS LOCAL FORWARD -3.9111 0.71883\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59824 2.71733 3.02913 2.78870 2.92313 3.04970 3.96300 2.95309 2.67805 2.53183 3.66900 2.91994 3.24678 3.17418 3.18995 2.67031 2.86350 2.87169 4.54945 3.37153\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.00000 *\n- 1 2.93152 5.44798 1.82847 1.99344 4.78763 3.65941 3.87907 3.24819 2.29339 3.75040 4.49320 2.49715 4.07577 1.96965 3.13068 2.88737 3.16609 3.83630 5.88016 4.46270 1 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 2 2.88972 5.38371 2.30518 1.57336 4.72012 3.65112 3.84800 4.20136 2.06730 2.92215 4.42775 3.12066 4.05154 2.44322 3.07897 2.85336 3.12167 3.77014 5.81939 3.05534 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 3 2.86977 5.22639 2.11561 2.22523 4.51281 3.66818 3.86364 2.99879 2.24220 3.50613 3.03189 3.16327 4.06073 2.98341 3.10730 1.89679 3.10110 2.97598 5.69614 4.32364 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 4 2.88076 5.38186 2.16252 2.32180 4.72259 3.64691 3.83937 4.20550 1.58599 3.02799 4.42453 3.11555 3.10874 2.47931 3.06687 2.84372 2.60565 3.77033 5.81597 4.40735 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 5 2.12615 5.37972 2.57109 2.57632 4.72423 3.64941 3.85476 4.20549 1.72959 3.68995 4.43330 2.33059 4.05371 2.95584 3.09149 2.11553 2.69152 3.77280 5.82585 4.41807 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 6 2.21803 5.26756 3.17633 2.26619 4.57310 3.67007 3.86501 4.02527 1.52782 2.75677 4.32709 3.16186 4.06517 2.97973 3.08784 2.28274 2.63208 3.63797 5.73205 4.35438 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 7 3.05142 5.32754 3.08759 1.87883 4.57290 2.11818 4.04924 4.06410 2.88335 3.63815 4.45205 3.26552 2.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 58 2.34213 4.85134 3.56618 3.05524 1.77654 3.77500 4.12734 3.51435 3.03651 3.18091 4.05067 3.49931 4.22640 1.71915 3.43836 2.12969 3.19116 3.23507 5.45137 4.14352 64 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 59 3.58485 1.51307 5.38016 4.87066 1.13569 4.69001 4.71457 2.94221 4.67660 1.90190 3.66438 4.80471 5.02807 4.72511 4.68290 4.05220 3.83655 2.92302 4.96574 3.47777 65 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 60 2.15303 4.41342 4.33352 3.75384 3.54090 4.00358 4.33542 2.27042 3.64489 2.61391 2.79343 3.98017 4.38616 3.87607 3.84689 1.69147 2.48089 1.94925 5.05257 3.85748 66 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 61 1.93271 4.76581 4.34979 3.98621 2.53462 3.76446 4.78150 3.72222 3.96620 3.41669 4.38599 4.09861 0.80537 4.22453 4.21915 3.19699 3.39937 3.40797 5.71241 4.38659 67 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 62 1.47175 4.79406 5.08874 4.53456 2.20243 4.52172 4.85609 2.81618 4.38255 1.07020 3.47019 4.64007 4.86283 4.50441 4.46563 3.86191 3.64118 2.81555 5.27339 4.04285 68 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 63 2.34306 4.50911 4.51903 3.95656 3.68902 1.30839 4.54161 2.25619 3.84534 2.21159 3.66091 4.15654 4.52422 4.07776 4.04030 3.43081 3.28047 1.95217 5.24500 4.05087 69 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 64 2.36460 4.37685 4.71738 4.12030 1.52388 4.11121 4.43634 2.75195 3.95014 1.79694 2.23820 4.20596 4.47395 4.11484 4.03196 2.78817 3.20193 2.59418 4.98027 3.79459 70 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97473 5.69708 0.61958 0.77255 0.48576 0.95510\n- 65 3.41215 5.09052 4.46294 4.14280 3.37141 4.17736 4.49615 3.82575 4.01844 3.45355 4.50705 4.27667 4.76069 4.33014 4.22642 3.62014 0.94722 3.58870 4.98856 1.23469 71 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00696 4.97137 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1511 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_6\n-LENG 496\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:26 2020\n-NSEQ 10\n-EFFN 0.844727\n-CKSUM 452706047\n-GA 21.3 21.3;\n-STATS LOCAL MSV -11.8595 0.69805\n-STATS LOCAL VITERBI -12.6007 0.69805\n-STATS LOCAL FORWARD -6.2177 0.69805\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50204 4.54281 2.85530 2.65831 3.15548 3.00811 3.74034 2.90660 2.69959 2.35262 3.65649 3.05121 3.34416 3.01822 2.79604 2.77291 2.86382 2.70490 4.46868 3.47868\n- 2.68627 4.42234 2.77529 2.73133 3.46325 2.40522 3.72504 3.29347 2.67750 2.69364 4.24577 2.90313 2.73721 3.18156 2.89810 2.37877 2.77529 2.98528 4.58486 3.61512\n- 0.26974 1.47673 4.82382 0.88994 0.52878 0.00000 *\n- 1 2.60187 4.49877 3.21441 2.71090 3.71726 3.16023 3.77208 3.09122 2.64098 2.75854 2.16095 3.15802 2.92270 2.66852 3.01590 2.74170 2.85607 2.83370 5.10233 3.83781 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 2 2.82659 4.27477 4.26018 3.68840 2.70420 3.95936 4.25384 1.73760 3.57281 1.58115 3.10551 3.92544 3.21538 3.78327 3.76137 3.25935 3.05953 2.22216 4.86168 3.66272 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 3 2.50275 4.92749 2.57584 2.39074 4.22889 3.39633 3.62929 3.65756 2.19203 3.22370 4.02233 2.91743 3.81601 2.76394 2.55865 2.64290 2.06006 3.29995 5.42606 4.07368 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 4 2.94616 4.56998 3.73298 2.65648 2.57573 3.83373 3.65704 3.09339 3.11183 2.68720 3.68568 3.53400 4.20593 3.42394 3.39289 3.12692 3.17432 2.89635 2.90239 1.46816 7 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 5 1.99885 4.23681 3.60975 3.31169 4.19329 3.09126 4.31848 3.29332 3.28361 3.18938 4.12953 3.45056 3.82307 3.61597 3.56100 2.55046 1.12791 2.91200 5.62026 4.41163 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 6 2.97529 4.72177 3.69547 3.62698 4.75326 0.44951 4.72741 4.41436 3.83906 4.03771 5.01959 3.86061 4.11981 4.14550 4.04435 3.15472 3.47432 3.89839 5.78195 4.86495 9 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 7 3.27851 5.04442 3.38042 3.16924 3.47026 3.66266 0.73912 4.01727 3.00720 3.47951 4.54517 3.56688 4.'..b'.68605 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67745 2.69359 4.24694 2.90351 2.73725 3.18151 2.89785 2.37891 2.77524 2.98501 4.58481 3.61508\n- 0.17711 1.86900 4.82382 0.66427 0.72288 0.48576 0.95510\n- 489 2.37774 4.97844 2.63763 1.59696 4.39374 3.31683 3.74662 3.81234 2.58232 3.39865 4.22287 2.89685 2.48257 2.90152 3.05115 2.70719 2.99091 3.43269 5.61019 4.23841 504 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 490 3.00773 5.53794 1.94798 1.06553 4.83450 3.28818 3.83217 4.34732 2.83511 3.86106 4.72107 2.76314 3.90784 3.00122 3.41225 2.89763 3.29703 3.92946 6.00472 4.52112 505 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 491 2.64506 4.33558 3.52690 2.62992 3.50946 3.62625 3.93083 2.26429 2.93862 2.49451 3.45125 3.39307 3.23493 3.25957 3.28023 2.89925 2.88865 1.72857 4.99862 3.76409 506 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 492 2.31077 4.88511 2.93280 2.23453 4.15888 3.41292 3.62058 3.58050 2.19740 3.15906 3.96234 2.93183 3.81560 2.36402 2.82049 2.63805 2.45690 3.02311 5.37440 4.03047 507 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10147 4.82382 0.61958 0.77255 0.48576 0.95510\n- 493 2.47043 4.21889 3.65184 2.88272 2.91475 3.62593 3.89704 2.47994 3.01077 2.17277 3.30547 3.43698 3.99964 2.87411 3.31559 2.88683 2.83182 1.95926 4.82206 3.60501 508 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10127 4.10147 2.52870 0.61958 0.77255 0.48576 0.95510\n- 494 2.38185 5.22869 1.80406 1.97074 4.54829 3.28011 3.68540 4.02841 2.57524 3.54701 4.34875 2.55276 3.81145 2.82710 3.11097 2.37101 3.03001 3.61895 5.72127 4.28322 509 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06776 4.02704 3.04304 0.61958 0.77255 0.56490 0.84030\n- 495 2.85543 5.23282 2.45998 1.49124 4.52549 3.32592 3.69423 3.99622 2.45602 3.51095 4.36116 2.81881 3.85875 2.10686 2.87587 2.79888 3.11030 3.62557 5.66662 4.27902 510 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15451 3.98723 2.08253 0.61958 0.77255 0.60261 0.79270\n- 496 2.56405 4.76284 2.61044 1.99793 4.23552 2.66754 3.68964 3.67038 2.54609 3.26169 4.08469 2.84486 3.22074 2.85699 3.00792 2.13657 2.86790 3.28506 5.48150 4.12990 511 e - - -\n- 2.68612 4.42228 2.77523 2.73126 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24693 2.90328 2.73743 3.18149 2.89804 2.37890 2.77499 2.98521 4.58480 3.61506\n- 0.31793 1.30067 * 0.24269 1.53486 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1352 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_7\n-LENG 443\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:27 2020\n-NSEQ 5\n-EFFN 0.522461\n-CKSUM 2006981992\n-GA 300 300;\n-STATS LOCAL MSV -11.7020 0.69865\n-STATS LOCAL VITERBI -12.5359 0.69865\n-STATS LOCAL FORWARD -5.8834 0.69865\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64425 4.40125 3.00342 2.58994 3.01208 2.86034 3.78277 2.81213 2.63663 2.31206 3.61610 3.07772 3.55847 3.20960 2.83778 2.78128 2.99187 2.61618 4.52416 3.33360\n- 2.68621 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69340 4.24608 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98498 4.58480 3.61507\n- 0.21052 2.20521 2.53062 0.85889 0.55101 0.00000 *\n- 1 2.62673 4.30252 3.70337 3.22731 3.38617 3.54566 4.09537 2.42517 3.05966 2.10933 2.05962 3.53536 4.03426 3.43510 3.33315 2.91082 2.41699 2.30289 5.05477 3.83495 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03324 3.81627 4.53862 0.61958 0.77255 0.54840 0.86245\n- 2 3.09329 4.57291 4.09865 3.73947 3.11633 3.90966 4.41287 2.31879 3.50771 0.94771 3.15906 4.02025 4.35552 3.88955 3.69249 3.47571 3.39058 2.34129 4.97400 3.68395 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03324 3.81627 4.53862 0.61958 0.77255 0.54840 0.86245\n- 3 2.63005 4.71134 1.79099 2.40737 4.00431 3.25363 3.77081 3.18250 2.69498 3.01633 3.97670 2.91581 3.80761 2.97469 3.15570 2.69119 2.93633 2.38465 5.39412 4.02465 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03324 3.81627 4.53862 0.61958 0.77255 0.54840 0.86245\n- 4 1.45004 4.16762 3.22945 2.94319 4.05275 2.95932 4.04155 3.33591 2.97964 3.09754 4.00517 3.18791 2.56634 3.31212 3.29789 2.41819 2.69516 2.92641 5.42748 4.19782 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03324 3.81627 4.53862 0.61958 0.77255 0.54840 0.86245\n- 5 3.16810 4.67985 3.75618 3.47606 2.29842 3.76537 3.59571 3.18536 3.33520 2.65353 3.86657 3.65578 4.24106 3.65474 3.53000 3.31002 3.45482 3.05341 3.93966 1.06466 8 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03324 3.81627 4.53862 0.61958 0.77255 0.54840 0.86245\n- 6 3.09329 4.57291 4.09865 3.73947 3.11633 3.90966 4.41287 2.31879 3.50771 0.94771 3.15906 4.02025 4.35552 3.88955 3.69249 3.47571 3.39058 2.34129 4.97400 3.68395 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03324 3.81627 4.53862 0.61958 0.77255 0.54840 0.86245\n- 7 2.91046 4.99488 3.24266 2.67767 4.39113 3.52888 3.57040 3.76613 1.38309 3.26211 4.14443 3.09603 3.93'..b'.68608 4.42232 2.77527 2.73131 3.46361 2.40520 3.72502 3.29361 2.67703 2.69362 4.24697 2.90354 2.73696 3.18154 2.89808 2.37894 2.77527 2.98526 4.58484 3.61510\n- 0.22708 1.64833 4.53098 1.04437 0.43373 0.44503 1.02389\n- 436 2.91227 5.41521 1.29973 1.81049 4.70450 3.17527 3.74160 4.20729 2.77089 3.74414 4.61884 2.65690 3.80560 2.91819 3.35666 2.80439 3.20767 3.80172 5.89877 4.41540 457 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03089 3.88848 4.61083 0.61958 0.77255 0.48576 0.95510\n- 437 2.78887 5.12788 2.59742 2.03092 4.46289 3.34510 3.61116 3.89498 1.73013 3.40753 4.23413 2.41529 3.82833 2.75336 2.62759 2.74912 3.02416 3.52695 5.54651 4.20353 458 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03089 3.88848 4.61083 0.61958 0.77255 0.48576 0.95510\n- 438 2.55979 4.70226 2.58117 2.08571 4.28384 2.00790 3.77146 3.71803 2.65810 3.32934 4.16880 2.87369 3.75224 2.95894 3.10186 2.20674 2.90184 3.31386 5.54695 4.20496 459 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03089 3.88848 4.61083 0.61958 0.77255 0.48576 0.95510\n- 439 2.74542 4.91092 3.11424 2.53850 4.22406 3.48092 2.89729 3.62292 1.91099 3.16498 4.00034 3.01036 3.86736 2.71671 1.98283 2.76419 2.61447 3.30139 5.32098 4.05411 460 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12803 3.88848 2.30564 0.61958 0.77255 0.48576 0.95510\n- 440 2.64663 4.75606 2.49304 1.92909 4.29045 1.81776 3.77558 3.72646 2.66440 3.35424 4.23332 2.85748 3.75457 2.98069 3.08490 2.68064 2.98477 3.34771 5.51784 4.21064 461 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03399 3.79445 4.51679 0.61958 0.77255 0.56576 0.83917\n- 441 2.28752 4.16500 3.31037 3.01103 3.88088 1.73662 4.05205 3.08588 3.01383 2.93700 3.89761 3.24728 3.70617 3.35489 3.31514 2.47940 2.72592 2.21833 5.31243 4.05858 462 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03399 3.79445 4.51679 0.61958 0.77255 0.56576 0.83917\n- 442 2.19348 4.15537 3.06198 2.85585 4.19006 2.20370 4.03672 3.65324 2.99726 3.33474 4.17748 3.10763 3.60559 3.30183 3.32656 1.50274 2.66867 3.12385 5.51808 4.26667 463 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03399 3.79445 4.51679 0.61958 0.77255 0.56576 0.83917\n- 443 2.67964 4.89422 2.40924 1.57884 4.29602 3.17845 3.69885 3.72302 2.55353 3.34563 4.21874 2.78465 3.76311 2.88303 2.98832 2.30281 2.98674 3.36036 5.54290 4.16612 464 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 3.78346 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1502 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_8\n-LENG 493\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:27 2020\n-NSEQ 3\n-EFFN 0.541992\n-CKSUM 2148985610\n-GA 300 300;\n-STATS LOCAL MSV -11.8548 0.69808\n-STATS LOCAL VITERBI -12.7818 0.69808\n-STATS LOCAL FORWARD -5.7297 0.69808\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69865 4.39847 2.77651 2.54606 3.06418 3.14464 3.81635 2.66376 2.50064 2.37699 3.72317 2.93496 3.84364 3.20115 2.99290 2.71501 2.93024 2.71222 4.88860 3.20995\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.00000 *\n- 1 3.41494 4.72682 4.41232 4.05057 1.23592 4.21996 3.46438 3.10967 3.91118 2.47404 3.72535 3.93902 4.54412 3.95782 4.00188 3.57978 3.64325 3.03619 3.63916 1.49895 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 2 3.02186 5.15525 0.87557 2.35342 4.53625 3.23336 3.95734 4.13126 3.04712 3.73411 4.71269 2.91139 3.88828 3.19640 3.56760 2.98067 3.36101 3.76716 5.69900 4.40391 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 3 2.42872 4.27392 3.45466 3.20784 3.99531 3.11225 4.22290 3.12612 3.15142 2.98854 4.03697 3.41251 3.81832 3.54468 3.40877 2.63031 1.12159 2.81787 5.43045 4.21188 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 4 1.69985 4.27464 3.63954 3.17528 3.53329 3.42041 4.08548 2.57062 3.06479 2.34635 2.46455 3.46831 3.96156 3.41334 3.36016 2.79300 2.87762 2.39515 5.12798 3.90063 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 5 3.13489 4.48765 4.62040 4.10711 3.22374 4.37778 4.75877 1.34723 3.93280 1.41717 3.07465 4.37436 4.64931 4.18892 4.11794 3.75086 3.38269 1.86060 5.22225 4.02726 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 6 2.69400 4.93083 2.46751 1.58184 4.35764 3.21699 3.72853 3.79680 2.58677 3.39859 4.25236 2.82111 3.79288 2.90418 3.03667 2.06710 2.99940 3.41860 5.59242 4.21343 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 7 1.40776 4.20665 3.28302 2.98675 4.11325 2.99538 4.08422 3.41455 3.02441 3.16408 4.05940 3.22881 2.31'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 486 1.71967 4.26459 3.80611 3.36399 3.57940 3.52833 4.25473 1.81886 3.27055 2.35559 3.49337 3.62697 4.07175 3.60465 3.55240 2.91726 2.94385 2.09483 5.22833 3.99459 486 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 487 3.02220 4.76408 3.44790 3.04053 2.42936 3.74891 1.87474 3.37908 2.87738 2.86001 3.91014 3.37119 4.15459 3.27057 3.16874 3.09400 3.25754 3.17179 4.04672 1.85048 487 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 488 2.59750 4.37671 3.37504 2.93589 3.24049 3.43705 3.80812 2.89810 2.84178 2.61078 3.59737 3.29459 3.92890 3.21228 3.15841 2.78743 1.89481 2.67390 4.76988 2.41957 488 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 489 3.29666 4.68947 4.28026 4.00035 0.96343 3.97966 3.89033 2.81644 3.90658 2.17943 3.54201 4.05321 4.43745 4.06617 4.01883 3.56515 3.59775 2.80939 4.13013 2.49322 489 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 490 3.05464 4.46472 4.37900 3.99580 3.39443 4.09944 4.71817 1.04118 3.82453 1.97408 3.32488 4.23687 4.52758 4.16959 4.01761 3.59752 3.35320 1.84656 5.29165 4.03268 490 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 491 2.67917 4.49839 3.21175 2.84219 3.47051 3.46227 3.85044 2.88278 2.74511 1.71652 3.63734 2.37856 3.95528 3.16944 3.06153 2.84730 2.96717 2.68883 4.98907 3.61923 491 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 492 1.72026 4.69537 2.67955 1.92765 4.17497 3.22633 3.78855 3.46066 2.64369 3.18184 4.07260 2.93870 3.80080 2.98383 3.05910 2.66991 2.93151 3.12989 5.47588 4.15397 492 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 493 3.18905 4.64223 4.23817 3.87797 3.14697 4.02072 4.52419 2.35246 3.64542 0.83879 3.16011 4.15052 4.45074 4.00651 3.81662 3.59483 3.48185 2.39769 5.03745 3.76783 493 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02060 3.89292 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b2_I-B_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,230 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b2_I-B_9\n-LENG 69\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:27 2020\n-NSEQ 7\n-EFFN 2.115723\n-CKSUM 460283541\n-GA 20.5 20.5;\n-STATS LOCAL MSV -9.1266 0.71877\n-STATS LOCAL VITERBI -9.5603 0.71877\n-STATS LOCAL FORWARD -3.9322 0.71877\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63197 2.80752 3.08326 2.79596 2.89494 2.95552 3.96272 2.92720 2.70183 2.51357 3.59251 2.90441 3.36331 3.23707 3.01834 2.68571 2.86146 2.84315 4.65871 3.36104\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.00000 *\n- 1 2.92583 5.43901 1.70761 1.66502 4.75360 3.55397 3.84499 4.24690 2.13362 3.73184 4.49761 3.01691 4.01930 2.96213 3.15526 2.86959 3.16869 3.81849 5.87122 2.80817 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 2 2.75641 4.79858 2.51612 2.22272 3.99840 3.62464 3.84350 2.62479 2.69513 3.03699 2.81343 3.20294 4.01339 3.03443 3.13631 2.13023 2.98835 2.49134 5.33420 4.03417 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 3 2.79146 5.22424 1.87390 2.48577 4.53945 3.54962 3.75421 4.00244 2.08053 2.69362 4.27701 3.02932 3.95486 2.34736 2.97950 2.76567 2.43583 3.59906 5.67293 4.28210 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 4 2.81274 5.30072 2.36987 2.46168 4.64108 3.53830 3.76639 4.12186 1.67319 3.60842 4.35890 2.36616 3.95913 2.87222 3.01425 2.26411 2.44288 3.69225 5.74693 4.33687 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 5 2.25907 5.13364 3.07478 2.13839 4.43132 3.56863 3.76578 3.87272 1.69158 2.62412 4.19906 3.06762 3.96700 2.88720 2.96773 2.30348 3.01687 3.49947 5.60285 4.23715 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 6 2.86452 5.07460 3.00876 2.11099 4.31213 1.92567 3.88729 3.77557 2.72020 3.37254 4.19560 3.13757 2.67545 3.05059 3.18589 2.88643 3.11364 3.44212 5.58668 2.19341 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 7 2.75443 4.71908 3.35472 2.81500 3.95346 3.62603 3.91633 3.32721 2.79833 2.34202 3.86221 1.93124 2.763'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 62 2.93769 4.76870 3.55935 3.10695 1.44296 3.77621 4.01621 3.37497 3.06080 3.00497 3.94108 3.51249 4.22688 1.96340 3.41368 2.30027 3.20449 3.13267 5.00191 3.53116 63 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 63 3.36257 1.35647 5.06650 4.68192 1.08202 4.24229 4.47643 3.13707 4.50256 2.73377 3.94416 4.52902 4.76384 4.60135 4.53570 3.70616 3.70318 3.02163 4.74842 3.16905 64 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 64 2.14345 4.40044 3.96080 3.40722 3.63386 3.74693 4.20173 2.19316 3.33825 2.68721 3.60853 3.70510 4.19855 3.61249 3.62861 1.76294 2.32209 2.10123 5.12080 3.90901 65 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 65 2.00818 4.55050 3.95618 3.52899 2.39228 3.60630 4.38193 3.32264 3.50258 3.02269 3.98551 3.76012 1.16686 3.78428 3.79760 2.99692 3.14719 3.05141 5.35708 4.04354 66 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 66 1.36549 4.52605 4.56334 4.01477 2.32563 4.14520 4.49336 2.65649 3.89069 1.49658 3.38158 4.19404 4.52463 4.08399 4.05284 3.47127 3.31552 2.58109 5.04840 3.79215 67 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 67 2.08043 4.45306 4.01789 3.50932 3.80988 1.44900 4.33486 2.95984 3.44205 2.15852 3.77254 3.76140 4.21022 3.72414 3.72897 3.02410 3.08374 2.11269 5.30395 4.09363 68 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 68 2.23055 4.25119 4.33478 3.74781 2.45563 3.90561 4.22389 2.65208 3.61485 1.94481 1.88617 3.92382 4.27560 3.82069 3.76970 2.46724 3.02866 2.47761 4.86215 3.67223 69 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 69 3.03666 4.75422 3.99338 3.60125 3.34912 3.84982 4.23396 3.39698 3.49472 3.07558 4.08122 3.85188 4.39272 3.83465 3.75876 3.24712 1.01177 3.16317 4.92912 1.77564 70 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00951 4.66025 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b3_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b3_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,971 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b3_I-B_1\n-LENG 316\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:27 2020\n-NSEQ 5\n-EFFN 1.088867\n-CKSUM 919153546\n-GA 102 102;\n-STATS LOCAL MSV -11.1217 0.70084\n-STATS LOCAL VITERBI -11.9836 0.70084\n-STATS LOCAL FORWARD -6.0237 0.70084\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43357 4.20194 3.12583 2.75051 3.28588 2.86661 3.60134 2.80459 2.67596 2.35363 3.67182 3.18394 3.42898 2.99999 2.93473 2.70406 2.81466 2.63984 4.41898 3.47214\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.00000 *\n- 1 3.32661 4.60548 5.10999 4.56587 3.38232 4.69612 5.11566 1.64112 4.44528 1.10080 3.16539 4.77194 4.90264 4.57337 4.55889 4.06335 3.56273 1.56743 5.43533 4.33720 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 2 2.68396 4.65100 3.19429 2.67319 2.39660 3.53921 2.82851 3.23825 2.63489 2.88160 3.75373 3.14602 3.93867 2.45487 3.04152 2.23024 2.91910 2.97104 5.00787 3.61276 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 3 2.82868 4.36959 3.99916 3.42964 2.50045 3.89219 4.13229 2.01695 3.32663 1.75904 3.20382 3.74756 4.23411 2.27292 3.58487 3.17001 3.05760 2.46076 4.87279 3.63469 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 4 2.96825 5.14234 3.17071 2.71809 4.55083 3.58496 3.77303 4.02416 2.23547 3.51843 4.36822 1.89211 4.04101 2.92222 1.38761 2.97379 3.20511 3.66360 5.57811 4.30755 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 5 2.81465 4.50158 3.80405 3.43944 3.63118 2.25103 4.29941 2.91165 3.34481 1.06254 3.66803 3.71735 4.17880 3.69930 3.59701 3.07329 3.15570 2.75580 5.21500 3.96959 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 6 2.62921 4.35034 3.51037 2.97997 3.41995 2.73132 3.87244 2.87914 2.92466 1.95849 3.49309 3.36331 3.99022 3.23716 3.26178 2.36130 2.87953 2.65104 4.88924 2.59017 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 7 2.14292 5.18085 2.15616 1.96487 4.52753 3.37049 3.72867 3.99586 2.57238 3.52328 4.31221 2.87234 3.8666'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 309 3.53675 4.84031 4.93052 4.48760 1.13139 4.58448 4.27925 2.59697 4.32499 1.38538 3.22532 4.51272 4.83496 4.37003 4.38611 3.96957 3.76747 2.70832 4.45671 2.88402 334 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 310 2.84992 4.93931 2.96711 2.70220 4.39236 3.43666 3.95196 3.89884 2.68050 3.45568 4.35052 3.17166 1.31374 2.14441 3.02697 2.90032 3.16934 3.53692 5.62242 4.31560 335 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 311 2.87640 5.31233 2.56000 1.93021 4.57138 3.40633 2.47579 4.09197 2.55807 3.59997 4.40949 1.67953 3.91693 2.89536 3.02785 2.81879 3.12731 3.69669 5.73147 4.30983 336 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14156 4.23716 2.14091 0.61958 0.77255 0.48576 0.95510\n- 312 2.57495 2.87627 3.34238 2.79924 3.87191 3.41198 3.82238 3.18089 1.86927 2.89990 3.77510 3.20785 3.89082 3.04771 2.94614 2.71520 2.16302 2.89305 5.21778 3.96365 337 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02443 4.12003 4.84238 0.61958 0.77255 0.40939 1.09081\n- 313 2.71765 4.47331 3.53346 2.94728 3.57536 3.65915 3.86074 2.10799 2.70674 2.06843 3.50985 3.35788 4.03098 2.52529 2.45895 2.91811 2.94265 2.69446 5.02482 3.79412 338 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 314 2.27338 4.65408 3.24177 2.67619 3.84686 3.53726 2.46120 2.60297 2.51372 2.89070 3.75411 3.14613 3.92856 2.94578 2.29918 2.77829 2.90689 2.96514 5.17965 3.89825 339 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 315 3.20950 4.54910 4.86661 4.37755 3.54471 4.48334 5.02540 1.93626 4.22447 1.63801 3.38688 4.58248 4.81143 4.48551 4.39978 3.87927 3.47918 0.95728 5.50705 4.29878 340 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 316 3.02592 5.13853 3.51820 2.82842 4.48984 3.72891 3.69809 3.84304 1.33647 2.47738 4.21086 3.25299 4.08365 2.83790 1.80684 3.04132 3.20315 3.54252 5.47015 4.26373 341 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01466 4.23012 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b3_I-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b3_I-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1694 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b3_I-B_3\n-LENG 557\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:27 2020\n-NSEQ 21\n-EFFN 1.632935\n-CKSUM 2485636696\n-GA 540 540;\n-STATS LOCAL MSV -12.0229 0.69753\n-STATS LOCAL VITERBI -12.7976 0.69753\n-STATS LOCAL FORWARD -6.2341 0.69753\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55427 4.59096 2.95289 2.55073 3.18947 3.13994 3.71122 2.91571 2.51150 2.40250 3.69058 3.04982 3.45717 2.99365 2.87714 2.66379 2.87983 2.76424 4.30136 3.36625\n- 2.68640 4.42269 2.77564 2.73086 3.46398 2.40537 3.72539 3.29398 2.67677 2.69344 4.24464 2.90320 2.73710 3.18172 2.89813 2.37847 2.77552 2.98544 4.58521 3.61547\n- 0.88848 1.13518 1.31917 1.63577 0.21667 0.00000 *\n- 1 2.16303 4.34210 3.43800 2.69719 2.92775 3.56394 3.81794 2.84481 2.82665 2.55659 2.81173 3.28754 3.94633 3.13573 2.92110 2.63251 2.61171 2.50144 4.92397 3.68528 9 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02293 4.18252 4.90487 0.61958 0.77255 0.85162 0.55638\n- 2 2.72322 4.90517 3.13895 2.56938 4.23584 3.49892 3.67184 3.62738 1.51324 3.20364 4.02649 3.05654 3.90174 2.81634 2.47310 2.54140 2.71233 2.91655 5.40008 4.10560 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02293 4.18252 4.90487 0.61958 0.77255 0.85162 0.55638\n- 3 2.65022 4.90507 3.00872 2.45584 4.19697 3.44527 3.64019 3.61902 2.10829 3.18974 3.99208 2.60025 3.84364 2.77634 2.41982 2.51178 2.23376 3.01960 5.39556 4.06021 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02293 4.18252 4.90487 0.61958 0.77255 0.76621 0.62507\n- 4 2.48741 4.85507 3.00322 2.23416 4.10487 3.44766 3.64931 3.52450 2.10961 2.67840 3.47932 2.76935 3.83973 2.79353 2.89082 2.32114 2.73615 3.19327 5.35111 4.01165 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02195 4.22564 4.94799 0.61958 0.77255 0.81283 0.58627\n- 5 2.69943 5.12035 2.67373 2.38097 4.45551 3.43527 3.62870 3.91207 1.64719 3.41233 4.18150 2.64703 3.84453 2.74097 2.47777 2.50430 2.77044 3.50950 5.55617 4.18134 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02195 4.22564 4.94799 0.61958 0.77255 0.81283 0.58627\n- 6 2.19392 4.93124 2.96685 1.99698 3.64695 3.44018 3.63784 3.63399 2.10065 3.20333 3.99839 2.95007 3.83564 2.76973 2.67222 2.65029 2.71340 3.28263 5.41156 4.05939 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02195 4.22564 4.94799 0.61958 0.77255 0.81283 0.58627\n- 7 2.51130 5.03342 2.73005 2.25134 4.33535 3.41334 3.61441 3.39380 2.11086 3.31995 4.08864 2.90024 3.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.34626 4.48618 1.26794 0.61958 0.77255 0.48576 0.95510\n- 550 2.53256 4.30459 3.89938 3.34911 2.56431 3.77061 3.80755 2.78253 3.25794 2.46353 3.41796 3.60561 3.05778 3.49913 3.50830 3.04876 2.99149 2.58715 3.35121 1.77813 587 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16330 4.88565 0.61958 0.77255 0.86793 0.54441\n- 551 2.61438 4.14540 3.89207 3.31595 3.25729 3.68603 3.46386 2.03676 3.21094 1.96556 3.25155 3.59497 4.05984 3.47208 3.45072 2.75496 2.66514 2.02269 4.76782 3.56396 588 l - - -\n- 2.68631 4.42238 2.77533 2.73137 3.46367 2.40505 3.72508 3.29367 2.67718 2.69368 4.24703 2.90360 2.73705 3.18126 2.89814 2.37900 2.77533 2.98510 4.58490 3.61385\n- 0.32120 1.31989 4.88565 0.99590 0.46107 0.86793 0.54441\n- 552 2.36814 5.02754 3.03626 2.48661 4.36853 3.48170 3.63432 3.78868 1.67015 3.31394 4.11399 2.99359 3.88002 2.56978 2.40373 2.37501 2.95641 3.42548 5.46988 4.15126 592 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16330 4.88565 0.61958 0.77255 0.86793 0.54441\n- 553 2.71975 5.09865 2.89806 1.87897 4.43362 3.44309 3.62510 3.87495 1.82895 3.38230 4.16578 2.93099 3.85373 2.74347 2.52219 2.51376 2.67698 3.48826 5.52818 4.17451 593 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16330 4.88565 0.61958 0.77255 0.86793 0.54441\n- 554 2.66256 5.08835 2.85209 1.85951 4.41024 3.40772 3.60524 3.86949 2.21333 3.37589 4.14267 2.68192 3.37219 2.56119 2.54682 2.63537 2.56532 3.46803 5.52738 4.14547 594 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16330 4.88565 0.61958 0.77255 0.86793 0.54441\n- 555 2.40745 4.70567 3.05774 2.35423 3.94045 3.15459 3.67622 3.04541 2.50278 2.97331 3.80465 3.01558 3.84326 2.60955 2.95062 2.13507 2.65752 2.82748 5.24552 3.93246 595 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16330 4.88565 0.61958 0.77255 0.86793 0.54441\n- 556 2.28905 5.06672 2.81630 2.12430 4.37899 3.39291 3.61330 3.83892 2.14004 3.35803 4.12754 2.55479 3.37551 2.55163 2.84539 2.36457 2.88557 3.44195 5.52298 4.13506 596 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16330 4.88565 0.61958 0.77255 0.86793 0.54441\n- 557 2.47512 4.87157 2.94578 2.29443 4.12984 3.07297 3.25986 3.55504 2.41766 3.14027 3.94405 2.75140 3.82253 2.31839 2.88129 2.63921 2.68568 2.64148 5.36570 4.01927 597 e - - -\n- 2.68592 4.42257 2.77498 2.72995 3.46386 2.40545 3.72527 3.29336 2.67738 2.69387 4.24722 2.90365 2.73755 3.18160 2.89819 2.37874 2.77535 2.98517 4.58509 3.61535\n- 0.49870 0.93477 * 1.45480 0.26585 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b4_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b4_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1445 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b4_I-B_1\n-LENG 474\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:28 2020\n-NSEQ 4\n-EFFN 0.566406\n-CKSUM 1701477924\n-GA 224 224;\n-STATS LOCAL MSV -11.2742 0.69832\n-STATS LOCAL VITERBI -12.6520 0.69832\n-STATS LOCAL FORWARD -6.2200 0.69832\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51488 4.39637 2.96907 2.71125 3.14339 2.92065 3.83694 2.72627 2.58710 2.39084 3.65922 3.07218 3.42558 3.16838 2.95840 2.62556 2.90897 2.63984 4.86753 3.39381\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.00000 *\n- 1 3.04741 4.85658 3.17256 2.93723 3.31830 3.48799 1.04543 3.75774 2.77898 3.24574 4.29234 3.34466 4.04311 3.30405 3.04187 3.11763 3.35236 3.49194 4.78275 3.26779 1 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 2 2.67479 4.52695 3.21249 2.83261 3.27231 3.41866 3.77552 3.18743 2.78799 2.80682 3.78507 3.23048 1.83894 3.16729 3.12437 2.81119 2.97354 2.93962 4.78231 2.47102 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 3 3.31621 4.78582 3.90883 3.64710 2.29493 3.88584 3.64093 3.31874 3.50323 2.76035 3.98878 3.78236 4.35852 3.79780 3.67718 3.44819 3.60310 3.19154 3.94056 0.88978 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 4 3.06834 4.47367 4.40374 4.02127 3.40641 4.11821 4.74045 1.02057 3.85033 1.98258 3.33423 4.25989 4.54475 4.19364 4.04142 3.61806 3.36662 1.84761 5.30719 4.04968 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 5 3.00801 5.08301 3.41840 2.77881 4.51282 3.62130 3.59653 3.87011 1.60421 3.33703 4.21864 3.17659 4.00268 2.73950 1.38771 3.01626 3.18342 3.56174 5.39547 4.22442 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 6 3.31621 4.78582 3.90883 3.64710 2.29493 3.88584 3.64093 3.31874 3.50323 2.76035 3.98878 3.78236 4.35852 3.79780 3.67718 3.44819 3.60310 3.19154 3.94056 0.88978 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 7 1.22559 4.14242 3.34506 3.10958 4.23836 2.14276 4.20174 3.57141 3.19955 3.33096 4.19396 3.27433 3.67'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 467 3.20887 4.65688 4.26634 3.90629 3.15389 4.04295 4.54700 2.36043 3.67357 0.81846 3.16169 4.17713 4.47001 4.03045 3.84186 3.61922 3.50090 2.41021 5.05066 3.78507 490 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 468 3.06834 4.47367 4.40374 4.02127 3.40641 4.11821 4.74045 1.02057 3.85033 1.98258 3.33423 4.25989 4.54475 4.19364 4.04142 3.61806 3.36662 1.84761 5.30719 4.04968 491 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 469 1.28061 4.11939 3.39177 3.12455 4.18088 2.91622 4.18345 3.50077 3.16803 3.27409 4.14018 3.27445 3.66389 3.47117 3.46385 1.85026 2.67981 3.01658 5.55737 4.33429 492 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 470 3.42428 4.73543 4.42788 4.06835 1.15999 4.23152 3.48406 3.10214 3.92778 2.46085 3.71911 3.95652 4.55623 3.97459 4.01638 3.59409 3.65351 3.03464 3.65841 1.59477 493 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 471 2.45642 4.30910 3.37715 2.93434 3.66429 3.27138 3.92492 2.97537 2.84365 2.69099 2.70932 3.26654 3.83824 3.21646 3.17047 1.65470 2.80741 2.71621 5.13364 3.85069 494 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 472 3.05932 4.89538 3.55484 3.05577 4.26208 3.53832 3.85880 3.80698 2.25650 3.31421 4.31301 3.41192 4.03846 3.07664 0.90773 3.14110 3.32194 3.52883 5.32565 4.17890 495 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 473 3.19219 4.55888 4.62233 4.10238 3.12813 4.39630 4.73296 1.72616 3.91752 1.06740 2.97518 4.38112 4.64930 4.15212 4.09246 3.76636 3.43406 2.03918 5.15848 3.98589 496 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 474 3.05932 4.89538 3.55484 3.05577 4.26208 3.53832 3.85880 3.80698 2.25650 3.31421 4.31301 3.41192 4.03846 3.07664 0.90773 3.14110 3.32194 3.52883 5.32565 4.17890 497 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 3.91066 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b5_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b5_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2498 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b5_I-B_1\n-LENG 825\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:28 2020\n-NSEQ 9\n-EFFN 0.900879\n-CKSUM 435381920\n-GA 130.3 130.3;\n-STATS LOCAL MSV -12.2561 0.69611\n-STATS LOCAL VITERBI -13.4727 0.69611\n-STATS LOCAL FORWARD -6.8538 0.69611\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55752 4.40939 2.93488 2.59364 3.29291 3.06654 3.82221 2.83815 2.55950 2.34680 3.71452 3.12153 3.48077 2.93367 2.85095 2.63961 2.90322 2.71422 4.74071 3.38608\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.00000 *\n- 1 3.19667 4.70812 4.34258 3.96392 3.35154 4.03650 4.63860 2.55472 3.71551 1.91328 0.95168 4.20661 4.50536 4.08386 3.88840 3.56943 3.51075 2.58979 5.22253 4.00399 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 2 2.79709 5.28373 2.23041 1.99578 4.60763 2.73249 3.71275 4.09524 2.58887 3.60031 4.39328 1.93842 3.84591 2.84884 3.12340 2.26585 3.05805 3.67596 5.76403 4.32211 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 3 2.29089 4.81462 3.02430 2.28669 4.06118 3.45279 3.64632 2.84255 2.39389 3.06842 3.89195 2.98963 3.84678 2.24570 2.52851 2.67777 2.86939 3.14784 5.31049 3.99132 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 4 2.37626 4.63884 3.11127 2.38777 3.84017 3.46805 3.68251 2.91679 2.16766 2.87763 3.24704 2.74483 3.85601 2.87372 2.95384 2.68500 2.83171 2.63210 5.17257 3.87526 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 5 2.66236 4.75898 3.12531 2.56296 3.99904 3.48450 3.67367 3.38695 2.38964 2.99745 3.15493 3.05259 3.87853 2.02171 2.54088 2.72197 2.36427 3.09300 5.26824 3.97373 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14825 4.13435 2.10562 0.61958 0.77255 0.48576 0.95510\n- 6 2.36992 4.35443 4.16200 3.64811 3.37876 3.89680 4.40851 2.15767 3.52216 1.37623 3.25237 3.91724 4.31392 3.81171 3.76467 3.24559 3.11446 1.81690 5.15509 3.96730 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02722 4.01332 4.73566 0.61958 0.77255 0.61262 0.78073\n- 7 2.71962 4.99575 2.61508 2.06015 4.34066 3.32355 3.68854 3.78454 2.47421 3.34768 4.17396 2.86771 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 818 2.84923 4.82742 3.36938 2.79835 4.00732 3.62245 3.76376 3.30692 1.40172 2.89548 2.53091 3.23578 4.02099 2.94797 2.58200 2.93505 3.07172 3.08438 5.29898 4.04740 860 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27277 4.13435 1.50183 0.61958 0.77255 0.48576 0.95510\n- 819 2.34852 4.39033 3.87499 3.45630 3.34295 3.69469 4.28821 2.32305 3.29418 1.28850 3.27701 3.73891 4.18678 3.66006 3.54007 3.10020 3.09056 2.23980 5.11825 3.87876 861 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03077 3.89235 4.61469 0.61958 0.77255 0.47397 0.97425\n- 820 2.73647 5.02484 2.72229 2.11422 4.37650 3.37376 3.67294 3.80608 1.99972 3.35601 4.17349 2.90542 3.85021 2.81769 2.79268 1.81156 2.98705 3.43975 5.53372 4.18620 862 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02605 4.05640 4.77875 0.61958 0.77255 0.57100 0.83232\n- 821 2.53724 4.60307 3.05046 2.62900 4.15436 3.27643 3.79761 3.54491 2.22732 3.18123 4.01715 3.06757 3.81616 2.98055 2.94387 1.71502 2.25355 3.17411 5.42080 4.13004 863 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02605 4.05640 4.77875 0.61958 0.77255 0.57100 0.83232\n- 822 2.96220 5.21400 2.87091 2.15561 4.60138 3.50354 3.68398 3.99125 1.23000 3.48765 4.34357 3.01743 3.96460 2.82681 2.46021 2.93077 3.17891 3.64470 5.58375 4.31278 864 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02605 4.05640 4.77875 0.61958 0.77255 0.43593 1.04034\n- 823 2.37148 4.32522 3.30594 3.17418 4.53914 0.97700 4.37328 4.04062 3.38978 3.71629 4.55060 3.36652 3.80285 3.66026 3.69293 2.11728 2.88139 3.42595 5.85269 4.62849 865 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10253 4.13435 2.50792 0.61958 0.77255 0.48576 0.95510\n- 824 2.91204 5.46117 1.36680 1.93777 4.75220 3.27801 3.74470 4.25226 2.25159 3.74596 4.57268 2.73570 3.85905 2.89724 3.21862 2.81186 3.18297 3.83121 5.90136 4.42626 866 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02602 4.05783 4.78018 0.61958 0.77255 0.56955 0.83420\n- 825 2.85954 5.21690 2.71637 2.09593 4.57377 3.42858 3.65665 4.00440 1.46541 3.49328 4.31301 2.50293 3.89624 2.79128 2.61015 2.81576 3.08732 3.62750 5.61074 4.27781 867 k - - -\n- 2.68620 4.42227 2.77501 2.73125 3.46356 2.40515 3.72497 3.29356 2.67728 2.69357 4.24692 2.90349 2.73742 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.17726 1.81745 * 0.29603 1.36165 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b6_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b6_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1316 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b6_I-B_1\n-LENG 431\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:28 2020\n-NSEQ 28\n-EFFN 1.179199\n-CKSUM 1158757892\n-GA 226 226;\n-STATS LOCAL MSV -11.6874 0.69881\n-STATS LOCAL VITERBI -12.4444 0.69881\n-STATS LOCAL FORWARD -6.0758 0.69881\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59086 4.56252 3.04494 2.63090 3.11244 2.94269 3.76509 2.80038 2.58376 2.42375 3.54907 2.96318 3.62620 3.01918 3.02778 2.68244 2.81865 2.77397 4.11445 3.25374\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04217 4.28304 3.59385 0.61958 0.77255 0.00000 *\n- 1 3.32861 4.82409 4.49940 4.14078 3.44799 4.14490 4.78588 2.66632 3.88369 1.99783 0.78717 4.36462 4.62257 4.24736 4.03932 3.71001 3.64961 2.71488 5.32956 4.11926 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26203 4.98438 0.61958 0.77255 0.51398 0.91157\n- 2 2.67845 4.13837 4.16027 3.57878 3.01511 3.79190 4.06845 1.80854 3.45363 2.17142 3.23355 3.28445 4.15553 3.67054 3.62758 3.08288 2.91121 1.99533 4.70529 2.47958 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26203 4.98438 0.61958 0.77255 0.51398 0.91157\n- 3 1.92510 4.28163 3.72374 3.39222 4.35242 3.11260 4.39028 3.66074 3.38556 3.42945 4.28001 3.50552 3.85549 3.68157 3.67748 2.26414 1.06221 3.17867 5.72741 4.52884 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26203 4.98438 0.61958 0.77255 0.51398 0.91157\n- 4 2.10336 4.41173 3.44925 2.90763 3.73738 3.45223 3.91470 2.75814 2.86728 2.78769 3.42441 3.29998 3.93142 3.18759 3.24455 1.92106 2.13859 2.77094 5.15077 3.90276 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26203 4.98438 0.61958 0.77255 0.51398 0.91157\n- 5 2.55084 4.26430 3.65717 3.08909 3.39216 3.64288 3.91877 2.55068 3.02273 2.40780 3.37664 2.85323 4.02315 3.31122 3.33490 2.90327 2.35912 1.96546 4.86641 2.79295 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26203 4.98438 0.61958 0.77255 0.51398 0.91157\n- 6 3.33441 4.60762 5.11692 4.61756 3.58001 4.73854 5.26680 0.86053 4.47616 1.87571 3.37684 4.82784 4.98808 4.70583 4.63561 4.13816 3.59054 1.69941 5.64062 4.45932 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26203 4.98438 0.61958 0.77255 0.51398 0.91157\n- 7 3.22372 4.94199 3.97545 3.93233 5.03248 0.32053 5.01018 4.74527 4.16542 4.34261 5.33417 4.14178 4.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02120 4.26006 4.98240 0.61958 0.77255 0.51657 0.90774\n- 424 3.85550 5.18491 4.43566 4.25274 2.42113 4.30140 3.87255 3.81801 4.10141 3.16714 4.45395 4.23477 4.77287 4.30898 4.19787 3.94624 4.14780 3.70862 4.07428 0.50475 452 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02120 4.26006 4.98240 0.61958 0.77255 0.51657 0.90774\n- 425 1.55647 4.54139 3.27052 2.65275 3.83227 3.47880 3.84498 2.91084 2.62750 2.86927 3.74450 3.20716 3.93126 3.07833 3.11337 2.76097 2.37221 2.86293 5.20948 3.94241 453 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02120 4.26006 4.98240 0.61958 0.77255 0.51657 0.90774\n- 426 2.52748 4.18330 3.79546 3.07916 2.78225 3.66451 3.94475 2.55560 3.00427 2.20265 3.29393 3.25043 4.03835 3.40178 3.40635 2.93228 2.56152 2.16083 4.78327 2.55375 454 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02120 4.26006 4.98240 0.61958 0.77255 0.51657 0.90774\n- 427 2.53200 4.12604 3.95679 2.96423 3.06729 3.69637 3.98990 2.00413 3.27147 2.04375 3.23698 3.62901 4.06730 3.30314 3.49047 2.74470 2.84642 2.11900 3.92797 3.53566 455 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04059 4.26006 3.66292 0.61958 0.77255 0.51657 0.90774\n- 428 2.52438 4.35965 2.86070 1.96538 4.26005 3.42651 3.62941 3.31973 2.24125 3.25546 4.03772 2.26378 3.82395 2.75280 2.87172 2.63201 2.76478 3.33282 5.45044 4.08182 456 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04402 4.24108 3.55189 0.61958 0.77255 0.54080 0.87295\n- 429 2.53927 5.08008 2.94614 2.40561 4.41033 3.18905 3.42414 3.85830 1.86102 3.36763 4.14137 2.46192 3.84532 2.73514 2.33224 2.45928 2.91613 3.46649 5.51753 4.15544 457 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08809 4.21916 2.66481 0.61958 0.77255 0.56753 0.83685\n- 430 2.72075 5.07944 2.92674 2.34925 4.40419 3.45273 3.62159 3.53436 1.66994 3.35417 4.14234 2.47804 3.85710 2.42620 2.66846 2.60907 2.94420 3.46286 5.50420 4.15863 458 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09633 4.15465 2.57514 0.61958 0.77255 0.63924 0.75013\n- 431 2.62047 4.85431 2.96942 2.29004 4.11327 3.42362 3.61542 3.34878 2.12898 2.66718 3.92499 2.47915 3.81760 2.75768 2.70192 2.41206 2.84938 3.19846 5.33791 4.00314 459 k - - -\n- 2.68624 4.42231 2.77526 2.73129 3.46360 2.40519 3.72501 3.29349 2.67728 2.69361 4.24696 2.90324 2.73746 3.18153 2.89807 2.37885 2.77489 2.98525 4.58483 3.61509\n- 0.23691 1.55620 * 0.66959 0.71727 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b7_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b7_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1016 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b7_I-B_1\n-LENG 331\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:28 2020\n-NSEQ 3\n-EFFN 0.588867\n-CKSUM 3874302124\n-GA 630 630;\n-STATS LOCAL MSV -10.8669 0.70052\n-STATS LOCAL VITERBI -12.1732 0.70052\n-STATS LOCAL FORWARD -5.5145 0.70052\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72719 4.55741 2.82607 2.70685 3.05328 3.12024 3.81877 2.69568 2.60006 2.27517 3.66041 2.95306 3.54061 3.16347 2.99263 2.68068 2.95876 2.63620 4.82950 3.19634\n- 2.68623 4.42230 2.77524 2.73128 3.46358 2.40517 3.72499 3.29359 2.67745 2.69360 4.24527 2.90351 2.73744 3.18151 2.89805 2.37891 2.77486 2.98523 4.58482 3.61508\n- 0.21990 1.67174 4.65858 0.66490 0.72222 0.00000 *\n- 1 2.49347 4.32777 3.37633 2.97078 3.69821 1.79544 3.97063 2.99634 2.90237 2.70278 2.46683 3.30114 3.86033 3.27083 3.22106 2.68430 2.84817 2.74273 5.16197 3.90248 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93624 4.65858 0.61958 0.77255 0.48576 0.95510\n- 2 3.03052 4.99669 3.21075 2.82037 4.39768 3.51306 3.79489 3.83095 0.95433 3.38217 4.34026 3.24201 4.00896 2.98281 2.44434 3.06837 3.27908 3.53516 5.42621 4.24817 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93624 4.65858 0.61958 0.77255 0.48576 0.95510\n- 3 2.35397 4.29143 3.23841 2.93086 4.10407 3.06701 4.04257 3.41169 2.93473 3.14484 4.05281 3.21903 1.74256 3.29690 3.26137 2.51597 2.02123 3.01643 5.46421 4.22238 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93624 4.65858 0.61958 0.77255 0.48576 0.95510\n- 4 3.05844 5.19612 0.83076 2.37567 4.58177 3.25927 3.98775 4.18453 3.08402 3.78154 4.76109 2.93522 3.91658 3.22705 3.60885 3.01365 3.39839 3.81695 5.73797 4.44422 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93624 4.65858 0.61958 0.77255 0.48576 0.95510\n- 5 2.77287 4.51977 3.36205 3.00207 1.77366 3.55914 3.71921 3.04705 3.01553 2.66842 3.70569 2.20284 4.04006 3.32055 3.33779 2.93332 3.05962 2.84158 4.41347 2.82884 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93624 4.65858 0.61958 0.77255 0.48576 0.95510\n- 6 2.67039 4.78921 2.93533 2.55351 4.27451 3.32670 3.70245 3.69089 1.62423 3.27609 4.12731 3.01098 3.84100 2.86968 2.62288 2.01581 2.95989 3.32723 5.43721 4.14651 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93624 4.65858 0.61958 0.77255 0.48576 0.95510\n- 7 3.01918 4.43365 4.45925 3.96184 3.31904 4.18634 4.66445 1.94121 3.80119 1.47010 3.18948 4.21835 4.53'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93624 4.65858 0.61958 0.77255 0.48576 0.95510\n- 324 3.33981 4.72290 4.32610 4.05277 0.91291 4.01453 3.90607 2.85571 3.95821 2.21112 3.57650 4.09118 4.47174 4.10864 4.06219 3.60643 3.64100 2.85108 4.13639 2.49547 345 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21990 3.93624 1.72665 0.61958 0.77255 0.48576 0.95510\n- 325 2.85602 4.92969 2.45109 1.21137 4.26212 3.20142 3.78390 3.69202 2.64962 3.33098 4.31521 2.87794 3.80171 3.00532 3.04206 2.85401 3.16102 3.39024 5.45712 4.18451 346 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03550 3.75183 4.47418 0.61958 0.77255 0.63754 0.75203\n- 326 2.62984 4.61496 2.65536 2.53088 3.96003 3.10781 3.83560 3.64849 2.73148 3.31076 4.27022 1.39192 3.75589 3.11193 3.07871 2.70412 3.01003 3.28306 5.28071 3.91991 347 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03550 3.75183 4.47418 0.61958 0.77255 0.63754 0.75203\n- 327 3.02325 4.52389 3.99266 3.63676 3.09712 3.82369 4.33043 2.30071 3.40548 1.04030 3.16654 3.92324 4.28314 3.80307 3.59943 3.38714 3.32493 2.30572 4.92788 3.62192 348 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03550 3.75183 4.47418 0.61958 0.77255 0.63754 0.75203\n- 328 2.26329 4.17959 3.10840 2.92296 3.95737 2.91200 4.03402 3.46559 2.98816 3.19702 4.13672 3.16454 3.64175 3.34824 3.27496 1.28925 2.73515 3.02767 5.34073 4.04122 349 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03550 3.75183 4.47418 0.61958 0.77255 0.63754 0.75203\n- 329 2.26329 4.17959 3.10840 2.92296 3.95737 2.91200 4.03402 3.46559 2.98816 3.19702 4.13672 3.16454 3.64175 3.34824 3.27496 1.28925 2.73515 3.02767 5.34073 4.04122 350 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03550 3.75183 4.47418 0.61958 0.77255 0.63754 0.75203\n- 330 2.26329 4.17959 3.10840 2.92296 3.95737 2.91200 4.03402 3.46559 2.98816 3.19702 4.13672 3.16454 3.64175 3.34824 3.27496 1.28925 2.73515 3.02767 5.34073 4.04122 351 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03550 3.75183 4.47418 0.61958 0.77255 0.63754 0.75203\n- 331 2.26329 4.17959 3.10840 2.92296 3.95737 2.91200 4.03402 3.46559 2.98816 3.19702 4.13672 3.16454 3.64175 3.34824 3.27496 1.28925 2.73515 3.02767 5.34073 4.04122 352 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02403 3.74037 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b8_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b8_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1805 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b8_I-B_1\n-LENG 594\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:29 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 3441833426\n-GA 700 700;\n-STATS LOCAL MSV -11.8121 0.69729\n-STATS LOCAL VITERBI -13.0327 0.69729\n-STATS LOCAL FORWARD -6.4399 0.69729\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57388 4.39565 2.93847 2.74177 3.13419 2.84098 3.76222 2.81805 2.69776 2.32592 3.72202 2.99249 3.43377 3.09677 2.90390 2.69918 2.90870 2.66463 4.72125 3.29233\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.81492 4.79295 2.84938 2.60564 3.94874 3.30964 3.76215 3.56834 2.43346 3.07937 4.11265 3.06347 3.86367 1.40234 2.71822 2.86783 3.11335 3.30450 5.23821 3.92680 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.91983 4.31695 3.91799 3.86633 3.42132 3.45025 2.66908 4.12393 2.50391 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 587 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 587 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 588 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 588 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 589 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 589 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 590 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 590 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 591 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 591 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 592 2.89761 5.00462 1.05533 2.28844 4.37075 3.14652 3.85898 3.93947 2.92732 3.56508 4.54379 2.83917 3.79336 3.09992 3.42916 2.87201 3.23525 3.58914 5.55658 4.26178 592 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 593 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 593 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 594 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 594 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b9_I-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8b9_I-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1418 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8b9_I-B_1\n-LENG 465\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:29 2020\n-NSEQ 4\n-EFFN 0.824219\n-CKSUM 73616432\n-GA 720 720;\n-STATS LOCAL MSV -11.6011 0.69838\n-STATS LOCAL VITERBI -12.6688 0.69838\n-STATS LOCAL FORWARD -5.8419 0.69838\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73337 4.67418 2.94475 2.61494 3.08775 3.04589 3.88659 2.65819 2.48671 2.29108 3.65807 2.98242 3.55346 3.21260 2.99003 2.65214 2.93704 2.70045 4.86232 3.27692\n- 2.68696 4.42032 2.77597 2.73201 3.45707 2.40591 3.72572 3.29344 2.67629 2.69144 4.24540 2.90425 2.73818 3.18224 2.89879 2.37894 2.77597 2.98532 4.58555 3.61460\n- 0.40294 1.54694 2.13075 2.82460 0.06117 0.00000 *\n- 1 3.21338 4.61319 4.57891 4.03473 3.05975 4.36464 4.65604 2.20758 3.83745 1.10702 1.88521 4.32666 4.60689 4.05922 4.00787 3.71569 3.44507 2.31399 5.08971 3.96171 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02838 3.97196 4.69431 0.61958 0.77255 0.60394 0.79109\n- 2 2.72388 4.33710 3.88283 3.44474 1.65861 3.63593 4.01891 2.59719 3.35660 2.23935 3.40129 3.66818 4.12807 3.62927 3.59731 3.01347 2.26760 2.46416 4.63725 3.17356 26 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02838 3.97196 4.69431 0.61958 0.77255 0.60394 0.79109\n- 3 2.76107 4.92206 2.59982 1.88267 4.34911 3.28321 3.80225 3.77834 2.64299 3.38332 4.26145 2.92814 1.72538 2.98926 3.06456 2.77657 3.06511 3.42285 5.57173 4.24716 27 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02838 3.97196 4.69431 0.61958 0.77255 0.60394 0.79109\n- 4 3.11967 4.95055 3.62066 3.11188 4.33041 3.58772 3.89951 3.87956 2.28192 3.37745 4.37563 3.46372 4.08599 3.11541 0.83666 3.19940 3.37919 3.59936 5.37346 4.23678 28 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02838 3.97196 4.69431 0.61958 0.77255 0.60394 0.79109\n- 5 2.71910 4.84700 2.97033 2.57633 4.32848 3.36610 3.70374 3.74254 1.46582 3.31416 4.16670 3.03268 3.87021 2.86625 2.57054 2.17023 2.99915 3.38015 5.45953 4.17602 29 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02838 3.97196 4.69431 0.61958 0.77255 0.60394 0.79109\n- 6 2.78717 4.32024 4.10101 3.63666 3.52926 3.83046 4.44568 1.35089 3.50073 2.22048 3.41557 3.89325 4.29691 3.83700 3.74864 3.21064 2.32977 1.90086 5.26624 4.04512 30 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02838 3.97196 4.69431 0.61958 0.77255 0.41838 1.07328\n- 7 3.07254 4.46384 4.42465 3.91763 1.52437 4.10029 3.83917 2.71441 3.77695 2.13513 2.42461 3.97982 4.4213'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14468 4.08919 2.13751 0.61958 0.77255 0.48576 0.95510\n- 458 3.09949 5.24062 0.78410 2.40187 4.63160 3.28855 4.02244 4.24306 3.12602 3.83384 4.81486 2.96299 3.94852 3.26228 3.65530 3.05104 3.44047 3.87180 5.78053 4.48887 555 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02836 3.97286 4.69521 0.61958 0.77255 0.60314 0.79207\n- 459 2.60561 4.26527 3.74576 3.31646 3.51609 3.52519 4.16700 1.51652 3.21232 2.43731 3.51168 3.58519 4.05590 3.55560 3.48162 2.24256 2.93520 2.21292 5.10686 3.84250 556 i - - -\n- 2.68621 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67718 2.69358 4.24693 2.90317 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61507\n- 0.16513 1.94437 4.69521 0.66013 0.72730 0.60314 0.79207\n- 460 2.61439 4.25515 3.97681 3.55229 3.68275 3.55177 4.40670 2.20103 3.44202 2.44994 3.58045 3.75186 4.12794 3.77543 3.69865 2.96171 2.23093 1.29135 5.34611 4.12146 559 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02836 3.97286 4.69521 0.61958 0.77255 0.60314 0.79207\n- 461 2.69756 4.57084 3.14600 2.78328 3.57155 3.45817 3.84322 3.00848 2.71847 1.84811 3.73012 2.05340 3.95380 3.13586 3.05409 2.83937 2.98436 2.79688 5.06169 3.68677 560 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02836 3.97286 4.69521 0.61958 0.77255 0.41879 1.07248\n- 462 2.77454 4.88217 2.94325 2.63345 4.45320 1.64225 3.84177 3.88804 1.67769 3.45943 4.31195 3.09652 3.92086 3.01623 2.81314 2.81894 3.08435 3.49999 5.58570 4.31846 561 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 463 2.31449 4.28208 3.28897 3.09453 4.47341 1.40175 4.27633 3.95287 3.26702 3.61560 4.43545 3.30263 3.75224 3.54101 3.59450 1.55215 2.81090 3.35217 5.78618 4.55512 562 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 464 2.95672 5.24232 2.83771 2.03126 4.62490 3.49890 3.69238 4.02479 1.27010 3.51547 4.36260 3.00354 3.96295 2.83250 2.50934 2.91923 3.17595 3.66905 5.61318 4.32675 563 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 465 2.95727 5.24220 2.83888 2.03430 4.62499 3.49940 3.69246 4.02466 1.26823 3.51534 4.36264 3.00420 3.96334 2.83262 2.50830 2.91987 3.17640 3.66909 5.61291 4.32687 564 k - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40514 3.72496 3.29356 2.67742 2.69357 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98484 4.58479 3.61505\n- 0.13744 2.05252 * 0.33148 1.26536 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1745 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8c_I-C_1\n-LENG 574\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:29 2020\n-NSEQ 12\n-EFFN 2.288086\n-CKSUM 368589791\n-GA 326 326;\n-STATS LOCAL MSV -11.9399 0.69740\n-STATS LOCAL VITERBI -13.0069 0.69740\n-STATS LOCAL FORWARD -6.1751 0.69740\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48030 4.47706 2.95042 2.57152 3.33760 2.96253 3.65589 2.99382 2.60106 2.41944 3.74675 3.06433 3.33482 2.98367 2.80470 2.65245 2.86784 2.77183 4.52372 3.43768\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.00000 *\n- 1 1.82191 4.50653 4.05218 3.58711 4.01954 3.58037 4.43998 3.32783 3.51632 3.06708 1.32197 3.78661 4.19486 3.80808 3.79813 1.87766 3.11273 3.03677 5.48356 4.27620 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 2 2.83744 4.25294 4.53380 2.85936 2.60932 3.97784 4.28114 1.65015 3.77513 2.33345 2.36739 4.04570 4.33715 3.95033 3.87404 3.27859 3.06886 2.47327 2.49987 3.64110 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 3 3.92362 5.15591 5.77785 5.20278 3.42118 5.28418 5.59338 2.53430 5.05723 0.57375 2.35251 5.41637 5.34021 4.97740 5.04139 4.67051 4.13201 2.12613 5.63919 4.67595 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 4 2.37593 5.01900 3.23075 2.66878 4.28428 3.63836 3.83279 3.69264 2.56939 2.63671 4.10422 3.17826 4.03242 1.59356 2.53398 2.85722 2.43711 3.36780 5.51990 4.19737 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 5 1.72872 5.20110 2.51708 1.93038 4.49954 3.56867 2.89431 3.95588 2.54823 3.48710 3.11694 3.05536 3.97531 2.89834 3.03479 2.78593 3.03718 3.56720 5.66309 4.27766 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 6 4.26820 5.51761 5.55369 5.26355 3.70788 5.06076 5.68582 3.00356 5.04880 0.26835 3.57875 5.48000 5.39617 5.18862 5.05866 4.85915 4.54292 3.24430 5.80595 4.70598 6 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 7 2.37229 4.68366 3.41741 2.85558 3.84749 3.68929 2.59294 3.23085 2.43248 2.62665 3.77646 2.85725 4.073'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 567 3.17029 4.57399 4.67261 4.12504 1.86375 4.24143 4.16920 2.94784 3.94340 1.28505 3.57791 4.19459 4.58308 4.11072 2.75750 3.54869 3.39778 2.81849 4.54150 2.09456 756 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 568 4.16231 5.33764 5.29394 4.99766 0.97956 4.92568 3.92000 3.91943 4.79028 3.30268 4.50164 4.60324 5.21866 4.68752 2.71653 4.28398 4.37331 3.79663 2.52351 1.31132 757 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 569 2.13005 5.19579 3.17998 2.61128 4.51366 3.63422 3.19494 3.94939 1.84157 3.47788 4.26208 3.13315 4.02416 2.91630 2.42499 2.84835 1.88186 3.57570 5.64315 4.29662 758 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 570 2.40730 5.37011 3.19378 2.76574 4.84493 3.71203 3.95408 4.27051 1.01104 3.76229 4.56754 2.28050 4.17271 3.08234 2.86485 3.05072 3.31195 3.86868 5.87302 4.55813 759 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 571 3.37185 5.61113 3.80563 3.07442 5.11876 4.01449 3.91738 4.45610 1.07918 3.83738 4.67279 3.49677 4.35605 2.33308 1.55940 3.33824 2.94701 4.10064 5.84469 4.66563 760 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 572 2.44509 5.43102 2.34782 1.72661 4.76456 2.49054 3.83098 4.25807 2.22562 3.73198 4.48369 2.18814 4.01190 2.93992 3.12837 2.84540 3.14006 3.81718 5.86433 4.43388 761 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 573 2.12713 5.27228 2.55288 2.01431 4.60924 2.63627 3.74293 4.08990 2.24640 3.57452 4.31685 3.01881 3.94619 2.84296 2.72797 2.50903 2.53169 3.65892 5.71060 4.30347 762 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72160 5.44395 0.61958 0.77255 0.48576 0.95510\n- 574 2.51421 5.29810 2.67804 1.46503 4.62748 3.55960 3.77367 4.10433 1.97565 3.06509 4.34749 3.03128 3.97132 2.87906 3.01666 2.56034 3.05197 3.68094 5.73901 4.33285 763 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 4.71727 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1736 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8c_I-C_2\n-LENG 571\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:29 2020\n-NSEQ 37\n-EFFN 2.804810\n-CKSUM 1333983640\n-GA 259 259;\n-STATS LOCAL MSV -12.0569 0.69742\n-STATS LOCAL VITERBI -13.0055 0.69742\n-STATS LOCAL FORWARD -6.2672 0.69742\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47053 4.45240 2.97494 2.60718 3.33385 2.96863 3.64363 2.95943 2.60822 2.43649 3.77307 3.06231 3.35393 2.95748 2.80847 2.63594 2.84657 2.80202 4.46227 3.38208\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.00000 *\n- 1 3.58119 4.88328 5.52143 4.91465 2.54425 4.82232 5.10475 1.91677 4.73054 0.88753 2.01317 4.98038 5.03247 4.71618 4.69741 4.16039 3.79614 2.86955 3.94737 4.27538 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 2 2.65230 5.31440 3.09141 2.34044 4.64943 3.60931 3.02076 4.12629 2.42277 3.33698 4.35831 2.93966 4.00250 1.71468 2.61616 2.29026 2.55114 3.69976 5.75189 4.35007 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 3 1.85230 5.25726 3.11361 2.17112 4.57010 3.61686 3.47855 4.03271 2.02169 3.54790 3.79090 3.09841 4.00927 2.76197 2.83904 2.08726 3.06132 3.63054 4.25015 4.32027 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 4 4.29641 5.48383 6.09651 5.58381 3.52974 5.65648 5.95182 2.43144 5.38397 0.33575 3.28653 5.83758 5.63980 5.27078 5.33603 5.13136 4.50729 2.95603 5.83782 4.85050 4 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 5 2.61070 3.66633 3.52322 2.75469 3.85542 3.76144 2.78310 2.97799 2.71976 2.55060 3.79024 2.82173 4.14466 3.07947 3.09003 2.99010 2.93956 2.46906 5.25705 2.08538 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 6 2.86187 5.37528 2.15864 1.72591 4.71959 2.86036 3.81277 4.20600 2.12082 3.67884 4.41816 3.07778 4.01627 2.65854 2.32987 2.82067 2.90433 3.76592 5.80557 4.39293 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 7 2.30930 4.40095 4.24979 3.67509 3.12494 3.96650 4.24607 2.83304 3.56777 2.18935 3.50943 3.91311 4.34'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 564 2.54989 2.08661 3.46346 2.93429 4.16035 3.70579 1.67870 3.56082 2.87094 3.21308 4.06238 3.39434 4.15064 2.48822 3.27230 2.61824 3.13315 3.26303 5.49654 4.21078 795 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 565 3.63678 5.96353 3.03799 2.44672 5.32635 3.94159 4.35543 4.86244 3.01432 4.30742 5.21241 3.46786 4.52349 0.54783 3.34922 3.55747 3.90274 4.48111 6.35461 5.01515 796 Q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 566 3.07742 5.50284 3.65240 2.99590 4.91610 3.95634 3.96709 4.29658 1.68874 3.75772 4.57722 3.45635 4.32056 3.08816 1.00024 2.92639 3.12370 3.94177 5.83950 3.99400 797 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 567 2.27661 5.27185 3.10454 2.43830 4.59047 3.41756 3.18466 4.05746 2.36338 3.25431 3.46062 2.52255 4.00518 1.78350 2.72633 2.80404 3.05948 3.26001 5.72024 4.32696 798 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 568 1.71344 5.24440 2.65952 2.14782 4.55250 3.61554 3.22624 4.01318 2.33426 3.53374 4.29498 3.09893 4.00814 2.71099 2.93716 2.72692 3.05801 2.93830 4.25064 3.49151 799 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 569 2.89288 4.29944 4.63368 4.03834 1.90021 4.03123 4.29855 2.35818 3.86528 1.52426 3.41353 3.20767 4.39508 4.03021 3.16919 3.33404 3.12463 2.55055 4.10320 2.66256 800 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 570 2.53746 4.40383 4.04912 3.47177 2.03306 3.89871 4.17912 2.64837 3.00708 2.40452 3.51502 3.41491 4.27202 3.64703 2.46363 2.91123 3.07578 2.66382 4.06424 2.22577 801 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01141 4.87471 5.59705 0.61958 0.77255 0.48576 0.95510\n- 571 2.30054 5.33258 2.67273 2.17040 4.67508 3.60114 3.58751 4.15921 2.12787 3.63662 4.37407 2.96612 3.39030 2.73946 2.54434 2.66046 1.99914 3.72187 5.76658 4.35718 802 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00770 4.87099 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2162 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8c_I-C_3\n-LENG 713\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:30 2020\n-NSEQ 18\n-EFFN 2.456543\n-CKSUM 3404499339\n-GA 380 380;\n-STATS LOCAL MSV -12.2346 0.69657\n-STATS LOCAL VITERBI -13.2088 0.69657\n-STATS LOCAL FORWARD -6.3123 0.69657\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49485 4.39569 2.98911 2.58703 3.42431 3.03320 3.77563 2.90261 2.53766 2.38895 3.61255 2.99163 3.33008 2.95790 2.92168 2.63417 2.86983 2.82347 4.41876 3.45500\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01263 4.77414 5.49648 0.61958 0.77255 0.00000 *\n- 1 4.00770 5.44323 5.22287 4.97759 4.02603 4.65919 5.50929 3.32384 4.70413 2.55173 0.33467 5.12225 5.19135 5.04930 4.78319 4.40399 4.36837 3.42371 5.90938 4.74018 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01263 4.77414 5.49648 0.61958 0.77255 0.48576 0.95510\n- 2 3.98175 5.17743 5.91395 5.38704 3.58531 5.44187 5.83526 1.16900 5.24732 0.80908 3.33120 5.59899 5.49316 5.20344 5.24629 4.87171 4.20422 2.47191 5.83818 4.83102 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01263 4.77414 5.49648 0.61958 0.77255 0.48576 0.95510\n- 3 3.05512 5.10531 3.27654 3.19232 5.03823 3.60436 4.59525 4.55183 3.51753 4.20986 5.08240 0.56933 4.32851 3.82795 3.89160 3.15251 2.62608 4.02338 6.31998 4.98160 3 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01263 4.77414 5.49648 0.61958 0.77255 0.48576 0.95510\n- 4 4.13871 6.15689 3.32790 0.23339 5.68916 4.17167 4.95433 5.38499 3.99904 4.86486 5.89776 3.90724 4.83955 4.21274 4.44281 4.07296 4.47902 4.99966 6.64350 5.52183 4 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01263 4.77414 5.49648 0.61958 0.77255 0.48576 0.95510\n- 5 3.50137 4.88392 5.21312 4.69193 3.59464 4.67438 5.20109 2.51721 4.51437 0.60791 3.40302 4.84454 5.00258 4.67160 4.61720 4.05607 2.87359 2.17633 5.58896 4.49944 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01263 4.77414 5.49648 0.61958 0.77255 0.48576 0.95510\n- 6 2.86872 4.34620 4.29038 3.71222 2.75207 3.95621 3.02454 2.46524 3.02787 2.27950 3.46223 3.91313 4.32358 3.81000 3.77744 2.87264 3.10019 2.60636 3.43012 1.57262 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01263 4.77414 5.49648 0.61958 0.77255 0.48576 0.95510\n- 7 2.79128 5.22140 3.07142 2.36120 4.53506 3.07143 3.76731 3.35501 2.51380 3.03592 4.27093 2.82022 2.96'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01312 4.73604 5.45839 0.61958 0.77255 0.56651 0.83818\n- 706 2.49687 5.24581 2.78290 2.17437 4.57360 3.55554 3.74621 3.49948 2.12014 3.54384 4.29161 2.08662 3.94980 2.84866 2.97858 2.22112 2.70797 3.29337 5.68930 4.28885 743 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01312 4.73604 5.45839 0.61958 0.77255 0.56651 0.83818\n- 707 2.60700 5.30496 1.77521 2.12927 4.63971 2.98507 3.76534 4.12196 2.28406 3.60604 3.42683 2.52064 3.96435 2.86732 3.01130 2.56036 3.04149 3.69049 5.74259 4.33179 744 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01312 4.73604 5.45839 0.61958 0.77255 0.56651 0.83818\n- 708 2.16674 5.27893 2.99173 2.02107 4.61608 2.05077 3.78512 4.09070 2.33416 3.58929 4.34284 2.67890 3.28178 2.89227 3.03459 2.48389 3.05359 3.66983 5.73737 4.33422 745 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01312 4.73604 5.45839 0.61958 0.77255 0.56651 0.83818\n- 709 2.63475 5.30246 2.74373 1.83324 4.64091 2.35028 3.75782 4.12455 2.28414 3.60502 4.34686 3.02329 3.39655 2.34203 2.99770 2.76198 2.52777 3.68994 5.73829 4.32717 746 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05378 4.73604 3.13302 0.61958 0.77255 0.56651 0.83818\n- 710 2.56107 5.20529 2.83720 2.09144 4.52306 2.52670 3.73660 3.28721 2.27183 3.49894 3.60640 2.31112 3.93895 2.84262 2.97123 2.54359 2.65144 3.58123 5.65483 4.26084 747 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01366 4.69592 5.41827 0.61958 0.77255 0.64213 0.74691\n- 711 2.50411 5.20445 2.57071 1.84441 4.52012 3.54703 3.74017 3.98609 2.33273 3.49706 4.25333 3.02646 3.94180 2.55354 2.97621 2.74187 2.26847 2.78664 5.65493 3.69427 748 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01366 4.69592 5.41827 0.61958 0.77255 0.64213 0.74691\n- 712 2.89573 5.38513 2.87798 1.48147 4.72021 3.56609 3.83014 4.20115 2.34443 3.68909 4.45063 1.92209 4.01311 2.94325 3.09554 2.51242 2.67638 3.77489 5.83030 4.41549 749 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01366 4.69592 5.41827 0.61958 0.77255 0.64213 0.74691\n- 713 2.49025 5.28093 2.66511 2.06658 4.61982 2.35570 3.73801 4.10318 2.11429 3.58347 4.32447 2.65383 3.94056 2.32516 2.97432 2.74171 3.01175 3.21991 5.71634 4.30609 750 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 4.69148 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8c_I-C_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1700 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8c_I-C_4\n-LENG 559\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:30 2020\n-NSEQ 132\n-EFFN 4.201538\n-CKSUM 2679833201\n-GA 108 108;\n-STATS LOCAL MSV -12.0156 0.69751\n-STATS LOCAL VITERBI -12.9489 0.69751\n-STATS LOCAL FORWARD -6.2585 0.69751\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46643 4.31784 2.94617 2.62495 3.37915 2.95674 3.69642 2.92821 2.59348 2.49678 3.77913 3.02782 3.30057 2.98129 2.83791 2.63164 2.82935 2.82056 4.46751 3.32812\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00885 5.12798 5.85032 0.61958 0.77255 0.00000 *\n- 1 2.65868 4.05077 4.66520 3.74386 3.80831 4.07595 4.67543 3.04309 3.98878 0.62654 3.79494 4.26606 4.56932 4.23879 4.13490 3.19055 3.37249 2.85505 5.35981 4.17892 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00885 5.12798 5.85032 0.61958 0.77255 0.48576 0.95510\n- 2 2.70777 3.04720 4.07537 3.68760 3.59875 4.03884 3.60586 2.82063 3.59137 2.59750 3.60230 3.24837 4.41080 3.76520 3.60402 2.93783 2.93533 1.81537 5.09544 1.57765 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00885 5.12798 5.85032 0.61958 0.77255 0.48576 0.95510\n- 3 2.80257 5.46159 2.01510 1.67033 4.80680 3.50817 3.90417 4.29393 2.40032 3.76670 4.50293 2.94841 4.10878 2.18304 2.43319 2.72527 3.08820 3.80429 5.89328 4.48040 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01806 5.12798 4.42516 0.61958 0.77255 0.48576 0.95510\n- 4 2.70677 3.85706 4.33386 3.69074 3.46908 4.04824 3.50577 2.68464 3.31620 2.33018 3.57802 3.99319 4.41909 3.87844 3.78774 3.32847 1.61071 2.65856 5.07240 1.71505 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01510 5.11884 4.71054 0.61958 0.77255 0.51449 0.91082\n- 5 2.55173 5.00676 4.39517 3.82022 3.13866 4.26774 4.40398 3.61990 3.97508 3.27867 4.26635 4.21716 4.75792 4.22252 4.20210 3.29918 3.70149 3.40134 4.90112 0.58174 5 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11273 5.83508 0.61958 0.77255 0.48684 0.95338\n- 6 2.93908 5.47428 2.00118 1.35425 4.81700 3.02434 3.69748 4.30411 2.57841 3.77842 4.51691 3.01171 4.11722 2.42383 3.00554 2.89546 3.19309 3.64798 5.90678 4.11974 6 e - - -\n- 2.68620 4.42199 2.77527 2.73122 3.46361 2.40514 3.72485 3.29347 2.67748 2.69362 4.24697 2.90324 2.73739 3.18154 2.89808 2.37888 2.77518 2.98493 4.58485 3.61511\n- 0.02967 3.63677 5.84427 1.45093 0.26703 0.50493 0.92520\n- 7 2.34184 4.74127 3.17918 2.58632 4.63040 3.73379 3.80281 2.95915 2.41117 3.46184 3.85028 2.09995 4.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00823 5.19948 5.92182 0.61958 0.77255 0.48576 0.95510\n- 552 2.63444 4.89694 3.39257 3.16636 3.15063 3.96337 2.40734 3.43507 3.13863 3.11214 3.99453 3.61435 4.34638 3.19903 3.53608 2.58097 3.27601 3.19023 4.99430 1.26093 1926 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00823 5.19948 5.92182 0.61958 0.77255 0.48576 0.95510\n- 553 2.98656 2.27498 3.15366 2.82416 4.43325 3.63836 1.63599 3.85162 2.81852 2.91284 4.26606 3.23519 4.20469 2.36426 3.27948 2.39696 3.21972 3.52656 5.69512 4.35951 1927 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00823 5.19948 5.92182 0.61958 0.77255 0.48576 0.95510\n- 554 3.47708 5.72468 3.51036 2.80989 4.98591 4.09814 4.24388 4.45689 2.71412 3.95675 4.28075 3.59831 4.53055 0.59214 3.08067 3.45880 3.68958 4.12184 6.07001 4.20350 1928 Q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00823 5.19948 5.92182 0.61958 0.77255 0.48576 0.95510\n- 555 2.87242 4.81192 3.32055 2.76202 4.54576 3.78518 3.97973 3.82643 2.25457 2.94273 3.70210 2.95724 4.17584 2.90284 1.28620 2.73477 2.66707 3.58642 5.75592 4.12480 1929 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00823 5.19948 5.92182 0.61958 0.77255 0.48576 0.95510\n- 556 2.35764 4.27042 3.26290 2.57559 4.31755 3.65568 3.63670 3.70799 2.24148 3.00460 3.98962 2.61968 3.97104 1.68070 2.98152 2.76483 2.69796 3.25080 5.81248 4.43238 1930 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00830 5.19118 5.91353 0.61958 0.77255 0.48576 0.95510\n- 557 1.93513 5.44201 2.15650 2.15295 4.34943 3.73704 3.42413 4.25358 2.07828 3.56810 4.48569 3.15022 4.13024 2.68012 3.13616 2.73339 2.89068 3.16925 4.37060 3.68493 1931 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00832 5.18939 5.91174 0.61958 0.77255 0.48576 0.95510\n- 558 2.99384 4.41659 4.68436 4.08588 1.83147 4.13014 3.85926 2.29902 3.39989 1.47555 3.29598 3.41565 4.49671 4.10791 2.79055 3.42860 3.10399 2.62679 3.99990 3.67845 1932 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00847 5.17162 5.89396 0.61958 0.77255 0.48576 0.95510\n- 559 2.69893 4.88881 3.00275 2.81809 2.24235 3.87441 3.78507 3.12122 2.80461 2.85094 3.74221 3.09174 4.14527 3.33512 2.62850 2.85057 3.19955 3.18275 3.73798 1.91671 1933 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00571 5.16886 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1451 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8e_I-E_1\n-LENG 476\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:30 2020\n-NSEQ 13\n-EFFN 3.964111\n-CKSUM 1588072516\n-GA 229 229;\n-STATS LOCAL MSV -11.2728 0.69827\n-STATS LOCAL VITERBI -12.5920 0.69827\n-STATS LOCAL FORWARD -5.7053 0.69827\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42247 4.43856 2.96038 2.65154 3.30540 2.90066 3.70732 3.04764 2.72458 2.32077 3.74437 3.11918 3.10770 3.00613 2.82381 2.72545 2.87102 2.76762 4.04961 3.65436\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.00000 *\n- 1 3.72665 6.30147 1.83226 2.84424 5.77067 3.92876 4.60020 5.35330 3.71637 4.81407 5.68196 0.67177 4.60902 3.77895 4.37376 2.34712 4.06343 4.84427 6.95260 5.38698 1 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 2 4.90826 6.06833 6.19523 5.95775 4.16601 5.58576 6.31975 3.50648 5.79553 0.14595 4.00347 6.18239 5.90692 5.81349 5.72099 5.57158 5.17696 3.82792 6.30658 5.29099 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 3 3.44034 4.76748 5.39804 4.80284 2.51292 4.68479 5.03722 1.69137 4.61844 1.08237 3.56737 4.84003 4.98280 4.71332 4.63285 4.01455 2.23447 2.18623 5.43652 4.30190 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 4 2.99709 5.44275 1.53464 2.68489 4.76299 3.75200 3.95863 3.15558 2.05648 3.73601 4.49519 3.22983 4.15852 2.58931 3.18803 2.96864 1.92008 3.81977 5.89011 4.49523 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 5 3.70574 6.38528 1.55651 0.75646 5.68665 3.92631 4.49911 5.23870 3.55766 4.69289 5.54160 3.37520 4.56727 3.66291 4.19745 3.56415 2.47509 4.76934 6.83802 5.27994 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 6 2.61539 5.51484 3.37773 3.03932 5.10630 3.89151 4.31369 4.54959 2.00745 4.07120 4.87539 2.68964 0.90269 3.45590 3.37551 3.27303 3.55925 4.11595 6.21433 4.88120 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 7 4.79475 5.97665 5.89375 5.64934 3.31546 5.35651 4.89828 4.08169 5.21729 2.13571 4.62766 5.42293 5.74'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 469 2.98455 5.33691 3.30713 2.74584 4.64518 2.26759 3.96289 3.09954 1.53459 3.62684 4.40495 3.27585 4.16884 3.08178 2.55326 2.56595 2.12729 3.71107 5.80513 4.44185 683 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 470 2.98334 5.26147 3.31966 2.77835 2.81370 2.03197 2.63045 3.97724 2.00383 3.54757 4.34420 3.30323 4.18308 3.12805 3.21899 1.77611 3.21856 3.62489 5.74411 4.38446 684 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 471 1.97586 4.54151 5.07135 4.47034 3.58427 4.36880 4.71061 2.07128 4.28133 1.11176 3.55761 4.50581 4.71280 4.41946 4.31962 3.68464 3.40841 2.05989 5.19705 3.00265 685 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 472 2.45966 5.23301 3.32732 2.26454 2.98895 3.78361 3.97828 3.91927 2.74816 3.49856 4.29967 2.78540 4.17540 3.11705 1.32625 2.98911 3.20297 3.57782 5.70941 3.19754 686 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 473 2.19545 5.51253 3.18904 1.70234 4.85692 2.94928 2.86044 4.33523 1.46307 3.81351 4.56186 3.23113 4.16983 3.06578 3.16104 2.98310 3.25409 3.90468 5.94290 4.54074 687 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 474 2.99218 4.93003 3.59739 3.03012 4.10951 3.88526 3.13329 3.48860 2.35059 1.45719 4.01927 3.50128 4.26874 2.21693 3.34338 3.11238 2.51704 2.56615 5.47222 4.19976 688 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 475 2.37023 4.90369 3.57007 3.00689 2.86827 3.86392 4.08667 3.46135 1.56942 2.52583 2.69507 3.48165 4.24867 3.31195 2.67482 2.42903 3.19585 3.20032 5.45192 4.17553 689 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15119 5.87354 0.61958 0.77255 0.48576 0.95510\n- 476 1.26203 5.23170 3.44149 2.19159 4.84290 3.77495 4.31296 4.27615 3.14377 3.86639 4.66550 3.51839 1.69994 3.46814 3.60222 3.11082 2.42364 3.85101 6.07700 4.73928 690 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.14838 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1445 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8e_I-E_2\n-LENG 474\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:31 2020\n-NSEQ 56\n-EFFN 6.490723\n-CKSUM 3062160134\n-GA 55 55;\n-STATS LOCAL MSV -11.4720 0.69830\n-STATS LOCAL VITERBI -12.6464 0.69830\n-STATS LOCAL FORWARD -5.6862 0.69830\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41805 4.57694 2.88102 2.66233 3.32617 2.92304 3.73377 3.08182 2.75215 2.35799 3.79396 3.11344 3.08535 2.97455 2.79081 2.72618 2.83798 2.80371 3.90140 3.61363\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.00000 *\n- 1 3.53471 4.89005 5.44166 4.85436 0.97200 4.69253 4.85524 3.02498 4.64565 2.53894 1.83573 4.81532 5.03300 4.73969 4.64554 3.71038 3.76410 2.80929 5.23422 2.17952 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 2 3.77048 6.33346 2.25477 3.07716 5.70119 4.18048 3.97960 5.22340 3.59625 4.69465 5.49559 0.59635 3.15408 3.80102 4.16745 2.66874 3.65863 4.76353 6.83785 5.34928 2 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 3 4.97578 6.09027 6.99510 6.44602 4.10280 6.53681 6.84875 2.94244 6.34684 0.22691 3.80790 6.76343 6.34093 6.01118 6.20041 6.02906 5.16890 2.58810 6.51487 5.66218 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 4 2.92771 4.63334 5.22438 4.61065 3.42000 4.43501 4.77090 1.40310 4.39744 1.27173 3.74534 4.59684 4.79665 4.52897 4.40711 3.46133 2.43888 2.16009 4.25429 4.08719 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 5 3.15725 5.60657 1.38440 2.79127 3.89098 3.64144 3.53899 3.34095 2.22123 3.45042 4.65388 3.41833 4.33357 3.10171 3.21076 2.75913 1.85676 3.98377 6.05441 4.65902 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 6 2.89409 5.76081 1.67496 1.23354 5.10308 3.43974 4.18600 4.59316 2.93953 4.06486 4.80530 3.23337 4.38278 2.64979 2.53906 3.19295 2.94932 4.15055 6.19220 4.77281 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 7 2.62748 5.67814 3.07593 2.49901 5.02045 3.94054 4.13214 4.50425 2.25643 3.98155 4.72044 3.19344 1.0854'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 467 2.67470 5.66567 2.83271 2.39302 4.42191 2.68147 3.78684 4.49735 2.31994 2.92407 4.70623 2.79166 4.32127 2.00382 1.88695 2.70570 3.38530 3.75580 6.09813 4.21197 730 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 468 1.63947 4.07496 4.81480 3.04808 3.39650 4.34818 3.62057 1.93911 4.08117 1.93908 3.78745 4.37782 4.71604 3.35885 4.21979 2.87266 2.76437 2.33997 5.28590 3.19339 731 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 469 1.07188 3.72260 4.08086 4.08242 3.80857 3.76226 4.62422 2.84505 3.44236 2.49555 3.26150 4.29675 4.69211 4.18801 4.15144 2.92190 2.56860 2.05344 5.31541 4.12276 732 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 470 2.81525 3.52794 3.36730 2.70863 3.50359 3.79272 3.97235 3.12752 3.13246 1.25607 3.59768 3.84644 4.53116 3.05767 2.42064 3.06461 3.20720 2.94141 4.06436 4.30542 733 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 471 2.30343 5.66658 2.49417 2.21727 5.01244 3.16914 3.36196 4.49896 2.34054 3.67053 4.08300 3.02244 4.32108 2.55173 1.90468 2.49701 3.17416 3.04335 6.09880 4.68738 734 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 472 1.64040 3.73462 4.14216 3.95459 3.84749 3.19219 3.80396 2.36000 3.85673 1.68094 3.85177 4.21803 4.66709 3.28966 3.06688 3.22303 2.73517 2.34879 5.34527 3.62933 735 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 473 2.26546 4.64866 5.12235 4.51718 1.34382 3.04491 4.71745 3.08332 4.32258 2.14842 3.76690 4.54131 4.77994 3.84038 4.36327 3.72367 3.49256 2.66722 2.53935 2.32994 736 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57414 6.29648 0.61958 0.77255 0.48576 0.95510\n- 474 3.02642 5.66915 1.24039 2.16656 5.01494 3.92887 3.19676 4.50150 2.30796 3.97469 3.82958 2.92395 4.32291 2.95411 3.00722 2.63890 2.85930 4.06019 6.10129 4.68975 737 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00381 5.57229 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1592 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8e_I-E_3\n-LENG 523\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:31 2020\n-NSEQ 10\n-EFFN 1.088867\n-CKSUM 3177032974\n-GA 190 190;\n-STATS LOCAL MSV -11.7647 0.69782\n-STATS LOCAL VITERBI -12.7813 0.69782\n-STATS LOCAL FORWARD -6.2483 0.69782\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40130 4.48472 2.88253 2.67518 3.33959 2.87216 3.67048 2.93168 2.71190 2.38053 3.68783 3.15062 3.34389 3.03937 2.78973 2.70779 2.84732 2.73189 4.19674 3.64037\n- 2.68629 4.42236 2.77514 2.73135 3.46365 2.40524 3.72506 3.29365 2.67752 2.69331 4.24445 2.90358 2.73751 3.18158 2.89793 2.37898 2.77476 2.98530 4.58488 3.61514\n- 0.50668 1.34744 1.98341 0.83634 0.56792 0.00000 *\n- 1 2.70004 4.79908 3.14385 2.57550 4.04245 3.50340 3.65532 3.44001 2.30631 3.03950 2.59573 2.65972 3.89114 2.54199 2.08658 2.75246 2.92078 3.14274 5.27440 3.98875 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 4.09723 4.81957 0.61958 0.77255 0.39807 1.11357\n- 2 2.40659 4.16653 4.15924 3.57606 3.19332 3.81318 4.11321 2.45386 3.45250 1.86707 2.32640 3.79112 4.17084 3.67211 3.63404 3.10388 2.93277 2.03603 4.77068 2.59748 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 3 2.46698 3.06450 3.36071 2.96240 4.18784 3.21925 4.07219 3.60985 2.96769 3.29054 4.13042 1.34597 3.85915 3.30502 3.33743 2.22118 2.87136 3.18897 5.52995 4.25436 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 4 3.52329 4.82720 5.09294 4.57361 3.19218 4.77401 5.09742 1.97517 4.37395 0.70113 3.00163 4.82634 4.94896 4.50918 4.47718 4.17157 3.75544 2.32747 5.33060 4.22431 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 5 3.59285 4.95574 4.77516 4.43194 3.31867 4.44180 4.97581 2.55638 4.19749 0.52813 3.25425 4.67320 4.82400 4.47564 4.30747 4.08009 3.87558 2.68554 5.31349 4.11602 8 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 6 2.65302 4.82967 2.08811 2.48627 4.14290 3.41228 3.73648 3.53370 2.56823 2.63426 3.99330 2.99949 3.86689 2.89787 3.03232 2.40806 2.12341 3.20231 5.42029 4.08118 9 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02170 4.23716 4.95951 0.61958 0.77255 0.48576 0.95510\n- 7 2.87768 5.43144 1.57670 1.84911 4.73338 3.36730 2.95925 4.23914 2.62257 3.71786 4.50696 2.82252 3.89'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02386 4.14344 4.86578 0.61958 0.77255 0.59699 0.79955\n- 516 2.36952 4.79464 2.68954 2.44676 4.05731 2.51123 3.17351 3.47499 2.46645 3.08073 3.22470 2.96360 3.82422 2.81086 2.92889 2.40338 2.84582 3.14816 5.32566 3.99097 536 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02386 4.14344 4.86578 0.61958 0.77255 0.59699 0.79955\n- 517 2.19785 5.07827 2.81840 1.93737 4.38695 3.41065 3.03802 3.83658 2.13761 3.35760 4.14013 2.89526 3.83078 2.50080 2.78631 2.66781 2.92230 3.45209 5.52075 4.14946 537 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02386 4.14344 4.86578 0.61958 0.77255 0.59699 0.79955\n- 518 2.21142 5.13292 1.73619 2.30172 4.42047 3.34349 2.53295 3.91852 2.58819 3.46686 4.27859 2.85451 3.85608 2.87410 3.09280 2.73305 3.02908 3.53355 5.63632 4.22098 538 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02386 4.14344 4.86578 0.61958 0.77255 0.59699 0.79955\n- 519 2.10942 4.59978 3.11228 2.60897 3.98009 2.83852 3.76214 3.37418 2.60548 3.01992 3.85710 3.07344 2.57313 2.57039 3.03319 2.64086 2.83478 2.63845 5.29699 4.00018 539 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02386 4.14344 4.86578 0.61958 0.77255 0.59699 0.79955\n- 520 2.72871 5.01076 2.93109 2.24759 4.36901 2.88393 3.66082 3.79455 2.31203 3.33061 4.13600 2.97313 3.09774 2.79439 1.74249 2.72763 2.96604 3.42784 5.49632 4.16892 540 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02386 4.14344 4.86578 0.61958 0.77255 0.59699 0.79955\n- 521 2.69136 5.12779 2.54653 2.17106 4.45208 3.40469 2.51970 3.91480 2.32297 3.41255 4.18271 2.87991 3.82365 2.44201 2.26080 2.65745 2.92176 3.51053 5.55520 4.17204 541 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18752 4.14344 1.86355 0.61958 0.77255 0.59699 0.79955\n- 522 1.42703 4.21031 3.39670 3.01988 4.10342 3.03379 4.07956 3.40978 3.02175 3.15575 4.01697 3.25753 2.70275 3.33818 3.35945 2.45298 2.22571 2.98493 5.47041 4.24300 542 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02804 3.98395 4.70630 0.61958 0.77255 0.74362 0.64510\n- 523 2.08883 4.41911 3.20954 2.69883 3.87443 2.71775 3.78819 3.25436 2.65176 2.92578 3.77471 3.11083 3.78633 3.00636 2.64116 2.25645 2.76585 2.51270 5.21979 3.95060 543 a - - -\n- 2.68621 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69342 4.24693 2.90350 2.73706 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.28902 1.38231 * 0.23652 1.55766 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1577 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8e_I-E_4\n-LENG 518\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:31 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 1859988250\n-GA 139 139;\n-STATS LOCAL MSV -11.6719 0.69782\n-STATS LOCAL VITERBI -12.8358 0.69782\n-STATS LOCAL FORWARD -6.1417 0.69782\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46645 4.44469 2.84808 2.70896 3.30515 2.72297 3.86534 2.88138 2.76818 2.44459 3.78059 3.14528 3.29836 3.17787 2.88945 2.61311 2.90428 2.62500 4.16804 3.38783\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.91983 4.31695 3.91799 3.86633 3.42132 3.45025 2.66908 4.12393 2.50391 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.820'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 511 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 511 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 512 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 512 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 513 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 513 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 514 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 514 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 515 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 515 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 516 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 516 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 517 2.65336 4.64266 2.66692 2.54469 3.99250 3.12706 3.85602 3.68605 2.75358 3.34399 4.30178 1.32693 3.77577 3.13079 3.10330 2.72538 3.03360 3.31735 5.30916 3.94892 517 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 518 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 518 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8e_I-E_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1418 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8e_I-E_5\n-LENG 465\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:31 2020\n-NSEQ 109\n-EFFN 7.654083\n-CKSUM 118511889\n-GA 118 118;\n-STATS LOCAL MSV -11.4624 0.69840\n-STATS LOCAL VITERBI -12.7279 0.69840\n-STATS LOCAL FORWARD -5.7803 0.69840\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40546 4.57714 2.87014 2.65523 3.34928 2.86565 3.69933 3.12364 2.77116 2.36418 3.83808 3.13940 3.07971 2.99730 2.75739 2.72010 2.84880 2.79766 3.94188 3.62050\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00494 5.70809 6.43043 0.61958 0.77255 0.00000 *\n- 1 3.00687 4.82559 3.76969 3.20976 4.50122 3.67162 4.34419 3.53646 2.51681 3.02563 4.38575 3.58033 0.98803 3.53484 2.85587 2.79305 2.85131 3.38527 4.78706 4.53501 1 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00494 5.70809 6.43043 0.61958 0.77255 0.48576 0.95510\n- 2 2.61466 2.75194 5.29372 4.67870 3.31014 4.50164 4.83551 2.57398 4.46420 2.89673 3.27942 3.99668 4.58748 4.59596 4.47332 3.57274 3.45982 0.75862 3.96533 4.15388 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01776 5.72152 4.24518 0.61958 0.77255 0.48576 0.95510\n- 3 3.27834 5.06265 3.30675 3.49649 4.20968 4.23236 4.47639 2.05041 3.17220 2.08722 2.90685 3.56767 3.99975 3.03474 1.62789 3.22743 3.03820 2.25860 5.63574 4.38937 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00494 5.70870 6.43105 0.61958 0.77255 0.44361 1.02643\n- 4 2.92262 5.68092 2.08136 2.60977 3.63051 3.51247 3.85653 4.01385 2.61422 2.85121 4.18352 3.50729 3.16315 3.15189 1.87448 2.80171 2.37921 3.80249 4.48458 3.05110 4 r - - -\n- 2.68625 4.42232 2.77526 2.73130 3.46360 2.40502 3.72501 3.29339 2.67747 2.69345 4.24696 2.90333 2.73746 3.18153 2.89807 2.37893 2.77526 2.98482 4.58483 3.61510\n- 0.08803 2.49279 6.44387 0.14887 1.97821 0.48576 0.95510\n- 5 2.18117 5.73891 3.06948 2.41920 4.43754 2.61904 4.04319 3.16297 2.10809 2.74044 4.78080 3.10986 3.96002 2.69086 2.10989 2.92092 2.96733 3.19831 6.17441 4.76630 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14682 5.72152 2.01531 0.61958 0.77255 0.48576 0.95510\n- 6 2.66841 5.66741 1.48572 2.44757 5.01183 3.47453 3.55645 3.92684 2.56826 3.97242 4.70826 2.59230 4.08687 2.98999 3.34704 2.14324 2.53422 3.24943 6.10047 4.68984 7 d - - -\n- 2.68612 4.42247 2.77468 2.73120 3.46340 2.40498 3.72517 3.29346 2.67721 2.69363 4.24712 2.90369 2.73754 3.18169 2.89823 2.37903 2.77498 2.98522 4.58499 3.61525\n- 0.17663 1.83208 6.30266 0.65716 0.73048 0.35898 1.19862\n- 7 2.91543 4.54518 3.61867 2.86551 4.42881 0.86366 4.27325 4.16857 2.92534 3.75801 4.56145 2.47389 4.08'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 458 2.37609 4.77577 5.37897 4.76816 2.66166 4.59305 4.93485 2.08598 4.55746 0.97140 3.87783 4.75627 4.95113 4.68876 4.56792 3.67156 2.79027 2.09026 5.42146 4.24682 1361 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 459 2.45958 4.73995 3.22168 2.75535 3.44132 2.94171 3.10864 4.24681 2.32949 3.47190 4.75156 3.04304 4.41510 2.60041 1.53426 3.01649 3.09495 3.52190 3.85834 3.61309 1362 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 460 2.49789 5.75025 2.92982 2.60724 4.40530 3.16560 3.36090 4.58180 2.24722 3.21272 4.79083 2.84872 4.40604 2.16592 1.67565 2.55130 3.22813 3.53805 5.46208 4.51438 1363 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 461 1.75469 5.06102 3.70545 2.39393 3.90511 4.24518 4.22093 2.36036 3.34402 2.00168 3.94006 3.94705 4.62612 2.88967 3.53953 3.16729 2.34619 2.46784 5.63561 3.45665 1364 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 462 0.96970 3.91841 5.19356 4.58674 3.82551 3.60206 4.82558 2.52971 4.39541 2.52588 3.38402 4.62127 4.85845 4.54709 4.44198 2.91018 2.86769 1.89186 5.35295 4.17433 1365 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 463 2.95989 3.75209 3.71257 2.81782 3.34172 3.51388 4.10923 3.01009 3.04712 1.25264 3.38244 3.97389 4.63713 3.05311 2.44638 3.09657 2.87167 3.13871 3.79549 4.37724 1366 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 464 2.30724 5.75146 2.06268 2.26352 5.09738 3.38956 4.04253 4.20175 2.10759 3.50521 4.44467 2.89598 4.40580 2.58142 2.04809 2.74466 3.20157 3.14827 6.18364 4.77218 1367 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00488 5.72152 6.44387 0.61958 0.77255 0.48576 0.95510\n- 465 1.49643 3.88090 4.06968 3.47229 3.53413 3.55181 4.21326 2.24313 3.92969 1.59947 3.95308 4.04287 4.75619 3.17388 3.39305 3.35067 3.21638 2.50268 5.44602 3.69896 1368 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00329 5.71993 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1289 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8f_I-F_2\n-LENG 422\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:32 2020\n-NSEQ 49\n-EFFN 1.749573\n-CKSUM 458417169\n-GA 222 222;\n-STATS LOCAL MSV -11.4995 0.69893\n-STATS LOCAL VITERBI -12.3642 0.69893\n-STATS LOCAL FORWARD -5.9801 0.69893\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55501 4.33884 3.03943 2.66810 3.38642 3.22473 3.56856 2.90003 2.59027 2.29614 3.67766 2.98694 3.41540 2.93109 2.91290 2.55548 2.82955 2.74163 4.33708 3.53793\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26078 4.53236 1.51961 0.61958 0.77255 0.00000 *\n- 1 2.65413 4.44427 3.42215 2.86712 3.60747 3.58803 3.84089 2.79490 2.53549 2.66325 1.83988 2.99036 3.60439 3.12907 3.12424 2.84124 2.73977 2.72180 5.02555 3.78203 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02053 4.29210 5.01445 0.61958 0.77255 0.32763 1.27521\n- 2 2.46270 4.46583 3.52960 2.75231 3.60864 3.67232 3.91933 2.82426 2.82199 2.44024 1.99702 3.38427 4.05279 2.77417 3.28187 2.91315 2.40494 2.63746 5.04319 3.80244 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53236 5.25470 0.61958 0.77255 0.48576 0.95510\n- 3 2.73227 5.15532 2.99150 2.28126 4.47172 3.50696 2.80705 3.79749 1.90844 3.44546 4.20750 2.74404 3.90343 2.80704 2.90344 2.39450 2.12952 3.53134 5.60367 4.21868 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53236 5.25470 0.61958 0.77255 0.48576 0.95510\n- 4 3.88198 5.10640 5.65124 5.09503 2.97559 5.23228 5.43832 2.16308 4.95611 0.51751 3.05315 5.32390 5.26507 4.87048 4.95080 4.62676 4.08729 2.66160 5.46377 4.39580 4 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53236 5.25470 0.61958 0.77255 0.48576 0.95510\n- 5 2.35013 4.78530 2.73924 2.33655 4.52553 3.28012 3.49908 4.00334 1.99242 3.49198 4.23554 2.81748 3.87951 2.33139 2.73422 2.20480 2.94001 3.57634 5.63099 3.93332 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53236 5.25470 0.61958 0.77255 0.48576 0.95510\n- 6 2.76077 5.39023 1.87217 1.47392 4.71263 3.49295 3.79418 4.20242 2.60470 3.68725 4.45273 2.95657 3.96338 2.76102 2.97839 2.75416 2.59168 3.77158 5.83022 4.39765 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53236 5.25470 0.61958 0.77255 0.48576 0.95510\n- 7 2.65775 4.40212 4.67793 4.10793 3.44422 4.19715 4.58385 1.92889 3.96594 1.07929 3.35571 4.26490 4.541'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03173 4.53236 3.88852 0.61958 0.77255 0.48576 0.95510\n- 415 2.51896 5.08803 2.37587 2.32753 4.04370 3.49665 3.69007 3.62864 2.39571 2.82137 4.14194 2.73704 2.78099 2.57643 2.93056 2.50475 2.84767 3.17484 5.55108 4.17156 429 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01636 4.51699 5.23933 0.61958 0.77255 0.46949 0.98169\n- 416 2.53292 4.53541 2.67055 1.99249 4.47051 3.03105 3.68144 3.52901 2.15723 3.44592 3.58478 2.84949 3.88419 2.54307 2.91528 2.43648 2.74477 3.40469 5.60100 4.20670 430 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53236 5.25470 0.61958 0.77255 0.48576 0.95510\n- 417 2.17453 3.55467 3.36838 2.58026 3.75129 3.25574 3.85588 2.77182 2.69566 2.72881 3.68070 3.13025 3.25526 3.00401 3.06374 2.77986 2.43577 2.48608 5.14559 3.62729 431 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53236 5.25470 0.61958 0.77255 0.48576 0.95510\n- 418 2.70712 4.33551 2.71705 1.89502 4.41060 3.37776 3.26555 3.67748 2.44515 3.15762 4.16076 2.87561 3.59763 2.54308 2.92952 2.53420 2.48571 2.96109 5.56781 4.18437 432 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03047 4.53236 3.95016 0.61958 0.77255 0.48576 0.95510\n- 419 2.56331 4.80023 2.78848 2.18082 4.50484 2.79497 2.82443 3.97962 2.34874 3.47441 4.22125 2.51491 3.58427 2.71440 2.90491 2.28115 2.74782 3.55797 5.61862 3.86722 433 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03840 4.51823 3.62082 0.61958 0.77255 0.51024 0.91716\n- 420 2.53321 5.16984 2.41386 2.07463 4.49584 3.07670 3.67281 3.37243 2.35398 3.46741 4.21701 2.67139 3.19216 2.77648 2.90966 2.36420 2.60670 3.55049 5.61478 4.21428 434 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14862 4.49653 2.06393 0.61958 0.77255 0.54607 0.86564\n- 421 2.67804 5.13931 2.46628 1.88074 4.46107 3.43981 3.64388 3.93323 2.33798 3.43456 4.18765 2.50482 3.84302 2.65030 2.88743 2.45727 2.68015 3.26884 5.58495 3.53106 435 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21940 4.36695 1.69113 0.61958 0.77255 0.72424 0.66299\n- 422 2.67613 5.14282 2.34002 1.96011 4.45728 2.67156 3.22239 3.93184 2.40696 3.43543 4.19889 2.73984 3.81030 2.56899 2.90724 2.51392 2.91409 3.25816 5.59033 4.18089 436 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01568 4.16322 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1175 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8f_I-F_3\n-LENG 384\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:32 2020\n-NSEQ 6\n-EFFN 0.987305\n-CKSUM 4155444573\n-GA 280 280;\n-STATS LOCAL MSV -11.4865 0.69949\n-STATS LOCAL VITERBI -12.2023 0.69949\n-STATS LOCAL FORWARD -5.8466 0.69949\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51104 4.48702 2.84622 2.61608 3.34839 3.05759 3.57650 2.99596 2.61130 2.41032 3.81197 3.01639 3.42213 2.92875 2.83562 2.60007 2.91303 2.81291 4.07302 3.45541\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.00000 *\n- 1 1.92194 4.98196 2.97625 2.47185 4.27538 3.46951 2.83934 3.70188 2.04553 3.25641 4.06606 2.98575 3.87833 2.43599 2.71632 2.72705 2.94869 3.35541 5.44063 4.11209 1 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 2 2.83945 5.08565 3.20819 2.59753 4.40626 3.57758 3.63985 3.82594 1.59982 3.33248 4.15048 3.07913 3.95011 2.28717 2.13013 2.83692 3.04069 3.48242 5.45349 2.95981 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 3 3.56208 5.03668 4.07093 3.74048 2.18389 4.22096 2.49438 3.67588 3.55285 3.04334 4.21610 3.84997 4.59725 3.83061 3.74910 3.60796 3.79293 3.52029 3.83981 0.86568 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 4 2.88526 5.22033 3.00081 1.91910 4.59487 3.53952 3.65858 4.01164 2.17192 3.47997 4.29062 3.02418 3.95053 2.28747 1.68979 2.85335 3.09389 3.63845 5.57929 4.28070 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 5 2.65470 4.35488 3.58608 3.06914 3.36559 3.59578 3.92176 2.78611 2.99442 2.53658 3.49679 3.42909 2.17758 3.31439 3.31450 2.89332 2.91794 1.97770 4.87712 2.72052 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 6 2.78402 5.22282 1.83001 2.33758 4.54676 3.40774 3.67463 4.01845 2.40388 3.51255 4.30033 2.88487 3.86981 2.29932 2.11984 2.73818 3.02258 3.61481 5.65029 4.25935 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 7 2.17237 4.41265 3.43082 2.97327 3.69559 3.52186 3.98489 1.82401 2.94703 2.69760 3.64383 2.29509 4.001'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02522 4.08850 4.81085 0.61958 0.77255 0.42457 1.06147\n- 377 2.33222 4.18020 3.95602 3.38186 3.27711 3.73560 4.05066 2.13321 3.28122 1.96364 2.42050 3.65743 4.10896 3.53548 3.51882 2.55127 2.89473 2.29082 4.82041 3.62362 406 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 378 2.28589 4.69099 3.29869 2.71416 3.91190 3.56349 3.72787 3.26658 2.09282 2.05025 3.78699 3.16956 3.94966 2.92600 2.30908 2.82181 2.94560 3.00247 5.20647 3.94984 407 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 379 2.29188 4.49201 3.35651 2.80421 2.28920 3.56521 2.85954 3.03416 2.69412 2.70713 3.59975 3.23767 3.95663 3.06870 2.53663 2.81647 2.89248 2.79301 4.92294 3.58130 408 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 380 2.64950 4.92575 2.45098 2.41600 4.21874 3.41905 3.65608 3.61633 1.87271 3.21536 4.01995 2.94315 3.83694 2.79267 2.88380 2.65995 2.46237 2.70729 5.43470 4.08105 409 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 381 2.70659 4.41695 3.58546 3.00099 3.50648 3.66663 3.87772 1.91613 2.75338 2.13348 3.45056 3.39414 4.03759 2.65206 2.59786 2.93257 2.93263 2.61186 4.97808 3.75282 410 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 382 2.82425 5.19260 2.35516 2.45499 4.55137 3.48771 3.65769 3.98639 1.95102 3.47056 4.26893 2.97398 3.91162 2.77988 1.63807 2.79167 3.04507 3.60164 5.58627 4.25505 411 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 383 2.63163 4.27861 3.62349 2.36906 3.27773 3.63551 3.86172 2.74669 2.98003 2.17043 2.82283 3.41885 4.00989 3.27498 3.29432 2.89246 2.86263 2.54135 3.18058 2.78660 412 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 384 2.86571 5.07323 3.18855 2.64002 4.47036 3.56066 3.68280 3.87851 2.16029 3.38350 4.21269 3.10786 3.97116 2.26957 1.52490 2.34076 3.08469 3.52759 5.50147 4.23522 413 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01549 4.17550 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1154 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8f_I-F_4\n-LENG 377\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:32 2020\n-NSEQ 19\n-EFFN 1.479736\n-CKSUM 1671036676\n-GA 141 141;\n-STATS LOCAL MSV -11.3415 0.69962\n-STATS LOCAL VITERBI -12.3125 0.69962\n-STATS LOCAL FORWARD -5.4671 0.69962\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47037 4.51801 2.93120 2.62821 3.35328 3.07746 3.58470 3.00187 2.59255 2.38925 3.75617 3.01725 3.43449 2.88330 2.87275 2.60366 2.86509 2.81685 4.16535 3.48545\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.00000 *\n- 1 2.67576 5.03695 2.80241 2.43193 3.69475 3.47404 3.15105 3.35297 2.15859 3.31733 4.09312 2.96811 3.86581 2.29500 2.41017 2.54403 2.76568 3.39694 5.50438 3.43802 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 2 4.19817 5.31569 5.05504 4.81599 1.37078 4.81951 2.41754 3.95567 4.64309 3.21753 4.49701 4.40109 5.10163 4.50731 4.61180 4.19082 4.40257 3.85772 3.76980 0.85889 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 3 2.52564 5.17277 2.71081 1.99281 4.50549 3.45600 3.65201 3.98248 2.39196 3.26481 4.21840 2.74799 3.85570 2.30693 2.34470 2.31747 2.92366 3.55711 5.61139 4.20799 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 4 2.69046 4.34562 3.68151 3.11034 3.44620 3.69290 3.94957 2.81111 3.01870 1.97873 3.44211 3.47942 2.39900 3.32997 2.86198 2.95126 2.92278 2.22646 4.91925 2.84239 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 5 2.12032 5.14677 2.52653 2.10556 4.47100 3.45741 3.65396 3.94251 2.39935 3.44294 4.19471 2.73300 3.85589 2.56906 2.38877 2.65776 2.76323 3.22206 5.59197 4.19335 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 6 2.26194 4.66232 3.23469 2.51652 3.87368 3.55807 3.80834 2.62732 2.67996 2.91162 3.77228 1.97160 3.95851 3.01789 3.10662 2.79073 2.73484 2.60763 5.23420 3.94727 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 7 3.28352 2.89864 4.69161 4.29126 3.15486 4.01344 4.36649 3.39167 4.01535 2.98768 4.10160 4.30002 4.56'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 370 2.07242 4.56752 3.06911 2.76119 3.74968 3.57503 3.82385 2.89053 2.73874 2.80683 3.67417 3.22422 3.57344 2.82225 3.14900 2.65964 2.53127 2.05402 5.13803 3.86920 438 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 371 3.57113 5.68684 2.88684 0.44147 5.12573 3.73811 4.42137 4.70540 3.38701 4.24341 5.23262 3.41467 4.37965 3.65004 3.82811 3.51628 3.89193 4.34426 6.18288 4.96008 439 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 372 2.32780 4.68081 3.23679 2.67427 3.32931 3.56557 3.13545 3.25846 2.63238 2.70485 3.76722 3.15934 3.95095 2.61760 2.28371 2.78459 2.91634 2.98613 5.19065 2.68045 440 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 373 2.46505 5.07112 3.16244 2.57664 4.37411 3.57756 2.81554 3.29413 2.24315 3.33181 4.13531 3.08314 3.95895 2.49653 1.67712 2.80349 3.01641 3.44241 5.50346 4.18736 441 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 374 2.71612 5.05963 2.97194 1.67587 4.30875 3.49079 2.73498 3.78800 2.44399 3.33366 4.11992 2.98613 3.89243 2.44793 2.90781 2.70928 2.94717 3.13656 5.50292 3.20744 442 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 375 2.99865 4.39193 4.62496 4.04765 2.71059 4.14124 4.31939 2.32456 3.89435 1.98917 2.70033 4.16927 4.45946 4.03809 3.99612 3.45057 3.22630 2.30288 1.48650 3.44191 443 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 376 2.58619 5.15421 2.98674 2.19297 4.48654 3.48760 3.65944 3.94777 1.94683 3.44445 4.20307 2.96538 3.87912 2.31510 2.31672 2.32517 2.94350 3.17626 5.58613 4.20615 444 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42210 5.14445 0.61958 0.77255 0.48576 0.95510\n- 377 2.74032 5.18882 2.74746 2.43516 4.53219 3.49615 3.66705 3.99459 1.92431 3.48040 4.23866 2.97158 3.89176 2.47040 2.01857 2.22023 2.84169 3.58047 5.61173 4.23325 445 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01215 4.41625 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1373 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8f_I-F_5\n-LENG 450\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:32 2020\n-NSEQ 4\n-EFFN 0.441406\n-CKSUM 3912471831\n-GA 459 459;\n-STATS LOCAL MSV -11.9599 0.69857\n-STATS LOCAL VITERBI -12.4641 0.69857\n-STATS LOCAL FORWARD -6.3680 0.69857\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39801 4.44371 2.94099 2.69880 3.36845 2.86855 3.68318 2.86931 2.75373 2.36579 3.77908 3.08645 3.26356 3.01336 2.87200 2.64283 2.85899 2.70889 4.32893 3.65625\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.00000 *\n- 1 2.93447 4.49077 4.00094 3.59165 3.18953 3.80014 4.33737 2.36065 3.36195 1.79172 1.46812 3.87455 4.26110 3.74721 3.57248 3.27850 3.23920 2.36130 5.02386 3.78122 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 2 3.10495 4.58121 4.11596 3.75646 3.11980 3.92355 4.42652 2.32239 3.52462 0.93343 3.15854 4.03626 4.36733 3.90389 3.70780 3.49033 3.40162 2.34773 4.98170 3.69422 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 3 2.99573 4.42822 4.26930 3.88405 3.34439 4.01597 4.62120 1.13621 3.71124 1.94073 3.28784 4.13582 4.45231 4.06474 3.91308 3.50756 3.29603 1.84711 5.22519 3.95898 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 4 2.94204 5.06097 0.98565 2.30939 4.43223 3.17737 3.89307 4.01034 2.96892 3.62719 4.60511 2.86311 3.82705 3.13274 3.47827 2.91013 3.27994 3.65467 5.60963 4.31372 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 5 2.80644 5.21394 1.44719 2.09352 4.53174 3.13964 3.71604 4.08503 2.72617 3.63932 4.50551 2.20304 3.76624 2.89862 3.28511 2.73318 3.11553 3.67424 5.76694 4.29411 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 6 3.10495 4.58121 4.11596 3.75646 3.11980 3.92355 4.42652 2.32239 3.52462 0.93343 3.15854 4.03626 4.36733 3.90389 3.70780 3.49033 3.40162 2.34773 4.98170 3.69422 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 7 2.39941 4.37890 2.94603 2.67613 4.03274 3.08550 3.87101 3.38243 2.72718 3.12304 4.00959 2.41493 3.723'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 443 3.06192 4.70996 3.54990 3.16337 2.25368 3.78995 2.59198 3.31093 2.99962 2.77995 3.86202 3.43449 4.19021 3.35898 3.26303 3.14818 3.29834 3.12192 3.88629 1.44200 445 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 444 2.43677 4.30081 3.28953 2.91485 3.62076 3.20825 3.91388 2.98199 2.82657 2.25115 3.73700 3.23517 3.80809 3.22223 3.13822 1.70926 2.80902 2.71540 5.10616 3.76872 446 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 445 1.52815 4.14825 3.64462 3.27401 3.76896 3.17035 4.21403 2.57321 3.20527 2.62456 3.70044 3.45094 3.83657 3.53752 3.48334 2.60394 2.77946 1.97341 5.33733 4.10478 447 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 446 2.65398 4.75138 2.52335 1.98454 4.30820 1.68615 3.80480 3.74658 2.69711 3.37597 4.25608 2.88508 3.76922 3.01293 3.11422 2.69346 2.99857 3.36328 5.53516 4.23435 448 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 447 2.74024 4.95922 2.38976 1.45148 4.40319 2.49045 3.73948 3.85182 2.62699 3.44771 4.31874 2.79796 3.77996 2.92587 3.07923 2.72794 3.04941 3.47439 5.60149 4.25319 449 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 448 1.54629 4.14992 3.65189 3.27855 3.76234 3.18002 4.21638 2.55594 3.20917 2.61436 3.69216 3.45709 3.84325 3.54089 3.48728 2.61240 2.78336 1.94637 5.33394 4.10180 450 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 449 2.54517 4.21300 3.83991 3.42840 3.62836 3.45719 4.31279 2.19512 3.31386 2.38766 3.53228 3.64373 4.04181 3.66345 3.57768 2.87158 2.36002 1.41923 5.29203 4.05918 451 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 450 1.08149 4.17079 3.41752 3.20766 4.00810 2.99635 4.23493 3.12690 3.22276 3.01050 4.04808 3.36842 3.73135 3.56832 3.47591 2.52185 2.79610 2.78924 5.43985 4.23521 452 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02226 3.81629 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1226 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8f_I-F_6\n-LENG 401\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:33 2020\n-NSEQ 2\n-EFFN 0.402344\n-CKSUM 3187258583\n-GA 120 120;\n-STATS LOCAL MSV -11.3581 0.69920\n-STATS LOCAL VITERBI -12.3103 0.69920\n-STATS LOCAL FORWARD -5.8228 0.69920\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53697 4.51736 2.88865 2.68825 3.28141 2.95456 3.86946 2.64138 2.73493 2.39277 3.72551 2.99073 3.36344 3.10695 2.90211 2.64180 2.89312 2.58654 4.66941 3.56361\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.00000 *\n- 1 2.91144 4.47319 3.96799 3.55732 3.17835 3.77684 4.31030 2.34647 3.32892 1.78624 1.53332 3.84376 4.23852 3.71682 3.54291 3.25177 3.21604 2.34324 5.00794 3.76195 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 2 3.07102 4.55716 4.06533 3.70691 3.10991 3.88283 4.38674 2.31233 3.47532 0.97587 3.16059 3.98955 4.33279 3.86210 3.66310 3.44769 3.36958 2.32936 4.95932 3.66429 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 3 2.90473 4.86144 3.07543 2.71386 4.23027 3.40035 3.72182 3.65519 1.14858 3.23810 4.20559 3.14102 3.90771 2.91909 2.42439 2.95288 3.16474 3.36797 5.31804 4.12045 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 4 2.97152 4.41421 4.22264 3.83718 3.32466 3.98025 4.58086 1.17841 3.66364 1.92884 3.27443 4.09334 4.42066 4.02108 3.86910 3.46981 3.27286 1.84999 5.19813 3.92838 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 5 2.57516 4.35592 3.23299 3.12383 4.26326 0.85784 4.24698 3.84589 3.29441 3.50933 4.48601 3.39780 3.74458 3.62500 3.53709 2.74524 3.05053 3.38922 5.37683 4.36324 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 6 3.14008 4.66011 3.72657 3.44335 2.30224 3.74197 3.58859 3.16031 3.30306 2.63360 3.84391 3.63166 4.21853 3.62755 3.50176 3.28379 3.42693 3.02751 3.94245 1.10351 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 7 2.97152 4.41421 4.22264 3.83718 3.32466 3.98025 4.58086 1.17841 3.66364 1.92884 3.27443 4.09334 4.420'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 394 2.92233 4.76304 3.40551 2.93532 4.09822 3.42248 3.77472 3.63624 2.21532 3.16631 4.17040 3.29997 3.93052 3.00054 1.10248 3.01132 3.19466 3.36399 5.21352 4.04414 394 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 395 2.92233 4.76304 3.40551 2.93532 4.09822 3.42248 3.77472 3.63624 2.21532 3.16631 4.17040 3.29997 3.93052 3.00054 1.10248 3.01132 3.19466 3.36399 5.21352 4.04414 395 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 396 3.07102 4.55716 4.06533 3.70691 3.10991 3.88283 4.38674 2.31233 3.47532 0.97587 3.16059 3.98955 4.33279 3.86210 3.66310 3.44769 3.36958 2.32936 4.95932 3.66429 396 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 397 2.92233 4.76304 3.40551 2.93532 4.09822 3.42248 3.77472 3.63624 2.21532 3.16631 4.17040 3.29997 3.93052 3.00054 1.10248 3.01132 3.19466 3.36399 5.21352 4.04414 397 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 398 2.89002 4.97982 2.46164 1.13983 4.31705 3.22719 3.81005 3.75576 2.68114 3.38625 4.36581 2.89548 3.82878 3.02872 3.08035 2.88163 3.19441 3.44836 5.50331 4.22786 398 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 399 2.97152 4.41421 4.22264 3.83718 3.32466 3.98025 4.58086 1.17841 3.66364 1.92884 3.27443 4.09334 4.42066 4.02108 3.86910 3.46981 3.27286 1.84999 5.19813 3.92838 399 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 400 2.97152 4.41421 4.22264 3.83718 3.32466 3.98025 4.58086 1.17841 3.66364 1.92884 3.27443 4.09334 4.42066 4.02108 3.86910 3.46981 3.27286 1.84999 5.19813 3.92838 400 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 401 2.92233 4.76304 3.40551 2.93532 4.09822 3.42248 3.77472 3.63624 2.21532 3.16631 4.17040 3.29997 3.93052 3.00054 1.10248 3.01132 3.19466 3.36399 5.21352 4.04414 401 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02297 3.78488 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1178 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8f_I-F_7\n-LENG 385\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:33 2020\n-NSEQ 4\n-EFFN 0.683594\n-CKSUM 1566063947\n-GA 434 434;\n-STATS LOCAL MSV -11.5988 0.69951\n-STATS LOCAL VITERBI -12.3457 0.69951\n-STATS LOCAL FORWARD -5.6753 0.69951\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42749 4.41872 2.90684 2.68368 3.30803 2.83302 3.69053 2.86191 2.68879 2.43539 3.64203 3.13211 3.07002 3.11444 2.86394 2.66228 2.91378 2.66419 4.87174 3.70512\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19199 4.00064 1.85544 0.61958 0.77255 0.00000 *\n- 1 2.94510 4.49901 4.01594 3.60741 3.19492 3.81068 4.34984 2.36742 3.37705 1.79468 1.43949 3.88866 4.27144 3.76121 3.58599 3.29076 3.24996 2.36980 5.03133 3.79012 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03242 3.84106 4.56341 0.61958 0.77255 0.62822 0.76259\n- 2 2.21199 4.14896 3.25784 2.96317 4.09146 2.93495 4.04910 3.42297 2.97684 3.17744 4.05013 3.18675 3.64989 3.31646 3.29102 1.57862 1.98449 2.97414 5.45874 4.21415 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03242 3.84106 4.56341 0.61958 0.77255 0.62822 0.76259\n- 3 2.74944 4.76480 2.14558 2.48719 3.25533 3.38744 3.63973 3.37103 2.70630 2.97808 3.92224 2.98166 3.88161 2.99547 3.13812 2.79379 3.01157 3.10539 4.76804 2.05175 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03242 3.84106 4.56341 0.61958 0.77255 0.40599 1.09755\n- 4 2.97172 4.39983 4.44018 3.91909 3.34643 4.13274 4.60921 2.00120 3.77088 1.89804 2.26954 4.16684 4.49127 4.04080 3.97833 3.49058 3.23863 1.28577 5.21837 4.03686 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 5 2.38312 4.31968 3.28019 2.98519 4.16130 3.09008 4.09775 3.47396 2.99334 3.20528 4.11428 3.26314 1.53957 3.35493 3.31516 2.54657 2.08781 3.06924 5.51906 4.28074 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 6 2.98440 5.54506 1.21801 1.72682 4.83054 3.22216 3.79394 4.35086 2.83805 3.86223 4.73242 2.69105 3.85861 2.96772 3.44291 2.86235 3.27999 3.92840 6.01175 4.50535 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 7 2.59163 4.49877 3.14777 2.28447 3.79603 3.42713 3.81769 2.91266 2.69012 2.77848 3.69925 3.14988 3.892'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 378 2.77934 5.04543 2.86494 2.45014 4.41869 2.64876 3.63261 3.83861 1.65634 3.35508 4.17833 2.95320 3.87215 2.27489 2.54569 2.76876 3.01090 3.47742 5.49328 4.18733 405 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 379 2.94921 5.15074 3.06873 2.60222 4.53085 3.54495 3.63115 3.93457 1.36322 3.40381 4.26545 3.06551 3.96567 2.08862 2.29254 2.93236 3.14915 3.60004 5.48723 4.24384 406 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 380 2.77643 5.07698 2.80136 2.40485 4.34853 3.41975 2.72803 3.83814 1.85549 3.35333 4.17303 2.13415 3.86266 2.76271 2.59987 2.75581 3.00351 3.47799 5.46748 4.12304 407 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 381 2.56339 4.46898 3.19603 2.72117 3.64409 3.39396 2.44574 3.11723 2.64905 2.80956 3.69706 3.14796 3.86491 3.03051 3.01480 2.28132 2.84329 2.24163 5.05278 3.72733 408 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02757 4.00064 4.72298 0.61958 0.77255 0.48576 0.95510\n- 382 2.62899 4.86922 1.85232 2.33665 4.39701 2.47755 3.76484 3.83190 2.66925 3.42649 4.24772 2.85818 3.78840 2.93014 3.16724 2.64341 2.18595 3.42057 5.63526 4.25640 409 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19199 4.00064 1.85544 0.61958 0.77255 0.48576 0.95510\n- 383 2.21182 4.17625 3.07560 2.88193 4.24548 1.69150 4.07514 3.71234 3.04546 3.38938 4.22822 3.13061 3.62575 3.34014 3.37633 1.77067 2.69193 3.16768 5.56918 4.32128 410 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03242 3.84106 4.56341 0.61958 0.77255 0.62822 0.76259\n- 384 2.84371 5.02152 2.89484 2.49737 4.34997 3.43557 3.59540 3.77321 1.73817 3.28140 4.15480 2.97396 3.88315 1.90916 2.34901 2.83841 3.06177 3.44982 5.40482 4.13432 411 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03242 3.84106 4.56341 0.61958 0.77255 0.62822 0.76259\n- 385 2.66089 4.92365 1.61430 2.21264 4.40300 3.12556 3.74531 3.89359 2.71925 3.49502 4.34971 2.75002 3.74712 2.93035 3.23792 2.06917 2.99578 3.47932 5.66544 4.24412 412 d - - -\n- 2.68598 4.42230 2.77525 2.73128 3.46359 2.40518 3.72499 3.29359 2.67746 2.69360 4.24695 2.90352 2.73718 3.18151 2.89806 2.37892 2.77497 2.98523 4.58482 3.61508\n- 0.16959 1.85797 * 0.89963 0.52209 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8f_I-F_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1151 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8f_I-F_8\n-LENG 376\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:33 2020\n-NSEQ 39\n-EFFN 2.213745\n-CKSUM 1922316135\n-GA 145 145;\n-STATS LOCAL MSV -11.2954 0.69963\n-STATS LOCAL VITERBI -12.2297 0.69963\n-STATS LOCAL FORWARD -5.6622 0.69963\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49180 4.57509 2.91547 2.62515 3.36998 3.08946 3.56748 2.99844 2.59191 2.39122 3.76447 2.98763 3.41163 2.86612 2.87290 2.61775 2.85183 2.80194 4.24314 3.50212\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.00000 *\n- 1 2.70923 5.24873 2.69798 2.30063 4.04840 3.29244 3.39178 4.06304 1.64492 3.54970 4.29202 3.01033 3.93233 2.36062 2.71293 2.63444 2.85314 3.31835 5.68709 3.85750 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 2 3.57373 4.95605 4.73349 4.27560 1.55423 4.49204 3.20523 3.47628 3.44072 3.02663 4.09335 4.26637 4.82756 4.24445 4.25266 3.80813 3.79718 2.94702 4.19882 0.94613 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 3 2.39935 5.26282 2.48732 2.02486 4.60334 3.53706 3.42253 4.08606 2.39451 3.13728 4.30482 3.00621 3.58446 2.20311 2.49181 2.51783 2.84529 3.65104 5.69803 4.28986 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 4 2.77069 4.43647 3.74307 3.17254 3.56186 3.77227 3.61298 2.92253 3.10489 1.90451 3.54287 3.54971 2.31377 3.40369 2.89676 2.74678 3.00241 2.11895 5.02215 3.02551 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 5 2.15861 5.26418 2.41474 2.24307 4.60538 3.29045 3.72469 4.08869 2.21392 3.56778 4.30599 2.73657 3.70311 2.61823 2.47205 2.53945 2.69452 3.36945 5.69910 4.29036 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 6 2.24470 3.89433 3.11506 2.30586 4.30776 3.57611 3.45322 3.01524 2.45388 3.31460 4.10897 2.26364 3.96716 2.56065 3.02678 2.71452 2.33386 3.27861 5.53102 4.17655 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 7 3.29412 3.77803 4.83777 4.35034 3.05395 4.24094 4.36024 2.74480 4.06319 2.64819 3.81956 4.35415 4.69'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 369 2.68686 5.44602 1.35727 1.77992 4.76080 3.56516 3.86708 4.24764 2.68292 3.45360 4.50878 2.84282 4.03503 2.98620 3.20023 2.70237 3.18600 3.82321 5.88923 4.00005 501 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 370 1.88296 4.67247 2.86130 2.83669 3.84242 3.37526 3.90329 2.86118 2.81310 2.89964 3.51960 3.30529 3.37241 2.97392 3.22670 2.78689 2.53475 2.27833 5.22745 3.36695 502 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 371 3.18373 5.97208 2.38291 0.65457 5.26720 3.61670 4.15496 4.79671 3.15286 4.26836 5.11715 3.07029 4.24116 2.93555 3.73601 3.23032 3.64487 4.35372 6.41742 4.89814 503 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 372 2.50339 4.35028 3.91624 3.34068 2.45331 3.81079 2.69648 2.56208 3.00104 2.05607 3.46027 3.66300 4.18505 3.34644 2.91389 3.07606 2.99951 2.52208 4.94707 2.59798 504 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 373 2.65375 5.22327 2.92606 2.41804 4.54841 3.54399 3.03798 3.71357 2.30757 3.33673 4.26934 2.47337 3.93688 2.60774 1.92272 2.55066 2.84295 3.43367 5.66772 3.69121 505 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 374 2.47167 4.91426 3.19978 1.69587 3.34550 3.61079 2.40013 3.37681 2.63419 3.16451 3.98959 3.15622 4.00034 2.88352 3.08960 2.81855 3.00020 3.13802 5.41257 3.10783 506 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 375 3.12960 4.48809 4.96253 4.36489 2.89598 4.31739 4.59892 2.13512 4.18687 1.84199 2.69725 4.43042 4.62225 4.28740 4.22394 3.63520 3.35591 2.30990 1.36669 3.82789 507 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01364 4.69752 5.41986 0.61958 0.77255 0.48576 0.95510\n- 376 2.37525 5.18710 3.05562 2.41225 4.49827 3.55539 3.74325 3.66295 2.03381 3.47633 4.01028 3.03829 3.94743 2.29515 2.17796 2.34689 2.83872 3.15538 5.63935 4.25364 508 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00920 4.69308 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u1_I-G_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u1_I-G_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2126 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8u1_I-U_1\n-LENG 701\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:33 2020\n-NSEQ 8\n-EFFN 1.582031\n-CKSUM 3914535741\n-GA 126 126;\n-STATS LOCAL MSV -12.2470 0.69663\n-STATS LOCAL VITERBI -13.0887 0.69663\n-STATS LOCAL FORWARD -6.3212 0.69663\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41537 4.47335 2.90082 2.64625 3.26766 2.87848 3.85694 2.97512 2.66601 2.44222 3.76907 3.11536 3.24692 3.04475 2.77617 2.61205 2.85817 2.75160 4.17575 3.72081\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.00000 *\n- 1 3.72176 4.96141 5.50726 4.97274 3.34262 5.08767 5.43584 1.62410 4.80854 0.70095 3.11080 5.19754 5.18993 4.83282 4.84904 4.49348 3.94481 2.36890 5.54126 4.50278 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 2 3.18073 5.14919 3.67588 3.07774 4.29426 3.88223 3.94605 3.60698 0.99718 2.04976 4.17559 3.48732 4.27320 3.12246 2.58602 3.24918 3.38474 3.40487 5.52617 4.28971 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 3 1.22666 4.69418 3.42052 2.95738 4.41472 2.56018 4.06518 3.82213 2.81289 3.44572 4.27156 3.33797 3.99090 3.25260 2.07383 2.77051 3.02298 3.40356 5.66718 4.40146 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 4 2.09256 4.55378 4.57841 4.01872 3.34036 4.22893 4.60543 2.47207 3.87657 1.03251 2.45817 4.24954 4.56194 4.08249 4.04820 3.55416 3.35270 2.46379 5.16849 4.03991 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 5 1.78330 4.40107 3.85007 3.41212 3.95136 1.54605 4.32462 2.02187 3.37845 2.97377 3.90333 3.63953 4.07500 3.66953 3.67954 2.84912 2.99866 2.79745 5.41963 4.20415 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 6 2.88469 4.39365 4.38029 3.86660 3.68319 3.96223 4.55522 2.01799 3.76097 2.55042 3.61249 4.06669 4.42311 4.03044 3.98341 2.17513 3.18050 1.07820 5.31120 4.09785 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 7 2.07398 4.46540 4.54955 4.00157 1.69156 4.13068 4.40624 2.54731 3.86939 1.44873 3.26281 4.16661 4.48'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 694 3.16611 4.60754 4.54223 3.97400 2.41930 4.25743 4.41751 2.63553 3.74270 0.90010 3.21453 4.19762 4.56308 4.00286 2.96035 3.57347 3.39269 2.66290 4.92049 3.61620 999 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 695 2.12562 4.89126 3.36917 2.76978 4.14248 3.66147 3.79789 3.51084 2.11859 2.15736 3.98269 3.23549 4.04311 2.97152 1.84517 2.91443 3.06370 3.22673 5.37779 4.11426 1000 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 696 1.40151 4.35623 3.99910 3.52439 3.78528 3.56172 4.33589 1.69512 3.45431 2.79009 3.74600 3.73105 4.13546 3.73586 3.72270 2.36288 3.01172 2.58315 5.29248 4.08376 1001 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 697 2.58010 4.43229 3.95268 3.60204 4.22999 3.35703 4.53045 3.34015 3.56066 3.27476 4.22399 3.72128 4.06979 3.86553 3.83442 0.94141 3.03866 1.87950 5.70011 4.46074 1002 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 698 2.85018 4.86715 3.13486 3.07241 4.91233 0.72137 4.48737 4.50214 3.49009 4.10972 4.96016 2.33632 4.13124 3.73906 3.87275 2.96029 3.32159 3.91128 6.15615 4.87988 1003 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 699 2.96177 4.50291 4.04323 2.63241 3.50691 4.01927 4.33850 2.47869 3.43344 1.24042 3.41358 3.87294 4.38402 3.73838 3.70174 3.32550 3.20146 1.79857 5.16983 3.97398 1004 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 700 2.00554 4.66320 3.27082 2.72368 3.93803 3.52318 2.98053 3.32788 2.70629 2.98643 3.83394 3.19294 2.59664 3.04321 3.13348 2.47096 2.50343 2.50946 5.28495 3.99773 1005 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 701 3.02190 5.42658 2.18357 2.43025 4.85720 3.45313 3.99049 4.36752 2.93916 3.89197 4.71715 1.98288 1.33608 3.15205 3.48179 2.96828 3.32576 3.93152 6.05068 4.60296 1006 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01163 4.45974 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u1_I-G_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u1_I-G_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,959 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8u1_I-U_2\n-LENG 312\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:34 2020\n-NSEQ 16\n-EFFN 2.144531\n-CKSUM 214385137\n-GA 48 48;\n-STATS LOCAL MSV -11.1579 0.70096\n-STATS LOCAL VITERBI -12.0496 0.70096\n-STATS LOCAL FORWARD -5.3709 0.70096\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34616 4.55092 2.97368 2.67763 3.30291 2.95618 3.70561 3.04892 2.75113 2.32308 3.72166 3.14600 3.16598 3.02601 2.82251 2.70260 2.78521 2.78982 3.93181 3.72521\n- 2.68561 4.42267 2.77503 2.73123 3.46396 2.40555 3.72536 3.29396 2.67783 2.69336 4.24370 2.90365 2.73725 3.18155 2.89792 2.37885 2.77475 2.98538 4.58519 3.61545\n- 1.08880 1.16334 1.04715 1.44833 0.26783 0.00000 *\n- 1 2.38416 4.82237 2.67541 2.47575 4.07783 3.44877 3.67383 3.49109 2.26686 3.09790 3.18481 2.99276 3.85019 2.82589 2.93587 2.43018 2.16133 3.16592 5.34293 4.00916 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02143 4.24928 4.97163 0.61958 0.77255 0.89254 0.52698\n- 2 2.66121 4.83817 3.02083 2.27994 4.09958 3.46759 3.70901 3.50920 2.51103 3.12039 3.28713 2.69797 2.28013 2.86598 2.96385 2.70092 2.32879 3.18692 5.36909 4.03938 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02016 4.31002 5.03236 0.61958 0.77255 0.43548 1.04116\n- 3 2.13879 4.73673 2.89390 2.70170 3.94054 3.08589 3.82681 3.33082 2.68989 2.68516 2.20008 2.88617 3.98746 3.02668 3.12553 2.58225 2.68427 3.05147 5.28538 3.99187 9 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01539 4.57774 5.30009 0.61958 0.77255 0.65795 0.72963\n- 4 2.72843 5.09494 3.03410 2.16949 4.38587 3.52329 2.87568 3.83462 2.47100 3.37603 4.15091 2.33665 3.91582 2.83398 2.50846 2.72024 2.25476 3.03269 5.55989 3.43323 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01539 4.57774 5.30009 0.61958 0.77255 0.65795 0.72963\n- 5 2.49812 5.11818 3.00608 1.70603 4.41726 3.08478 3.26303 3.86952 2.48226 3.40554 4.17786 3.01052 3.91833 2.60228 2.96354 2.72464 2.22583 3.11013 5.58518 4.20608 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01539 4.57774 5.30009 0.61958 0.77255 0.65795 0.72963\n- 6 2.99832 4.41241 4.57452 3.99516 2.67014 4.12967 2.49286 1.92424 3.84314 1.25882 3.27055 4.14319 4.46024 4.01523 3.96680 3.43335 3.22659 2.54185 4.83362 3.54598 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01539 4.57774 5.30009 0.61958 0.77255 0.65795 0.72963\n- 7 2.72443 4.57222 3.42726 2.63316 3.73054 3.65423 3.15344 2.69853 2.82362 2.18906 3.40790 3.31427 2.94420'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67455 5.39690 0.61958 0.77255 0.48576 0.95510\n- 305 2.22002 4.78326 3.37363 2.82091 4.08141 3.61467 3.92570 3.46340 2.74391 3.11605 3.25914 3.28636 1.62643 3.12219 2.47668 2.86721 2.72590 3.16622 5.40838 4.12353 349 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67455 5.39690 0.61958 0.77255 0.48576 0.95510\n- 306 0.80240 4.55661 4.04266 3.72739 4.89083 1.97489 4.76139 4.34301 3.77895 4.00228 4.79135 3.79403 3.00253 4.03031 4.08630 2.32516 3.11416 3.69284 6.21302 5.02738 350 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67455 5.39690 0.61958 0.77255 0.48576 0.95510\n- 307 2.38422 5.21330 3.03598 2.26661 4.53714 3.54459 3.73024 3.41306 2.25501 3.50732 4.26071 2.70970 3.93719 2.57329 1.90611 2.52761 2.66924 3.59272 5.65699 4.26450 351 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67455 5.39690 0.61958 0.77255 0.48576 0.95510\n- 308 2.33613 4.57465 3.49643 2.93195 3.72767 3.69810 3.93751 2.70559 2.89669 2.30369 3.17772 3.02312 2.24021 2.78660 2.92014 2.93141 2.98851 2.56572 5.14305 3.89033 352 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67455 5.39690 0.61958 0.77255 0.48576 0.95510\n- 309 2.51741 4.19821 4.42322 3.82703 3.29661 3.90209 4.21890 1.88661 3.67114 2.18855 3.31265 3.95591 3.51542 3.86255 3.13020 3.19938 3.00128 1.55398 3.46862 3.63398 353 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10784 4.67455 2.37626 0.61958 0.77255 0.48576 0.95510\n- 310 1.90682 4.61791 3.37099 2.54690 3.16663 3.15485 3.86747 3.16296 2.78345 2.84435 3.71169 3.27401 2.99180 3.11053 2.85454 2.86171 2.61125 2.65764 3.67231 3.90674 354 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23925 4.58203 1.59676 0.61958 0.77255 0.65124 0.73689\n- 311 2.43385 4.82761 3.07759 2.52278 4.08353 2.93417 3.14143 3.49756 2.51066 3.10660 3.92270 3.03561 3.26863 2.86254 2.59751 2.49022 2.27000 2.77623 5.35549 4.02659 355 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08015 4.36191 2.74475 0.61958 0.77255 0.92193 0.50708\n- 312 2.44427 5.16514 2.50931 2.06890 4.49394 2.86575 3.63582 3.97305 2.23274 3.46397 4.21457 2.88673 3.18074 2.43124 2.89020 2.40007 2.91462 3.54790 5.60665 4.19729 356 e - - -\n- 2.68583 4.42254 2.77508 2.73152 3.46383 2.40495 3.72523 3.29383 2.67753 2.69384 4.24719 2.90376 2.73729 3.18094 2.89745 2.37881 2.77498 2.98547 4.58506 3.61532\n- 0.72314 0.66403 * 1.00106 0.45806 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u2_I-G_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u2_I-G_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,839 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8u2_I-U_1\n-LENG 272\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:34 2020\n-NSEQ 4\n-EFFN 0.816406\n-CKSUM 4061685124\n-GA 50 50;\n-STATS LOCAL MSV -11.0892 0.70212\n-STATS LOCAL VITERBI -11.6814 0.70212\n-STATS LOCAL FORWARD -5.5637 0.70212\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44907 4.26066 2.89817 2.75526 3.09482 2.84141 3.80885 2.94953 2.73166 2.37312 3.70938 3.15201 3.23139 3.14166 2.88118 2.64510 2.88158 2.68852 4.09353 3.62742\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.00000 *\n- 1 2.43230 4.35274 3.40511 3.23615 4.29510 3.07940 4.33735 3.84913 3.32450 3.55470 4.46623 3.42279 3.83682 3.65790 3.60016 0.81098 2.92929 3.33695 5.65143 4.38130 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 2 3.15689 4.46060 4.89737 4.41004 3.59888 4.51833 5.11624 1.07103 4.29418 2.07940 3.39848 4.61890 4.82572 4.55408 4.48278 3.91650 3.42491 1.35081 5.59524 4.39364 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 3 2.05818 4.62695 3.14929 2.66723 4.14447 3.32438 3.78541 3.53606 2.50486 3.15894 4.00029 3.10101 2.21337 2.96414 2.21729 2.65406 2.87674 3.17713 5.39756 4.11665 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 4 2.97872 4.46849 4.41483 4.08948 3.71420 3.93868 4.85753 2.06449 3.96063 2.36745 3.65178 4.24396 4.49101 4.30742 4.15204 3.45951 3.33739 0.79402 5.53284 4.27556 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 5 3.23160 5.37622 0.65581 2.49277 4.78507 3.38414 4.13695 4.42454 3.26411 3.99693 4.98471 3.05792 4.05232 3.37996 3.80532 3.17345 3.57641 4.04273 5.91091 4.62943 5 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 6 2.73775 4.52251 3.53529 3.14064 3.63727 3.51414 4.10529 2.94446 3.02273 1.86316 3.68693 3.48907 1.55310 3.42603 3.32048 2.93927 3.07021 2.77802 5.19317 3.90691 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 7 2.64446 4.61885 3.32509 2.83457 4.11370 3.38673 3.84225 3.45348 2.46423 3.11178 4.00571 3.22180 3.91146'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 265 3.20685 4.59251 4.60940 4.10027 1.43921 4.29226 4.29373 2.43257 3.95413 1.68926 2.15499 4.25456 4.57841 4.08779 4.08265 3.64075 3.44262 2.50610 4.60275 3.14792 281 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 266 3.00640 5.08757 3.38286 2.79416 4.21716 3.65006 2.40995 3.86654 2.06017 3.34694 4.22799 3.21384 4.04434 2.84263 1.33284 3.02126 3.20040 3.55721 5.31994 4.02100 282 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 267 3.36139 4.71774 4.81546 4.26768 3.07883 4.55255 4.83841 2.24628 4.07030 0.87652 2.11468 4.54700 4.74964 4.23802 4.20557 3.91415 3.58677 2.39498 5.16978 4.07955 283 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 268 2.70129 4.42124 3.62656 3.25273 3.58381 2.22884 4.15488 2.86304 3.16369 1.28802 3.63098 3.55567 4.05769 3.52892 3.43616 2.94080 3.03988 2.68542 5.13752 3.87773 284 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 269 3.71683 4.95352 4.63604 4.31319 1.95611 4.41553 3.47892 3.53115 4.08724 2.86539 4.09831 4.07983 4.73125 4.12578 4.13755 3.79528 3.93492 3.42202 2.11373 0.94599 285 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 270 2.83614 4.88258 3.30502 2.79819 4.35939 3.49398 3.78913 3.79322 2.28175 3.33532 4.21210 3.21716 2.39419 2.95886 1.34125 2.89448 3.10621 3.45086 5.45655 4.23170 286 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 271 2.34196 4.27345 3.41860 3.14864 4.30091 2.00256 4.24123 3.65075 3.20150 3.38842 4.24893 3.35017 3.78131 3.51625 3.51173 2.51822 1.26893 3.16955 5.64428 4.43238 287 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 272 2.94124 5.24208 2.80656 1.95466 4.61903 3.48417 3.68890 4.02428 1.32403 3.51579 4.35904 2.98544 3.95118 2.82840 2.53489 2.90164 3.16288 3.66473 5.61747 4.32133 288 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.07626 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u2_I-G_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u2_I-G_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,911 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8u2_I-U_2\n-LENG 296\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:34 2020\n-NSEQ 2\n-EFFN 0.371094\n-CKSUM 2775617865\n-GA 200 200;\n-STATS LOCAL MSV -10.6017 0.70141\n-STATS LOCAL VITERBI -12.0206 0.70141\n-STATS LOCAL FORWARD -5.6786 0.70141\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50942 4.07785 2.87691 2.80201 3.05870 2.80310 3.92097 2.87309 2.74548 2.33331 3.66705 3.19767 3.19673 3.22309 2.87462 2.65106 2.94136 2.68525 4.20984 3.51864\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 2.64364 4.63134 2.66197 2.53879 3.97922 3.11912 3.84748 3.67062 2.74432 3.33031 4.28873 1.35324 3.76754 3.12283 3.09307 2.71655 3.02383 3.30326 5.29751 3.93702 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.650'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 289 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 289 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 290 1.17216 4.14682 3.36293 3.15321 3.95417 2.97327 4.18677 3.06495 3.16685 2.95070 3.99690 3.32739 3.70315 3.51837 3.42243 2.49955 2.76997 2.73744 5.39182 4.18130 290 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 291 2.36359 4.20727 3.34269 3.09392 3.88359 3.04887 4.11833 2.99853 3.03481 2.86544 3.92547 3.31758 3.74578 3.43570 3.29644 2.56408 1.35825 2.70456 5.33074 4.10122 291 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 292 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 292 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 293 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 293 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 294 2.80593 4.78222 2.84227 2.59911 3.93602 3.30170 3.75522 3.55431 2.42807 3.06657 4.10101 3.05652 3.85605 1.42836 2.71278 2.85976 3.10475 3.29152 5.22825 3.91616 294 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 295 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.90921 2.98827 1.14741 2.98635 3.17025 3.33055 5.19059 4.01682 295 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 296 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 296 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u2_I-G_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas8u2_I-G_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,953 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas8u2_I-U_3\n-LENG 310\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:34 2020\n-NSEQ 6\n-EFFN 0.635742\n-CKSUM 2865421626\n-GA 320 320;\n-STATS LOCAL MSV -11.4002 0.70101\n-STATS LOCAL VITERBI -12.0519 0.70101\n-STATS LOCAL FORWARD -5.6581 0.70101\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.31380 4.21473 2.97294 2.75291 3.54821 2.85148 3.80323 2.95576 2.81339 2.37007 3.78257 3.23398 3.12061 3.17447 2.92003 2.53921 2.73343 2.62325 4.08049 3.83219\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21900 3.96862 1.72720 0.61958 0.77255 0.00000 *\n- 1 2.90276 4.46665 3.95538 3.54430 3.17433 3.76787 4.30007 2.34132 3.31635 1.78453 1.55910 3.83206 4.22993 3.70533 3.53164 3.24162 3.20736 2.33656 5.00203 3.75467 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03435 3.78397 4.50632 0.61958 0.77255 0.64234 0.74668\n- 2 2.27585 4.19366 3.13358 2.94778 3.98915 2.92537 4.05886 3.50092 3.01539 3.22903 4.16445 3.18521 3.65740 3.37233 3.30245 1.23295 2.74980 3.05562 5.36938 4.07278 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03435 3.78397 4.50632 0.61958 0.77255 0.64234 0.74668\n- 3 1.81976 4.09803 3.20892 2.96315 4.10043 2.87083 4.06662 3.43183 3.02260 3.19972 4.07794 3.16413 3.60781 3.34451 3.32848 1.52389 2.63901 2.96306 5.47482 4.22886 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03435 3.78397 4.50632 0.61958 0.77255 0.64234 0.74668\n- 4 1.48252 4.15515 3.20724 2.92578 4.03115 2.94698 4.02564 3.30726 2.96203 3.07331 3.98646 3.17248 2.62570 3.29732 3.27856 2.40795 2.68405 2.90313 5.40864 4.17811 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03435 3.78397 4.50632 0.61958 0.77255 0.64234 0.74668\n- 5 1.68266 4.15488 3.12787 2.83576 4.10717 2.36207 3.97777 3.48624 2.92125 3.18394 4.02833 3.10580 2.70938 3.22822 3.26906 2.35743 2.64595 3.01605 5.44431 4.20776 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03435 3.78397 4.50632 0.61958 0.77255 0.64234 0.74668\n- 6 2.49005 2.14001 3.28589 2.34952 3.67085 3.26747 3.90042 2.86740 2.81017 2.70829 3.66541 3.24734 3.82393 3.20467 3.11757 2.68723 2.82547 2.61292 5.09223 3.85520 6 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03435 3.78397 4.50632 0.61958 0.77255 0.64234 0.74668\n- 7 2.66280 4.66929 3.13086 2.66632 4.10288 3.32671 3.67834 3.53778 2.22553 3.11322 4.00927 3.08262 2.838'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 303 2.62428 4.88530 2.14480 2.23729 4.29421 3.18598 3.67459 3.72967 2.56869 3.33160 4.16481 2.16357 3.74362 2.84254 3.05927 2.62268 2.37818 3.34936 5.54078 4.15260 307 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 304 2.28126 4.14522 3.42995 3.00879 3.81535 3.08163 3.99686 2.96725 2.95194 2.83840 3.75674 3.25656 3.72507 3.28718 3.27056 2.04129 2.03657 2.23721 5.24681 4.01277 308 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 305 2.92987 4.99667 3.31488 2.71433 4.39816 3.55280 3.56855 3.76669 1.63062 3.25856 4.14273 3.12110 3.94707 2.71734 1.52930 2.94670 3.11725 3.46175 5.33956 4.15248 309 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 306 2.66943 4.79945 2.48377 1.87869 4.32367 1.81143 3.77886 3.76325 2.66921 3.38316 4.25834 2.85544 3.76843 2.97950 3.09799 2.69548 3.00302 3.38235 5.54647 4.23071 310 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 307 2.55452 4.53852 3.03901 2.69099 4.14012 1.79641 3.80031 3.60124 2.48571 3.21284 4.08840 3.09066 3.77764 3.01252 2.11587 2.65578 2.90255 3.22225 5.34813 4.11364 311 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 308 2.48571 4.27969 3.40844 3.00485 2.43873 3.29843 3.83713 2.92921 2.98041 2.61474 3.62306 3.30311 3.86121 3.29238 3.29664 1.80751 2.83472 2.68642 4.72143 3.25519 312 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 309 2.74336 4.84011 2.99477 2.56963 4.19518 3.37853 3.62668 3.68059 2.13914 3.23137 4.10051 2.38176 3.85451 2.79775 1.70335 2.77824 2.99814 3.34376 5.32649 4.04324 313 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03303 3.82254 4.54488 0.61958 0.77255 0.61384 0.77929\n- 310 1.08824 4.16884 3.41324 3.20333 4.00388 2.99448 4.23109 3.12205 3.21832 3.00583 4.04402 3.36514 3.72909 3.56432 3.47169 2.52000 2.79395 2.78517 5.43609 4.23099 314 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02236 3.81186 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4115 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas9_II-A_II-B_II-C_5\n-LENG 1364\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:36 2020\n-NSEQ 22\n-EFFN 0.931885\n-CKSUM 1009634370\n-GA 492.2 487.5;\n-STATS LOCAL MSV -13.0378 0.69494\n-STATS LOCAL VITERBI -14.1434 0.69494\n-STATS LOCAL FORWARD -7.0983 0.69494\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64068 4.70559 2.84418 2.61359 3.27184 3.10865 3.69513 2.79804 2.50934 2.41487 3.64306 2.97131 3.57723 2.94772 2.87347 2.71411 2.87957 2.70727 4.63780 3.32499\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07119 4.15205 2.93771 0.61958 0.77255 0.00000 *\n- 1 2.87303 4.51217 3.75706 3.30816 3.21909 3.74983 3.55889 2.78207 3.03803 2.23988 1.34417 3.62725 4.18799 3.48356 3.27659 3.12881 3.14110 2.69132 4.85338 3.48373 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02479 4.10564 4.82799 0.61958 0.77255 0.53908 0.87535\n- 2 2.46510 5.01980 2.55624 2.20995 4.32602 3.24511 3.58367 3.56204 2.14616 3.30837 4.07416 2.61193 3.78156 2.69651 2.70755 2.51493 2.57147 3.39001 5.47699 4.09016 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02479 4.10564 4.82799 0.61958 0.77255 0.53908 0.87535\n- 3 2.64398 5.01243 2.80456 2.14284 4.31716 3.24431 3.59453 3.76207 1.77236 3.29085 4.07038 2.89928 3.80854 2.71325 2.56134 2.63007 2.87207 3.22368 5.45989 3.74379 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05256 4.10564 3.36048 0.61958 0.77255 0.53908 0.87535\n- 4 2.59338 4.70082 3.04350 2.42362 3.91942 3.43828 3.64602 2.76706 2.38805 2.94908 3.78118 2.76097 2.98309 2.69557 2.71094 2.54671 2.82422 2.79811 5.21840 3.90743 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11293 4.07856 2.40956 0.61958 0.77255 0.56787 0.83640\n- 5 2.64393 4.98536 2.71290 2.34537 4.28972 3.37909 3.58735 3.72868 1.86226 3.26627 4.05753 2.76499 3.54379 2.32230 2.73263 2.63201 2.87520 3.09671 5.44188 4.08415 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13518 3.99341 2.22556 0.61958 0.77255 0.64888 0.73947\n- 6 2.66289 5.08567 2.18797 2.03013 4.37891 3.27830 3.59775 3.84374 2.42750 3.37281 4.16514 2.38056 3.36021 2.57317 2.93256 2.62184 2.91010 3.22324 5.55170 4.14313 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03087 3.88910 4.61144 0.61958 0.77255 0.42097 1.06830\n- 7 3.60113 4.99488 4.19098 3.96965 2.34176 4.10844 3.75320 3.57995 3.82095 2.97205 4.23161'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1357 3.14227 5.23632 3.56132 2.88344 4.63254 3.75700 3.23384 4.02445 1.80878 3.46302 4.33501 3.27809 4.11654 2.81261 1.10189 3.13853 3.29972 3.71353 5.48736 4.30963 1385 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1358 2.58388 4.97008 3.02625 2.37861 4.27099 3.46530 3.61971 3.69260 2.00380 3.23909 4.03797 2.97232 3.85348 2.65585 2.05925 2.60599 2.53879 3.13085 5.41915 4.09035 1386 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1359 3.16413 4.47586 4.90745 4.42760 3.68160 4.51486 5.14931 1.54560 4.31252 2.18748 3.48700 4.62949 4.84445 4.58904 4.50922 3.91760 3.43864 0.89250 5.65875 4.43867 1387 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1360 2.37384 4.14156 3.09928 2.53666 3.91146 3.46491 3.67286 3.30872 1.86513 2.82644 3.78027 3.03459 3.53616 2.85112 2.78808 2.60337 2.84419 3.01540 5.21734 3.39899 1388 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1361 3.27818 4.59175 4.93543 4.39060 3.29678 4.58597 4.97931 1.87392 4.25790 1.02889 3.09152 4.62778 4.80937 4.41378 4.39839 3.94613 3.51563 1.62269 5.34306 4.23622 1389 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1362 2.77353 5.03839 3.04558 2.52635 4.41797 3.48856 3.65627 3.83462 1.68959 3.35304 4.16278 2.87096 3.90464 2.78716 2.33408 1.94463 3.00141 3.47011 5.49483 4.19234 1390 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1363 2.88047 5.23149 1.05080 2.28125 4.73645 3.25815 3.90300 4.20678 2.92268 3.79472 4.65536 2.83782 3.90349 3.08376 3.48398 2.59194 2.95546 3.77186 5.97681 4.51303 1391 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15205 4.87440 0.61958 0.77255 0.48576 0.95510\n- 1364 3.43303 4.76176 4.93818 4.42395 3.15725 4.65144 4.97539 1.98206 4.21810 0.75761 2.98389 4.68415 4.85645 4.39323 4.34391 4.04479 3.66974 2.27763 5.26512 4.13141 1392 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01598 4.14438 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-A_II-B_II-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-A_II-B_II-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2498 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas9_II-A_II-B_II-C_1\n-LENG 825\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:34 2020\n-NSEQ 12\n-EFFN 2.006836\n-CKSUM 4222574703\n-GA 44 44;\n-STATS LOCAL MSV -12.4118 0.69611\n-STATS LOCAL VITERBI -13.5891 0.69611\n-STATS LOCAL FORWARD -6.3852 0.69611\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62186 4.57700 2.86571 2.54551 3.33137 3.08288 3.63444 2.85969 2.42774 2.48950 3.79952 2.93635 3.51751 2.98603 2.79504 2.65116 2.84995 2.81576 4.74352 3.45683\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.00000 *\n- 1 2.48335 5.30469 2.40770 1.84906 4.64152 2.89119 3.74393 4.12819 2.29832 3.60723 4.35240 2.70047 2.61193 2.84725 3.00416 2.51418 3.02967 3.69187 5.74078 4.32342 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 2 2.89307 4.46832 4.02220 3.44129 3.30478 3.91022 4.07548 2.87497 3.22404 2.22126 3.54289 3.74184 4.27875 3.58062 2.42786 3.19002 3.12281 2.17434 4.84413 1.53511 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 3 2.78744 4.24087 4.34620 3.76257 2.58606 3.90745 4.24630 1.71933 3.63215 2.41144 3.36136 3.93515 4.28296 3.84154 3.78894 2.29589 2.16515 2.09526 4.89108 3.70003 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 4 3.82695 5.04170 5.71453 5.18553 3.49157 5.25486 5.64338 1.23149 5.03792 0.84269 3.24806 5.39361 5.34129 5.03698 5.06043 4.67182 4.05205 2.36035 5.70897 4.67913 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 5 2.12480 4.63785 4.05464 3.98818 5.14860 0.50832 5.07097 4.59788 4.20831 4.31712 5.14490 3.96337 4.20686 4.41687 4.41568 2.91322 3.27383 3.87959 6.43950 5.33453 5 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 6 3.81197 5.06167 5.61686 5.05579 2.57985 5.12334 5.33765 2.51189 4.91605 0.57820 3.12822 5.23123 5.22035 4.85056 4.90954 4.50109 4.02388 2.21461 5.43052 4.31638 6 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 7 4.01440 6.06662 0.26025 3.13364 5.59653 3.98557 4.85273 5.40436 4.10756 4.88105 5.93183 3.709'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 818 2.88262 4.41370 4.24577 3.69736 3.62978 3.95189 4.40311 1.72269 3.60279 2.56868 3.57731 3.95125 1.81526 3.86749 3.84656 3.26819 2.41851 1.90369 5.19740 3.99428 1213 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 819 2.89086 4.26293 4.75662 4.16177 2.61298 4.04620 4.26751 2.12685 3.96438 1.99343 1.96840 4.16332 4.39438 4.08314 3.98925 3.35863 3.12096 2.48669 2.96410 2.20422 1214 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 820 2.27361 5.28041 2.10192 2.26678 4.59942 3.52822 3.77647 4.07265 2.55645 3.00799 4.34116 1.89320 3.96030 2.88985 3.05654 2.46123 3.05849 3.65937 5.73446 4.32679 1215 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 821 2.78553 4.75053 3.33960 2.78934 2.08292 3.02205 3.03658 3.32290 2.28425 2.97640 3.84109 2.76426 4.05159 3.10079 3.17605 2.89053 3.01650 3.05700 5.15700 2.56857 1216 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 822 4.62000 5.59115 5.47517 5.38311 0.64383 5.13671 3.83711 4.17639 5.17086 3.34226 4.71109 4.70191 5.40046 4.86253 4.99761 4.55002 4.82084 4.14083 3.91561 1.28375 1217 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 823 2.31381 4.87733 3.30988 2.73284 4.10530 3.65454 3.83588 2.65718 1.73726 3.11624 3.96235 3.22208 4.03889 3.01181 2.13924 2.87972 3.03545 2.67706 5.39211 4.10091 1218 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 824 2.77683 5.18012 2.31279 2.48345 4.48752 3.53817 3.74977 3.94167 2.32548 3.46971 4.23979 3.02503 3.94556 1.73618 2.98556 2.75754 2.47397 2.76232 5.64092 4.25606 1219 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62724 5.34959 0.61958 0.77255 0.48576 0.95510\n- 825 2.45316 5.19941 2.29704 1.94946 3.12757 3.52472 3.72627 3.98313 1.96802 3.49261 4.24959 3.00310 3.92553 2.83409 2.96768 2.72951 2.59599 3.57476 5.64942 4.25384 1220 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00988 4.62248 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-A_II-B_II-C_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-A_II-B_II-C_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3287 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas9_II-A_II-B_II-C_3\n-LENG 1088\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:35 2020\n-NSEQ 6\n-EFFN 1.186523\n-CKSUM 2701001212\n-GA 22 22;\n-STATS LOCAL MSV -12.8623 0.69539\n-STATS LOCAL VITERBI -13.9655 0.69539\n-STATS LOCAL FORWARD -6.8611 0.69539\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60076 4.62797 2.88021 2.56660 3.30409 3.02289 3.66514 2.87189 2.43714 2.44704 3.74871 2.95504 3.53662 3.00303 2.78583 2.71190 2.90187 2.74207 4.79025 3.46048\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13891 4.28667 2.15467 0.61958 0.77255 0.00000 *\n- 1 2.61159 4.41577 3.39952 2.91651 3.65514 3.48846 3.90784 2.94759 2.83592 2.67952 1.88157 2.63318 3.95809 3.20009 3.17655 2.80339 2.40269 2.71119 5.09815 3.84730 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02320 4.17096 4.89331 0.61958 0.77255 0.62637 0.76470\n- 2 2.74699 5.22607 2.10079 2.28223 4.55204 3.36729 3.66844 4.03188 1.87343 3.52781 4.30298 2.39380 2.90789 2.79031 2.95915 2.69605 2.99243 3.61332 5.67635 4.25832 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02320 4.17096 4.89331 0.61958 0.77255 0.40692 1.09571\n- 3 2.77896 4.49759 3.63392 3.05348 3.54212 3.75162 3.97453 2.34885 1.80108 2.09899 2.64967 3.46493 4.11437 3.26949 3.19948 3.00805 3.00627 2.58467 5.07624 3.85696 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 4 2.09517 4.95758 2.94033 2.44844 4.33434 3.41294 3.69598 3.77750 2.06697 3.33052 4.11664 2.53789 2.79646 2.82550 2.92001 2.33018 2.91074 3.39182 5.52065 4.15995 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 5 3.19570 4.90436 3.82316 3.32852 2.87018 3.93203 3.78804 3.50701 2.83525 3.02701 4.06196 3.62937 4.33940 3.41944 2.19775 3.31063 3.42817 3.30292 4.45023 1.07912 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 6 2.63172 4.29410 3.87073 3.37610 3.62126 3.57621 4.19438 1.51408 3.29143 2.60925 3.58008 3.63623 4.09204 3.59143 3.56769 2.21109 2.23814 2.40583 5.13910 3.92406 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 7 3.48827 4.75568 5.22772 4.69774 3.31197 4.83735 5.21404 1.35168 4.53779 0.98635 3.09931 4.918'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 1081 2.87233 5.01382 3.29166 2.68856 4.24127 3.63116 3.70117 3.69746 1.96133 3.24872 4.08896 3.15778 4.00502 2.40709 2.10626 2.89855 3.07569 3.38672 5.38832 2.01856 1393 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 1082 2.89593 5.33109 2.76268 1.65093 4.68113 3.48780 3.72176 4.13344 2.05148 3.60444 4.40121 2.95766 3.94822 1.83118 2.76280 2.84226 3.12525 3.73215 5.71975 4.35482 1394 e - - -\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40518 3.72499 3.29359 2.67746 2.69360 4.24695 2.90352 2.73744 3.18151 2.89806 2.37865 2.77483 2.98523 4.58482 3.61508\n- 0.31693 1.32824 5.00902 0.18296 1.78855 0.48576 0.95510\n- 1083 3.54186 5.31037 4.08073 3.52837 4.77508 3.92219 4.21763 4.36483 2.52661 3.80499 4.81093 3.84726 4.41982 3.43210 0.49664 3.61687 3.78912 4.07455 5.69780 4.63170 1396 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 1084 2.68195 5.01378 2.95536 1.99393 4.30177 3.45885 3.65123 2.79765 2.05377 3.28707 4.07509 2.95661 3.07446 2.43947 2.83235 2.67769 2.91131 3.37312 5.47585 4.11714 1397 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 1085 2.79305 5.20110 1.70463 2.37169 4.54950 3.41586 3.74021 4.02278 2.53024 3.53916 4.32883 2.92004 2.43286 2.87072 2.32280 2.75768 3.04678 3.61714 5.69461 4.29684 1398 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 1086 3.28374 4.60482 4.99546 4.43359 2.32418 4.53212 4.79460 2.24695 4.29690 1.07596 3.06084 4.59599 4.76209 4.38008 4.37611 3.87513 3.51086 1.66367 5.10721 3.91382 1399 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28667 5.00902 0.61958 0.77255 0.48576 0.95510\n- 1087 2.72938 5.15953 2.34440 2.39390 4.49946 3.45072 3.65413 3.95934 2.03974 3.45516 4.22407 2.93206 3.86709 2.76666 2.01266 2.22450 2.96058 3.55258 5.59502 4.21653 1400 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21342 4.28667 1.72353 0.61958 0.77255 0.48576 0.95510\n- 1088 2.78152 5.24206 2.05820 2.28570 4.56596 3.36807 3.65813 4.03781 1.82952 3.52761 4.31781 2.83863 3.84607 2.15132 2.85507 2.72657 3.02252 3.62994 5.66502 4.26471 1401 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01688 4.09012 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2435 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas9_II-B_2\n-LENG 804\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:35 2020\n-NSEQ 4\n-EFFN 0.816406\n-CKSUM 2906048128\n-GA 65 65;\n-STATS LOCAL MSV -12.3696 0.69618\n-STATS LOCAL VITERBI -13.5970 0.69618\n-STATS LOCAL FORWARD -6.5888 0.69618\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63454 4.38328 2.81426 2.58232 3.30959 3.04175 3.69756 2.83549 2.45724 2.41727 3.79736 2.88763 3.49538 2.99996 2.85952 2.68089 2.92244 2.81258 4.75749 3.46983\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.00000 *\n- 1 3.05769 4.77415 3.68861 3.56196 4.53056 3.44992 4.61767 4.13603 3.63851 3.73755 4.79977 3.84494 0.51343 4.02068 3.85564 3.23292 3.51687 3.75622 5.65368 4.65570 1 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 2 3.19928 4.56607 4.62660 4.25463 3.52565 4.28759 4.94813 0.84815 4.08694 2.07384 3.43370 4.47104 4.70317 4.41663 4.25999 3.80794 3.49662 1.87549 5.45671 4.20994 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 3 1.38838 4.20466 3.47153 3.16641 4.37255 2.06967 4.25146 3.79367 3.24016 3.47149 4.28404 3.32771 3.72200 3.51294 3.56876 1.79726 2.73687 3.22746 5.70558 4.49356 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 4 3.15701 4.46124 4.89606 4.40897 3.59759 4.51724 5.11518 1.06713 4.29268 2.07781 3.39746 4.61795 4.82505 4.55274 4.48126 3.91556 3.42517 1.35751 5.59423 4.39263 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 5 3.23160 5.37622 0.65581 2.49277 4.78507 3.38414 4.13695 4.42454 3.26411 3.99693 4.98471 3.05792 4.05232 3.37996 3.80532 3.17345 3.57641 4.04273 5.91091 4.62943 5 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 6 3.40120 4.80354 4.52910 4.17500 3.22980 4.24907 4.76472 2.45051 3.94078 0.65209 3.19557 4.42992 4.65121 4.25786 4.08007 3.85249 3.68760 2.54194 5.18065 3.95121 6 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 7 2.85475 5.09157 1.67450 2.37312 4.69551 1.40286 3.95197 4.21798 2.97346 3.78388 4.64432 2.91254 3.89756'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 797 2.70806 5.03370 1.70825 2.30460 4.51318 3.25956 3.76640 3.98810 2.66560 3.53854 4.34824 2.84500 2.58382 2.92073 3.18108 2.12081 3.01214 3.56182 5.72022 4.31138 1017 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 798 3.15122 5.29014 2.59868 0.75741 4.66550 3.42280 4.03499 4.16257 2.94361 3.74783 4.71811 3.07490 4.03915 3.24977 3.37045 3.11519 3.45889 3.82656 5.79687 4.52604 1018 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 799 1.51841 4.20444 3.62088 3.21022 3.96632 2.21391 4.17499 3.14870 3.18909 3.00696 3.90411 3.40385 3.81331 3.48280 3.50091 2.55158 2.77217 2.07909 5.39408 4.17906 1019 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 800 2.91413 4.90864 2.84870 2.75832 4.30712 3.33827 4.11382 4.06899 3.03859 3.69296 4.65092 0.83100 4.00282 3.39129 3.39677 2.97593 3.30565 3.66935 5.58882 4.24360 1020 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 801 3.40120 4.80354 4.52910 4.17500 3.22980 4.24907 4.76472 2.45051 3.94078 0.65209 3.19557 4.42992 4.65121 4.25786 4.08007 3.85249 3.68760 2.54194 5.18065 3.95121 1021 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 802 3.19928 4.56607 4.62660 4.25463 3.52565 4.28759 4.94813 0.84815 4.08694 2.07384 3.43370 4.47104 4.70317 4.41663 4.25999 3.80794 3.49662 1.87549 5.45671 4.20994 1022 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 803 2.81623 2.35243 4.08412 3.60816 2.74271 3.72351 3.88276 2.83406 3.43997 2.53582 3.57372 3.74775 4.19262 3.70665 3.63357 3.10006 3.10961 2.64669 4.35506 1.46614 1023 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08447 4.80681 0.61958 0.77255 0.48576 0.95510\n- 804 2.72939 2.58812 4.49833 4.02979 3.62261 3.76321 4.64698 2.06206 3.88435 2.39483 3.53667 4.08942 4.31139 4.14701 4.05659 3.17980 3.08002 1.10520 5.33203 4.11689 1024 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.07626 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2431 +0,0 @@\n-HMMER3/b [3.0 | March 2010]\n-NAME TIGR03031\n-ACC TIGR03031\n-DESC cas_csx12: CRISPR-associated protein Cas9/Csx12, subtype II-B/NMENI\n-LENG 802\n-ALPH amino\n-RF no\n-CS no\n-MAP yes\n-DATE Sun Apr 11 22:22:17 2010\n-NSEQ 3\n-EFFN 0.805664\n-CKSUM 1082388607\n-GA 399.40 399.40;\n-TC 399.40 399.40;\n-NC 399.00 399.00;\n-STATS LOCAL MSV -12.5026 0.69619\n-STATS LOCAL VITERBI -13.6107 0.69619\n-STATS LOCAL FORWARD -6.5367 0.69619\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63195 4.39087 2.80832 2.58454 3.34889 3.04562 3.69881 2.84013 2.45761 2.41580 3.80134 2.88850 3.49341 3.00167 2.85110 2.66229 2.92591 2.80989 4.73933 3.47707\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.00000 *\n- 1 3.04738 4.76532 3.67755 3.54971 4.51943 3.44144 4.60627 4.12282 3.62562 3.72522 4.78695 3.83351 0.52106 4.00801 3.84380 3.22234 3.50600 3.74384 5.64473 4.64438 1 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 2 3.19394 4.56209 4.61795 4.24546 3.52065 4.28099 4.93984 0.85440 4.07762 2.06983 3.42937 4.46272 4.69689 4.40778 4.25137 3.80041 3.49127 1.87381 5.45059 4.20347 2 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 3 1.48913 4.20664 3.45403 3.14848 4.37406 1.98553 4.24036 3.79732 3.22515 3.47223 4.28360 3.31705 3.71820 3.49871 3.55730 1.74112 2.73446 3.22964 5.70426 4.48992 3 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 4 3.15168 4.45504 4.89282 4.40430 3.59892 4.51486 5.11104 1.09396 4.28976 2.08167 3.39830 4.61363 4.82166 4.54956 4.47909 3.91192 3.41926 1.32405 5.59252 4.39073 4 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 5 3.22358 5.36826 0.66277 2.48702 4.77599 3.37828 4.12990 4.41376 3.25563 3.98721 4.97451 3.05195 4.04598 3.37267 3.79620 3.16595 3.56814 4.03255 5.90323 4.62101 5 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 6 3.39328 4.79737 4.51863 4.16417 3.22639 4.24088 4.75588 2.44644 3.92999 0.65799 3.19361 4.41970 4.64393 4.24868 4.07048 3.84300 3.67987 2.53623 5.17523 3.94440 6 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 7 2.86422 5.12933'..b' 4.23659 1017 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 795 2.68791 4.99858 1.82572 2.31709 4.48444 3.25780 3.76101 3.95562 2.65205 3.51009 4.31851 2.85314 2.50952 2.91501 3.16167 2.05809 2.99244 3.53147 5.69444 4.29275 1018 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 796 3.14440 5.28303 2.59445 0.76478 4.65738 3.41771 4.02885 4.15306 2.93654 3.73923 4.70942 3.06970 4.03363 3.24353 3.36296 3.10884 3.45190 3.81759 5.79002 4.51871 1019 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 797 1.62404 4.20333 3.61815 3.20516 3.94247 2.15271 4.16690 3.11075 3.18357 2.97980 3.88103 3.40392 3.81765 3.47743 3.49519 2.55954 2.77326 1.99832 5.37495 4.15942 1020 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 798 2.90764 4.90254 2.84351 2.75229 4.29987 3.33300 4.10705 4.05992 3.03103 3.68457 4.64231 0.83979 3.99709 3.38421 3.38923 2.96951 3.29876 3.66098 5.58233 4.23659 1021 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 799 3.39328 4.79737 4.51863 4.16417 3.22639 4.24088 4.75588 2.44644 3.92999 0.65799 3.19361 4.41970 4.64393 4.24868 4.07048 3.84300 3.67987 2.53623 5.17523 3.94440 1022 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 800 3.19394 4.56209 4.61795 4.24546 3.52065 4.28099 4.93984 0.85440 4.07762 2.06983 3.42937 4.46272 4.69689 4.40778 4.25137 3.80041 3.49127 1.87381 5.45059 4.20347 1023 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 801 2.79283 2.17045 4.07169 3.59250 2.77687 3.70483 3.89553 2.81158 3.42463 2.52116 3.55437 3.73713 4.17615 3.69444 3.61950 3.08080 3.08701 2.62303 4.38520 1.59062 1024 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 802 2.71566 2.47258 4.48149 4.01263 3.61388 3.74305 4.62812 2.07535 3.86643 2.39364 3.53157 4.07096 4.29436 4.12866 4.03856 3.15930 3.06768 1.14631 5.31692 4.10229 1025 - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.06968 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-C_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cas9_II-C_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1727 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cas9_II-C_4\n-LENG 568\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:36 2020\n-NSEQ 5\n-EFFN 0.786133\n-CKSUM 2851742252\n-GA 25 25;\n-STATS LOCAL MSV -11.4993 0.69745\n-STATS LOCAL VITERBI -13.1112 0.69745\n-STATS LOCAL FORWARD -5.9654 0.69745\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66372 4.49877 2.80473 2.63160 3.19500 2.76408 3.73632 2.84477 2.58504 2.47030 3.85943 2.95940 3.28260 3.20532 2.91144 2.58944 2.86659 2.75969 4.85727 3.43213\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03523 3.75923 4.48157 0.61958 0.77255 0.00000 *\n- 1 2.88484 4.45336 3.92904 3.51731 3.16639 3.74899 4.27890 2.33106 3.29020 1.78170 1.61449 3.80776 4.21207 3.68159 3.50817 3.22052 3.18956 2.32304 4.99000 3.73964 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03523 3.75923 4.48157 0.61958 0.77255 0.48576 0.95510\n- 2 2.86166 4.93827 2.45262 1.19901 4.27148 3.20571 3.78814 3.70287 2.65476 3.34036 4.32372 2.88068 3.80619 3.00904 3.04842 2.85851 3.16652 3.40012 5.46500 4.19183 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03523 3.75923 4.48157 0.61958 0.77255 0.48576 0.95510\n- 3 2.63535 4.62156 2.65794 2.53397 3.96775 3.11233 3.84032 3.65737 2.73657 3.31859 4.27762 1.37626 3.76054 3.11623 3.08443 2.70907 3.01553 3.29117 5.28747 3.92679 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03523 3.75923 4.48157 0.61958 0.77255 0.48576 0.95510\n- 4 2.79829 4.77295 2.83628 2.59369 3.92501 3.29490 3.74944 3.54223 2.42369 3.05556 4.09107 3.05071 3.84958 1.45109 2.70832 2.85295 3.09749 3.28038 5.21966 3.90700 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03523 3.75923 4.48157 0.61958 0.77255 0.48576 0.95510\n- 5 2.88383 4.72337 3.36355 2.90395 4.04919 3.38846 3.75395 3.58627 2.20946 3.12325 4.13029 3.27046 3.90006 2.98336 1.16744 2.97572 3.15987 3.31610 5.18064 4.00500 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03523 3.75923 4.48157 0.61958 0.77255 0.48576 0.95510\n- 6 2.53524 4.31729 3.18524 3.07260 4.20831 0.92765 4.19619 3.78360 3.23785 3.45143 4.42944 3.35058 3.70479 3.57178 3.48279 2.70464 3.00786 3.33433 5.32983 4.30772 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03523 3.75923 4.48157 0.61958 0.77255 0.48576 0.95510\n- 7 2.87335 4.82458 3.04153 2.68953 4.18490 3.37086 3.70643 3.60795 1.20582 3.20005 4.17152 3.11762 3.88249'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06597 4.78831 0.61958 0.77255 0.48576 0.95510\n- 561 3.20895 5.35366 0.67572 2.47659 4.75938 3.36761 4.11707 4.39404 3.24020 3.96944 4.95589 3.04114 4.03443 3.35942 3.77958 3.15229 3.55307 4.01393 5.88916 4.60562 1439 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06597 4.78831 0.61958 0.77255 0.48576 0.95510\n- 562 3.37882 4.78611 4.49943 4.14431 3.22022 4.22585 4.73971 2.43905 3.91022 0.66895 3.19014 4.40099 4.63059 4.23187 4.05293 3.82563 3.66575 2.52585 5.16535 3.93195 1440 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06597 4.78831 0.61958 0.77255 0.48576 0.95510\n- 563 2.92343 4.67539 3.63649 3.56258 4.69323 0.48449 4.66708 4.34379 3.76993 3.97234 4.95260 3.80138 4.07247 4.07908 3.98092 3.10155 3.41972 3.83474 5.73323 4.80306 1441 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06597 4.78831 0.61958 0.77255 0.48576 0.95510\n- 564 3.15895 5.12095 3.34717 2.93780 4.55191 3.62263 3.88116 3.99448 0.80088 3.51942 4.47451 3.35216 4.11266 3.06460 2.48782 3.19066 3.39982 3.69284 5.53001 4.37266 1442 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06597 4.78831 0.61958 0.77255 0.48576 0.95510\n- 565 3.29044 4.71817 4.38001 4.02165 3.18423 4.13232 4.64014 2.39611 3.78821 0.74156 3.17229 4.28554 4.54804 4.12803 3.94432 3.71889 3.57974 2.46408 5.10539 3.85575 1443 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02783 3.99139 4.71373 0.61958 0.77255 0.48576 0.95510\n- 566 2.81867 4.58111 3.51669 3.43182 4.56965 0.56711 4.54375 4.19923 3.62919 3.83814 4.81569 3.68115 3.97601 3.94404 3.85113 2.99418 3.30917 3.70462 5.63229 4.67596 1444 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02783 3.99139 4.71373 0.61958 0.77255 0.48576 0.95510\n- 567 3.05831 5.18990 2.54308 0.86745 4.55161 3.35341 3.95216 4.02929 2.84792 3.62788 4.59798 3.00565 3.96403 3.16617 3.26812 3.02941 3.36389 3.70136 5.70081 4.42464 1445 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02783 3.99139 4.71373 0.61958 0.77255 0.48576 0.95510\n- 568 3.12068 5.26308 0.76139 2.41582 4.65686 3.30374 4.04054 4.27281 3.14790 3.86049 4.84241 2.97769 3.96507 3.28075 3.67931 3.07048 3.46222 3.89975 5.80206 4.51171 1446 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01882 3.98238 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-A_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-A_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1220 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_III-A_11\n-LENG 399\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:39 2020\n-NSEQ 5\n-EFFN 0.541992\n-CKSUM 3871816033\n-GA 109 109;\n-STATS LOCAL MSV -11.5182 0.69923\n-STATS LOCAL VITERBI -12.1970 0.69923\n-STATS LOCAL FORWARD -5.9214 0.69923\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56863 4.04461 2.89537 2.77707 3.32123 2.96428 3.80887 2.67729 2.79653 2.31407 3.65154 3.02700 3.30887 3.22398 2.89713 2.74783 2.89271 2.46370 4.65803 3.51355\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24607 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.13609 2.14896 4.54430 0.39424 1.12144 0.00000 *\n- 1 3.09966 4.54098 4.36122 3.82772 3.03595 4.21140 4.50583 2.15046 3.61989 1.11978 2.33489 4.13970 4.48877 3.89718 3.82210 3.56189 3.33899 2.22097 5.02682 3.85377 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03305 3.82195 4.54430 0.61958 0.77255 0.48576 0.95510\n- 2 2.95019 4.79097 3.43587 2.95882 4.13277 3.44661 3.79066 3.67179 2.22137 3.19700 4.19944 3.32194 3.95250 3.01432 1.05854 3.03736 3.22016 3.39816 5.23687 4.07205 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03305 3.82195 4.54430 0.61958 0.77255 0.48576 0.95510\n- 3 3.10636 4.51707 4.42514 3.91656 3.09320 4.25165 4.58385 1.82092 3.71601 1.13290 2.97633 4.21073 4.54158 3.99898 3.91523 3.62268 3.35556 2.03360 5.08315 3.86760 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13609 3.82195 2.25048 0.61958 0.77255 0.48576 0.95510\n- 4 2.30097 4.26194 3.84508 3.42195 3.45137 3.63211 4.29848 1.59288 3.29840 2.13627 3.35717 3.69744 4.13871 3.65575 3.56333 3.03180 2.98958 1.90746 5.19303 3.94850 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03658 3.72244 4.44478 0.61958 0.77255 0.56479 0.84044\n- 5 2.91335 4.38320 4.10686 3.72288 3.27973 3.89059 4.48308 1.28767 3.54722 1.90593 3.24783 3.98923 4.34282 3.91546 3.76118 3.37728 3.21819 1.86428 5.13388 3.85400 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03658 3.72244 4.44478 0.61958 0.77255 0.56479 0.84044\n- 6 2.38314 4.39582 2.68082 2.53002 4.14758 1.85803 3.85194 3.66731 2.76891 3.31838 4.18555 2.34855 3.64992 3.09311 3.14103 2.48823 2.80096 3.21183 5.43980 4.13560 7 g - - -\n- 2.68584 4.42266 2.77540 2.73105 3.46354 2.40525 3.72482 3.29360 2.67782 2.69339 4.24731 2.90388 2.73741 3.18187 2.89818 2.37886 2.77499 2.98432 4.58518 3.61449\n- 0.25681 1.99667 2.40020 2.74127 0.06666 0.43934 1.03413\n- 7 2.26177 4.17786 3.10527 2.91991 3.95335 2.91036 4.03095 3.46113 2.98479 3.19300 4.13328 3.16200 3.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03305 3.82195 4.54430 0.61958 0.77255 0.48576 0.95510\n- 392 3.09951 4.57732 4.10788 3.74853 3.11817 3.91707 4.42014 2.32069 3.51673 0.94006 3.15876 4.02878 4.36182 3.89719 3.70065 3.48350 3.39646 2.34470 4.97810 3.68942 433 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03305 3.82195 4.54430 0.61958 0.77255 0.48576 0.95510\n- 393 2.68316 4.67643 2.68339 2.56427 4.03218 3.15132 3.88298 3.73261 2.78297 3.38554 4.34185 1.25078 3.80117 3.15646 3.13520 2.75281 3.06386 3.35994 5.34405 3.98478 434 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03305 3.82195 4.54430 0.61958 0.77255 0.48576 0.95510\n- 394 2.84271 4.82499 2.87170 2.62678 3.98653 3.33378 3.78425 3.61054 2.45136 3.11782 4.14821 3.08564 3.88722 1.32676 2.73607 2.89311 3.14024 3.34371 5.26808 3.95881 435 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03305 3.82195 4.54430 0.61958 0.77255 0.48576 0.95510\n- 395 2.18393 4.64728 2.83609 2.53119 4.06000 3.24500 3.73449 3.44246 2.45429 3.06722 3.99445 2.98556 3.79669 1.88134 2.79244 2.66748 2.90958 3.12673 5.35563 4.04600 436 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13609 3.82195 2.25048 0.61958 0.77255 0.48576 0.95510\n- 396 2.91335 4.38320 4.10686 3.72288 3.27973 3.89059 4.48308 1.28767 3.54722 1.90593 3.24783 3.98923 4.34282 3.91546 3.76118 3.37728 3.21819 1.86428 5.13388 3.85400 437 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03658 3.72244 4.44478 0.61958 0.77255 0.56479 0.84044\n- 397 2.60808 4.58836 2.64605 2.51970 3.92889 3.08990 3.81753 3.61298 2.71206 3.27960 4.24111 1.45624 3.73765 3.09582 3.05652 2.68481 2.98851 3.25071 5.25354 3.89238 438 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03658 3.72244 4.44478 0.61958 0.77255 0.43934 1.03413\n- 398 2.68762 4.45228 3.28952 3.12206 4.11981 3.14270 4.20292 3.65311 3.17519 3.28511 4.33349 3.43336 0.92714 3.56556 3.42565 2.85375 3.12543 3.30416 5.31936 4.24012 439 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13609 3.82195 2.25048 0.61958 0.77255 0.48576 0.95510\n- 399 1.25524 4.12875 3.31765 3.10952 3.90890 2.95554 4.14821 3.01342 3.12182 2.90048 3.95554 3.29482 3.68116 3.47900 3.37870 2.48366 2.75085 2.69491 5.35178 4.13634 440 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02477 3.71063 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-B_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-B_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1016 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_III-B_9\n-LENG 331\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:38 2020\n-NSEQ 4\n-EFFN 0.566406\n-CKSUM 4103055176\n-GA 611 611;\n-STATS LOCAL MSV -11.0562 0.70049\n-STATS LOCAL VITERBI -12.1860 0.70049\n-STATS LOCAL FORWARD -5.6729 0.70049\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64667 4.55048 2.93332 2.72573 3.19310 3.01192 3.84978 2.53387 2.67246 2.32410 3.65474 2.97831 3.54948 3.08020 3.13093 2.72933 2.98658 2.55078 4.65905 3.13114\n- 2.68629 4.42236 2.77530 2.73134 3.46365 2.40523 3.72505 3.29365 2.67706 2.69320 4.24592 2.90329 2.73750 3.18157 2.89811 2.37881 2.77530 2.98529 4.58488 3.61514\n- 0.25935 2.03902 2.31979 1.48731 0.25616 0.00000 *\n- 1 2.77280 4.32871 4.06236 3.72491 3.51812 3.67649 4.53468 2.05541 3.59197 2.21356 3.49094 3.92172 4.24009 3.95538 3.80865 3.17784 3.13581 1.08369 5.29468 4.02313 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03287 3.82750 4.54984 0.61958 0.77255 0.56728 0.83717\n- 2 3.14730 4.55128 4.37328 3.90545 1.70864 4.16902 4.06347 2.35319 3.76326 1.41920 3.06512 4.07246 4.47629 3.93487 3.92531 3.53568 3.39026 2.40025 4.36688 2.82652 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03287 3.82750 4.54984 0.61958 0.77255 0.56728 0.83717\n- 3 2.49161 4.26287 3.45713 3.00967 3.47959 3.34417 3.92994 2.74417 2.88309 2.44833 2.17619 3.32918 3.87893 3.26224 3.18100 2.19809 2.82095 2.53918 5.00864 3.73524 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03287 3.82750 4.54984 0.61958 0.77255 0.56728 0.83717\n- 4 2.74922 4.94937 2.64726 2.37881 4.30183 3.30292 3.64313 3.76676 1.87538 3.32865 4.18810 1.96487 3.82059 2.81087 2.62091 2.74797 3.01419 3.41370 5.45385 4.12408 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03287 3.82750 4.54984 0.61958 0.77255 0.56728 0.83717\n- 5 3.10558 4.58166 4.11689 3.75738 3.11999 3.92429 4.42725 2.32259 3.52553 0.93267 3.15852 4.03712 4.36796 3.90466 3.70862 3.49112 3.40221 2.34808 4.98211 3.69477 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03287 3.82750 4.54984 0.61958 0.77255 0.56728 0.83717\n- 6 2.77734 4.98986 2.72970 1.73485 4.31445 3.36012 3.61691 3.73465 2.22159 3.28017 4.14192 2.90422 3.83563 2.77328 2.08654 2.76948 3.01489 3.40094 5.43044 4.12882 13 e - - -\n- 2.68624 4.42231 2.77526 2.73129 3.46360 2.40519 3.72501 3.29360 2.67747 2.69361 4.24696 2.90353 2.73722 3.18115 2.89807 2.37893 2.77526 2.98524 4.58483 3.61394\n- 0.16651 1.94618 4.54984 1.07413 0.41794 0.56728 0.83717\n- 7 2.68749 4.68123 2.68593 2.56728 4.03782 3.15484 3.88698 3.73929 2.78735 3.39153 4.34767 1.24027 3.80'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 324 2.99334 5.11442 2.50767 0.95923 4.46662 3.30483 3.89561 3.93001 2.78214 3.53939 4.51117 2.95994 3.91164 3.11018 3.19604 2.97079 3.29789 3.60886 5.62918 4.35128 340 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 325 3.10268 4.48688 4.49795 4.00400 1.65379 4.20766 4.24000 1.82115 3.87418 1.73817 3.08998 4.16738 4.51275 4.03345 4.02470 3.56246 3.34680 2.21920 4.57225 3.09594 341 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 326 2.88890 5.08738 2.97687 2.54139 4.44226 3.48744 3.60866 3.85556 1.57977 3.34371 4.20735 3.01350 3.91948 1.93747 2.32096 2.87650 3.09753 3.52425 5.44709 4.18808 342 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 327 3.02480 4.52348 4.02278 3.55176 2.51313 3.95639 3.78755 2.67700 3.36014 1.56029 3.36912 3.76131 4.31404 3.64990 3.57213 3.29633 3.26318 2.61355 4.19678 1.77853 343 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 328 3.31621 4.78582 3.90883 3.64710 2.29493 3.88584 3.64093 3.31874 3.50323 2.76035 3.98878 3.78236 4.35852 3.79780 3.67718 3.44819 3.60310 3.19154 3.94056 0.88978 344 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 3.92034 4.64268 0.61958 0.77255 0.48576 0.95510\n- 329 2.84292 4.71932 3.49071 2.89566 3.76464 3.60101 3.74017 3.15407 2.25297 2.14898 3.76337 3.28563 4.00934 2.96117 1.60249 2.96117 3.07171 2.96964 5.12858 3.85263 345 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16186 3.92034 2.04328 0.61958 0.77255 0.48576 0.95510\n- 330 2.57148 4.35238 3.22860 3.11911 4.25827 0.86391 4.24232 3.84022 3.28922 3.50405 4.48083 3.39345 3.74094 3.62010 3.53212 2.74149 3.04659 3.38421 5.37259 4.35819 346 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03406 3.79254 4.51488 0.61958 0.77255 0.59455 0.80254\n- 331 2.82156 4.80074 2.85466 2.61056 3.95796 3.31545 3.76733 3.57857 2.43757 3.08869 4.12119 3.06868 3.86929 1.38366 2.72234 2.87381 3.11972 3.31397 5.24546 3.93455 347 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02305 3.78153 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1613 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_III-D_10\n-LENG 530\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:38 2020\n-NSEQ 5\n-EFFN 0.620117\n-CKSUM 288921650\n-GA 48.2 48.2;\n-STATS LOCAL MSV -11.6798 0.69775\n-STATS LOCAL VITERBI -12.9830 0.69775\n-STATS LOCAL FORWARD -5.6960 0.69775\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66651 4.32449 2.79099 2.58065 3.18313 2.99018 3.76656 2.72803 2.57328 2.44139 3.65052 2.95982 3.50032 3.10929 2.96032 2.66071 2.96092 2.65453 4.93005 3.41166\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12800 3.95794 2.29216 0.61958 0.77255 0.00000 *\n- 1 2.96081 4.51130 4.03787 3.63058 3.20314 3.82603 4.36822 2.37767 3.39922 1.79949 1.39875 3.90938 4.28662 3.78184 3.60580 3.30877 3.26593 2.38252 5.04249 3.80328 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86168 4.58403 0.61958 0.77255 0.57311 0.82958\n- 2 2.68261 4.78584 2.92100 2.54701 4.25077 3.32190 3.67345 3.66043 1.54457 3.24909 4.11287 2.99939 3.83363 2.84363 2.53893 2.26723 2.96606 3.30849 5.40218 4.11941 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86168 4.58403 0.61958 0.77255 0.57311 0.82958\n- 3 2.30980 4.23002 3.19715 3.01249 4.06558 2.96011 4.12261 3.58676 3.08553 3.30785 4.23488 3.23895 3.69804 3.43570 3.37185 1.10743 2.78914 3.12423 5.43894 4.14906 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86168 4.58403 0.61958 0.77255 0.57311 0.82958\n- 4 2.74539 4.29634 4.00584 3.54933 3.48608 3.76903 4.38147 1.43253 3.40857 2.16892 3.37597 3.81866 4.24091 3.75780 3.66308 3.15210 2.45593 1.88942 5.22773 4.00004 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86168 4.58403 0.61958 0.77255 0.57311 0.82958\n- 5 3.02271 4.44453 4.32023 3.93567 3.36699 4.05479 4.66584 1.09136 3.76360 1.95531 3.30410 4.18253 4.48709 4.11304 3.96140 3.54910 3.32210 1.84579 5.25554 3.99287 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86168 4.58403 0.61958 0.77255 0.57311 0.82958\n- 6 3.14324 4.60875 4.17215 3.81202 3.13172 3.96839 4.47115 2.33526 3.57987 0.88859 3.15816 4.08854 4.40565 3.95079 3.75768 3.53810 3.43801 2.36978 5.00702 3.72782 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86168 4.58403 0.61958 0.77255 0.43478 1.04245\n- 7 3.18469 4.59659 4.52644 3.98485 3.06335 4.32333 4.61781 2.20705 3.78419 1.18275 1.80105 4.27932 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03160 3.86607 4.58841 0.61958 0.77255 0.56947 0.83431\n- 523 2.82461 5.13281 2.50254 1.55977 4.45620 3.31304 3.64711 3.87405 1.98878 3.41908 4.27648 2.82141 3.83262 2.80349 2.71100 2.78284 3.07275 3.52171 5.57206 4.22615 567 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14123 3.86607 2.20029 0.61958 0.77255 0.56947 0.83431\n- 524 2.87404 4.82541 3.04227 2.69005 4.18592 3.37152 3.70675 3.60901 1.20452 3.20090 4.17227 3.11812 3.88305 2.90755 2.42482 2.92572 3.13783 3.32447 5.29013 4.08796 568 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76004 4.48238 0.61958 0.77255 0.65008 0.73815\n- 525 2.26640 4.18312 3.11477 2.92919 3.96551 2.91536 4.04028 3.47462 2.99502 3.20517 4.14373 3.16973 3.64568 3.35427 3.28192 1.27461 2.73879 3.03479 5.34805 4.04930 569 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76004 4.48238 0.61958 0.77255 0.65008 0.73815\n- 526 2.87404 4.82541 3.04227 2.69005 4.18592 3.37152 3.70675 3.60901 1.20452 3.20090 4.17227 3.11812 3.88305 2.90755 2.42482 2.92572 3.13783 3.32447 5.29013 4.08796 570 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76004 4.48238 0.61958 0.77255 0.65008 0.73815\n- 527 2.71987 4.29768 3.96569 3.62937 3.47193 3.60276 4.45171 2.07048 3.49516 2.18179 3.45859 3.83599 4.17238 3.86492 3.71766 3.10240 3.08602 1.18093 5.23585 3.95857 571 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76004 4.48238 0.61958 0.77255 0.65008 0.73815\n- 528 2.86228 4.93920 2.45279 1.19767 4.27250 3.20618 3.78861 3.70405 2.65533 3.34139 4.32465 2.88098 3.80669 3.00945 3.04911 2.85901 3.16713 3.40119 5.46586 4.19263 572 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76004 4.48238 0.61958 0.77255 0.65008 0.73815\n- 529 2.87404 4.82541 3.04227 2.69005 4.18592 3.37152 3.70675 3.60901 1.20452 3.20090 4.17227 3.11812 3.88305 2.90755 2.42482 2.92572 3.13783 3.32447 5.29013 4.08796 573 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76004 4.48238 0.61958 0.77255 0.65008 0.73815\n- 530 3.12034 4.55694 4.08246 3.77895 1.21606 3.82978 3.83704 2.66181 3.68952 2.06012 3.41148 3.89424 4.29377 3.88985 3.83703 3.39395 3.42291 2.64346 4.12610 2.50992 574 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02383 3.74867 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2219 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_III-D_5\n-LENG 732\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:37 2020\n-NSEQ 21\n-EFFN 3.263306\n-CKSUM 2132774124\n-GA 288 288;\n-STATS LOCAL MSV -12.0210 0.69648\n-STATS LOCAL VITERBI -13.4294 0.69648\n-STATS LOCAL FORWARD -6.6403 0.69648\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.28186 4.50631 2.90839 2.64912 3.70121 2.81985 3.69473 3.03105 2.77862 2.28265 3.77244 3.21876 3.26332 3.09051 2.72173 2.67274 2.83984 2.67459 4.47188 3.92896\n- 2.68543 4.42292 2.77521 2.73021 3.46421 2.40515 3.72561 3.29421 2.67790 2.69422 4.24670 2.90414 2.73786 3.18175 2.89741 2.37939 2.77453 2.98301 4.58544 3.61570\n- 1.10224 1.18701 1.01407 1.70293 0.20108 0.00000 *\n- 1 2.24514 4.70091 3.31657 2.74116 3.89397 3.61073 3.80661 2.86067 2.03870 2.92373 2.43670 3.21406 3.99339 3.01493 2.36606 2.84033 2.96052 2.99798 5.23389 3.96068 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46289 5.18524 0.61958 0.77255 1.13995 0.38542\n- 2 1.30478 4.49418 3.63153 3.17956 4.45803 2.48943 4.26830 3.88570 3.18361 3.53168 4.33952 3.44933 2.50760 3.48733 3.56536 2.27139 2.17452 3.38649 5.77209 4.52575 9 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46289 5.18524 0.61958 0.77255 1.13995 0.38542\n- 3 2.71858 5.14950 2.60916 2.10339 4.46355 2.90306 3.68628 3.92761 2.44035 3.00455 4.20430 2.95732 2.28684 2.79745 2.43676 2.69345 2.95193 3.52453 5.60260 4.21031 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30476 4.46289 1.38163 0.61958 0.77255 0.63655 0.75314\n- 4 2.61620 4.42300 3.71500 3.29987 3.91313 2.10901 4.23463 3.26892 3.25304 2.98612 1.36020 3.56166 4.04572 3.57364 3.55399 2.41836 2.99057 2.96909 5.35650 4.12806 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01730 4.46160 5.18395 0.61958 0.77255 0.54413 0.86832\n- 5 2.42922 4.43855 3.84329 3.27249 3.58278 3.80554 4.09941 2.88341 3.18660 2.64563 2.50835 3.62690 4.19419 3.48745 2.49392 3.07138 1.90546 1.91994 5.05523 3.83738 12 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01323 4.72797 5.45032 0.61958 0.77255 0.59314 0.80428\n- 6 3.53303 4.84097 5.35820 4.79438 3.59881 4.82814 5.22805 2.08751 4.64892 0.69450 3.40570 4.94371 5.07191 4.75196 4.72205 4.18130 2.80933 2.10781 5.56907 4.48014 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01224 4.80470 5.52705 0.61958 0.77255 0.71055 0.67605\n- 7 4.14345 5.32914 6.02477 5.48876 3.51777 5.56972 5.89237 1.84481 5.33192 0.47469 3.26003 5.73150 5.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74911 5.47146 0.61958 0.77255 0.80601 0.59174\n- 725 2.61944 5.36059 2.66276 1.23754 4.69207 3.57430 3.15491 4.17480 2.56895 3.65955 4.41117 3.04219 3.18593 2.91407 2.72326 2.81952 3.09850 3.74527 5.79765 4.38359 907 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74911 5.47146 0.61958 0.77255 0.46264 0.99322\n- 726 2.42459 5.32692 2.53024 2.30107 4.66975 2.63854 3.78298 4.15387 1.94801 3.63099 4.36841 3.06346 3.26086 2.55491 2.29686 2.78533 3.05331 3.28306 5.76064 4.35137 908 k - - -\n- 2.68633 4.42267 2.77399 2.73102 3.46396 2.40540 3.72537 3.29137 2.67725 2.69340 4.24732 2.90352 2.73782 3.18189 2.89776 2.37929 2.77562 2.98524 4.58519 3.61545\n- 0.50266 1.09390 2.81058 1.22982 0.34580 0.60392 0.79113\n- 727 2.46070 4.25435 4.57744 3.97936 3.35552 3.99301 4.31985 1.67305 3.81477 1.82103 2.82191 4.07585 3.19112 3.99055 3.90709 2.78977 3.07698 1.98473 4.88850 3.70649 914 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14400 4.79981 2.07244 0.61958 0.77255 0.71955 0.66742\n- 728 2.32601 5.21483 2.50919 2.04974 4.52661 2.24569 3.75260 3.99184 2.51107 3.50655 4.26798 3.02337 3.94887 2.86331 2.62599 2.75684 3.01518 3.58837 5.66820 2.78055 915 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07788 4.66983 2.72497 0.61958 0.77255 0.92059 0.50797\n- 729 2.30871 5.25318 3.00930 1.90723 4.59373 3.08930 3.74043 4.05772 2.44075 3.54862 4.30853 3.02926 3.95589 2.30423 1.89211 2.77473 3.03561 3.64427 5.68560 4.30223 916 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01494 4.60690 5.32924 0.61958 0.77255 0.99759 0.46008\n- 730 2.53446 5.23811 2.65693 1.71477 4.56287 2.92267 3.74367 4.03571 2.50915 3.53917 4.29643 2.32380 3.93406 2.85305 3.00490 2.46554 3.01538 2.81513 5.69219 4.28843 917 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06470 4.60690 2.94368 0.61958 0.77255 0.99759 0.46008\n- 731 1.76708 4.48760 3.68347 3.19398 3.98933 2.70327 4.18054 3.35251 3.16742 1.86798 3.93435 3.50936 4.04518 3.47236 3.52003 1.75214 2.98807 3.03672 5.39941 4.16549 918 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01570 4.55789 5.28024 0.61958 0.77255 1.05071 0.43031\n- 732 1.73637 5.20419 2.54971 2.19374 4.52825 3.50709 3.73046 3.99495 2.48693 3.50465 4.26689 2.98956 3.19055 2.84204 2.21716 2.73757 3.00154 3.58672 5.66167 4.26607 919 a - - -\n- 2.68571 4.42232 2.77527 2.73131 3.46361 2.40520 3.72502 3.29361 2.67748 2.69362 4.24697 2.90354 2.73747 3.18060 2.89808 2.37894 2.77527 2.98526 4.58484 3.61510\n- 0.35299 1.21263 * 0.13624 2.06069 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1502 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_III-D_6\n-LENG 493\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:37 2020\n-NSEQ 4\n-EFFN 0.535156\n-CKSUM 582240359\n-GA 33 33;\n-STATS LOCAL MSV -11.8475 0.69809\n-STATS LOCAL VITERBI -12.8610 0.69809\n-STATS LOCAL FORWARD -6.0421 0.69809\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40597 4.27769 2.76873 2.64279 3.48333 2.90785 3.75694 2.89907 2.68793 2.38673 3.74763 3.13111 3.31206 3.11198 2.82507 2.72466 2.88960 2.57726 4.44116 3.81984\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.00000 *\n- 1 2.98892 4.53365 4.07647 3.67171 3.21853 3.85292 4.40099 2.39665 3.43845 1.80928 1.33026 3.94612 4.31355 3.81859 3.64083 3.34073 3.29466 2.40573 5.06280 3.82687 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 2 2.59937 4.59926 3.05288 2.65550 4.06207 3.31038 3.75888 3.34758 2.01487 3.05174 3.94913 3.08151 3.83664 2.95595 2.73510 2.69801 1.80522 3.03773 5.33282 4.06696 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 3 2.69807 4.76580 3.04993 2.61449 4.21161 3.37782 3.68964 3.51565 1.54009 3.15984 4.04637 3.05698 3.86533 2.85892 2.52842 2.75806 2.34888 3.19867 5.38103 4.12047 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 4 3.18347 4.63812 4.23019 3.86996 3.14506 4.01441 4.51774 2.35027 3.63747 0.84465 3.15974 4.14300 4.44529 3.99974 3.80947 3.58793 3.47649 2.39421 5.03373 3.76296 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 5 3.18347 4.63812 4.23019 3.86996 3.14506 4.01441 4.51774 2.35027 3.63747 0.84465 3.15974 4.14300 4.44529 3.99974 3.80947 3.58793 3.47649 2.39421 5.03373 3.76296 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 6 3.02601 4.38553 4.60792 4.11690 3.45648 4.29245 4.85039 1.24368 3.98873 1.96392 3.28207 4.35642 4.63232 4.26870 4.19998 3.67844 3.29834 1.41959 5.40994 4.20095 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 7 2.98892 4.53365 4.07647 3.67171 3.21853 3.85292 4.40099 2.39665 3.43845 1.80928 1.33026 3.94612 4.31355'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 486 2.27324 4.19077 3.12845 2.94268 3.98275 2.92262 4.05378 3.49379 3.00981 3.22255 4.15879 3.18096 3.65418 3.36737 3.29684 1.24410 2.74676 3.04996 5.36359 4.06642 533 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 487 2.89194 4.99717 1.06471 2.28600 4.36267 3.14259 3.85474 3.93020 2.92213 3.55699 4.53588 2.83630 3.78908 3.09591 3.42293 2.86721 3.22957 3.58059 5.54960 4.25504 534 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 488 1.16019 4.14972 3.36981 3.15997 3.96099 2.97608 4.19274 3.07277 3.17380 2.95827 4.00327 3.33246 3.70661 3.52453 3.42912 2.50219 2.77309 2.74394 5.39788 4.18810 535 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 489 2.88895 4.84309 3.05837 2.70147 4.20767 3.38561 3.71390 3.63163 1.17687 3.21909 4.18848 3.12913 3.89503 2.91290 2.42428 2.93885 3.15084 3.34576 5.30378 4.10382 536 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 490 2.88895 4.84309 3.05837 2.70147 4.20767 3.38561 3.71390 3.63163 1.17687 3.21909 4.18848 3.12913 3.89503 2.91290 2.42428 2.93885 3.15084 3.34576 5.30378 4.10382 537 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 491 2.87571 4.95916 2.45682 1.16910 4.29435 3.21636 3.79887 3.72940 2.66772 3.36334 4.34470 2.88779 3.81737 3.01859 3.06424 2.86986 3.18029 3.42429 5.48423 4.20982 538 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 492 2.87571 4.95916 2.45682 1.16910 4.29435 3.21636 3.79887 3.72940 2.66772 3.36334 4.34470 2.88779 3.81737 3.01859 3.06424 2.86986 3.18029 3.42429 5.48423 4.20982 539 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03458 3.77748 4.49983 0.61958 0.77255 0.58666 0.81234\n- 493 2.43109 4.45182 2.80060 2.55804 4.06500 3.08479 3.80980 3.44157 2.65438 3.15946 4.04338 2.02399 3.71214 3.03065 3.02172 2.53608 2.17376 3.06435 5.39102 4.07149 540 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02341 3.76631 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III-D_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1175 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_III-D_8\n-LENG 384\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:38 2020\n-NSEQ 5\n-EFFN 0.678711\n-CKSUM 33131148\n-GA 66 66;\n-STATS LOCAL MSV -11.5912 0.69948\n-STATS LOCAL VITERBI -12.2652 0.69948\n-STATS LOCAL FORWARD -5.8193 0.69948\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44834 4.40800 2.93618 2.67769 3.42885 2.81755 3.66126 2.89252 2.81072 2.37536 3.62186 3.17519 3.19683 3.18728 2.82547 2.68077 2.84290 2.53898 4.38503 3.68945\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16401 3.90598 2.03143 0.61958 0.77255 0.00000 *\n- 1 2.89738 4.46264 3.94752 3.53621 3.17189 3.76225 4.29372 2.33818 3.30853 1.78357 1.57541 3.82479 4.22459 3.69821 3.52463 3.23531 3.20200 2.33246 4.99839 3.75016 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77658 4.49892 0.61958 0.77255 0.42344 1.06361\n- 2 2.91931 4.37165 4.32582 3.80821 3.31820 4.05464 4.53276 1.98881 3.65921 1.87638 2.40217 4.07243 4.42517 3.94567 3.88215 3.41168 3.18986 1.34634 5.18206 3.99119 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 3 2.84667 5.04532 3.09659 2.56388 4.43128 3.50439 3.57742 3.82235 1.76604 3.31394 4.15361 2.49901 3.90591 2.71394 1.75190 2.84193 3.04768 3.48367 5.41284 4.16727 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 4 2.43967 4.23020 3.44008 2.96417 2.70866 3.30636 3.88891 2.87030 2.92169 2.62194 3.55436 3.28784 3.84069 3.23488 3.25320 2.26294 2.02248 2.61296 4.96305 3.66678 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 5 2.55318 4.20317 3.65624 3.12543 3.13754 3.50550 3.84237 2.69049 2.99175 2.41476 3.37481 3.42186 3.95168 3.31569 3.26719 2.40699 2.82699 2.10071 2.71058 3.31030 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 6 3.04293 4.88012 3.53697 3.04080 4.24318 3.52477 3.84808 3.78704 2.25025 3.29686 4.29598 3.39808 4.02555 3.06657 0.92843 3.12537 3.30650 3.50949 5.31253 4.16306 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 7 2.70967 4.71841 3.18016 2.73979 4.26030 2.46223 3.76035 3.70709 2.29927 3.27821 4.15226 3.14669 3.87168 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 377 2.22547 4.97482 2.57141 1.82708 4.29313 3.30000 3.64946 3.70932 2.43383 3.28626 4.12252 2.83001 3.80044 2.38104 2.86785 2.68855 2.95704 3.35883 5.49897 4.13801 393 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 378 2.21265 4.17788 3.24597 2.93621 4.21007 2.15374 4.05974 3.61864 3.00527 3.29764 4.12313 3.17578 3.65092 3.30715 3.35098 1.70365 2.10325 3.10758 5.54015 4.30556 394 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 379 1.93859 4.46333 3.08199 2.29872 3.82233 3.34530 3.81467 2.93590 2.69099 2.80171 3.72539 3.11344 3.84670 3.04330 3.08013 2.68283 2.83773 2.27881 5.22446 3.94818 395 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 380 2.69990 4.88679 2.92052 2.47420 4.25638 2.60102 3.62000 3.67989 2.21717 3.22809 4.06148 2.96102 3.83580 2.12232 2.18670 2.71828 2.94328 3.33331 5.39123 4.09537 396 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 381 3.02533 5.15918 0.87118 2.35548 4.54062 3.23581 3.96020 4.13637 3.05060 3.73865 4.71731 2.91361 3.89095 3.19927 3.57151 2.98378 3.36455 3.77192 5.70275 4.40776 397 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90598 4.62832 0.61958 0.77255 0.48576 0.95510\n- 382 2.70639 4.47874 3.38704 3.29058 4.43272 0.67923 4.40901 4.04029 3.47643 3.69027 4.66613 3.55128 3.87096 3.79790 3.70900 2.87922 3.19022 3.56213 5.51923 4.53567 398 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14188 3.90598 2.18792 0.61958 0.77255 0.48576 0.95510\n- 383 2.19587 4.15922 3.04531 2.85039 4.20666 1.80303 4.04309 3.67100 3.00936 3.35108 4.19323 3.10457 3.60617 3.30840 3.34005 1.76444 2.67302 3.13606 5.53266 4.28208 399 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03387 3.79797 4.52032 0.61958 0.77255 0.57804 0.82324\n- 384 2.64603 4.89927 1.62898 2.19841 4.36876 3.10740 3.73147 3.85783 2.70877 3.46797 4.32826 2.73493 3.73121 2.91979 3.22463 2.13931 2.98214 3.44916 5.63843 4.21773 400 d - - -\n- 2.68622 4.42119 2.77523 2.73127 3.46358 2.40517 3.72498 3.29358 2.67745 2.69359 4.24693 2.90350 2.73743 3.18150 2.89781 2.37891 2.77502 2.98522 4.58481 3.61507\n- 0.13916 2.04089 * 0.86802 0.54435 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1463 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_III-B_3\n-LENG 480\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:37 2020\n-NSEQ 12\n-EFFN 1.362305\n-CKSUM 1780348910\n-GA 109 109;\n-STATS LOCAL MSV -11.4698 0.69823\n-STATS LOCAL VITERBI -12.7320 0.69823\n-STATS LOCAL FORWARD -6.0664 0.69823\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63744 4.54799 3.04356 2.57273 3.06593 3.01954 3.63434 2.65549 2.59516 2.36315 3.65408 3.06859 3.54646 3.11671 3.06980 2.69158 2.95947 2.54922 4.86354 3.33540\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40518 3.72500 3.29359 2.67746 2.69360 4.24321 2.90352 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61508\n- 0.59206 1.32114 1.71491 0.17608 1.82357 0.00000 *\n- 1 2.35607 4.44279 3.33049 2.79979 3.64102 3.49808 3.04041 3.02348 2.73959 2.71421 2.24418 3.22816 3.92365 3.08676 3.11194 2.22212 2.85561 2.77179 5.05041 3.78849 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02282 4.18735 4.90970 0.61958 0.77255 0.44927 1.01637\n- 2 2.68420 4.10941 4.32228 3.73279 2.05349 3.80886 4.06107 2.25585 3.57730 2.24658 2.45322 3.85030 4.17130 3.75889 3.01505 3.10709 2.91558 2.35649 3.59751 2.88594 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01988 4.32378 5.04613 0.61958 0.77255 0.55145 0.85829\n- 3 2.64907 4.46257 3.39374 2.83673 2.67735 2.83046 3.82653 2.99639 2.47985 2.69019 3.57227 3.27222 3.97253 3.11723 3.17152 2.01780 2.88494 2.75583 3.61289 3.72770 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01988 4.32378 5.04613 0.61958 0.77255 0.55145 0.85829\n- 4 2.69850 5.17526 2.65109 2.36935 4.51439 3.44283 3.63714 3.98768 2.07033 3.47098 4.22291 2.18272 3.18206 2.45533 2.37496 2.66205 2.92886 3.56390 5.60376 4.20772 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01988 4.32378 5.04613 0.61958 0.77255 0.55145 0.85829\n- 5 3.34424 4.66039 5.05402 4.49354 1.91542 4.57920 4.78419 2.32555 4.35159 1.05660 3.05033 4.64115 4.79734 4.40993 4.41402 3.92360 3.56817 1.91086 5.05916 3.82835 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01988 4.32378 5.04613 0.61958 0.77255 0.55145 0.85829\n- 6 2.65202 4.22093 3.82739 2.80068 3.31365 3.69921 3.97428 2.66966 3.15380 1.71495 2.51094 3.56366 4.07218 3.42983 3.41839 2.63402 2.88381 2.47305 3.53133 3.59775 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01988 4.32378 5.04613 0.61958 0.77255 0.44677 1.02079\n- 7 2.31269 5.03465 2.97947 2.08182 4.33341 3.47287 3.67098 3.77325 1.77838 3.31957 3.49959 2.97350 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08127 4.33118 2.73490 0.61958 0.77255 0.48576 0.95510\n- 473 3.42210 4.69148 5.17076 4.65307 3.39003 4.78837 5.20568 1.07591 4.49523 1.30132 3.18811 4.86835 4.98646 4.65042 4.60881 4.18208 3.66216 1.98096 5.48508 4.35706 491 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27088 4.99323 0.61958 0.77255 0.56691 0.83765\n- 474 2.70865 4.54063 3.43781 2.86456 3.12003 3.61397 3.81972 3.04325 2.66898 2.17729 3.62448 3.29256 4.00296 3.09642 1.79719 2.60094 2.94194 2.81722 5.03154 3.73582 492 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27088 4.99323 0.61958 0.77255 0.56691 0.83765\n- 475 2.91896 5.22881 3.22069 2.62487 4.63206 2.68200 3.67026 4.03136 1.74520 3.48896 4.29622 3.10720 3.99616 2.28774 1.70985 2.89533 3.11679 3.66047 5.57386 4.30260 493 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14320 4.27088 2.12489 0.61958 0.77255 0.56691 0.83765\n- 476 2.61129 4.35195 3.00168 2.89583 3.51374 3.57160 3.85569 2.13042 2.86110 2.14911 3.46743 3.30944 3.96647 3.17086 3.22266 2.47832 2.59362 2.53952 4.96676 3.72588 494 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08726 4.15135 2.69095 0.61958 0.77255 0.69906 0.68726\n- 477 2.65115 4.63717 3.27163 2.71878 3.95355 3.46132 3.75205 3.28461 2.43471 2.95023 3.83640 3.15647 2.96193 2.94787 1.81858 2.75479 2.91338 2.38472 5.25267 3.98683 495 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08929 4.81164 0.61958 0.77255 0.62734 0.76360\n- 478 2.75175 4.56403 3.36348 1.91318 2.79927 3.65416 3.87421 2.85796 2.84119 1.89204 3.50122 3.31584 4.04253 3.17318 3.21841 2.92332 2.98657 2.70458 4.99318 3.66041 496 l - - -\n- 2.68609 4.42237 2.77532 2.73093 3.46366 2.40481 3.72450 3.29366 2.67753 2.69367 4.24702 2.90359 2.73752 3.18158 2.89788 2.37899 2.77532 2.98502 4.58489 3.61515\n- 0.41140 1.40500 2.38694 0.98823 0.46559 0.68939 0.69691\n- 479 2.70376 4.98886 2.79182 1.92552 4.34120 3.38161 3.66295 3.77622 2.37588 3.32579 4.13610 2.92012 3.84219 2.80366 2.39808 1.91859 2.95318 3.40766 5.50385 4.15718 500 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02562 4.07306 4.79541 0.61958 0.77255 0.76992 0.62185\n- 480 2.68741 4.82856 2.91915 2.50778 4.14524 3.40493 3.70818 3.52116 2.14574 3.16374 4.01268 1.81750 3.86935 2.87612 2.81123 2.72881 2.94582 2.67711 5.39137 4.06950 501 n - - -\n- 2.68607 4.42234 2.77529 2.73133 3.46363 2.40511 3.72504 3.29363 2.67750 2.69364 4.24699 2.90356 2.73729 3.18131 2.89788 2.37871 2.77529 2.98528 4.58486 3.61462\n- 0.48392 0.95806 * 0.51442 0.91092 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_I_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_I_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,617 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_I_II_III_IV_V_VI_1\n-LENG 198\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:36 2020\n-NSEQ 10\n-EFFN 2.866211\n-CKSUM 736393854\n-GA 35 35;\n-STATS LOCAL MSV -10.4120 0.70547\n-STATS LOCAL VITERBI -11.1431 0.70547\n-STATS LOCAL FORWARD -4.9653 0.70547\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58509 4.72365 3.08734 2.55875 3.49397 2.91204 3.95827 2.60113 2.56819 2.27619 3.62865 3.15077 3.62727 3.21675 2.88917 2.71105 2.83400 2.46180 5.15182 3.59932\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.00000 *\n- 1 2.38866 4.44478 4.83220 4.24221 3.40599 4.22828 4.53050 1.72527 4.06684 1.54333 3.43318 4.32206 4.57339 4.22492 4.14117 3.54069 3.29237 2.49914 5.02945 1.79912 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 2 2.48585 4.48672 5.10599 4.50936 2.61220 4.37820 4.73623 1.48087 4.31996 1.80809 2.58002 4.53245 4.70400 4.44254 4.34260 3.70265 3.38001 1.67922 5.18441 4.02632 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 3 1.66000 4.51917 2.84764 3.45467 1.83306 3.90879 4.25706 2.91171 3.41391 2.72395 3.65887 3.78430 4.32022 3.68180 3.70857 3.19925 3.15601 1.95382 5.14991 3.91559 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 4 2.81599 4.75799 4.19065 3.94547 5.09159 2.34739 4.99238 4.53195 4.02137 4.20775 5.01242 4.00421 2.50025 4.28018 4.30314 3.00291 0.62795 3.89209 6.41663 5.24420 4 T - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 5 3.12543 4.48146 5.00584 4.41197 2.56958 4.33872 4.68875 2.50853 4.23459 2.00384 2.59147 4.46767 4.67012 4.37324 4.28363 3.65866 2.54680 1.06092 5.16434 4.00006 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 6 3.41673 5.21448 4.48509 4.34089 4.87128 0.37619 5.27931 4.37074 4.35579 2.36100 5.10799 4.46990 4.75894 4.70718 4.55364 3.62457 3.90541 4.02700 6.27789 5.07001 6 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 7 4.05368 5.26428 5.50091 5.15132 0.72774 4.99423 4.22400 1.90843 4.95037 2.87816 4.15185 4.809'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 191 2.91186 5.37266 2.60025 2.22466 4.71773 3.66789 3.83781 4.18332 1.55454 2.39455 4.41923 3.14051 4.06270 2.94145 2.10699 2.87846 3.13815 3.76454 5.79207 4.40988 233 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 192 2.87456 4.88648 3.41491 2.84709 4.08581 2.39347 3.94762 2.35411 2.33245 2.34883 3.97284 3.33254 2.97627 3.14481 2.08956 2.96655 3.10349 3.19540 5.41605 4.12949 234 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 193 2.86415 2.97002 4.44032 3.84844 3.41431 3.98557 4.29861 2.30716 2.74600 2.50217 3.42885 4.01061 4.35387 3.91168 3.84995 3.27899 2.49727 1.90974 4.93155 1.78464 235 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 194 2.84017 4.96437 3.28941 2.33026 4.18189 3.68852 2.99535 2.77549 2.31084 3.21331 4.04135 3.24051 4.07726 3.06555 3.16922 1.72644 3.07141 2.63382 5.48086 3.09093 236 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 195 2.06603 4.34333 4.56773 3.97803 3.45952 4.05921 4.39494 2.19463 3.83220 1.63910 3.46079 4.11461 3.04240 4.02593 3.95796 3.36073 2.54760 1.77939 4.99873 3.81318 237 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 196 2.97165 5.43553 2.45301 2.57912 4.77819 2.74665 3.92702 4.25574 2.23553 3.75575 4.52070 2.50897 4.09939 3.04300 3.21341 2.93218 1.34600 3.83409 5.90709 4.49507 238 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 197 3.28812 5.88827 1.67425 1.53726 5.20581 3.71494 4.12813 4.72164 1.33595 4.17633 4.97117 3.16456 4.26529 3.26334 3.53637 3.18903 3.54885 4.27098 6.30341 4.82762 239 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01122 4.89143 5.61378 0.61958 0.77255 0.48576 0.95510\n- 198 2.45504 4.86451 5.26698 4.74534 3.70542 4.65870 5.22257 2.53729 4.59151 0.67509 3.52952 4.85983 5.01524 4.73684 4.68614 4.03777 3.75458 1.98280 5.63718 4.52891 240 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00757 4.88778 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_I_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/casR_I_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,677 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME casR_I_II_III_IV_V_VI_2\n-LENG 218\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:37 2020\n-NSEQ 11\n-EFFN 3.214600\n-CKSUM 1448754775\n-GA 35 35;\n-STATS LOCAL MSV -10.5731 0.70434\n-STATS LOCAL VITERBI -10.9750 0.70434\n-STATS LOCAL FORWARD -5.4414 0.70434\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60566 4.66001 3.12049 2.56068 3.51037 2.95172 3.96509 2.55391 2.55487 2.27511 3.61340 3.13169 3.64822 3.23959 2.88933 2.72210 2.81386 2.45364 5.22097 3.59729\n- 2.68643 4.42250 2.77544 2.73042 3.46379 2.40538 3.72344 3.29379 2.67766 2.69380 4.24224 2.90372 2.73764 3.18171 2.89764 2.37912 2.77544 2.98474 4.58502 3.61528\n- 1.18105 1.15165 0.97570 0.68530 0.70106 0.00000 *\n- 1 2.72125 4.72686 3.25848 2.16781 2.72850 3.59512 2.98600 3.30665 2.64510 2.95696 2.50163 3.18454 3.98107 3.00690 2.37251 2.81580 2.95119 3.03305 5.24493 3.94666 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01641 4.51363 5.23598 0.61958 0.77255 0.74151 0.64701\n- 2 2.75395 4.65502 3.26673 2.71830 3.92909 3.59847 3.79869 3.35084 2.19195 3.01202 2.46550 3.19779 3.96245 3.02610 1.95777 2.84047 2.97909 3.08054 5.09567 2.78853 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01361 4.69932 5.42167 0.61958 0.77255 0.26006 1.47405\n- 3 2.99312 4.73013 3.86406 3.28716 3.89110 3.94537 4.19993 3.12747 1.71632 2.88926 1.56358 3.68611 4.33456 3.50169 3.41089 3.21077 2.55303 2.31629 5.33688 4.10898 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01025 4.98139 5.70373 0.61958 0.77255 0.48576 0.95510\n- 4 2.40157 4.55314 3.87783 3.30783 3.68564 3.89628 4.16523 2.42533 3.24832 2.28798 3.66293 3.68201 4.27611 3.53972 2.25397 1.93952 2.46820 2.31130 5.14858 3.92533 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01025 4.98139 5.70373 0.61958 0.77255 0.48576 0.95510\n- 5 2.40881 4.50344 4.91441 4.32407 3.44433 4.29339 4.59098 1.81493 4.14470 1.48448 3.47674 4.39389 4.63636 4.29603 4.21069 3.60727 3.35533 2.56097 5.07608 1.65828 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01025 4.98139 5.70373 0.61958 0.77255 0.48576 0.95510\n- 6 2.44864 4.51835 5.14459 4.54729 2.42521 4.40772 4.76660 1.44521 4.35545 1.97569 2.53816 4.56457 4.73721 4.48001 4.37622 3.73182 3.41123 1.67050 5.21881 4.05744 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01025 4.98139 5.70373 0.61958 0.77255 0.48576 0.95510\n- 7 1.71686 4.54867 2.78790 3.55495 1.76447 3.97248 4.32621 2.92233 3.51101 2.75019 3.68914 3.86'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01239 4.79280 5.51514 0.61958 0.77255 0.87490 0.53940\n- 211 2.85377 5.32248 3.11130 2.55265 4.67346 2.70643 3.78639 4.14239 1.67284 3.62010 4.37049 3.09086 2.91796 2.32851 2.37394 2.33280 3.08080 3.71826 5.74538 4.36003 217 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10866 4.79280 2.35731 0.61958 0.77255 0.87490 0.53940\n- 212 3.39430 4.74173 5.11109 4.55280 3.51750 4.63044 5.02719 1.85736 4.39440 0.84526 3.34493 4.72197 4.90996 4.54421 4.49856 3.97766 2.35563 2.37581 5.43935 4.33098 218 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13283 4.69777 2.16049 0.61958 0.77255 1.00663 0.45484\n- 213 2.78227 4.62706 3.44582 2.90439 3.69721 3.69246 2.70069 2.42045 2.83601 2.20617 3.71645 1.83620 4.08151 3.19041 3.21299 2.93959 3.01477 2.89290 5.12641 3.82492 219 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01535 4.58029 5.30264 0.61958 0.77255 1.13522 0.38765\n- 214 2.89366 5.23321 3.22338 2.63054 4.57809 2.58743 3.75767 4.00211 1.70471 2.56131 4.29073 3.13842 4.02849 2.28723 2.11712 2.87835 3.10662 3.62771 5.63233 4.31317 220 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01535 4.58029 5.30264 0.61958 0.77255 1.13522 0.38765\n- 215 2.87149 5.29345 2.85761 2.02721 4.65642 1.82444 3.82369 4.12355 2.07606 3.63097 4.40850 3.02985 3.99341 2.94632 3.06192 2.07019 3.12083 3.71052 5.78494 4.38906 221 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01535 4.58029 5.30264 0.61958 0.77255 1.13522 0.38765\n- 216 2.74647 2.74767 4.12503 3.55114 3.40523 3.82011 4.17052 2.63476 3.44492 1.98051 3.40142 2.68247 4.21286 3.68815 3.66210 3.11302 2.32290 1.75187 4.91707 3.71910 222 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01535 4.58029 5.30264 0.61958 0.77255 1.13522 0.38765\n- 217 2.75831 4.89873 3.15874 2.16982 4.12868 3.58613 3.79416 2.04816 2.10815 3.14700 3.97728 2.48416 3.98048 2.95759 3.02545 2.80778 2.98914 2.81960 5.41170 4.09296 223 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01535 4.58029 5.30264 0.61958 0.77255 1.13522 0.38765\n- 218 2.80814 5.23801 2.95172 1.55649 4.58655 3.53108 3.76096 4.05152 2.49172 3.55370 4.31962 3.02163 2.75146 2.87403 2.35422 2.19004 3.04616 3.63974 5.70121 4.31332 224 e - - -\n- 2.68676 4.42283 2.77525 2.72975 3.46412 2.40571 3.72553 3.29412 2.67693 2.69312 4.24501 2.90341 2.73798 3.18205 2.89795 2.37762 2.77578 2.98577 4.58535 3.61561\n- 0.76458 0.62648 * 1.36479 0.29495 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1202 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_5\n-LENG 393\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:40 2020\n-NSEQ 5\n-EFFN 1.264648\n-CKSUM 3511342647\n-GA 24 24;\n-STATS LOCAL MSV -11.5808 0.69937\n-STATS LOCAL VITERBI -12.3614 0.69937\n-STATS LOCAL FORWARD -5.6809 0.69937\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68782 4.44427 3.02421 2.58319 3.21127 2.83049 3.79620 2.80697 2.44105 2.48821 3.72803 3.06667 3.57792 3.09419 2.77131 2.63307 2.89294 2.68126 4.41050 3.52346\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29324 4.32458 1.42330 0.61958 0.77255 0.00000 *\n- 1 2.66826 4.34164 3.79913 3.30931 3.47487 3.59478 4.15654 2.55478 3.16020 2.24918 1.88246 3.60374 4.08770 3.51271 3.43346 2.95239 2.02071 2.41401 5.10524 3.89368 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 2 1.59667 4.35565 3.79292 3.35646 3.55395 3.54350 4.23474 2.54537 3.24259 1.67212 3.50027 3.62745 4.08873 3.58831 3.51800 2.93549 3.00009 2.39051 5.19979 3.96226 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 3 2.67970 4.80517 2.97229 2.59192 4.32325 3.34537 3.76097 3.74816 1.75060 3.33252 4.17510 3.04979 3.87012 2.92755 2.73099 1.68230 2.98016 3.37060 5.49785 4.20028 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 4 2.72033 4.95406 2.56931 1.71442 4.42218 3.27093 3.79158 3.86946 2.64905 3.46132 4.30267 2.89454 3.84437 2.96306 3.10393 1.65255 3.03104 3.47685 5.65201 4.27672 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.54694 0.86446\n- 5 2.65468 4.63553 3.26630 2.70930 3.89932 3.49146 3.76164 3.28082 2.50740 2.92542 2.73981 3.16054 3.91767 2.96550 2.16712 1.92000 2.90754 3.00076 5.22246 3.94789 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19194 4.91429 0.61958 0.77255 0.39535 1.11915\n- 6 2.17368 4.92276 3.01093 1.89850 4.18525 3.48388 3.69227 3.59257 2.12080 3.18614 2.87626 3.00834 3.88599 2.83579 2.89305 2.71127 2.92206 3.26093 5.41705 4.07957 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32458 5.04693 0.61958 0.77255 0.48576 0.95510\n- 7 2.67841 3.01168 2.26321 2.47137 4.27499 2.24397 3.72883 3.70578 2.14258 3.28597 4.08745 2.9930'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 386 2.59505 4.67782 2.73764 2.59504 4.46585 1.56135 3.99192 3.99360 2.91683 3.60021 4.44502 1.81514 3.82760 3.20484 3.33499 2.67077 3.00135 3.50692 5.72134 4.39428 464 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 387 2.72961 4.55885 3.29250 2.96219 3.24483 1.67591 3.86297 3.33490 2.98307 2.97172 3.92427 3.33078 3.99383 3.32273 3.31437 2.87412 3.05398 3.05862 4.76910 1.92836 465 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 388 2.96857 5.18541 3.09210 2.61788 4.57227 3.56779 3.64907 3.97608 1.39179 3.43875 4.29510 3.08323 3.98528 1.93291 2.31279 2.94839 3.16729 3.63643 5.51706 4.27227 466 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 389 2.89139 5.24608 2.64413 1.54565 4.59495 3.41264 3.68941 4.02297 1.71451 3.52696 4.36218 2.90543 3.90569 2.83121 2.68784 2.84236 3.12754 3.65113 5.65020 4.30963 467 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 390 2.95018 4.40136 4.20678 3.70570 2.82203 4.00065 4.04054 1.53563 3.54191 2.14870 3.33149 3.90406 4.35663 3.80085 3.73436 3.33197 3.19229 2.28855 4.50340 1.99957 468 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 391 2.74240 4.88873 2.85820 2.53738 4.28201 3.36433 3.77754 3.76429 2.48664 3.31745 4.19124 3.02480 2.20485 1.69949 2.84877 2.77480 3.03210 3.41084 5.49603 4.17576 469 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 392 2.55201 4.36152 3.47850 3.06940 3.71115 1.75328 4.04316 3.01064 2.99825 2.70342 2.12352 3.38759 3.92731 3.35891 3.30822 2.75475 2.90460 2.76759 5.18860 3.93898 470 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05737 4.77972 0.61958 0.77255 0.77583 0.61678\n- 393 2.75685 4.86345 2.92617 2.61535 4.42706 1.70068 3.82336 3.86029 1.68284 3.43425 4.28737 3.07888 3.90390 2.99823 2.79743 2.80162 3.06565 3.47491 5.56381 4.29550 471 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01759 4.04894 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1043 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_6\n-LENG 340\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:40 2020\n-NSEQ 26\n-EFFN 2.142334\n-CKSUM 1895883750\n-GA 150 150;\n-STATS LOCAL MSV -11.2283 0.70032\n-STATS LOCAL VITERBI -12.3484 0.70032\n-STATS LOCAL FORWARD -5.1870 0.70032\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68982 4.64322 2.99057 2.57499 3.03847 2.98959 3.63677 2.85463 2.35766 2.54491 3.76811 2.92763 3.40146 2.95493 2.89952 2.66558 2.88005 2.91655 4.90151 3.31066\n- 2.68643 4.42250 2.77544 2.73092 3.46324 2.40537 3.72430 3.29350 2.67750 2.69368 4.24303 2.90356 2.73749 3.18171 2.89773 2.37912 2.77515 2.98522 4.58502 3.61492\n- 0.40745 1.10830 5.39616 0.91746 0.51005 0.00000 *\n- 1 2.77468 4.82617 2.97173 2.70651 4.03197 3.62711 3.85359 3.42516 2.51490 2.85907 1.64519 2.56376 4.02314 3.04299 3.13365 2.66906 2.78640 3.13970 5.36029 4.05916 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 2 2.53185 3.59912 2.87164 2.47382 4.19660 3.58451 3.04284 3.23492 2.58782 3.21645 4.02815 2.49575 3.02707 2.73862 3.05212 2.60088 2.98506 3.28996 4.16144 2.67468 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 3 2.95622 5.30432 3.27877 2.31309 4.66054 3.70288 3.79990 2.62012 1.34713 3.56956 4.35924 3.18848 4.08080 2.52360 2.28191 2.93681 3.16628 3.70428 5.68978 4.37549 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 4 3.12488 4.57642 4.52590 3.94262 3.49048 4.25838 4.55512 2.30022 2.62312 0.95444 3.37893 4.20035 4.58173 4.02556 3.92781 3.56232 3.35525 2.12237 5.21649 4.05929 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 5 2.85806 5.36635 2.69407 1.44371 4.69931 3.54915 3.79301 4.18446 2.09181 3.66439 4.41741 2.81609 3.98335 2.70919 3.05318 2.81058 2.24345 3.75187 5.79916 4.38149 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 6 2.68960 4.27020 4.77578 4.17379 1.76973 4.07646 4.39093 1.88349 3.98368 1.89026 3.28774 4.20604 4.42314 4.11895 4.02137 3.38936 3.12946 2.01021 4.87209 2.89454 9 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 7 2.75341 4.03093 2.84827 1.76512 4.51614 3.31673 3.72765 3.57441 2.25998 3.49156 4.24563 3.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 333 2.79620 5.27975 1.96077 2.23968 4.60836 2.48560 3.75458 4.08715 2.51246 3.57893 4.32898 2.28616 3.31515 2.85974 3.00901 2.56992 3.03067 3.29257 5.72220 3.85559 400 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 334 2.35556 5.22822 3.02334 2.20167 4.55798 3.53868 3.72579 4.03091 2.01475 3.52564 4.27396 2.87538 3.93208 2.01407 2.77286 2.57403 2.57330 3.20435 5.66917 4.27102 401 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 335 2.75422 5.22769 2.79661 1.85226 3.89387 3.53310 3.72197 3.50885 1.91972 3.52634 4.27248 3.00663 3.15792 2.69058 2.76721 2.60291 2.54907 3.61016 5.66942 4.26804 402 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 336 2.78362 4.27966 4.17345 3.59570 1.38568 3.32461 4.14359 2.53819 3.48429 2.33681 3.39585 3.82212 3.53262 3.71394 3.68447 2.77726 3.01773 2.53642 4.83010 3.19909 403 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 337 2.61030 5.18927 2.87158 2.17748 4.50431 2.90498 3.72940 2.88478 2.18644 3.48165 4.23795 2.62507 3.93165 2.68737 2.81734 2.40621 2.64492 3.27259 5.64033 3.67763 404 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01397 4.67381 5.39616 0.61958 0.77255 0.48576 0.95510\n- 338 2.78462 4.19523 4.51866 3.38428 1.59297 3.92619 4.22580 1.86364 3.75127 2.36327 3.30309 4.00720 4.29030 3.92193 3.83749 3.22799 2.79227 2.32220 3.96653 3.21654 405 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05043 4.67381 3.22292 0.61958 0.77255 0.48576 0.95510\n- 339 2.75038 5.15012 3.04486 2.36910 4.45527 3.53968 3.72812 3.91077 2.01517 3.13476 3.75657 2.86105 3.60483 2.84043 2.60642 1.77764 2.64909 3.51941 5.60639 4.22587 406 s - - -\n- 2.68615 4.42174 2.77528 2.73132 3.46362 2.40521 3.72503 3.29336 2.67708 2.69363 4.24698 2.90324 2.73748 3.18139 2.89809 2.37895 2.77513 2.98527 4.58485 3.61512\n- 0.85641 1.17059 1.32752 0.12285 2.15761 0.55514 0.85329\n- 340 2.64918 4.69679 2.94388 2.59619 3.42004 3.23388 3.72962 3.29096 2.12157 2.59693 3.77961 2.52861 3.90439 2.92172 3.02044 2.73044 2.88052 3.00703 4.12296 2.93819 408 k - - -\n- 2.68832 4.42274 2.77320 2.73060 3.45715 2.40594 3.72660 3.29196 2.67557 2.69236 4.24670 2.90192 2.73888 3.18322 2.90023 2.37971 2.77636 2.98529 4.58802 3.61406\n- 0.86420 0.54712 * 3.19276 0.04193 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1784 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_4\n-LENG 587\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:39 2020\n-NSEQ 2\n-EFFN 0.378906\n-CKSUM 266222924\n-GA 148 148;\n-STATS LOCAL MSV -11.5752 0.69734\n-STATS LOCAL VITERBI -12.8428 0.69734\n-STATS LOCAL FORWARD -6.5673 0.69734\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41100 3.99650 3.01857 2.75672 3.35746 2.59793 3.85275 2.90794 2.78293 2.38913 3.82734 3.26259 3.21824 3.26895 2.80788 2.64427 2.95026 2.54607 4.46599 3.53460\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 2.27294 4.19044 3.12785 2.94209 3.98201 2.92230 4.05319 3.49296 3.00917 3.22179 4.15813 3.180'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 580 2.89119 4.99618 1.06597 2.28568 4.36159 3.14207 3.85418 3.92897 2.92145 3.55591 4.53483 2.83593 3.78851 3.09537 3.42210 2.86658 3.22882 3.57945 5.54867 4.25414 580 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 581 3.18543 4.59274 3.95035 3.63476 2.58089 3.62738 3.79195 3.20740 3.35991 2.61765 3.84542 3.80375 4.13792 3.75284 3.50431 3.38984 3.48164 3.09512 1.10308 2.58850 581 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 582 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 582 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 583 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 583 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 584 3.11415 4.64195 3.69890 3.41295 2.30689 3.72010 3.58249 3.13717 3.27320 2.61522 3.82311 3.60928 4.19757 3.60236 3.47549 3.25950 3.40117 3.00361 3.94606 1.14147 584 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 585 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 585 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 586 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 586 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 587 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 587 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,521 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_1\n-LENG 166\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:39 2020\n-NSEQ 4\n-EFFN 0.644531\n-CKSUM 3311564299\n-GA 54 54;\n-STATS LOCAL MSV -10.3128 0.70789\n-STATS LOCAL VITERBI -11.1067 0.70789\n-STATS LOCAL FORWARD -4.6376 0.70789\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49535 4.12676 2.89314 2.83162 3.52264 2.68727 3.90892 2.73924 2.79201 2.37058 3.68654 3.09331 3.23156 3.32440 2.88320 2.62704 2.94021 2.53456 4.18787 3.55409\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40517 3.72498 3.29358 2.67725 2.69359 4.24694 2.90351 2.73743 3.18150 2.89805 2.37891 2.77523 2.98469 4.58481 3.61507\n- 0.14710 2.06929 4.55454 0.87044 0.54261 0.00000 *\n- 1 3.05160 4.58480 4.15994 3.76194 3.25550 3.91067 4.47349 2.44142 3.52416 1.83559 1.19512 4.02658 4.37260 3.89979 3.71733 3.41097 3.35931 2.45918 5.10944 3.87975 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 2 1.86539 4.20447 3.59449 3.14597 3.73303 3.26389 4.08593 2.75262 3.09578 2.70472 3.66711 3.40183 2.98176 3.40827 3.40766 2.64767 2.78969 1.75445 5.21707 3.99463 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 3 3.06621 4.54852 4.09130 3.62152 2.50982 4.00258 3.80908 2.70193 3.42865 1.52160 3.38713 3.81312 4.35574 3.70544 3.63085 3.34354 3.30348 2.64321 4.19598 1.70532 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 4 1.70055 4.21692 3.89495 3.49015 3.74770 3.39500 4.36791 2.35922 3.41399 2.55843 3.65537 3.66002 4.02039 3.72617 3.67808 2.81547 2.90698 1.49905 5.36813 4.14749 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 5 2.84332 5.20744 2.48806 1.64085 4.50199 3.33100 3.68264 3.96832 2.42515 3.48401 4.33311 2.82623 3.85519 1.92754 2.83458 2.79152 3.09520 3.60090 5.63918 4.26004 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 6 3.21083 4.54508 4.74595 4.22281 3.20274 4.47254 4.83753 1.44413 4.05345 1.21330 3.03304 4.48242 4.71396 4.26815 4.21609 3.84417 3.45199 1.94742 5.23765 4.07800 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97458 4.69693 0.61958 0.77255 0.48576 0.95510\n- 7 2.78437 5.21603 1.83300 1.95122 4.55311 3.24044 3.70726 4.03189 2.63489 3.56749 4.38970 2.73841'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03660 3.72170 4.44404 0.61958 0.77255 0.63009 0.76045\n- 159 2.99056 4.50153 3.94196 3.58861 3.08920 3.78183 4.29177 2.29477 3.35753 1.08779 3.17292 3.87753 4.24837 3.76266 3.55541 3.34535 3.29474 2.29138 4.90641 3.59281 183 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03660 3.72170 4.44404 0.61958 0.77255 0.40506 1.09943\n- 160 2.23073 4.17244 3.29109 3.00416 4.15320 2.94957 4.09429 3.49985 3.02583 3.24531 4.11256 3.21848 3.67254 3.36091 3.33932 1.38705 2.12041 3.03267 5.51540 4.27163 184 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03047 3.90210 4.62445 0.61958 0.77255 0.48576 0.95510\n- 161 2.43504 1.30762 3.91012 3.62045 3.65256 3.08377 4.30159 2.77645 3.44784 2.69612 3.81553 3.64777 3.77888 3.80124 3.59694 2.70526 2.89016 2.53008 5.09448 3.93955 185 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03660 3.72170 4.44404 0.61958 0.77255 0.48576 0.95510\n- 162 2.99056 4.50153 3.94196 3.58861 3.08920 3.78183 4.29177 2.29477 3.35753 1.08779 3.17292 3.87753 4.24837 3.76266 3.55541 3.34535 3.29474 2.29138 4.90641 3.59281 186 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03660 3.72170 4.44404 0.61958 0.77255 0.48576 0.95510\n- 163 1.25659 4.12848 3.31695 3.10886 3.90819 2.95528 4.14763 3.01262 3.12114 2.89970 3.95491 3.29433 3.68083 3.47840 3.37803 2.48344 2.75058 2.69426 5.35116 4.13564 187 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03660 3.72170 4.44404 0.61958 0.77255 0.48576 0.95510\n- 164 2.84488 4.68174 3.32110 2.87377 3.99786 3.35303 3.73467 3.53459 2.20703 3.07881 4.08981 3.24180 3.86910 2.96859 1.23863 2.94023 3.12530 3.26680 5.14647 3.96461 188 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03660 3.72170 4.44404 0.61958 0.77255 0.48576 0.95510\n- 165 2.49642 4.27875 3.13816 3.02245 4.15237 1.00571 4.14574 3.72066 3.18196 3.39304 4.37316 3.30429 3.66505 3.51960 3.42854 2.66529 2.96626 3.27925 5.28139 4.25144 189 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03660 3.72170 4.44404 0.61958 0.77255 0.48576 0.95510\n- 166 2.49642 4.27875 3.13816 3.02245 4.15237 1.00571 4.14574 3.72066 3.18196 3.39304 4.37316 3.30429 3.66505 3.51960 3.42854 2.66529 2.96626 3.27925 5.28139 4.25144 190 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02479 3.70988 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,272 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_7\n-LENG 83\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:40 2020\n-NSEQ 5\n-EFFN 0.610352\n-CKSUM 2569977935\n-GA 140 140;\n-STATS LOCAL MSV -9.1074 0.71858\n-STATS LOCAL VITERBI -9.8406 0.71858\n-STATS LOCAL FORWARD -3.7215 0.71858\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66441 4.09752 3.16035 2.49846 3.37681 3.27690 4.01370 2.60971 2.43541 2.25017 3.62439 3.02320 3.96082 3.18484 2.96368 2.78850 2.79974 2.51201 4.25453 3.58842\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.00000 *\n- 1 3.03208 4.56870 4.13430 3.73406 3.24363 3.89297 4.45100 2.42715 3.49771 1.82682 1.23484 4.00172 4.35435 3.87462 3.69372 3.38924 3.33910 2.44231 5.09474 3.86324 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 2 3.02097 5.14719 2.52229 0.91846 4.50343 3.32550 3.91948 3.97299 2.80997 3.57760 4.54844 2.97904 3.93391 3.13367 3.22676 2.99555 3.32590 3.64882 5.66019 4.38279 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 3 2.78489 4.42874 3.63982 3.15308 3.54090 3.72028 4.03230 1.52804 2.38001 2.37895 3.48282 3.52148 4.13391 3.34551 3.10082 3.07099 3.03740 2.24178 5.10700 3.86119 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 4 2.81738 5.08128 2.40994 1.27022 4.52548 2.51625 3.79334 3.98958 2.69155 3.56521 4.42919 2.83442 3.83881 2.97382 3.16073 2.79019 3.12406 3.59893 5.70733 4.34357 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 5 2.45603 4.30114 3.49893 3.25497 4.03931 3.13772 4.26617 3.17607 3.19950 3.03676 4.08249 3.45148 3.84779 3.59046 3.45420 2.65821 1.04514 2.86260 5.47020 4.25604 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 6 3.24401 4.68310 4.31575 3.95624 3.16660 4.08186 4.58728 2.37527 3.72321 0.78404 3.16548 4.22406 4.50387 4.07270 3.88629 3.66231 3.53479 2.43299 5.07417 3.81558 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 7 3.09252 4.48982 4.44670 4.06573 3.42782 4.15080 4.77952 0.98547 3.89537 1.99815 3.35133 4.3000'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 76 3.04466 5.01092 3.22585 2.83298 4.41534 3.52533 3.80394 3.84960 0.93550 3.39768 4.35520 3.25387 4.02036 2.99118 2.44822 3.08166 3.29223 3.55305 5.43789 4.26211 76 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 77 2.83488 5.21571 1.91691 2.17827 4.55148 3.20557 3.76679 4.10561 2.74639 3.65816 4.51596 1.49024 3.82116 2.94664 3.28474 2.77379 3.14250 3.69414 5.78201 4.32425 77 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 78 2.78961 4.78827 2.75353 2.64708 4.16422 3.23748 3.98599 3.89183 2.89642 3.52986 4.48486 1.02590 3.89333 3.25911 3.25355 2.85394 3.17421 3.50608 5.46113 4.10707 78 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 79 2.45603 4.30114 3.49893 3.25497 4.03931 3.13772 4.26617 3.17607 3.19950 3.03676 4.08249 3.45148 3.84779 3.59046 3.45420 2.65821 1.04514 2.86260 5.47020 4.25604 79 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.48576 0.95510\n- 80 3.04466 5.01092 3.22585 2.83298 4.41534 3.52533 3.80394 3.84960 0.93550 3.39768 4.35520 3.25387 4.02036 2.99118 2.44822 3.08166 3.29223 3.55305 5.43789 4.26211 80 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12893 3.95121 2.28543 0.61958 0.77255 0.48576 0.95510\n- 81 2.86671 4.85152 2.89132 2.64599 4.01761 3.35423 3.80406 3.64577 2.46809 3.14991 4.17850 3.10548 3.90757 1.26676 2.75253 2.91533 3.16379 3.37664 5.29295 3.98556 81 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03198 3.85427 4.57661 0.61958 0.77255 0.57311 0.82958\n- 82 2.95577 4.91845 3.13052 2.75563 4.30072 3.44699 3.74960 3.72889 1.06346 3.29804 4.26064 3.18084 3.94876 2.94224 2.42885 2.99905 3.21048 3.43777 5.36299 4.17321 82 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03198 3.85427 4.57661 0.61958 0.77255 0.57311 0.82958\n- 83 2.21412 4.85009 2.50968 1.56685 4.27395 3.21944 3.73967 3.57855 2.59132 3.27002 4.16524 2.84804 3.79326 2.92262 3.02452 2.69677 2.98434 3.24533 5.54168 4.18850 83 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02164 3.84392 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_III-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_III-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1052 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_2\n-LENG 343\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:39 2020\n-NSEQ 4\n-EFFN 0.636719\n-CKSUM 3064343776\n-GA 300 300;\n-STATS LOCAL MSV -11.5308 0.70028\n-STATS LOCAL VITERBI -12.3264 0.70028\n-STATS LOCAL FORWARD -5.4751 0.70028\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40283 4.43405 2.97210 2.81256 3.41566 2.72655 3.67404 2.85794 2.76075 2.34880 3.77238 3.08915 3.33186 3.06737 2.79861 2.67162 2.84982 2.69303 4.24647 3.65157\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.00000 *\n- 1 3.04714 4.58111 4.15411 3.75559 3.25276 3.90665 4.46836 2.43814 3.51814 1.83355 1.20401 4.02092 4.36844 3.89405 3.71195 3.40602 3.35469 2.45531 5.10607 3.87598 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 2 2.44631 4.51502 2.90643 2.59440 4.21985 3.13787 3.84864 3.64274 2.70659 3.28053 4.10899 1.98113 3.74873 3.04207 3.11626 2.06136 2.23797 3.21612 5.50350 4.19548 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 3 1.37985 4.19616 3.77122 3.38577 3.82561 3.24573 4.30090 2.60094 3.31773 2.68497 3.75015 3.54510 3.91038 3.63545 3.59150 2.67553 2.84021 1.89785 5.39448 4.17124 3 a - - -\n- 2.68624 4.42231 2.77525 2.73099 3.46359 2.40518 3.72500 3.29360 2.67746 2.69360 4.24562 2.90352 2.73716 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61509\n- 0.17185 1.90567 4.69163 0.91166 0.51392 0.48576 0.95510\n- 4 3.26480 4.69874 4.34466 3.98561 3.17438 4.10458 4.61100 2.38444 3.75239 0.76462 3.16829 4.25166 4.52372 4.09754 3.91236 3.68769 3.55489 2.44678 5.08813 3.83358 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 5 1.53051 4.66776 2.75522 2.04660 4.17950 3.24114 3.83838 3.46061 2.69935 3.19104 4.08313 2.99388 3.82464 3.04025 3.10705 2.68384 2.94204 3.12718 5.49042 4.17881 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 6 2.19052 4.76870 2.93523 2.50394 4.20191 3.33208 3.68180 3.61610 2.36544 3.20728 4.03805 2.15863 3.81764 2.84219 2.20981 2.66351 2.89679 3.25768 5.40367 4.09532 9 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 7 3.26480 4.69874 4.34466 3.98561 3.17438 4.10458 4.61100 2.38444 3.75239 0.76462 3.16829 4.25'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 336 2.81289 4.92501 2.93298 2.52773 4.00807 3.43680 2.19599 3.65669 1.80204 3.19252 4.07209 2.99748 3.88236 2.78511 2.42662 2.82809 3.03665 3.34751 5.21879 3.86920 389 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 337 2.93877 4.39327 4.29256 3.80517 3.28924 4.05647 4.54488 1.94023 3.63792 1.55984 3.18347 4.07598 4.43843 3.95417 3.86535 3.43608 3.21809 1.40307 5.18392 3.94295 390 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 338 2.16899 4.25187 4.02302 3.51773 3.49661 3.76677 4.35524 1.69965 3.42179 2.19800 3.36707 3.79620 4.21978 3.72894 3.69824 3.12026 3.00430 1.64368 5.21348 3.99820 391 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 339 2.93628 5.00991 3.32180 2.71509 4.41574 3.55954 3.56771 3.78187 1.59363 3.26907 4.15101 3.12245 3.95069 2.71470 1.55007 2.95048 3.12136 3.47536 5.34685 4.16106 392 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 340 2.95910 4.79977 3.44557 2.96645 4.14366 3.45425 3.79589 3.68305 2.22360 3.20673 4.20872 3.32906 3.95952 3.01893 1.04500 3.04572 3.22835 3.40900 5.24426 4.08091 393 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 341 2.95910 4.79977 3.44557 2.96645 4.14366 3.45425 3.79589 3.68305 2.22360 3.20673 4.20872 3.32906 3.95952 3.01893 1.04500 3.04572 3.22835 3.40900 5.24426 4.08091 394 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 342 2.46879 4.26590 3.38143 3.00468 3.64677 1.98476 3.99667 2.11597 2.95809 2.64382 3.65975 3.31854 3.85380 3.31576 3.26813 2.68378 2.83045 2.51507 5.14078 3.87272 395 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 3.83021 4.55256 0.61958 0.77255 0.60852 0.78560\n- 343 1.68762 4.10417 3.27007 3.00930 4.13307 2.88440 4.09936 3.46541 3.06379 3.22830 4.09686 3.19635 3.62328 3.37696 3.37066 1.54636 2.64783 2.98697 5.50381 4.26725 396 s - - -\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40497 3.72498 3.29357 2.67744 2.69358 4.24693 2.90350 2.73743 3.18150 2.89804 2.37872 2.77523 2.98522 4.58480 3.61506\n- 0.16729 1.87051 * 0.65845 0.72910 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_III-C_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-B_III-C_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,542 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_3\n-LENG 173\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:39 2020\n-NSEQ 13\n-EFFN 3.443604\n-CKSUM 3096226181\n-GA 19 19;\n-STATS LOCAL MSV -10.3680 0.70726\n-STATS LOCAL VITERBI -11.0640 0.70726\n-STATS LOCAL FORWARD -4.4153 0.70726\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71201 4.53180 3.06305 2.56631 3.17332 2.80023 3.86750 2.70988 2.51888 2.50128 3.81334 2.95144 3.52802 3.17483 2.77745 2.61384 2.83616 2.78184 4.17643 3.51509\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.00000 *\n- 1 2.90002 4.99629 3.37050 2.53600 4.20705 3.75620 3.96763 3.04079 2.41798 2.68839 4.07537 2.85032 3.04344 2.75871 3.24837 2.67316 2.62561 1.72836 5.51889 4.20762 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 2 2.03446 4.60168 3.84676 2.08687 2.90580 3.90768 4.16579 3.09050 2.79076 2.25819 2.07971 3.66799 4.28586 3.52165 3.56442 3.15683 3.14596 2.87116 5.18683 3.16631 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 3 2.89704 5.36541 3.15511 1.81161 4.69482 3.67424 3.86554 3.38548 2.60702 3.66457 4.41236 2.01592 3.04131 2.96801 2.65851 2.18958 2.52354 3.74805 5.80946 4.40923 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 4 3.48907 3.23111 5.46466 4.88294 1.88951 4.76539 5.10626 0.99509 4.70610 1.75723 3.54737 4.92152 5.04374 4.78853 4.71783 4.10569 3.72071 2.49220 5.45896 4.29088 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 5 2.93237 5.43303 2.75068 1.42570 4.77007 3.68077 3.88801 4.25313 2.09972 3.73478 4.47829 2.33044 4.08792 2.98937 3.13030 2.89344 2.52323 2.91925 5.86911 4.45783 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 6 2.06588 2.76502 5.01055 4.40480 2.43460 4.26272 4.60530 1.77378 4.20510 1.41474 3.46881 4.41583 4.61119 4.33453 4.22667 3.57901 3.30699 2.51873 5.08366 3.91490 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 7 2.95450 5.43318 3.17101 1.64480 4.77694 3.70914 3.89403 4.25022 1.54843 3.73065 4.47993 3.1803'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 166 2.61226 3.10240 4.54578 3.95644 1.59721 4.04937 4.38570 2.06717 3.81336 2.57785 3.50490 2.39628 4.42745 4.01042 3.94698 3.34890 2.43476 2.61483 5.00700 3.81942 247 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 167 2.98403 5.19474 3.28780 2.82605 4.55702 1.27719 4.06265 2.94611 2.52409 3.57199 4.38118 2.18769 4.19696 3.21266 3.30395 2.48770 3.24756 3.62488 5.79491 4.45568 248 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 168 2.92870 5.43824 2.62528 2.16071 4.78502 3.68416 3.87706 4.26947 1.68023 3.74121 4.48068 3.15082 4.08479 2.49189 2.64192 1.75571 3.15986 3.83026 5.86609 4.45742 249 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 169 2.95149 4.36715 4.66544 4.06629 1.92819 2.39346 4.41221 1.73711 2.92869 2.01159 2.89796 4.16922 4.45688 4.07817 3.99606 3.39414 3.18347 2.59492 4.98351 3.80163 250 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 170 2.89754 5.25849 2.82908 1.72260 4.54640 3.69455 3.88944 2.74244 1.99764 3.53872 4.31485 3.18863 4.08722 2.67313 3.13067 2.89093 3.12877 2.40849 5.72662 3.21093 251 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 171 2.97006 3.08733 4.76677 3.01559 3.47064 4.13156 4.46234 1.31482 3.99010 2.27604 2.69102 4.23531 3.18968 4.15563 4.06175 3.43736 3.20303 1.96932 5.00837 3.82758 252 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 172 2.52072 5.10069 3.30223 2.34596 4.34000 3.73402 3.93913 2.95135 1.81596 3.35931 4.17336 2.70669 4.12508 3.09015 3.19706 2.65491 3.13613 1.84045 5.60496 4.27138 253 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03639 5.75874 0.61958 0.77255 0.48576 0.95510\n- 173 2.92183 5.43586 2.17125 2.10455 4.77913 3.67491 3.87655 4.26623 2.28721 3.74017 4.47856 2.35500 4.07871 2.97521 2.73420 1.74264 2.78726 3.82584 5.86815 4.45417 254 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00654 5.03323 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr1gr7_III-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1055 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr1gr7_III-B_III-C_8\n-LENG 344\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:40 2020\n-NSEQ 17\n-EFFN 1.431885\n-CKSUM 3865857805\n-GA 83 83;\n-STATS LOCAL MSV -11.6529 0.70025\n-STATS LOCAL VITERBI -12.2182 0.70025\n-STATS LOCAL FORWARD -5.2594 0.70025\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76749 4.49579 2.97455 2.54569 3.03536 2.88929 3.82125 2.74213 2.44679 2.50115 3.77937 2.88933 3.55980 3.08673 2.95914 2.64614 2.90146 2.81228 4.20280 3.42135\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13932 4.40121 2.13885 0.61958 0.77255 0.00000 *\n- 1 2.72207 4.47120 3.54208 3.06038 3.66371 3.59671 3.96833 2.97805 2.56543 2.67594 1.46117 3.42630 4.05584 3.28028 3.09669 2.60865 2.99374 2.76043 5.11130 3.87311 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02072 4.28262 5.00496 0.61958 0.77255 0.47130 0.97867\n- 2 2.26380 4.80988 2.84748 2.54722 4.11585 2.38666 3.74757 3.53051 2.56727 3.14317 2.86543 2.79063 3.88873 2.90775 3.02618 2.19413 2.90498 3.19909 5.39356 4.06623 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01908 4.36430 5.08664 0.61958 0.77255 0.45305 1.00974\n- 3 2.82901 5.04676 3.23258 2.63127 4.34523 3.60770 3.71765 3.22085 1.34002 3.29679 3.51965 2.85468 3.98467 2.85405 2.32103 2.84412 3.04176 3.41225 5.47658 4.18214 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01839 4.40121 5.12356 0.61958 0.77255 0.48576 0.95510\n- 4 2.87062 5.09441 3.16010 2.66257 4.50796 3.57513 3.78625 3.91505 1.13235 3.45531 4.27469 2.82946 4.01321 2.92429 2.68239 2.63574 3.11275 3.14603 5.60120 4.30420 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01839 4.40121 5.12356 0.61958 0.77255 0.48576 0.95510\n- 5 3.05111 5.50689 2.65415 1.04740 4.84481 3.52316 3.84507 4.30783 2.16632 3.77930 4.59992 2.99002 4.04002 2.72030 2.95481 2.97711 3.29378 3.90684 5.89835 4.51116 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01839 4.40121 5.12356 0.61958 0.77255 0.48576 0.95510\n- 6 3.37509 4.62010 5.29795 4.77897 3.67676 4.84157 5.36615 1.55881 4.67690 1.57837 3.45397 4.95200 5.06530 4.85109 4.80298 4.22854 3.62165 1.01469 5.70787 4.55863 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01839 4.40121 5.12356 0.61958 0.77255 0.48576 0.95510\n- 7 2.56262 4.96429 3.01298 2.26076 4.24389 3.49102 3.70798 3.66614 2.11311 3.24660 4.04823 2.803'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04999 4.40121 3.31047 0.61958 0.77255 0.48576 0.95510\n- 337 2.50179 5.10662 2.67056 2.02174 4.41170 2.42858 3.66238 3.87242 2.32035 2.82358 4.16195 2.93056 3.85648 2.60727 2.91420 2.47678 2.92385 3.47633 5.56392 4.17370 404 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37019 5.09254 0.61958 0.77255 0.53200 0.88534\n- 338 2.75633 5.26589 2.57750 1.91484 4.59876 3.12845 3.68691 4.08410 1.71962 3.56319 4.31783 2.69239 3.87637 2.54374 2.94679 2.54272 2.99380 3.65156 5.69744 4.27920 405 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37019 5.09254 0.61958 0.77255 0.53200 0.88534\n- 339 2.69790 5.16658 2.49673 2.36615 4.50190 3.16296 3.66140 3.97783 1.95679 3.47414 4.22761 2.48561 3.41190 2.76861 2.91271 2.11101 2.73856 3.55575 5.62064 4.21549 406 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10605 4.37019 2.43070 0.61958 0.77255 0.53200 0.88534\n- 340 2.47285 5.18766 2.49385 1.84898 4.51814 3.09429 3.64065 3.99899 2.27044 3.48562 4.23779 2.53179 3.83448 2.74740 2.46049 2.65313 2.93007 3.57155 5.62500 4.21330 407 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05789 4.28482 3.15902 0.61958 0.77255 0.64298 0.74597\n- 341 2.50661 4.88743 2.96030 2.21773 4.14269 2.23978 3.66553 3.56588 2.29849 3.15593 3.96352 2.75756 3.85043 2.80997 2.91674 2.67055 2.88329 2.96832 5.38561 3.44650 408 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14623 4.24838 2.10578 0.61958 0.77255 0.68428 0.70210\n- 342 2.43613 5.01102 2.45968 2.16685 4.31177 3.00915 3.59678 3.76678 2.21836 3.29846 4.06991 2.87389 3.79105 2.71340 2.67187 2.45144 2.85127 2.98743 5.47469 4.09145 409 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.12643 4.84878 0.61958 0.77255 0.80223 0.59480\n- 343 2.82661 5.18918 3.05130 2.33226 4.57671 3.52249 3.61049 3.99382 1.67938 3.45085 4.24580 2.66320 3.91122 2.26772 2.07994 2.79455 3.03145 3.60870 5.54149 4.24057 410 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07481 4.12643 2.88355 0.61958 0.77255 0.80223 0.59480\n- 344 2.71313 5.04405 2.78633 2.37402 4.35644 3.39690 3.15541 3.81109 2.00336 3.34256 4.14356 2.09505 3.83947 2.77125 2.75629 2.29954 2.95055 3.43856 5.50295 4.14460 411 k - - -\n- 2.68594 4.42232 2.77526 2.73130 3.46361 2.40509 3.72501 3.29334 2.67747 2.69362 4.24696 2.90340 2.73746 3.18153 2.89807 2.37893 2.77526 2.98484 4.58484 3.61510\n- 0.57519 0.82691 * 0.14732 1.98787 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1142 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_1\n-LENG 373\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:40 2020\n-NSEQ 4\n-EFFN 0.535156\n-CKSUM 3988793761\n-GA 38 38;\n-STATS LOCAL MSV -11.3001 0.69970\n-STATS LOCAL VITERBI -12.1800 0.69970\n-STATS LOCAL FORWARD -6.0210 0.69970\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55074 3.86293 3.09447 2.74680 3.39598 2.63251 3.80604 2.77119 2.75132 2.32866 3.70356 3.22338 3.28396 3.27018 2.95178 2.64308 2.89714 2.57548 4.46163 3.38509\n- 2.68606 4.42050 2.77523 2.73146 3.46376 2.40535 3.72468 3.29312 2.67763 2.69342 4.24629 2.90347 2.73725 3.18169 2.89823 2.37871 2.77523 2.98541 4.58383 3.61525\n- 0.20979 2.23666 2.49579 2.22842 0.11395 0.00000 *\n- 1 2.67727 4.49433 3.18206 2.36574 3.55526 3.50289 3.82324 2.76945 2.66510 2.41774 2.17581 3.20927 3.94228 3.08631 2.99600 2.84760 2.93124 2.60564 5.06677 3.80278 20 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03304 3.82244 4.54479 0.61958 0.77255 0.55153 0.85818\n- 2 2.82227 4.95527 2.94488 2.14732 4.30156 3.42951 3.60589 3.70068 2.09442 3.23907 4.11488 2.99690 3.87672 2.76358 1.64730 2.83239 3.04495 3.38429 5.37121 4.11831 21 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03304 3.82244 4.54479 0.61958 0.77255 0.44673 1.02087\n- 3 3.05489 4.46484 4.45535 3.89698 3.12729 4.23642 4.56640 2.08422 3.75780 1.30820 2.20464 4.18892 4.50551 3.97397 3.95587 3.56357 3.28989 1.84835 5.08786 3.96308 22 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 4 2.34432 4.18359 3.49733 3.11802 3.78598 3.13893 4.08593 2.89184 3.06612 2.81417 3.78525 3.34451 3.79373 3.40325 3.36627 1.68294 2.75862 1.90685 5.26593 4.00236 23 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 5 3.18347 4.63812 4.23019 3.86996 3.14506 4.01441 4.51774 2.35027 3.63747 0.84465 3.15974 4.14300 4.44529 3.99974 3.80947 3.58793 3.47649 2.39421 5.03373 3.76296 24 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 6 2.67182 4.51687 3.16529 2.79909 3.50361 3.44327 3.83095 2.92776 2.71400 1.80676 3.67088 2.27061 3.93862 3.13750 3.03859 2.82719 2.95996 2.72417 5.00765 3.63389 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 7 2.99192 4.41968 4.40083 3.90592 3.30444 4.14239 4.62118 1.94110 3.74323 1.49085 3.18205 4.1683'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72491 4.44726 0.61958 0.77255 0.62438 0.76699\n- 366 2.83566 4.89779 2.44646 1.25770 4.22741 3.18589 3.76900 3.65185 2.63141 3.29637 4.28409 2.86878 3.78557 2.99254 3.01917 2.83807 3.14127 3.35378 5.42793 4.15767 428 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72491 4.44726 0.61958 0.77255 0.40792 1.09372\n- 367 2.64870 4.83656 2.53424 1.82050 4.29736 3.20733 3.74033 3.72999 2.59381 3.34487 4.19904 2.85309 3.78492 2.92149 3.03107 1.80159 2.96376 3.35304 5.54794 4.18581 429 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 368 3.18347 4.63812 4.23019 3.86996 3.14506 4.01441 4.51774 2.35027 3.63747 0.84465 3.15974 4.14300 4.44529 3.99974 3.80947 3.58793 3.47649 2.39421 5.03373 3.76296 430 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 369 2.98899 5.07738 3.39086 2.75304 4.50576 3.60743 3.58291 3.86248 1.51508 3.32863 4.20610 3.15612 3.98715 2.72423 1.50766 2.99470 3.16440 3.55154 5.38883 4.21363 431 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 370 2.31324 1.83608 3.74425 3.35426 3.82499 3.07381 4.19216 3.10144 3.24076 2.89985 3.84493 3.46097 2.10994 3.56634 3.48352 2.54112 2.75624 2.76522 5.25102 4.06293 432 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 371 2.60292 4.58932 3.01205 2.63606 3.74588 3.32034 2.17291 3.35916 2.52411 2.99658 3.89905 3.07147 3.83940 2.98160 2.86242 2.69954 2.14842 3.05488 5.12540 3.74837 433 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 372 2.67822 4.94882 1.61285 2.23588 4.44152 3.14958 3.76512 3.93357 2.73378 3.52602 4.37431 2.77326 3.76832 2.94660 3.25417 1.96123 3.01223 3.51284 5.69609 4.27519 434 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03060 3.89779 4.62014 0.61958 0.77255 0.48576 0.95510\n- 373 2.83268 5.14441 2.57865 1.66448 4.47950 3.34848 3.64026 3.89552 1.80747 3.42484 4.27348 2.85234 3.84874 2.78989 2.64341 2.79237 3.07223 3.53974 5.56546 4.23143 435 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02070 3.88789 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,995 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_2\n-LENG 324\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:40 2020\n-NSEQ 5\n-EFFN 0.629883\n-CKSUM 2479867958\n-GA 75 75;\n-STATS LOCAL MSV -11.2320 0.70066\n-STATS LOCAL VITERBI -12.0528 0.70066\n-STATS LOCAL FORWARD -4.9406 0.70066\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73476 4.52291 2.84251 2.63803 3.09210 2.89904 3.86815 2.71855 2.46465 2.39972 3.69096 2.92598 3.59063 3.06059 3.05145 2.69035 2.90120 2.73888 4.81216 3.33988\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.00000 *\n- 1 3.04324 4.57789 4.14899 3.75002 3.25038 3.90312 4.46387 2.43528 3.51286 1.83178 1.21188 4.01595 4.36480 3.88902 3.70724 3.40168 3.35065 2.45193 5.10312 3.87267 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 2 2.77048 4.74658 3.33795 2.71929 3.98831 3.56343 3.65303 2.55591 1.96089 2.93996 3.83592 3.15270 3.94027 2.83482 1.83045 2.85401 2.97869 3.04393 5.20888 3.97235 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 3 2.84147 4.69956 3.27237 2.82321 3.17323 3.59198 3.66214 3.26814 2.02045 2.86755 3.82937 3.23332 4.01383 3.05048 2.79331 2.94270 3.07455 3.03477 4.67406 1.78077 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 4 2.77814 4.38959 3.76501 3.20553 3.35666 3.78524 4.03204 2.14226 2.52556 1.56780 3.27839 3.57106 4.14577 3.37358 3.22089 3.08040 3.01116 2.30679 4.98654 3.76704 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 5 3.07015 4.40270 4.72537 4.23179 3.51926 4.38363 4.95332 1.23282 4.11284 2.02077 3.33219 4.45901 4.70734 4.38240 4.31598 3.77133 3.33906 1.31035 5.48351 4.27860 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 6 2.46393 4.30898 3.51156 3.26857 4.05186 3.14502 4.27864 3.19028 3.21336 3.05049 4.09558 3.46270 3.85626 3.60371 3.46723 2.66629 1.02479 2.87535 5.48156 4.26868 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 7 3.25943 4.69469 4.33722 3.97804 3.17235 4.09873 4.60488 2.38205 3.74487 0.76957 3.16753 4.24455'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 317 2.74593 4.30842 4.01780 3.54791 3.52871 3.76501 4.37412 1.47066 3.41814 2.24969 3.42366 3.81502 4.24026 3.75565 3.67670 3.13916 2.15331 1.95257 5.23440 4.01147 339 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 318 2.96008 4.45419 4.04237 3.56238 2.60654 3.93076 3.83890 2.02983 3.39818 2.22900 3.40645 3.76937 4.29971 3.67325 3.61262 3.26326 3.20410 2.46608 4.27404 1.59263 340 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 3.96463 4.68698 0.61958 0.77255 0.48576 0.95510\n- 319 2.62946 4.64108 3.07993 2.67130 4.10438 3.34160 3.77298 3.39965 1.97569 3.09219 3.98308 3.10068 3.86161 2.96526 2.74046 2.72295 1.72967 3.08591 5.36287 4.09678 341 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11679 3.96463 2.39411 0.61958 0.77255 0.48576 0.95510\n- 320 2.68274 4.89918 2.62715 1.82779 4.00120 3.32887 3.62610 3.56930 2.45520 3.16107 4.00675 2.47997 3.80404 2.80858 2.89616 2.68710 2.92885 3.24588 5.30261 3.02053 342 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18202 3.87903 1.92589 0.61958 0.77255 0.43938 1.03405\n- 321 2.79723 4.55831 3.38535 2.94847 3.35397 3.61783 3.87764 2.74471 2.67332 1.56701 3.39607 3.35446 4.04307 2.53970 2.94929 2.98544 3.04883 2.66207 4.96830 3.65431 343 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03273 3.83159 4.55393 0.61958 0.77255 0.60331 0.79186\n- 322 2.61597 4.39465 3.28129 3.17591 4.31746 0.79508 4.29804 3.90774 3.35154 3.56687 4.54283 3.44577 3.78447 3.67905 3.59144 2.78683 3.09405 3.44401 5.42275 4.41822 344 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03273 3.83159 4.55393 0.61958 0.77255 0.60331 0.79186\n- 323 2.91848 5.01922 2.47258 1.08500 4.36054 3.24866 3.83286 3.80634 2.70833 3.43039 4.40698 2.91184 3.85153 3.04987 3.11235 2.90552 3.22266 3.49470 5.53988 4.26295 345 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03273 3.83159 4.55393 0.61958 0.77255 0.60331 0.79186\n- 324 2.78439 4.96215 2.77682 2.44963 4.32925 3.35659 3.62475 3.77506 1.54292 3.32135 4.18325 2.40770 3.84821 2.78627 2.47325 2.78639 3.03385 3.42926 5.42915 4.13077 346 k - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67707 2.69357 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.24173 1.53836 * 0.28736 1.38725 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1229 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_3\n-LENG 402\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:40 2020\n-NSEQ 6\n-EFFN 0.541992\n-CKSUM 706915113\n-GA 68 68;\n-STATS LOCAL MSV -11.3920 0.69920\n-STATS LOCAL VITERBI -12.2839 0.69920\n-STATS LOCAL FORWARD -5.6481 0.69920\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71301 4.49704 2.87901 2.58131 3.16637 2.84894 3.79167 2.66946 2.54440 2.48274 3.66466 2.94729 3.56855 3.17834 3.01718 2.64615 2.94808 2.62941 4.98899 3.28262\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24542 2.90349 2.73742 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.20578 1.73624 4.62511 0.30733 1.32956 0.00000 *\n- 1 2.50093 4.27915 3.47492 3.02311 3.52111 3.35322 3.94858 2.80058 2.90759 2.50114 2.11872 3.34235 3.89085 3.27829 3.21016 2.07481 2.83201 2.58634 5.03790 3.76961 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 2 1.40375 4.11751 3.36492 3.09203 4.17469 2.90953 4.15927 3.50504 3.13792 3.26821 4.13031 3.25364 3.65357 3.44169 3.44006 1.70877 2.67055 3.01809 5.54630 4.32076 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 3 3.05464 4.46472 4.37900 3.99580 3.39443 4.09944 4.71817 1.04118 3.82453 1.97408 3.32488 4.23687 4.52758 4.16959 4.01761 3.59752 3.35320 1.84656 5.29165 4.03268 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 4 3.29058 4.76730 3.88280 3.61770 2.29380 3.86530 3.63231 3.29553 3.47434 2.74170 3.96738 3.76056 4.33835 3.77312 3.65192 3.42433 3.57736 3.16749 3.93879 0.91687 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 5 2.99948 4.96486 3.17751 2.79307 4.35821 3.48589 3.77553 3.78932 0.99760 3.34770 4.30735 3.21627 3.98395 2.96516 2.43681 3.03937 3.25040 3.49534 5.40028 4.21733 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 6 3.01311 4.37200 4.60331 4.10871 3.48828 4.28670 4.84920 1.42892 3.98771 2.01118 3.31313 4.34817 4.62911 4.26940 4.20404 3.66931 3.28527 1.21215 5.42578 4.21280 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 7 3.18905 4.64223 4.23817 3.87797 3.14697 4.02072 4.52419 2.35246 3.64542 0.83879 3.16011 4.15052'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 395 3.02766 4.84006 3.15493 2.91775 3.30565 3.47284 1.08018 3.73528 2.75996 3.22552 4.27068 3.32592 4.02694 3.28432 3.02395 3.09802 3.33198 3.46981 4.77034 3.25562 401 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 396 2.89382 4.39635 3.99262 3.50115 2.68462 3.88493 3.86939 1.91445 3.34218 2.16206 3.33727 3.73280 4.25320 3.62631 3.56534 3.21257 3.13754 2.37176 4.35270 1.84674 402 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 397 3.29058 4.76730 3.88280 3.61770 2.29380 3.86530 3.63231 3.29553 3.47434 2.74170 3.96738 3.76056 4.33835 3.77312 3.65192 3.42433 3.57736 3.16749 3.93879 0.91687 403 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 398 3.02549 4.45454 4.41791 3.91862 3.24099 4.16622 4.61747 1.99534 3.75043 1.28852 3.11179 4.18544 4.51293 4.03352 3.95845 3.54143 3.29400 1.55943 5.18193 3.97458 404 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 399 2.70234 4.47501 3.38234 3.28546 4.42767 0.68386 4.40409 4.03446 3.47088 3.68484 4.66067 3.54657 3.86713 3.79261 3.70380 2.87508 3.18592 3.55692 5.51503 4.53051 405 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 400 2.70234 4.47501 3.38234 3.28546 4.42767 0.68386 4.40409 4.03446 3.47088 3.68484 4.66067 3.54657 3.86713 3.79261 3.70380 2.87508 3.18592 3.55692 5.51503 4.53051 406 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 401 2.97799 5.09574 2.49988 0.98308 4.44570 3.29334 3.88249 3.90559 2.76680 3.51775 4.49023 2.94961 3.89929 3.09738 3.17895 2.95718 3.28239 3.58623 5.61155 4.33356 407 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90277 4.62511 0.61958 0.77255 0.48576 0.95510\n- 402 2.74429 4.49470 3.45461 2.94610 3.62679 3.62188 3.87921 1.84989 2.04553 2.50345 3.56052 3.34883 4.03431 3.14211 2.87691 2.95520 2.98864 2.43342 5.11213 3.85878 408 i - - -\n- 2.68624 4.42231 2.77526 2.73130 3.46360 2.40507 3.72501 3.29360 2.67700 2.69361 4.24696 2.90333 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58378 3.61509\n- 0.19592 1.72639 * 0.92476 0.50522 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1004 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_4\n-LENG 327\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:41 2020\n-NSEQ 12\n-EFFN 4.280273\n-CKSUM 1979664173\n-GA 21 21;\n-STATS LOCAL MSV -10.7515 0.70061\n-STATS LOCAL VITERBI -11.8725 0.70061\n-STATS LOCAL FORWARD -5.4332 0.70061\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65880 4.51272 2.97398 2.56072 3.14205 2.69515 3.82617 2.85819 2.55883 2.48685 3.78031 3.10105 3.17643 3.18534 2.90158 2.66646 2.89263 2.69184 4.61926 3.44846\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.00000 *\n- 1 3.37743 4.76162 5.14104 4.55820 1.44418 1.95842 4.79189 2.96318 4.38263 1.85064 1.78913 4.62809 4.85980 4.50677 4.44070 3.84628 3.61052 2.90944 5.22645 3.98181 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 2 4.23615 5.46023 6.10379 5.58717 0.71204 5.52396 5.48907 2.94697 5.43032 1.55059 3.65428 5.61468 5.65093 5.32604 5.37588 4.91134 4.45340 2.06190 5.57019 4.20070 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 3 4.11177 5.96143 4.85670 4.42672 6.01557 1.40403 5.17699 5.55505 3.49200 4.96601 5.87754 4.67478 5.17797 4.38204 0.51151 4.22210 4.48358 5.05823 6.76757 5.80220 3 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 4 3.02241 5.54017 2.36912 1.91997 4.88343 2.85145 3.97360 4.37173 2.72030 3.84445 4.58388 3.22990 4.17357 2.05857 2.29678 1.84159 3.25592 3.93035 5.97189 4.55577 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 5 2.98313 5.38345 3.27521 2.72264 4.69652 2.17081 3.96795 4.15367 2.21919 2.83413 4.44446 3.26126 2.28549 2.63190 3.19749 1.91851 2.70521 3.75928 5.84900 4.46649 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 6 3.15021 5.61057 3.37505 2.07516 4.98610 2.52399 4.02949 4.44458 1.85242 3.90138 4.66053 3.35547 4.27820 3.13241 1.39266 2.45896 3.37098 4.02130 6.00382 4.64075 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 7 3.04952 5.51675 3.20754 2.10140 4.86261 2.78826 4.01130 4.33843 2.76031 3.83131 4.58455 2.603'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 320 3.78353 5.09171 5.41341 4.95022 1.46489 4.80910 4.38552 3.57206 4.75071 3.19565 4.22688 4.75013 5.14457 4.76308 4.73385 2.52591 4.00982 2.07395 2.76485 1.21413 488 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 321 3.63470 5.64224 3.78967 3.82452 5.92729 0.64423 5.36527 5.62599 4.50748 5.18128 6.03882 1.21980 4.88398 4.64263 4.91036 3.74210 4.14717 4.88362 7.09500 5.87285 489 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 322 2.42583 4.90440 3.65220 3.09073 4.08507 3.90814 2.79187 3.46280 3.04861 1.58735 4.00821 3.55341 4.29885 3.38810 2.80984 2.22913 2.04296 3.20632 5.46880 4.20068 490 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 323 1.34215 2.59644 4.78634 4.18727 3.54222 2.91464 4.50439 1.92526 4.01612 2.28423 3.56306 4.26738 4.53988 4.18701 4.09855 3.47295 3.26263 2.67577 5.06708 2.96812 491 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 324 3.38176 4.72576 5.34842 4.73892 2.73828 4.58413 4.90259 1.56142 4.53524 1.39062 2.74065 4.74697 4.89405 4.61560 4.52862 3.90604 3.60883 2.34458 5.30247 1.94924 492 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 325 2.16136 4.48937 4.48058 3.89315 2.85331 3.21293 4.41949 1.62397 3.77175 2.68444 2.84301 3.08220 4.48610 3.99170 2.40632 3.40263 3.24576 2.74284 2.76604 3.90864 493 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 326 3.31539 4.66633 5.21702 4.62527 3.72578 1.56971 4.90073 1.82751 4.44666 1.67604 2.80609 4.67428 4.87248 4.58955 4.49413 3.86092 3.55033 1.76125 5.37893 4.21338 494 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21499 5.93734 0.61958 0.77255 0.48576 0.95510\n- 327 2.97568 3.47697 2.62622 1.89569 3.29529 3.78468 3.98193 3.22862 2.03644 3.55677 4.34523 3.28995 4.17595 3.11015 3.23140 2.21652 2.40115 2.92229 5.76433 4.40367 495 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.21235 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1097 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_5\n-LENG 358\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:41 2020\n-NSEQ 23\n-EFFN 4.680298\n-CKSUM 201837286\n-GA 28 28;\n-STATS LOCAL MSV -11.0793 0.69996\n-STATS LOCAL VITERBI -12.0815 0.69996\n-STATS LOCAL FORWARD -5.3079 0.69996\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46122 4.57032 2.99251 2.59758 3.31263 2.69006 3.75468 3.07453 2.68889 2.42766 3.94711 3.13184 2.91796 3.05756 2.81224 2.71090 2.82087 2.84761 4.24795 3.60410\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.00000 *\n- 1 4.51669 5.68192 6.50623 5.94203 2.20628 5.97008 6.18223 0.99637 5.82123 0.94129 3.58256 6.13833 5.91754 5.59311 5.71540 5.39079 4.71429 3.15501 6.07344 5.05609 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 2 2.59929 5.51497 2.90600 1.48652 4.85601 3.78455 3.97448 4.33939 2.26821 3.18036 4.55707 3.25333 4.17975 2.44846 3.20400 2.66313 1.97505 3.90352 5.94986 4.54084 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 3 2.05763 5.26693 5.02535 5.01622 5.91135 4.02670 5.93498 5.40039 5.15497 5.10228 5.94020 4.77399 0.31037 5.34454 5.25455 3.57839 3.94824 4.60567 7.17510 6.16017 3 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 4 3.04843 4.62419 4.21395 3.63783 3.13119 4.09523 3.08706 2.11645 3.06009 1.60821 3.73456 3.95469 4.46925 2.83469 2.29934 3.36163 2.77915 2.65154 5.22406 3.17360 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 5 2.86531 6.58609 0.35524 2.99178 6.12000 4.07395 4.84499 5.73293 4.09205 5.19171 6.12128 2.84090 4.80458 4.04533 4.83497 3.84711 4.36158 5.18918 7.33242 5.70521 5 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 6 2.65616 5.00407 3.60175 3.04179 4.19702 3.19936 4.14538 3.05263 3.02293 3.24691 4.10081 2.95543 2.22259 3.35756 2.82543 2.57264 2.05281 1.91045 5.55645 4.27127 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 7 3.16916 4.54230 5.09043 4.48070 3.55311 4.34021 4.65738 2.59450 4.27569 0.97170 3.57262 4.4871'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 351 3.74545 5.66732 4.30453 4.36163 6.09097 0.19563 5.76148 5.85126 4.96241 5.42354 6.28274 3.17295 5.06273 5.10900 5.24518 3.90055 4.29536 5.03538 7.22271 6.13852 520 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 352 3.86643 5.19253 5.38027 4.91186 0.86865 3.25386 4.42878 3.68240 4.72376 2.66726 4.32829 4.77221 5.20648 4.77220 3.02803 4.19651 4.09168 3.51616 3.30327 1.58112 521 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 353 3.28090 5.29849 3.90787 3.87375 5.80689 0.63530 5.29678 5.35003 4.40414 4.95281 5.73444 1.90827 4.68976 4.54844 4.79012 1.97642 3.80949 4.55419 7.07682 5.81930 522 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 354 3.03105 3.01178 3.66249 1.88677 4.11372 3.93968 2.88558 2.78399 3.07152 1.86666 4.03500 3.56909 4.32399 2.65981 2.58235 3.16371 3.26240 2.70401 5.49669 4.22518 523 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 355 1.51646 3.57469 5.03721 4.42294 3.13203 4.25041 4.58433 2.18021 4.21001 1.73572 2.91894 4.41072 4.61244 4.34155 4.22053 3.56196 3.31154 2.27300 5.07743 2.47803 524 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 356 2.14247 4.54398 4.55743 3.18233 3.65136 4.18423 4.49068 2.35128 2.96895 1.28689 3.65930 4.17209 4.55258 4.06594 4.02095 3.47221 2.94256 1.89837 5.16544 3.97410 525 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 357 2.66548 3.31211 4.96981 3.46871 3.04138 4.22539 4.55606 1.81305 4.15555 1.93843 3.56411 4.36927 3.53284 4.29735 4.18357 3.53426 2.17309 2.33306 2.29539 3.88936 526 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00752 5.29028 6.01263 0.61958 0.77255 0.48576 0.95510\n- 358 2.11563 4.63717 4.95703 4.37972 3.78761 1.34412 4.77824 2.03521 4.22910 1.93600 3.76847 4.48336 4.75744 4.41691 4.33994 3.69316 3.47049 2.08169 5.35926 4.17542 527 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00507 5.28783 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1028 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_6\n-LENG 335\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:41 2020\n-NSEQ 4\n-EFFN 0.988281\n-CKSUM 3567355000\n-GA 100 100;\n-STATS LOCAL MSV -10.7365 0.70044\n-STATS LOCAL VITERBI -12.0729 0.70044\n-STATS LOCAL FORWARD -5.7231 0.70044\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69201 4.48973 2.92634 2.63539 3.03598 2.80965 3.81207 2.69103 2.54699 2.45177 3.66670 3.09459 3.44049 3.22231 2.95081 2.73708 2.95723 2.55568 4.76573 3.34725\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.00000 *\n- 1 2.71858 4.43231 3.59529 3.00684 3.41973 3.66173 3.83575 2.89501 2.10730 2.53800 2.45246 3.38859 4.03584 3.17661 3.00055 2.93333 2.94403 2.69529 2.53166 3.59563 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 2 2.16955 4.39897 4.38429 3.94517 3.66442 3.98760 4.71005 1.09165 3.83212 2.32322 3.53325 4.14365 4.46910 4.13578 4.05285 3.39017 3.22669 1.88991 5.44591 4.23182 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 3 2.96856 4.37169 4.47035 3.91061 3.00356 4.11092 4.26893 1.67539 3.75551 1.54038 3.16531 4.08585 4.42519 3.94864 3.90283 3.42366 3.19859 2.27622 4.73149 2.26093 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 4 2.89755 4.34402 4.28598 3.73466 2.98765 3.99691 4.14434 2.41477 3.58994 1.65008 3.24908 3.93728 4.33936 3.81613 3.77275 3.30416 3.13270 1.78478 4.66148 2.06681 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 5 3.28425 4.65270 4.73053 4.22284 1.35588 4.37875 4.36250 2.48052 4.07148 1.71359 2.02892 4.35505 4.65495 4.18358 4.17998 3.73135 3.51832 2.56745 4.64474 3.18913 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 6 3.00333 5.30633 2.87656 1.99645 4.69754 3.54195 3.73026 4.10138 1.19795 3.57930 4.42229 3.04150 4.00461 2.86768 2.54229 2.96101 3.22098 3.73908 5.66770 4.38025 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 7 3.21986 4.91262 3.86226 3.75422 4.70414 3.58314 4.79582 4.34302 3.84087 3.93013 5.00060 4.02'..b'.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24693 2.90349 2.73742 3.18149 2.89804 2.37857 2.77522 2.98521 4.58480 3.61506\n- 0.25300 1.53867 4.72563 0.25700 1.48443 0.38446 1.14198\n- 328 2.77570 4.76482 3.29197 2.94397 4.46529 1.16485 4.04093 3.94362 2.69175 3.52870 4.39535 3.32987 3.99474 3.24710 2.02871 2.87549 3.13691 3.53051 5.62139 4.41077 357 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 329 2.95488 2.25711 4.67128 4.11073 3.34018 4.17570 4.59282 1.61941 3.96067 1.59188 3.23458 4.26341 4.51040 4.15879 4.09279 3.51390 3.20374 1.94334 5.11074 3.93384 358 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 330 2.93901 2.38015 4.70754 4.20444 3.54973 4.09932 4.75559 1.14245 4.04637 2.25113 3.44928 4.31307 4.53325 4.29465 4.19694 3.49385 3.23522 1.83704 5.32354 4.11184 359 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 331 3.14028 4.53746 4.63772 4.16289 1.38049 4.22439 4.33773 2.34086 4.03294 1.98680 3.29626 4.26510 4.58455 4.18477 4.16272 3.59595 3.40565 1.67777 4.67044 3.17769 360 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 332 2.80841 4.68335 3.18545 2.05230 3.75756 3.59920 3.91826 3.01458 2.76049 2.62616 1.70904 3.26535 4.04460 3.16190 3.11495 2.94754 3.05981 2.84003 5.24096 3.97089 361 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 333 2.81671 4.88574 2.99031 2.73353 4.53010 1.24041 3.97001 3.97821 1.93866 3.56271 4.42397 3.18362 3.97893 3.15997 2.98402 2.87695 3.15647 3.57305 5.68023 4.42465 362 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 334 2.91550 4.39591 4.20185 3.71655 3.05957 3.95850 4.17373 2.36801 3.56911 2.31923 3.45069 3.92444 4.36056 3.84805 3.77416 3.30642 3.17886 1.19566 4.71861 2.36042 363 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02291 4.18347 4.90581 0.61958 0.77255 0.48576 0.95510\n- 335 2.75485 4.95017 3.02954 1.89045 4.16133 3.50540 3.67124 3.62826 1.88601 3.19772 4.02891 3.02914 3.90945 2.82615 2.70035 2.77381 2.97725 3.30653 2.82027 4.04085 364 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01548 4.17604 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-B_III-C_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1121 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_8\n-LENG 366\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:41 2020\n-NSEQ 20\n-EFFN 4.409180\n-CKSUM 165568421\n-GA 43.8 43.3;\n-STATS LOCAL MSV -11.1648 0.69982\n-STATS LOCAL VITERBI -12.1988 0.69982\n-STATS LOCAL FORWARD -5.3110 0.69982\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48650 4.55059 2.97568 2.60153 3.27521 2.68551 3.73771 3.09514 2.72741 2.42743 3.85747 3.24513 2.90490 3.07551 2.77994 2.70850 2.84552 2.76532 4.20868 3.62191\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23988 5.96222 0.61958 0.77255 0.00000 *\n- 1 3.09944 4.47199 5.03786 4.42960 1.67922 4.26430 4.55539 1.82139 4.21816 1.85002 3.15619 4.41355 4.62310 4.34341 3.21832 3.57635 3.33096 2.71304 2.66275 2.76653 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23988 5.96222 0.61958 0.77255 0.48576 0.95510\n- 2 2.35779 3.63346 3.57593 2.67069 4.15077 3.30367 4.11434 3.53577 2.09305 2.02064 4.05720 3.49729 4.27732 3.32951 2.57307 2.75931 2.83217 2.39246 5.51387 3.30569 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23988 5.96222 0.61958 0.77255 0.48576 0.95510\n- 3 4.14621 5.37170 6.16089 5.58370 2.84108 5.53774 5.88483 1.06695 5.44080 1.04159 2.94247 5.71434 5.63872 5.35922 5.39322 4.91775 4.36076 2.21720 5.97215 4.97515 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23988 5.96222 0.61958 0.77255 0.48576 0.95510\n- 4 2.99221 5.47761 3.24719 1.62217 4.81417 3.76723 3.95369 4.29221 2.47695 2.57321 4.52114 2.85306 4.16076 2.46655 2.67809 2.65453 1.95055 3.86381 5.91414 4.51119 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23988 5.96222 0.61958 0.77255 0.48576 0.95510\n- 5 2.26551 5.24653 4.93418 4.92473 5.85628 4.00090 5.87270 5.34351 5.07393 5.04477 5.89624 4.72536 0.28621 5.27791 5.18558 3.55817 3.92698 4.56973 7.11572 6.09479 5 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23988 5.96222 0.61958 0.77255 0.48576 0.95510\n- 6 3.04624 4.67034 4.09640 3.52242 3.10659 4.06434 3.22538 3.14703 3.43520 1.35229 3.77598 3.87225 4.43909 2.44950 2.32982 3.32407 3.27730 2.66302 5.21905 2.61251 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00791 5.23988 5.96222 0.61958 0.77255 0.48576 0.95510\n- 7 2.94251 6.55303 0.36632 2.94502 6.06800 4.03217 4.79565 5.67950 4.03737 5.13860 6.06699 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 359 3.21484 5.23942 3.77133 3.73741 5.70181 0.60929 5.17645 5.24432 4.27326 4.84476 5.63307 1.89909 4.60816 4.42400 4.66866 2.26606 3.73685 4.47090 6.97098 5.70060 573 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 360 2.99683 2.94363 4.03603 2.67274 3.75129 4.01541 2.31401 2.64111 3.39589 1.40814 3.73533 3.82169 4.39178 3.14972 3.70397 3.27330 2.54731 2.89283 5.22116 4.00329 574 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 361 1.20930 3.46801 4.89829 4.29305 3.53046 4.20442 4.53914 1.98788 4.10390 2.14031 3.54810 4.33150 4.56818 4.25731 4.15286 3.51292 2.80970 2.28506 5.06540 3.14701 575 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 362 2.52533 4.41921 4.92193 3.30115 3.01131 4.19983 4.53024 2.25114 4.11604 1.23566 3.52384 4.33619 4.56164 4.26090 4.15204 3.50862 3.26720 1.85022 5.04361 2.78061 576 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 363 2.18352 4.42533 4.72320 4.12341 3.52149 4.14742 4.46707 1.84435 3.95886 1.91817 3.04140 4.22417 3.41752 4.13640 3.23677 3.44722 2.45136 2.67376 2.19958 3.86047 577 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 364 3.34780 4.72723 5.10411 4.51839 3.70795 1.08764 4.89429 2.14752 4.36075 1.69321 2.95565 4.63228 4.87132 4.51908 4.45164 3.85729 3.58343 2.33536 5.40114 4.24609 578 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 365 2.42648 5.27255 3.30698 2.27693 4.54219 3.14821 3.97291 2.93770 2.32956 3.19582 4.33395 2.88295 3.36631 3.10148 2.88466 2.45109 2.68114 2.04824 5.75327 4.39309 579 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19493 5.91728 0.61958 0.77255 0.63204 0.75823\n- 366 3.03291 4.81345 3.79827 2.57572 3.88389 3.97644 4.19771 3.32800 3.17438 2.22338 3.91204 3.66827 2.88469 2.95268 3.53816 3.22087 3.26350 3.09569 1.34693 3.24930 580 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00558 5.19224 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr3gr5_III-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,878 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr3gr5_III-B_III-C_7\n-LENG 285\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:41 2020\n-NSEQ 33\n-EFFN 2.195435\n-CKSUM 3313679822\n-GA 48 48;\n-STATS LOCAL MSV -11.0761 0.70171\n-STATS LOCAL VITERBI -11.8253 0.70171\n-STATS LOCAL FORWARD -5.3381 0.70171\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62054 4.45398 3.10134 2.56555 3.17488 2.68583 3.68345 2.84621 2.62593 2.50243 3.74052 3.08071 3.43713 3.05523 2.97748 2.67855 2.79900 2.77082 4.12765 3.26509\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10403 4.69149 2.41211 0.61958 0.77255 0.00000 *\n- 1 2.75771 4.40359 3.74797 2.96112 3.54582 3.75086 4.04736 2.56948 3.12097 2.61261 1.39045 3.29118 4.14536 3.43286 3.42449 2.83162 2.81723 2.65230 5.01454 3.79552 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01501 4.60247 5.32482 0.61958 0.77255 0.45444 1.00732\n- 2 2.46713 5.12828 3.05873 2.40175 4.42508 3.08968 3.74480 3.87585 1.99108 3.41464 3.27998 2.87417 3.59219 2.86142 2.98422 2.06585 2.34830 3.49372 5.59665 4.21994 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01403 4.66960 5.39195 0.61958 0.77255 0.52963 0.88873\n- 3 4.40097 5.54920 5.34828 5.15362 2.29054 4.92723 4.11223 4.01498 4.89614 3.21359 4.57840 4.78215 5.29970 4.86920 4.85061 4.49176 4.65496 4.00574 0.47396 2.49931 3 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24892 4.66960 1.55599 0.61958 0.77255 0.52963 0.88873\n- 4 2.71413 5.15259 2.98875 2.25355 4.48241 3.48860 3.66201 3.52097 1.90674 3.44295 4.20085 2.80314 3.87961 2.34354 2.37935 2.58136 2.44637 3.53578 5.58674 4.20494 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43839 5.16074 0.61958 0.77255 0.86636 0.54556\n- 5 2.18559 3.69481 3.89712 3.31914 3.33715 3.73098 3.52879 2.55608 2.68522 1.88693 2.74597 3.61563 4.10409 3.48950 3.48693 3.00172 2.73022 2.28520 4.82793 3.62358 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43839 5.16074 0.61958 0.77255 0.34761 1.22545\n- 6 3.91134 5.15176 5.13511 4.77741 1.83645 4.76044 3.34126 3.13663 4.60075 2.55718 4.26302 4.49777 5.06467 4.54967 4.59932 4.10542 4.12782 3.54037 4.06259 0.70402 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01403 4.66960 5.39195 0.61958 0.77255 0.52963 0.88873\n- 7 2.88358 5.32811 3.15757 2.27177 4.69740 3.63304 3.42760 4.15021 1.65471 3.31322 4.37424 2.7731'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49434 5.21669 0.61958 0.77255 0.42649 1.05785\n- 278 2.74543 5.19392 2.44279 2.14644 2.89464 3.52788 3.41328 3.98220 1.97784 3.24637 4.24142 2.72938 3.92133 2.70979 2.95213 2.59144 2.85197 3.57090 5.64188 3.49646 313 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01436 4.64651 5.36885 0.61958 0.77255 0.57296 0.82978\n- 279 3.87959 5.51300 4.69620 4.71052 5.71843 0.14536 5.70943 5.57312 4.98559 5.09099 6.11720 4.86411 4.91431 5.25032 5.07464 4.08167 4.41234 4.95505 6.54687 5.86683 314 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01436 4.64651 5.36885 0.61958 0.77255 0.57296 0.82978\n- 280 2.74801 4.26649 4.07105 3.48874 3.37432 3.82548 3.62960 1.72034 2.51552 2.15433 3.37934 3.74984 4.19687 3.62982 3.29736 3.10277 2.68919 2.25157 4.04789 3.11809 315 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01436 4.64651 5.36885 0.61958 0.77255 0.57296 0.82978\n- 281 2.93051 3.71056 4.77837 4.18054 2.47327 4.09673 4.36431 2.32569 3.99185 1.77090 3.26354 4.21318 4.43746 4.11699 4.02946 3.40944 3.16060 2.33523 1.61328 3.57524 316 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01436 4.64651 5.36885 0.61958 0.77255 0.57296 0.82978\n- 282 2.74449 5.07752 3.07167 1.97085 4.35602 2.79016 3.48900 3.25642 2.26731 3.13646 3.71749 2.90783 3.94012 2.72982 2.57638 2.74464 2.81233 2.86553 5.55213 3.55110 317 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01436 4.64651 5.36885 0.61958 0.77255 0.57296 0.82978\n- 283 2.74437 4.97622 2.95551 2.56864 3.17256 3.16025 3.77077 3.03049 1.98563 3.08506 4.04429 2.75716 3.41595 2.91409 2.50609 2.63958 2.82802 2.79721 5.47257 4.13019 318 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06291 4.64651 2.96858 0.61958 0.77255 0.57296 0.82978\n- 284 2.42658 4.31961 2.89326 2.42466 4.33729 3.27053 3.72837 3.47703 2.16308 2.95140 4.11850 2.63001 3.92405 2.61419 2.81925 2.27316 2.95922 3.01068 5.53464 3.43611 319 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14943 4.59866 2.04998 0.61958 0.77255 0.65434 0.73353\n- 285 2.24426 3.66153 3.12479 2.37933 3.62284 3.29464 3.73880 3.02745 2.35190 2.93765 3.90182 2.75536 3.91959 2.75236 2.85040 2.27746 2.91676 3.14884 5.34053 4.01922 320 a - - -\n- 2.68618 4.42243 2.77526 2.73130 3.46372 2.40485 3.72484 3.29351 2.67692 2.69354 4.24708 2.90327 2.73736 3.18164 2.89819 2.37898 2.77537 2.98536 4.58495 3.61521\n- 0.57927 0.82168 * 0.56863 0.83541 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr4gr7_III-B_III-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr4gr7_III-B_III-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,857 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr4gr7_III-B_III-C_1\n-LENG 278\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 11\n-EFFN 1.898682\n-CKSUM 296395563\n-GA 59 59;\n-STATS LOCAL MSV -11.0623 0.70193\n-STATS LOCAL VITERBI -11.9279 0.70193\n-STATS LOCAL FORWARD -5.0375 0.70193\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60590 4.42967 2.98066 2.55478 3.36370 2.70936 3.82475 2.80116 2.65383 2.44327 3.75082 3.11294 3.30853 3.14862 2.91012 2.67634 2.80329 2.55487 4.77110 3.60266\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.00000 *\n- 1 2.21395 4.59623 3.46847 2.90182 3.73247 3.68209 3.90206 3.12446 2.80499 2.04075 3.69061 3.34555 4.06451 2.41520 2.78088 2.92086 2.98845 2.88353 5.13832 2.34247 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 2 2.42093 4.30276 4.26737 3.68977 2.69550 3.91933 4.24726 2.61591 3.57446 1.44175 3.32757 3.90737 2.39754 3.79419 3.76257 3.21417 3.06017 2.22225 4.92085 3.73162 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 3 3.07442 4.43532 4.81312 4.25330 2.16082 4.21457 4.26773 2.64328 4.07690 1.81541 3.38746 4.26467 4.54586 4.18629 4.12547 3.53202 3.30388 1.49579 4.62396 2.00234 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 4 2.75116 4.17602 4.41808 3.82295 2.00880 3.22952 4.18799 2.59672 3.66680 1.68610 2.72670 3.94225 4.24855 3.84936 3.77664 3.18266 2.59872 2.41699 4.76615 2.88629 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 5 2.17732 4.53342 4.97252 4.40932 3.55096 4.46464 4.87366 1.69516 4.27579 1.20160 3.41324 4.55440 4.76968 4.44540 4.38989 3.80140 3.43549 1.82975 5.35315 4.20126 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 6 3.43591 4.83918 4.60188 4.12848 2.08248 4.37138 1.94405 3.34001 4.00313 2.90526 3.96528 4.15608 4.71039 4.12586 4.15015 3.68082 3.66113 2.17709 4.16011 1.23955 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 7 1.13961 1.64055 4.50378 4.13636 4.37293 3.32958 4.81403 3.60394 4.02423 3.45111 4.33520 3.95428'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 271 2.57659 4.51182 3.97464 3.69655 4.75157 3.29914 4.71054 4.15049 3.71102 3.86743 4.69539 3.75994 4.07471 4.00038 3.98839 1.34458 0.99703 3.56861 6.10128 4.90563 351 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 272 3.52421 4.72952 5.56962 5.08645 3.98463 5.10990 5.77168 1.15999 5.01523 2.07823 3.72994 5.25070 5.31947 5.23278 5.16236 4.53026 3.77887 0.94150 6.07965 4.89096 352 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 273 3.77713 5.42467 4.58546 4.59198 5.61567 0.16335 5.60475 5.44812 4.86196 4.97939 5.99955 4.75325 4.82684 5.13086 4.96503 3.97670 4.30730 4.83968 6.46648 5.75978 353 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 274 2.89744 4.97522 3.38299 2.78964 2.72843 3.71272 3.81702 3.60738 1.40473 3.19781 4.05367 3.26413 4.08893 3.01584 2.20861 2.95156 3.11404 3.31717 5.29643 3.03118 354 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 275 3.77713 5.42467 4.58546 4.59198 5.61567 0.16335 5.60475 5.44812 4.86196 4.97939 5.99955 4.75325 4.82684 5.13086 4.96503 3.97670 4.30730 4.83968 6.46648 5.75978 355 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 276 3.05943 4.44245 4.78074 4.18306 2.08082 4.23001 4.52898 2.20154 4.01770 1.18210 2.67340 4.30622 4.53666 4.14909 2.98933 3.54084 3.28501 2.54494 4.99442 3.85140 356 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 277 2.93663 2.64315 4.78590 4.20287 3.45440 4.15790 4.53998 2.01889 4.03921 2.38446 2.37147 4.27696 4.50782 4.21238 4.11847 3.47994 2.65716 1.29157 5.06531 3.88212 357 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58844 5.31079 0.61958 0.77255 0.48576 0.95510\n- 278 3.38324 5.48027 3.95260 3.15048 4.88154 4.02342 3.87798 4.26446 1.33089 3.68618 4.55447 3.53053 4.35214 3.01165 1.13754 3.37709 3.52530 3.95505 3.37222 4.53260 358 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01027 4.58349 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr4gr7_III-B_III-C_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr4gr7_III-B_III-C_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,941 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr4gr7_III-B_III-C_2\n-LENG 306\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 12\n-EFFN 2.499023\n-CKSUM 1608874054\n-GA 53 53;\n-STATS LOCAL MSV -10.8505 0.70112\n-STATS LOCAL VITERBI -11.9620 0.70112\n-STATS LOCAL FORWARD -5.2435 0.70112\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60055 4.50339 2.95856 2.52491 3.35815 2.72814 3.84392 2.84520 2.68322 2.43544 3.82289 3.11846 3.27784 3.19585 2.82021 2.66767 2.78800 2.55724 4.73534 3.66585\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.00000 *\n- 1 2.79321 5.24569 2.57866 2.04868 3.35571 3.57609 3.76586 4.03668 2.23000 3.54081 2.87577 2.65196 3.21624 2.87036 2.61851 2.49801 3.02440 3.62355 5.69278 3.47191 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 2 2.14463 5.22726 3.07480 2.09150 4.54359 2.35065 3.77424 4.00758 2.28468 3.52140 4.27932 3.06366 3.20403 2.88213 2.62018 2.50182 3.02890 2.95641 5.68142 4.29105 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 3 2.80025 5.19562 3.09659 2.01727 4.49748 3.59122 3.78100 3.95225 2.25762 2.47570 4.24839 2.41478 3.98327 2.37783 2.70314 2.78572 3.03090 2.89951 5.65374 3.33902 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 4 2.80614 4.50428 3.72173 3.15204 2.94334 3.79411 4.04926 2.99484 2.66106 1.95240 3.60797 3.54652 2.57440 3.39647 2.51767 3.04250 2.60302 2.19123 5.08882 3.85916 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 5 3.26991 4.60945 5.05210 4.50325 1.58173 4.40606 4.37816 2.81562 4.31342 1.64244 3.50404 4.46014 4.72584 4.38476 4.32724 3.72943 3.49728 1.75839 4.67956 2.07648 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 6 2.90092 4.30467 4.61954 4.03329 1.71268 2.94887 4.23605 2.74357 3.86236 1.79887 3.41923 4.09563 4.39266 4.02030 3.94164 3.33419 2.70937 2.55959 2.73107 2.78004 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 7 1.50807 4.59344 5.00940 4.44486 3.65509 4.48971 4.90319 1.75795 4.30966 1.44433 3.53720 4.5829'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 299 3.19153 5.49965 3.55598 2.11221 4.91525 3.89396 3.90058 4.30922 1.60420 3.74709 4.55569 3.37634 4.25534 3.01512 1.28310 3.16479 3.37878 3.93863 3.57949 4.55546 415 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07831 4.78696 2.70326 0.61958 0.77255 0.48576 0.95510\n- 300 3.27207 4.60167 5.13090 4.54632 3.42929 4.51817 4.84662 2.09338 4.37924 1.01248 3.32721 4.63470 4.80083 4.48687 4.42724 3.84872 3.50157 1.59505 5.24100 3.02525 416 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 4.72195 5.44430 0.61958 0.77255 0.41024 1.08912\n- 301 2.05770 5.04261 3.20500 2.64297 3.26124 3.63863 3.21800 3.71264 2.33260 2.85959 4.11139 2.80041 4.02738 2.97387 1.79633 2.84414 3.04732 3.38208 5.53157 4.19531 417 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 302 2.01250 4.53624 2.60936 3.09198 3.67093 3.77619 4.02669 2.60242 3.04819 1.94526 3.63792 3.50350 4.15598 2.69262 3.40720 3.01927 3.03424 2.81031 3.39806 3.15882 418 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78696 5.50931 0.61958 0.77255 0.48576 0.95510\n- 303 2.80320 3.42982 3.92371 2.81388 2.75876 2.16153 4.11593 2.86839 2.77726 1.88617 3.50739 3.68117 4.21535 3.54778 3.56239 3.10364 2.65343 2.66030 3.62249 3.78370 419 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06185 4.78696 2.96350 0.61958 0.77255 0.48576 0.95510\n- 304 2.22515 4.96081 3.20567 2.65431 4.20601 3.03691 3.09677 3.61786 2.63154 3.22827 4.04704 2.36332 4.01611 2.99183 2.43070 2.83346 3.02505 2.02123 5.47800 4.15174 420 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13856 4.73820 2.11499 0.61958 0.77255 0.58872 0.80977\n- 305 2.40260 4.98395 2.63132 2.55329 4.24750 2.38327 3.76244 3.67251 2.54929 2.69430 4.06120 3.07730 3.94752 2.90212 2.34016 2.43665 2.96946 2.82576 5.48651 4.13997 421 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09886 4.61447 2.47425 0.61958 0.77255 0.79400 0.60154\n- 306 2.88125 5.39836 2.34661 1.78658 4.72538 3.49014 3.80507 4.21678 2.62569 3.70247 4.46962 1.81073 3.96805 2.92412 3.14626 2.39443 2.48690 3.78438 5.84676 4.41111 422 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01088 4.52648 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,698 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_1\n-LENG 225\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 2\n-EFFN 0.394531\n-CKSUM 2485618106\n-GA 300 300;\n-STATS LOCAL MSV -10.5082 0.70404\n-STATS LOCAL VITERBI -11.5189 0.70404\n-STATS LOCAL FORWARD -5.0106 0.70404\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44485 3.95448 2.92774 2.78127 3.37876 2.83573 3.73164 2.77602 2.77191 2.26133 3.65519 3.23039 3.71910 3.25758 2.78982 2.61441 2.90339 2.58712 5.05669 3.39214\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 2.27811 4.19614 3.13798 2.95218 3.99460 2.92773 4.06323 3.50701 3.02019 3.23457 4.16932 3.18887 3.66017 3.37661 3.30725 1.22353 2.75243 3.06046 5.37431 4.07821 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.92522 2.99738 1.11342 3.00509 3.18856 3.35571 5.20785 4.03738 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 2.37217 4.21627 3.35826 3.10915 3.89921 3.05757 4.13230 3.01640 3.05044 2.88271 3.94056 3.33034 3.75563 3.45006 3.31175 2.57276 1.32098 2.72031 5.34452 4.11652 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 2.64876 4.41739 3.24740 3.07631 4.07449 3.10971 4.15889 3.60053 3.12685 3.23568 4.28361 3.39026 0.99745 3.51829 3.37996 2.81419 3.08434 3.25520 5.28189 4.19480 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 218 3.13146 4.65406 3.71740 3.43325 2.30367 3.73473 3.58651 3.15261 3.29315 2.62748 3.83698 3.62422 4.21158 3.61918 3.49304 3.27572 3.41836 3.01955 3.94353 1.11591 218 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 219 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 219 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 220 2.90401 5.01295 1.04487 2.29127 4.37980 3.15095 3.86380 3.94988 2.93321 3.57417 4.55270 2.84246 3.79820 3.10451 3.43620 2.87744 3.24166 3.59874 5.56440 4.26936 220 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 221 2.56812 4.34916 3.22461 3.11481 4.25372 0.86950 4.23808 3.83505 3.28449 3.49924 4.47611 3.38949 3.73762 3.61564 3.52760 2.73807 3.04301 3.37964 5.36871 4.35359 221 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 222 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 222 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 223 3.13146 4.65406 3.71740 3.43325 2.30367 3.73473 3.58651 3.15261 3.29315 2.62748 3.83698 3.62422 4.21158 3.61918 3.49304 3.27572 3.41836 3.01955 3.94353 1.11591 223 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 224 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 224 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 225 2.56812 4.34916 3.22461 3.11481 4.25372 0.86950 4.23808 3.83505 3.28449 3.49924 4.47611 3.38949 3.73762 3.61564 3.52760 2.73807 3.04301 3.37964 5.36871 4.35359 225 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,431 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_12\n-LENG 136\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 35\n-EFFN 0.713501\n-CKSUM 1513378726\n-GA 120 120;\n-STATS LOCAL MSV -10.2591 0.71111\n-STATS LOCAL VITERBI -10.8635 0.71111\n-STATS LOCAL FORWARD -4.9791 0.71111\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55886 4.36413 2.91409 2.61494 3.39299 3.12698 3.74746 2.90602 2.57395 2.40097 3.55058 3.10205 3.64731 2.94635 2.82594 2.75347 2.87219 2.67039 3.67929 3.39304\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.00000 *\n- 1 2.86287 4.49225 3.79912 3.35682 3.37690 3.74885 4.16753 2.57305 2.91468 2.10254 1.40270 3.67833 4.20020 3.52968 3.29804 3.15037 3.14480 2.50022 5.06719 3.82286 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.48576 0.95510\n- 2 1.65906 4.28459 3.30418 2.89125 4.16027 2.43483 4.00262 3.57606 2.92393 3.23166 4.05297 3.06078 3.37132 3.22874 3.30575 2.13920 2.24997 3.11455 5.48713 4.23716 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.48576 0.95510\n- 3 3.38939 4.77648 4.36526 3.99141 2.14109 4.10925 3.69204 3.16682 3.75786 2.52273 3.78629 3.99602 4.51030 3.97103 3.88459 3.58128 3.64926 3.10031 1.12194 2.24363 3 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.48576 0.95510\n- 4 2.67083 5.05209 2.83052 2.16399 4.36925 3.39477 3.45432 3.81423 1.94005 3.32759 4.11124 2.61217 3.80656 2.29683 2.68537 2.64759 2.75919 3.43066 5.48096 3.92930 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.48576 0.95510\n- 5 2.44711 4.69466 2.90167 2.39500 3.96298 3.38284 3.64933 3.36814 2.47261 2.99327 3.66686 2.96634 3.09492 2.81790 2.92302 2.03263 2.68383 3.05350 5.25593 3.78227 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.48576 0.95510\n- 6 3.41879 4.77249 4.40059 3.99900 1.90904 4.25090 3.55124 3.11895 3.84809 2.29492 3.75641 3.95909 4.57360 3.94905 3.97760 3.59170 3.64540 3.03965 3.75191 1.03573 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.48576 0.95510\n- 7 2.61405 5.17916 2.30317 2.05416 4.48301 2.95476 3.63525 3.95946 2.35927 3.47014 4.25468 2.14397 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.02014 4.74248 0.61958 0.77255 0.48576 0.95510\n- 129 2.83846 4.94150 3.14014 2.66754 4.32054 3.49510 3.68850 3.68787 1.23343 3.28136 4.16085 2.98803 3.94882 2.84823 2.41910 2.87243 3.08020 3.11641 5.42364 4.15710 133 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09030 4.02014 2.68249 0.61958 0.77255 0.48576 0.95510\n- 130 2.57081 4.80810 2.87086 2.38201 4.06766 2.95429 3.58684 3.30769 2.14223 3.01113 3.88380 2.70067 3.42912 2.68241 2.76951 2.59338 2.64907 3.08957 5.30509 3.96393 134 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04225 3.95861 3.80422 0.61958 0.77255 0.54701 0.86435\n- 131 2.44105 4.74985 2.84952 2.40337 4.00880 3.15078 3.59933 3.42487 2.32735 2.87781 3.84214 2.82705 3.24655 2.75132 2.67884 2.50791 2.59329 3.02732 5.27064 3.93812 135 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06054 3.94551 3.23399 0.61958 0.77255 0.55911 0.84797\n- 132 2.48557 4.82304 2.90679 2.31537 4.09189 2.81188 3.48155 3.35983 2.18858 3.09271 3.90355 2.80771 3.78276 2.72701 2.52988 2.49555 2.82428 3.17593 5.31178 3.97935 136 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03007 3.91505 4.63739 0.61958 0.77255 0.58614 0.81299\n- 133 2.53913 4.93646 2.66073 2.09791 4.22014 3.01063 3.57108 3.66395 2.20464 3.09517 4.00503 2.77800 3.56877 2.60976 2.82556 2.46022 2.82850 3.21901 5.41108 4.03875 137 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07857 3.91505 2.88914 0.61958 0.77255 0.58614 0.81299\n- 134 2.59754 4.96347 2.52651 2.17311 4.25374 3.22551 3.43644 3.70100 2.27263 3.08620 4.02654 2.58273 3.75013 2.62781 2.55549 2.53752 2.78721 3.32599 5.42332 4.04894 138 e - - -\n- 2.68619 4.42226 2.77518 2.73120 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90345 2.73738 3.18148 2.89802 2.37884 2.77521 2.98515 4.58478 3.61504\n- 0.18378 1.99950 3.42717 0.35975 1.19683 0.60791 0.78633\n- 135 2.52866 5.00388 2.22335 2.05790 4.29006 3.16549 3.58386 3.60234 2.31699 3.28795 4.08382 2.71125 3.74980 2.66367 2.89539 2.48849 2.80549 3.36641 5.48041 4.08959 140 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11591 3.85727 2.42679 0.61958 0.77255 0.63339 0.75671\n- 136 2.72731 5.14514 1.76882 1.98528 4.43942 3.06773 3.62085 3.90596 2.44129 3.44474 4.27119 2.67695 3.74397 2.77651 2.90513 2.58819 2.99321 3.52096 5.63220 4.20640 141 d - - -\n- 2.68618 4.42228 2.77519 2.73099 3.46352 2.40511 3.72497 3.29357 2.67744 2.69358 4.24693 2.90344 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.32115 1.29212 * 0.25568 1.48893 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,458 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_13\n-LENG 145\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 8\n-EFFN 0.824219\n-CKSUM 2425561681\n-GA 84 84;\n-STATS LOCAL MSV -9.7194 0.70998\n-STATS LOCAL VITERBI -10.9535 0.70998\n-STATS LOCAL FORWARD -4.4188 0.70998\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55058 4.67053 2.92371 2.56599 3.47502 2.89127 3.83665 2.63664 2.48771 2.43840 3.66887 3.05937 3.44893 3.06755 2.92736 2.74419 2.88875 2.67486 4.85136 3.47282\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.00000 *\n- 1 3.04979 4.52305 4.43780 3.93044 3.26365 4.12923 4.60906 2.22224 3.74556 1.75833 1.40305 4.18085 4.50256 4.02139 3.94188 3.50169 3.32604 1.94818 5.18813 4.02050 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 2 2.71314 5.11107 2.31875 2.28712 4.45863 2.33804 3.67321 3.92717 2.48796 3.45315 4.24500 2.11355 3.82031 2.80728 2.59307 2.68019 2.97077 3.52514 5.62345 4.22164 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 3 3.18346 5.14360 3.37304 2.96081 4.58003 3.64316 3.89848 4.02443 0.77556 3.54484 4.49982 3.37367 4.13248 3.08141 2.49787 3.21433 3.42314 3.72190 5.54934 4.39599 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 4 3.04038 5.21420 3.17163 2.69407 4.61532 3.61412 3.67621 4.01292 1.11889 3.46771 4.34056 3.14198 4.03310 2.38812 2.27490 3.02344 3.23380 3.68335 5.53181 4.30957 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 5 2.65289 4.84046 3.00040 1.97613 4.12014 3.43920 3.64644 3.49735 2.36220 3.11063 3.93816 2.98370 3.84654 2.79648 2.22661 2.68471 2.64518 2.69350 5.34708 4.02862 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 6 3.20315 4.56896 4.63284 4.26126 3.52927 4.29235 4.95412 0.84365 4.09367 2.07676 3.43686 4.47705 4.70772 4.42303 4.26622 3.81339 3.50049 1.87673 5.46114 4.21463 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 7 2.89228 5.26533 2.55034 1.74785 4.56889 3.38402 3.72507 4.03820 2.45214 3.54480 4.38958 2.87779 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 138 2.99935 5.53032 1.93248 1.08430 4.82612 3.28154 3.82422 4.33838 2.82660 3.85214 4.71144 2.75597 3.90054 2.99296 3.40392 2.88943 3.28831 3.92062 5.99676 4.51280 159 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 139 2.69186 5.06975 2.31105 2.30840 4.40978 3.34450 3.65838 3.86742 2.03132 3.40112 4.19235 2.85320 2.38866 2.79059 2.93097 2.44278 2.94432 3.47441 5.57706 4.18718 160 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 140 2.79475 5.17485 2.58854 1.51469 4.51186 3.36323 3.68939 3.96112 2.12035 3.48535 4.29696 2.85998 3.86090 2.82964 2.87725 2.32787 3.04520 3.57526 5.64597 4.26431 161 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20326 4.08919 1.78867 0.61958 0.77255 0.48576 0.95510\n- 141 2.64743 4.68955 3.05197 2.62512 4.13547 3.35161 3.72046 3.43802 1.78127 3.10820 3.99322 3.06516 3.85198 2.90046 2.64102 2.72435 1.99403 3.12298 5.35808 4.09115 162 k - - -\n- 2.68637 4.42244 2.77539 2.73088 3.46373 2.40522 3.72514 3.29373 2.67719 2.69374 4.24709 2.90322 2.73759 3.18031 2.89820 2.37889 2.77500 2.98537 4.58496 3.61522\n- 0.33498 1.29109 4.63831 1.46224 0.26360 0.39449 1.12093\n- 142 2.95721 4.70562 3.67493 3.60455 4.73241 0.46132 4.70643 4.38983 3.81500 4.01499 4.99629 3.83998 4.10334 4.12238 4.02229 3.13618 3.45529 3.87625 5.76505 4.84344 170 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 143 2.82520 4.95224 2.61513 1.99050 4.55735 1.22119 3.96987 4.02140 2.88605 3.62619 4.50129 3.01275 3.91875 3.17477 3.32124 2.85153 3.17799 3.61183 5.75942 4.45209 171 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 144 2.07289 4.88466 2.73048 2.43203 4.31946 3.31619 3.75367 3.75965 2.55075 3.34613 4.17500 1.81061 3.84421 2.50820 2.97921 2.70006 2.96989 3.38270 5.54702 4.19581 172 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08919 4.81153 0.61958 0.77255 0.48576 0.95510\n- 145 2.76529 5.27519 2.15718 2.01485 4.58440 3.32144 3.66787 4.07320 2.50996 3.56657 4.34939 2.37943 3.82224 2.07897 3.03133 2.38840 3.01612 3.65142 5.71901 4.28056 173 e - - -\n- 2.68624 4.42231 2.77502 2.73106 3.46360 2.40502 3.72500 3.29360 2.67725 2.69361 4.24695 2.90352 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58483 3.61509\n- 0.21711 1.63395 * 0.66832 0.71861 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,506 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_15\n-LENG 161\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 6\n-EFFN 1.280273\n-CKSUM 4167769356\n-GA 43 43;\n-STATS LOCAL MSV -10.0691 0.70831\n-STATS LOCAL VITERBI -10.9727 0.70831\n-STATS LOCAL FORWARD -4.5694 0.70831\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60318 4.48048 3.02701 2.58277 3.31832 3.12516 3.96384 2.62788 2.51107 2.25906 3.58678 3.08831 3.65857 3.15917 2.83513 2.61768 2.94917 2.72332 5.10065 3.31587\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28008 4.33200 1.46475 0.61958 0.77255 0.00000 *\n- 1 2.59770 4.35167 3.58371 3.17161 3.62421 2.32068 4.08711 2.90664 3.07496 2.58424 1.59672 3.47085 3.98073 3.43597 3.36081 2.82640 2.93999 2.69520 5.13791 3.89825 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02551 4.07742 4.79977 0.61958 0.77255 0.52276 0.89865\n- 2 2.66063 4.60201 3.19145 2.25150 3.81545 3.51204 3.80340 3.10892 2.66059 2.81476 2.69761 3.16515 3.93588 3.02491 3.05748 2.78273 1.85830 2.85905 5.20011 3.92409 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02210 4.21887 4.94122 0.61958 0.77255 0.62955 0.76106\n- 3 2.69294 5.02710 2.85323 2.04786 4.35536 3.41847 3.66848 3.79520 2.07032 3.34042 4.13140 2.93356 3.85218 2.79757 2.86307 2.03279 2.38548 3.41875 5.52348 4.15934 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02210 4.21887 4.94122 0.61958 0.77255 0.40533 1.09889\n- 4 2.73608 5.10195 2.96794 1.75306 4.41202 3.48822 3.66675 3.85244 2.01920 3.37473 2.99841 2.97675 3.88925 2.33525 2.77792 2.71998 2.96225 3.47487 5.53949 4.18217 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 5 2.10424 4.45415 3.42619 2.86540 3.62167 3.59466 3.85357 2.44056 2.34778 2.24073 3.56573 3.29635 3.98584 3.13790 3.17318 2.38136 2.89198 2.70966 5.04377 3.79602 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 6 2.70474 4.38189 2.69292 3.06032 3.41558 3.69297 3.93807 2.30173 3.02068 2.53715 3.47689 3.44966 4.07458 3.31537 3.35977 2.95388 2.93940 2.14615 4.91333 2.11338 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 7 2.87601 5.36640 2.06558 1.89178 4.71271 2.50480 3.80012 4.20467 2.67980 3.70505 4.49563 2.88006 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 154 3.18220 5.80438 1.76045 0.92837 5.09331 3.39972 3.97374 4.63801 3.02459 4.11571 4.97852 2.85844 4.03980 3.14343 3.64419 3.04687 3.47745 4.19221 6.25114 4.72384 167 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 155 1.11464 4.35245 3.75540 3.55022 4.66950 1.35719 4.60824 4.06611 3.66144 3.78875 4.61613 3.60689 3.91189 3.91088 3.93217 2.61120 2.94402 3.45442 6.00071 4.83424 168 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 156 2.86847 4.43478 4.22466 3.75500 3.69956 3.87825 4.54595 1.53858 3.62906 2.45255 3.60215 3.98624 4.37605 3.94967 3.87464 3.25929 1.45075 2.13134 5.38409 4.16796 169 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 157 2.90083 4.29133 4.54155 3.97427 2.85237 4.01788 4.09110 2.10791 3.80260 1.44403 3.24587 4.03862 4.35576 3.94575 3.88739 3.32673 3.12921 2.48588 2.82316 2.32146 170 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 158 2.74549 5.14947 2.83833 1.68338 4.49271 2.62306 3.69663 3.95160 2.43598 3.46514 4.24187 2.94393 2.87723 2.81650 2.37684 2.71933 2.98621 3.55032 5.62202 4.23956 171 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 159 2.69243 4.93356 3.07060 2.51392 4.23391 2.69582 3.69058 3.65376 1.94786 3.22759 4.03199 3.02625 3.89047 2.82864 2.36908 2.31493 2.92690 2.65722 5.43547 4.10420 172 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01972 4.33200 5.05434 0.61958 0.77255 0.48576 0.95510\n- 160 2.84434 5.19673 2.80426 1.74235 4.56839 1.89212 3.76730 4.01846 2.48193 3.53679 4.33862 2.98986 3.94651 2.90146 2.30359 2.81888 3.09365 3.62727 5.68783 4.32572 173 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13523 4.33200 2.17736 0.61958 0.77255 0.48576 0.95510\n- 161 2.60362 4.60499 3.19933 2.67766 3.93292 2.64375 3.78939 3.28357 2.16722 2.96715 3.82042 3.13587 3.88983 2.99118 3.01520 2.70963 2.09574 2.39339 5.26543 3.98305 174 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01493 4.21170 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_16.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_16.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,446 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_16\n-LENG 141\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 8\n-EFFN 0.980469\n-CKSUM 1090172650\n-GA 100 100;\n-STATS LOCAL MSV -9.9897 0.71042\n-STATS LOCAL VITERBI -10.8758 0.71042\n-STATS LOCAL FORWARD -4.6466 0.71042\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.31486 4.11156 3.00391 2.60763 3.49357 2.91782 3.90322 2.84102 2.63917 2.31807 3.67584 3.22110 3.76247 3.17960 2.84276 2.68787 2.94540 2.59199 4.55628 3.37102\n- 2.68607 4.42239 2.77534 2.73138 3.46368 2.40527 3.72509 3.29368 2.67731 2.69369 4.24504 2.90361 2.73754 3.18079 2.89815 2.37883 2.77481 2.98533 4.58491 3.61517\n- 0.40305 1.33219 2.69090 1.05699 0.42694 0.00000 *\n- 1 2.64028 4.66949 3.09781 2.58484 3.90368 3.46341 3.70406 3.29148 2.18837 2.93711 2.35093 2.57740 3.87709 2.89731 2.87187 2.45615 2.87966 3.00585 5.21552 3.92609 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02451 4.11689 4.83923 0.61958 0.77255 0.55802 0.84943\n- 2 2.81041 5.29954 1.77132 1.99922 4.60842 3.31698 3.71401 4.09232 2.59916 3.60287 4.40185 2.29776 3.84636 2.85314 3.13576 2.74333 2.31056 3.67880 5.77010 4.32566 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02451 4.11689 4.83923 0.61958 0.77255 0.55802 0.84943\n- 3 2.29700 4.46286 3.28316 2.48122 3.60309 3.52465 3.75095 2.99165 2.65126 2.34814 3.55671 3.18174 3.91163 2.69073 3.02647 2.76799 2.84304 2.74946 2.89839 3.73950 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02451 4.11689 4.83923 0.61958 0.77255 0.55802 0.84943\n- 4 3.21410 4.51054 4.94143 4.40036 3.37777 4.56827 4.99634 1.60405 4.28358 1.30011 3.17235 4.62037 4.80244 4.45364 4.42916 3.92922 3.45427 1.43845 5.38810 4.26144 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02451 4.11689 4.83923 0.61958 0.77255 0.55802 0.84943\n- 5 2.85268 5.39194 1.83883 1.70494 4.70095 3.32474 3.71412 4.19593 1.94154 3.67829 4.47596 2.78253 3.85854 2.85008 3.08937 2.76993 3.10944 3.76874 5.82182 4.36987 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02451 4.11689 4.83923 0.61958 0.77255 0.44309 1.02736\n- 6 2.60435 4.37844 3.39510 2.56396 3.04934 2.92562 3.80294 2.88144 2.54149 2.12853 2.83625 3.25985 3.94051 3.10322 3.15225 2.79981 2.83594 2.65134 4.95101 3.70623 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 7 1.06615 4.27310 3.93142 3.56085 3.98862 3.29332 4.45327 2.79335 3.49386 2.86825 3.91737 3.66576 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 134 3.51862 4.89622 4.68148 4.33365 3.28288 4.36835 4.89467 2.51389 4.09906 0.57220 3.22914 4.57988 4.75782 4.39227 4.22039 3.99240 3.80262 2.62883 5.26165 4.05218 143 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 135 0.64856 4.37566 3.80389 3.62303 4.38723 3.18958 4.60442 3.56101 3.64809 3.42733 4.43397 3.68551 3.95890 3.96232 3.86897 2.72781 3.02711 3.16037 5.78237 4.62158 144 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 136 3.25558 5.39546 2.66579 0.65615 4.78626 3.50082 4.12971 4.30424 3.05254 3.87639 4.84929 3.15619 4.12369 3.34675 3.48472 3.21335 3.56615 3.96069 5.89865 4.63671 145 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 137 0.64856 4.37566 3.80389 3.62303 4.38723 3.18958 4.60442 3.56101 3.64809 3.42733 4.43397 3.68551 3.95890 3.96232 3.86897 2.72781 3.02711 3.16037 5.78237 4.62158 146 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 138 2.73589 4.51195 3.46464 2.92548 3.37073 3.63517 3.79909 2.98027 2.19844 2.67954 3.61475 3.32992 4.02838 3.14936 3.02933 2.91349 2.96946 2.33999 4.85106 1.93612 147 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 139 3.12193 4.46954 4.77014 4.22546 1.55688 4.33890 4.56645 1.84491 4.09545 1.83735 3.15146 4.37672 4.62393 4.23355 4.21257 3.67806 3.35971 1.80191 4.94248 3.62705 148 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 140 2.37000 5.15102 2.84329 2.01815 4.48743 3.44620 3.64436 3.93011 1.74086 3.43072 4.21814 2.92867 3.87132 2.36540 2.70863 2.72809 2.98621 3.54104 5.57120 4.21413 149 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16385 4.17917 1.99641 0.61958 0.77255 0.48576 0.95510\n- 141 2.18946 5.01939 2.78906 2.07163 4.36144 3.39925 3.65159 3.76474 1.74233 3.32278 4.14242 2.92200 3.85380 2.79218 2.71091 2.72944 2.97741 3.40856 5.50199 4.16762 150 k - - -\n- 2.68624 4.42231 2.77526 2.73076 3.46360 2.40500 3.72501 3.29360 2.67747 2.69361 4.24696 2.90353 2.73746 3.18152 2.89787 2.37893 2.77526 2.98524 4.58483 3.61509\n- 0.31833 1.29962 * 0.50348 0.92741 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_17.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_17.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,533 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_17\n-LENG 170\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 9\n-EFFN 0.716309\n-CKSUM 2388961872\n-GA 180 180;\n-STATS LOCAL MSV -10.2459 0.70755\n-STATS LOCAL VITERBI -10.9519 0.70755\n-STATS LOCAL FORWARD -4.4623 0.70755\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53702 4.63043 3.05503 2.65312 3.52899 3.16300 3.61737 2.93572 2.60725 2.39353 3.61658 2.91623 3.37843 2.90413 2.79316 2.60337 2.90285 2.67246 4.04962 3.49216\n- 2.68600 4.42250 2.77528 2.73148 3.46350 2.40537 3.72519 3.29379 2.67636 2.69366 4.24548 2.90305 2.73764 3.18149 2.89825 2.37883 2.77544 2.98543 4.58502 3.61500\n- 0.49794 1.67561 1.58464 1.89029 0.16373 0.00000 *\n- 1 2.41891 4.33108 3.17186 2.72206 3.74294 2.70854 3.79102 3.09118 2.67686 2.78485 2.96780 3.11198 2.50980 3.04010 3.04062 2.57105 2.74643 2.79580 5.13416 3.86856 11 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80339 4.52574 0.61958 0.77255 0.67487 0.71176\n- 2 2.26511 4.64250 2.86506 2.45306 4.08075 3.24966 3.65172 3.49222 2.39911 3.10099 3.93385 2.40662 3.17953 2.82300 2.48535 2.58388 2.81387 3.13838 5.32569 4.01820 12 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80339 4.52574 0.61958 0.77255 0.67487 0.71176\n- 3 2.65857 4.86733 2.62943 2.34372 4.28261 2.75559 3.63637 3.71936 1.93175 3.28477 4.12171 2.30521 3.77624 2.79886 2.71670 2.66792 2.93431 3.35172 5.45561 4.12559 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80339 4.52574 0.61958 0.77255 0.67487 0.71176\n- 4 2.59190 4.71586 2.85055 2.46592 4.16811 3.27245 3.64636 3.57541 1.81195 3.16891 4.01181 2.93712 3.00292 2.81441 2.65415 2.39255 2.87584 3.22047 5.36439 4.06757 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80339 4.52574 0.61958 0.77255 0.67487 0.71176\n- 5 2.75126 5.01071 2.61463 2.32291 4.32589 3.32061 3.59814 3.77360 2.03572 3.30901 4.15149 2.12388 3.80898 2.39768 2.59298 2.73225 2.99298 3.42366 5.45563 4.12351 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80339 4.52574 0.61958 0.77255 0.67487 0.71176\n- 6 2.47210 4.53627 2.92465 2.51415 4.03111 3.21112 3.69362 3.42459 2.21312 3.05839 3.89748 2.96546 3.15098 2.87917 2.85579 2.15371 2.47012 3.06935 5.30592 4.01407 16 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80339 4.52574 0.61958 0.77255 0.67487 0.71176\n- 7 2.59399 4.66478 3.03225 2.51006 3.93816 3.38292 3.60885 3.32789 2.29391 2.94085 3.79941 2.98557 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02195 4.74429 0.61958 0.77255 0.48576 0.95510\n- 163 3.59519 4.91471 4.32699 4.07160 2.83437 3.90372 4.09556 3.62745 3.79174 2.99556 4.25398 4.19102 4.43440 4.17161 3.89305 3.79737 3.90366 3.52187 0.63110 2.82902 178 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02195 4.74429 0.61958 0.77255 0.48576 0.95510\n- 164 0.98111 4.18581 3.47389 3.24953 4.31246 2.46445 4.31369 3.63118 3.32700 3.40853 4.27803 3.37553 3.73463 3.61583 3.60693 2.45973 2.76908 3.12771 5.66714 4.47786 179 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02195 4.74429 0.61958 0.77255 0.48576 0.95510\n- 165 3.18037 5.00469 3.68689 3.16959 4.39744 3.63679 3.94209 3.95139 2.31075 3.44026 4.43848 3.51689 4.13386 3.15669 0.77245 3.25852 3.43727 3.66937 5.42096 4.29440 180 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02195 4.74429 0.61958 0.77255 0.48576 0.95510\n- 166 0.81808 4.27257 3.61967 3.42056 4.20634 3.09258 4.42420 3.35461 3.44080 3.22909 4.24643 3.53068 3.84619 3.76868 3.67943 2.62256 2.91041 2.98301 5.61850 4.43613 181 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02195 4.74429 0.61958 0.77255 0.48576 0.95510\n- 167 3.46929 4.89749 4.06181 3.82125 2.31324 4.00653 3.69790 3.45833 3.67458 2.87313 4.11825 3.91186 4.47785 3.94438 3.82674 3.59027 3.75723 3.33623 3.96203 0.74932 182 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02195 4.74429 0.61958 0.77255 0.48576 0.95510\n- 168 2.38123 4.83171 2.81418 2.20988 4.17238 3.34140 3.65951 3.59375 2.45368 3.18380 3.99828 2.91399 3.80140 2.46002 2.90296 2.03516 2.63290 3.24212 5.40831 4.06593 183 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02195 4.74429 0.61958 0.77255 0.48576 0.95510\n- 169 2.47031 5.22683 2.11253 1.76740 4.53201 3.30733 3.64178 4.01211 2.26626 3.51309 4.29907 2.77295 3.80165 2.52939 2.98034 2.67821 2.98669 3.59929 5.67022 4.24200 184 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09006 4.02195 2.68528 0.61958 0.77255 0.48576 0.95510\n- 170 2.67576 5.09812 2.04940 2.25048 4.41318 3.31874 3.60263 3.87677 2.18345 3.39249 4.17848 2.56810 3.78108 2.72945 2.55930 2.44686 2.91826 3.47989 5.55484 4.15867 185 d - - -\n- 2.68620 4.42227 2.77508 2.73110 3.46355 2.40514 3.72496 3.29356 2.67742 2.69357 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58479 3.61505\n- 0.15411 1.94618 * 0.33560 1.25495 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_18.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_18.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,377 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_18\n-LENG 118\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 57\n-EFFN 3.893005\n-CKSUM 371434222\n-GA 40 40;\n-STATS LOCAL MSV -9.4305 0.71384\n-STATS LOCAL VITERBI -10.3687 0.71384\n-STATS LOCAL FORWARD -4.0248 0.71384\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.32638 4.54077 3.07170 2.62873 3.42288 3.01700 3.76193 2.95350 2.51556 2.34682 3.63698 3.09337 3.63307 2.92989 2.82721 2.69154 2.86634 2.82716 4.42147 3.40690\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.00000 *\n- 1 2.97512 4.46887 4.37856 3.58817 3.57430 4.06627 4.36180 2.10252 3.32924 1.43143 2.75048 3.80657 4.43625 3.66241 2.12364 3.34903 3.20677 2.63202 5.07750 3.09144 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 2 2.44734 5.44945 2.33145 1.44279 4.79280 3.31793 3.90128 3.99551 2.51973 3.75400 4.49085 2.42276 4.10656 2.57744 3.13161 2.64913 3.17252 3.83922 4.93261 4.47197 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 3 3.00286 5.46704 3.26750 2.70446 4.43837 3.42336 3.29908 4.28050 2.11875 3.76062 4.51237 2.77464 4.15961 1.16272 2.67349 2.97031 3.22893 3.60555 5.88760 4.50408 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 4 2.77005 5.45140 2.76484 1.98600 4.79733 2.63161 3.89880 4.07013 1.98752 3.75643 4.49220 3.07806 4.10583 1.99411 2.20445 2.90216 3.17139 3.74481 5.88289 4.47238 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 5 2.96394 4.71140 3.30587 3.23260 3.67720 3.93152 4.17720 2.90833 3.18508 2.92224 3.57168 3.64930 4.31140 3.49554 1.09808 3.17305 2.98171 2.77010 3.86826 3.08434 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 6 0.95252 4.68431 3.96129 3.40607 3.89288 3.19619 4.29917 3.24686 3.20667 2.65651 2.87526 3.76961 4.35428 3.64849 3.68354 2.66645 3.23021 2.90574 5.34268 4.11645 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 7 1.77655 5.43545 3.19156 1.93078 4.77570 3.71354 3.90029 4.25726 2.12135 3.02266 4.47771 2.78522 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 111 2.58286 4.37520 4.94198 4.32843 2.82962 4.16695 4.15996 2.44786 4.11813 1.13304 2.44638 4.32245 4.52816 4.25022 4.13245 3.47784 3.23068 2.43773 4.52025 2.70380 274 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 112 3.80470 4.87136 4.37406 3.54194 5.52939 4.40405 4.23993 4.82119 0.78859 4.17649 5.03830 3.63095 4.73513 3.35991 1.29941 3.45895 3.93984 4.48513 6.15212 5.03473 275 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 113 3.87827 5.99271 4.47890 3.59526 5.56761 4.46163 4.24380 4.84099 1.71909 3.52202 5.05705 3.94859 4.77308 2.50554 0.67640 3.84697 3.99142 3.95646 6.15353 5.05441 276 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 114 2.83569 4.39826 4.85929 4.25448 1.12439 4.16435 3.62298 2.66173 4.06259 2.37220 3.14343 4.28606 4.52706 4.21034 4.10758 3.47164 3.15482 2.26002 4.97732 2.58073 277 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 115 0.83013 4.66778 4.61649 4.10417 4.06275 3.98350 4.76397 2.54778 4.00736 3.09172 4.03591 4.22717 4.54689 4.24546 4.22083 2.45011 3.17846 2.07136 5.58030 4.38910 278 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 116 2.88274 5.45303 2.26795 1.67121 4.79804 3.71176 3.90104 4.28392 2.39748 3.75791 4.49410 2.84454 4.10715 2.23530 2.23017 2.90397 2.97856 3.05525 5.88513 4.47415 279 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 117 1.26235 4.78073 3.91088 3.36649 4.11414 2.08755 4.34346 3.04145 3.32878 3.18535 3.20952 3.73737 4.33698 3.63589 3.69645 2.15399 2.61511 3.20561 5.53130 4.29150 280 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13626 5.85861 0.61958 0.77255 0.48576 0.95510\n- 118 2.80584 4.40134 4.19000 2.85394 2.29284 4.10785 4.42458 2.44495 3.89176 1.82395 2.44540 4.16790 4.47470 3.02035 3.70382 3.40519 3.00462 2.15218 4.51443 2.81895 281 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00591 5.13341 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,434 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_2\n-LENG 137\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 11\n-EFFN 1.243408\n-CKSUM 598819988\n-GA 69 69;\n-STATS LOCAL MSV -9.9705 0.71098\n-STATS LOCAL VITERBI -10.5697 0.71098\n-STATS LOCAL FORWARD -4.6208 0.71098\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37760 4.60939 2.97978 2.57526 3.33397 3.08642 3.88906 2.65864 2.44160 2.49058 3.54683 2.94637 3.83927 3.02914 3.00508 2.61496 2.93814 2.70540 5.23445 3.52110\n- 2.68622 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29358 2.67744 2.69358 4.24431 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58481 3.61507\n- 0.29929 1.63781 2.74492 0.22352 1.60792 0.00000 *\n- 1 2.83532 4.43406 3.82778 2.76169 3.41897 3.85293 4.14135 2.24915 3.17258 2.19339 1.57375 3.66372 4.22144 3.50875 3.45796 3.14644 3.07216 2.41266 5.04869 3.84554 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02131 4.25492 4.97727 0.61958 0.77255 0.56462 0.84066\n- 2 2.64838 4.75937 2.86199 2.67489 4.52312 3.24829 4.04117 4.06200 2.93380 3.66140 4.49098 1.36589 3.90594 3.24004 3.35545 1.71414 3.04702 3.57032 5.79406 4.43419 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02131 4.25492 4.97727 0.61958 0.77255 0.56462 0.84066\n- 3 3.06962 5.29944 3.35240 2.75758 4.75087 3.70245 3.70004 4.12168 1.12234 3.55254 4.39023 2.64917 4.08249 2.82500 1.98882 3.04575 3.25021 3.77012 5.59771 4.38324 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02131 4.25492 4.97727 0.61958 0.77255 0.43943 1.03396\n- 4 2.75690 5.05962 3.09556 2.51883 4.37694 3.52772 3.66630 3.80002 2.00266 3.33015 3.35039 2.47544 3.91351 2.79062 1.84038 2.50410 2.97644 3.43952 5.49242 4.16742 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 5 2.68211 4.63906 3.26674 2.69821 3.83233 3.56185 3.76477 2.62100 2.34371 2.86851 3.73143 2.54821 3.94659 2.97746 2.39006 2.79376 2.91050 2.18668 5.17832 3.90489 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 6 2.96497 4.39237 4.39871 3.85711 3.50115 4.13961 4.51909 1.29946 3.70548 2.24461 3.40038 4.10956 4.48882 3.12370 3.91600 3.46344 3.21117 1.50409 5.20602 4.00855 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 7 2.49384 5.55753 1.52627 1.96849 4.86371 3.38509 3.84264 4.37560 2.78243 3.85755 4.66491 1.85319 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21753 4.93988 0.61958 0.77255 0.60902 0.78501\n- 130 2.67858 5.09059 2.88938 2.19660 4.41484 3.42852 3.62153 3.87024 2.04153 3.37966 4.14907 2.28274 3.83358 2.73447 2.53747 2.37362 2.58797 3.47256 5.53261 4.15667 150 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21753 4.93988 0.61958 0.77255 0.60902 0.78501\n- 131 2.43774 4.62808 3.15631 2.36459 3.82030 3.49584 3.71204 3.20528 2.34617 2.58310 2.92804 3.08555 3.88244 2.63901 2.99355 2.71352 2.60101 2.66691 5.16506 3.87403 151 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21753 4.93988 0.61958 0.77255 0.60902 0.78501\n- 132 2.78537 5.19570 2.06006 2.31425 4.55869 1.85823 3.74629 4.03097 2.30336 3.55579 4.35161 2.86920 3.10154 2.88457 3.10451 2.74572 3.05151 3.62130 5.72842 4.31441 152 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21753 4.93988 0.61958 0.77255 0.51296 0.91310\n- 133 2.88998 5.32464 2.61289 1.33528 4.67010 2.77651 3.76214 4.13402 2.02752 3.63286 4.43741 2.91129 3.93306 2.89794 2.96568 2.83409 3.14010 3.73009 5.77476 4.37884 153 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08122 4.26452 2.74971 0.61958 0.77255 0.44611 1.02196\n- 134 2.72378 5.16727 2.72830 1.75492 4.49254 2.88032 3.67388 3.96225 2.29346 3.47219 4.24414 2.33098 3.85098 2.79307 2.94860 2.46443 2.68171 3.55356 5.63164 4.22766 154 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10288 4.25855 2.48148 0.61958 0.77255 0.56012 0.84662\n- 135 2.74733 5.22178 2.36999 1.62844 4.53637 2.82199 3.67392 4.01351 2.22939 3.51750 4.29497 2.83757 3.84008 2.79770 2.99377 2.69716 2.62024 3.60018 5.67507 4.25480 155 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02302 4.17869 4.90104 0.61958 0.77255 0.65153 0.73657\n- 136 2.67101 5.13559 2.49760 1.87174 4.45678 2.95914 3.61940 3.92964 2.38193 3.42968 4.19077 2.85850 3.81110 2.44707 2.55941 2.63418 2.59106 3.51495 5.57997 4.17574 156 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16410 4.17869 1.99490 0.61958 0.77255 0.65153 0.73657\n- 137 2.62571 4.86487 2.45417 2.36854 4.23989 3.30374 3.69869 3.67228 2.54410 3.26973 4.08529 1.94001 3.80291 2.85486 3.02212 2.30289 2.90312 2.84422 5.48632 4.12122 157 n - - -\n- 2.68623 4.42230 2.77487 2.73109 3.46359 2.40518 3.72462 3.29359 2.67746 2.69360 4.24695 2.90352 2.73745 3.18127 2.89806 2.37892 2.77525 2.98524 4.58482 3.61508\n- 0.46621 0.98718 * 0.17148 1.84782 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,437 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_3\n-LENG 138\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 9\n-EFFN 2.166504\n-CKSUM 1240001794\n-GA 48 48;\n-STATS LOCAL MSV -9.9657 0.71082\n-STATS LOCAL VITERBI -10.7263 0.71082\n-STATS LOCAL FORWARD -4.2616 0.71082\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49290 4.53419 3.07837 2.55203 3.31352 3.14921 3.85063 2.80479 2.46347 2.29112 3.64649 2.98256 3.68747 3.13450 2.95590 2.66106 2.83194 2.74496 4.69661 3.32973\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.00000 *\n- 1 2.77932 5.07490 2.59213 1.55951 4.34128 3.57209 3.78510 3.01345 2.56907 3.34480 2.80891 3.08001 3.97337 2.91787 3.04524 2.36154 3.01252 3.41696 5.56103 4.20135 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 2 2.39642 4.88893 3.22479 2.29210 4.10775 3.62734 3.84340 3.47691 2.65690 2.55660 3.96876 3.18699 4.02127 1.71886 3.09696 2.84778 3.01794 2.44072 5.41509 4.10334 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 3 2.99656 5.41797 3.19589 1.38076 4.80532 3.69988 2.85741 4.24436 1.79765 3.69144 4.46900 3.17111 4.09330 2.92172 2.25107 2.95692 3.20810 3.83693 5.77855 4.44837 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 4 2.76438 4.90219 2.62984 2.64473 4.12167 2.64373 3.81516 3.53075 2.62873 2.58922 3.97923 3.15551 3.99707 2.98044 1.92817 2.81656 2.99585 2.72511 5.41445 3.10342 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 5 1.46509 4.40296 3.93368 3.39872 3.61974 2.73644 4.18755 2.93955 3.33244 2.70843 3.61960 3.69043 4.18398 3.60727 3.61744 3.03235 3.03486 1.85151 5.10020 2.79110 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 6 2.93232 5.40073 2.94631 2.13755 4.75407 3.60121 3.83188 4.22339 1.35268 3.69971 4.46798 2.51613 4.03956 2.94493 2.97694 2.09113 3.16648 3.80220 5.82481 4.43460 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 7 3.38460 4.70414 5.16781 4.61439 1.69892 4.54513 4.52725 2.19420 4.43223 1.10629 3.32452 4.60296 4.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 131 2.79297 2.92441 4.65613 4.04960 2.16160 3.95352 4.27549 2.57791 3.85697 1.59593 3.27745 4.08164 4.31515 4.00411 3.89996 3.26172 2.58879 2.11084 4.78926 2.80060 161 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 132 0.68613 4.50634 4.28682 3.96021 4.62994 2.28707 4.83588 3.88112 3.93527 3.70794 4.57257 3.92150 4.15400 4.18096 4.17416 2.84000 3.12918 2.52629 6.04185 4.87327 162 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 133 2.97488 5.31642 2.99125 1.10526 4.63411 3.63984 3.89132 4.01847 2.14413 3.59319 4.40764 3.13914 4.08940 3.02394 3.02187 2.95457 3.21255 2.70936 5.78054 4.41937 163 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 134 1.08706 4.44504 4.14006 3.62863 3.83339 2.75128 4.41328 2.40682 3.55593 2.84621 3.79341 3.84333 4.24936 3.82509 3.82526 3.06060 3.10744 2.11993 5.33955 4.13465 164 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 135 3.10738 4.57212 4.46729 2.42651 3.41828 4.22892 4.51998 2.18299 3.77845 1.21784 2.06051 4.16330 4.54698 3.99639 3.98140 3.52194 3.33464 2.57852 5.15831 4.01325 165 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 136 3.90320 5.10978 5.80166 5.27077 3.50834 5.33756 5.71616 1.30103 5.12402 0.76310 3.25966 5.48359 5.40183 5.09488 5.13131 4.75957 4.12526 2.43817 5.74576 4.73226 166 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 137 2.96042 5.46221 2.86255 1.80969 4.80803 2.67695 3.85556 4.28859 1.47916 3.75956 4.52732 2.27289 4.04820 2.97064 3.06163 2.90481 3.19919 3.85854 5.88467 4.47496 167 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68190 5.40425 0.61958 0.77255 0.48576 0.95510\n- 138 2.75124 3.18274 3.38212 1.75725 3.98616 2.74606 3.95015 3.35718 2.83947 3.03721 3.89342 3.30844 4.05235 3.16975 3.25925 2.44996 3.01451 2.01748 5.35018 4.07114 168 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00935 4.67739 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,380 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_4\n-LENG 119\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 19\n-EFFN 2.528076\n-CKSUM 3048350952\n-GA 54 54;\n-STATS LOCAL MSV -9.6886 0.71364\n-STATS LOCAL VITERBI -10.3253 0.71364\n-STATS LOCAL FORWARD -3.9679 0.71364\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36141 4.66152 3.11282 2.59357 3.39995 3.03625 3.76210 2.96945 2.50610 2.32410 3.71052 3.06207 3.68516 2.85883 2.84576 2.74675 2.84222 2.78247 4.35613 3.42038\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.00000 *\n- 1 3.08562 4.54878 4.49867 3.90913 3.47832 4.20554 4.49529 2.43942 3.74182 1.41531 2.84687 4.15554 4.53735 3.99493 1.67657 3.49875 3.31391 2.11028 5.15356 3.99474 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 2 2.19081 5.58409 2.20212 1.40572 4.91339 3.61375 3.94844 4.41411 2.78332 3.88865 4.65547 2.11051 4.10538 3.06838 3.31327 2.50428 3.28797 3.97149 6.02616 4.57767 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 3 3.09974 5.30049 3.22052 2.81897 4.48739 3.77386 4.00669 4.00649 2.66867 2.56842 4.41961 2.53814 4.22520 1.02609 3.02491 3.11063 3.34009 3.68653 5.71743 4.36248 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 4 2.54340 5.25144 3.08544 2.26116 4.57323 2.93844 3.77562 3.16402 2.15637 3.54413 4.29947 3.06937 3.98307 1.90636 2.27631 2.78448 3.03945 3.30433 5.69596 4.30584 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 5 2.80742 4.60553 3.03488 3.00663 3.75027 3.75527 3.99512 2.85505 2.96509 2.82195 3.70432 3.44240 4.13678 3.28412 1.70631 2.99107 2.71637 2.25126 4.08803 2.68500 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 6 0.79873 4.80369 3.75188 3.30128 4.23217 3.73417 4.30043 3.47436 2.62568 2.67355 4.16603 3.65753 4.27846 3.55654 3.39263 3.10477 3.26506 3.20021 5.62546 4.38073 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 7 1.87189 5.19510 3.10278 2.34538 4.49576 3.59807 3.78982 3.94827 2.07721 2.78342 4.25022 3.08743 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 112 2.97744 4.34172 4.89099 4.29270 2.15622 4.14066 4.37290 1.99207 4.08621 1.47077 3.34871 4.27474 4.48677 4.19532 4.09484 3.45537 3.20749 2.28041 3.65859 2.34804 148 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 113 3.67335 5.79492 4.18087 3.36058 5.39612 4.22750 4.02634 4.66957 1.00397 3.99866 4.87240 3.01383 4.55257 3.14696 1.17829 3.63571 3.78851 4.34332 5.95167 4.85498 149 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 114 3.82401 5.85652 4.43847 3.51338 5.49850 4.32929 4.05513 4.72975 1.81653 4.03695 4.93444 3.82159 4.63617 2.59380 0.63121 3.78720 3.90687 4.42868 5.96889 4.91946 150 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 115 2.77449 4.57034 4.89899 4.35002 1.06265 4.31946 4.29606 2.46252 4.17355 2.16797 3.55145 4.34628 4.65565 4.27859 4.22370 3.63590 3.43456 2.74608 4.63248 2.23261 151 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 116 1.11446 4.53351 4.25399 3.78908 4.22292 3.56321 4.61572 3.47132 3.72682 3.29273 4.18158 3.90215 4.23153 3.98776 3.99740 2.20546 2.28451 1.79922 5.67225 4.47889 152 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 117 3.06301 5.63220 1.94054 1.77435 4.95594 3.61807 3.95964 4.46242 2.79976 3.92851 4.69548 2.45295 3.18413 1.59931 3.33311 2.98823 3.31320 4.01457 6.06075 4.60450 153 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 118 1.26729 4.64087 3.97537 3.52470 4.50727 1.71144 4.53497 2.98282 3.50935 3.58849 4.42667 3.74260 4.17551 3.80129 3.85595 1.77923 3.15194 3.45555 5.87606 4.65277 154 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79563 5.51798 0.61958 0.77255 0.48576 0.95510\n- 119 2.82214 4.27142 3.40454 3.23754 2.28921 3.94307 4.25406 2.48903 3.65892 2.18214 2.42554 3.96244 4.31009 3.86256 3.80699 3.23515 2.75255 1.61855 4.89045 3.70284 155 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00833 4.79161 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,419 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_5\n-LENG 132\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 13\n-EFFN 0.606201\n-CKSUM 1229850914\n-GA 41.3 41.2;\n-STATS LOCAL MSV -9.9043 0.71166\n-STATS LOCAL VITERBI -10.7385 0.71166\n-STATS LOCAL FORWARD -4.0651 0.71166\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52110 4.59252 2.90000 2.58613 3.23952 2.81373 3.87787 2.94344 2.62547 2.29179 3.65479 3.09591 3.65893 2.96471 2.97751 2.74385 2.86770 2.75102 4.34566 3.32980\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13786 3.94833 2.21189 0.61958 0.77255 0.00000 *\n- 1 2.61080 4.26892 3.63887 3.12749 3.34931 3.56929 3.97702 2.45589 2.98405 2.24029 2.14969 3.16580 4.01014 3.34235 3.27274 2.89234 2.88614 2.08842 4.93370 3.68167 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03236 3.84283 4.56518 0.61958 0.77255 0.43113 1.04917\n- 2 2.60683 4.79893 2.96609 2.31582 4.05121 3.40820 3.59356 3.46159 2.24470 3.05389 2.95825 2.80004 3.46750 2.39815 2.62072 2.63708 2.83364 3.14018 5.28245 3.96247 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 3 2.48810 4.29874 3.38016 2.86437 3.61429 3.37797 3.85087 2.49392 2.80297 2.65490 3.55959 2.98293 3.86180 3.14023 3.15759 2.54639 1.98277 2.45716 5.04650 3.80030 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 4 3.35560 4.73521 4.34267 4.07180 0.89533 4.02716 3.91205 2.87019 3.97697 2.22289 3.58930 4.10501 4.48423 4.12412 4.07796 3.62149 3.65686 2.86642 4.13909 2.49678 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 5 3.07188 5.21083 0.81508 2.38412 4.59822 3.26883 3.99905 4.20382 3.09770 3.79876 4.77876 2.94420 3.92702 3.23849 3.62404 3.02585 3.41215 3.83502 5.75203 4.45890 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 6 2.85388 4.59842 3.46928 3.31940 4.30777 3.28165 4.39049 3.87283 3.38321 3.49140 4.54461 3.61838 0.69794 3.76969 3.62001 3.02379 3.30146 3.50953 5.47338 4.42953 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 7 3.01546 5.03341 3.43427 2.83714 4.44402 3.61090 3.65006 3.83181 1.84304 3.32305 4.22753 3.22280'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 125 3.35758 4.81581 3.95056 3.69438 2.29803 3.91876 3.65544 3.35628 3.54972 2.79060 4.02350 3.81747 4.39094 3.83753 3.71781 3.48665 3.64468 3.23046 3.94462 0.84842 126 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 126 2.37590 4.52049 3.11896 2.61723 3.59448 3.43193 2.56221 3.12121 2.56537 2.78303 3.65490 3.07927 3.85097 2.93444 2.95548 2.58289 2.69830 2.85383 4.99474 2.92623 127 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 127 2.86332 5.16092 1.14763 2.23322 4.65860 2.54673 3.85641 4.19158 2.89871 3.75363 4.63042 2.79217 3.83547 3.05102 3.45455 2.81628 3.20034 3.75927 5.84573 4.44868 128 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 128 3.05105 4.38965 4.69227 4.19725 3.51969 4.35699 4.92520 1.34688 4.07984 2.03157 3.33550 4.42760 4.68588 4.35314 4.28780 3.74223 3.32054 1.21459 5.47205 4.26373 129 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 129 2.65968 4.90448 2.80478 2.20372 4.24151 3.36024 3.62286 3.65484 1.89210 3.22378 4.04103 2.90311 3.80954 2.76822 2.72526 2.26878 2.58772 3.30358 5.41987 4.08882 130 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 130 2.76099 4.52874 3.45028 3.35941 4.50000 0.62109 4.47490 4.11821 3.55099 3.76279 4.73927 3.61458 3.92230 3.86916 3.77856 2.93511 3.24813 3.63189 5.57496 4.60451 131 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94833 4.67068 0.61958 0.77255 0.48576 0.95510\n- 131 2.41788 5.25368 1.67890 1.83689 4.57921 2.94582 3.69509 4.05554 2.63287 3.58563 4.40686 2.71357 3.79670 2.84877 3.18491 2.72020 3.06710 3.64781 5.76780 4.31560 132 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09487 3.94833 2.64193 0.61958 0.77255 0.48576 0.95510\n- 132 2.45294 5.16323 2.14028 1.82498 4.45614 3.25128 3.62962 3.92220 2.49138 3.45134 4.26096 2.72792 3.77156 2.31865 3.00144 2.66996 2.98242 3.53113 5.63146 4.20933 133 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02098 3.87445 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,491 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_6\n-LENG 156\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 4\n-EFFN 0.480469\n-CKSUM 676701963\n-GA 28 28;\n-STATS LOCAL MSV -10.4333 0.70884\n-STATS LOCAL VITERBI -10.8774 0.70884\n-STATS LOCAL FORWARD -4.3400 0.70884\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51491 4.19224 3.01598 2.69340 3.18606 2.82583 3.99339 2.65524 2.66948 2.33151 3.62599 3.18740 3.46364 3.26936 3.07981 2.59336 2.98058 2.52833 5.05142 3.30554\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.00000 *\n- 1 2.95727 4.50852 4.03295 3.62537 3.20127 3.82259 4.36408 2.37534 3.39424 1.79836 1.40777 3.90473 4.28321 3.77719 3.60135 3.30472 3.26232 2.37964 5.03996 3.80032 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 2 2.38519 4.41092 2.82921 2.62129 4.15674 3.02804 3.89253 3.67608 2.78532 3.32714 4.17842 2.41876 3.70011 3.12349 3.15858 1.51297 2.80114 3.21659 5.47944 4.14758 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 3 2.86558 5.36560 1.72569 1.45993 4.65335 3.17424 3.70425 4.14816 2.69643 3.68001 4.53875 2.65158 3.78522 2.87328 3.26487 2.76550 3.15184 3.74394 5.83962 4.36604 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 4 3.32016 4.66911 4.31447 3.93625 1.23394 4.14736 3.48817 2.99794 3.80259 2.36956 3.62611 3.88926 4.48102 3.88864 3.91971 3.50761 3.55319 2.93301 3.68512 1.69995 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 5 2.79597 4.34298 4.10389 3.76667 3.53898 3.70781 4.57111 2.05151 3.63422 2.22878 3.50660 3.95894 4.26927 3.99519 3.84818 3.21048 3.15795 1.04455 5.32077 4.05137 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 6 2.62808 4.80325 2.62446 2.37037 4.27637 2.14043 3.69338 3.71765 2.15646 3.30044 4.13946 2.43396 3.77588 2.86622 2.85120 2.65393 2.92949 3.33837 5.48630 4.15315 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 7 3.23896 4.64530 4.21756 3.92924 1.03727 3.93210 3.87075 2.76467 3.83669 2.13835 3.49719 4.00191 4.39'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 149 2.79597 4.34298 4.10389 3.76667 3.53898 3.70781 4.57111 2.05151 3.63422 2.22878 3.50660 3.95894 4.26927 3.99519 3.84818 3.21048 3.15795 1.04455 5.32077 4.05137 155 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 150 3.13813 4.60504 4.16470 3.80463 3.13008 3.96247 4.46520 2.33346 3.57252 0.89440 3.15810 4.08158 4.40057 3.94454 3.75105 3.53174 3.43313 2.36676 5.00363 3.72335 156 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 151 2.93932 5.04683 2.48154 1.04748 4.39116 3.26433 3.84999 3.84201 2.72859 3.46167 4.43654 2.92459 3.86823 3.06606 3.13573 2.92338 3.24349 3.52750 5.56565 4.28806 157 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 152 1.03619 4.18460 3.44716 3.23791 4.03724 3.00953 4.26175 3.16045 3.25377 3.04276 4.07640 3.39135 3.74730 3.59638 3.50528 2.53509 2.81139 2.81753 5.46594 4.26450 158 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 153 3.12548 4.55516 4.41579 3.87798 3.03908 4.24958 4.54232 2.16323 3.67589 1.11668 2.20112 4.18540 4.51639 3.93636 3.87043 3.59847 3.36206 2.24378 5.04035 3.88245 159 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 154 2.73146 4.49123 3.33700 3.17391 4.17018 3.17962 4.25253 3.71175 3.22992 3.34022 4.38950 3.48210 0.85677 3.61917 3.47709 2.89850 3.17184 3.35887 5.36084 4.29068 160 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85706 4.57941 0.61958 0.77255 0.48576 0.95510\n- 155 3.01108 4.53009 3.93376 3.47666 2.43461 3.90634 3.70001 2.72934 3.28277 1.77364 3.43114 3.68930 4.27572 3.58708 3.50348 3.25165 3.25258 2.64727 4.10710 1.65634 161 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17753 3.85706 1.95519 0.61958 0.77255 0.48576 0.95510\n- 156 2.82923 4.88738 2.44531 1.27292 4.21613 3.18096 3.76443 3.63881 2.62579 3.28516 4.27412 2.86614 3.78048 2.98873 3.01195 2.83314 3.13508 3.34197 5.41843 4.14903 162 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02492 3.70445 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,458 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_7\n-LENG 145\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 2\n-EFFN 0.410156\n-CKSUM 1070327326\n-GA 300 300;\n-STATS LOCAL MSV -9.9367 0.70991\n-STATS LOCAL VITERBI -10.7838 0.70991\n-STATS LOCAL FORWARD -4.5568 0.70991\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.26084 4.47650 2.88547 2.79038 3.32603 2.58714 3.79331 3.01765 2.77214 2.34318 3.62472 3.25773 3.46183 3.21271 2.80627 2.67929 2.77438 2.75261 4.55667 3.74908\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.00000 *\n- 1 2.91607 4.47669 3.97466 3.56424 3.18054 3.78157 4.31575 2.34926 3.33559 1.78723 1.51986 3.84998 4.24308 3.72293 3.54889 3.25717 3.22068 2.34683 5.01111 3.76582 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 2 2.66785 4.65925 2.67470 2.55395 4.01198 3.13887 3.86899 3.70882 2.76770 3.36427 4.32126 1.28908 3.78809 3.14305 3.11872 2.73865 3.04827 3.33817 5.32627 3.96647 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 3 2.58222 4.36266 3.24138 3.13285 4.27275 0.84642 4.25586 3.85670 3.30433 3.51938 4.49590 3.40611 3.75153 3.63437 3.54656 2.75243 3.05806 3.39878 5.38491 4.37286 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 4 2.37797 4.22230 3.36858 3.11938 3.90954 3.06336 4.14168 3.02822 3.06093 2.89412 3.95065 3.33890 3.76221 3.45975 3.32197 2.57864 1.29711 2.73075 5.35367 4.12669 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 5 2.92901 4.76980 3.41279 2.94090 4.10658 3.42831 3.77848 3.64481 2.21664 3.17371 4.17737 3.30519 3.93580 3.00375 1.09171 3.01755 3.20075 3.37222 5.21916 4.05087 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 6 2.58222 4.36266 3.24138 3.13285 4.27275 0.84642 4.25586 3.85670 3.30433 3.51938 4.49590 3.40611 3.75153 3.63437 3.54656 2.75243 3.05806 3.39878 5.38491 4.37286 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 7 2.37797 4.22230 3.36858 3.11938 3.90954 3.06336 4.14168 3.02822 3.06093 2.89412 3.95065 3.33890 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 138 2.91016 4.86767 3.08130 2.71818 4.23796 3.40539 3.72463 3.66321 1.13907 3.24459 4.21147 3.14516 3.91208 2.92134 2.42457 2.95774 3.16955 3.37554 5.32291 4.12614 138 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 139 2.92315 4.75033 3.06197 2.81646 3.23915 3.39125 1.30002 3.61494 2.66163 3.11714 4.15592 3.22799 3.94078 3.18226 2.93075 2.99496 3.22481 3.35158 4.70489 3.19234 139 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 140 2.89497 4.98683 2.46342 1.12997 4.32476 3.23093 3.81396 3.76473 2.68582 3.39405 4.37304 2.89823 3.83274 3.03231 3.08593 2.88574 3.19930 3.45656 5.50980 4.23404 140 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 141 2.91016 4.86767 3.08130 2.71818 4.23796 3.40539 3.72463 3.66321 1.13907 3.24459 4.21147 3.14516 3.91208 2.92134 2.42457 2.95774 3.16955 3.37554 5.32291 4.12614 141 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 142 2.58222 4.36266 3.24138 3.13285 4.27275 0.84642 4.25586 3.85670 3.30433 3.51938 4.49590 3.40611 3.75153 3.63437 3.54656 2.75243 3.05806 3.39878 5.38491 4.37286 142 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 143 2.58222 4.36266 3.24138 3.13285 4.27275 0.84642 4.25586 3.85670 3.30433 3.51938 4.49590 3.40611 3.75153 3.63437 3.54656 2.75243 3.05806 3.39878 5.38491 4.37286 143 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 144 1.12022 4.15998 3.39348 3.18346 3.98440 2.98598 4.21351 3.09964 3.19793 2.98423 4.02537 3.35014 3.71873 3.54602 3.45226 2.51166 2.78423 2.76638 5.41870 4.21147 144 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03373 3.80214 4.52449 0.61958 0.77255 0.48576 0.95510\n- 145 2.58222 4.36266 3.24138 3.13285 4.27275 0.84642 4.25586 3.85670 3.30433 3.51938 4.49590 3.40611 3.75153 3.63437 3.54656 2.75243 3.05806 3.39878 5.38491 4.37286 145 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02283 3.79124 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,425 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_8\n-LENG 134\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 4\n-EFFN 1.011719\n-CKSUM 3437315598\n-GA 65 65;\n-STATS LOCAL MSV -9.7340 0.71139\n-STATS LOCAL VITERBI -10.8683 0.71139\n-STATS LOCAL FORWARD -4.3970 0.71139\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45726 4.51390 2.99965 2.51264 3.30876 3.07140 3.74267 2.79815 2.48668 2.46974 3.68622 3.01353 3.55630 3.10668 2.96598 2.58470 2.87902 2.72484 4.71429 3.43968\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.00000 *\n- 1 3.25620 4.60173 4.84878 4.30641 3.26651 4.49656 4.87253 1.53572 4.13844 1.69138 1.51467 4.53774 4.74833 4.32178 4.27754 3.85559 3.49537 2.12896 5.27258 4.15602 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 2 3.10196 5.31419 3.49441 2.80381 4.79089 3.73891 3.66075 4.13466 1.44810 3.53918 4.38197 3.22807 4.08972 2.05970 1.60191 3.07497 3.26180 3.79077 5.56425 4.38127 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 3 2.66449 4.88869 2.80409 1.82844 4.33887 3.34460 3.77185 3.76026 2.59330 3.35359 4.16716 2.96950 3.85679 2.92629 3.05286 1.91489 2.22183 3.37761 5.56869 4.21518 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 4 2.85969 4.41343 4.00807 3.41778 3.36109 3.90700 4.15207 1.83175 3.12733 1.60630 3.27963 3.74342 4.25320 3.53720 2.39384 3.20104 3.08910 2.36945 5.00756 3.81080 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 5 2.77067 5.10132 1.91700 1.78720 4.36096 3.39681 3.72837 2.56008 2.58195 3.35612 4.18674 2.89113 3.87905 2.87600 3.08295 2.75062 3.01937 3.38652 5.59618 4.20507 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 6 2.10958 4.83216 2.98843 2.66381 4.31860 3.38540 3.87976 3.72088 2.59057 3.32446 4.21791 3.12285 3.93740 1.36324 2.94114 2.79460 3.05195 3.36990 5.56927 4.25700 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 7 2.83772 5.22224 2.80772 1.82049 4.54402 3.46997 2.27791 4.00155 1.87149 3.49149 4.29287 2.94863 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 127 2.95357 5.33739 2.68098 1.38635 4.69302 3.46566 3.74763 4.13079 1.71355 3.62087 4.45016 2.95259 3.96160 2.88661 2.76025 2.89752 3.19035 3.74815 5.73480 4.38590 146 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 128 1.45255 4.28615 3.57212 3.37029 4.54467 1.20874 4.46357 3.92969 3.49569 3.65743 4.49494 3.47808 3.82515 3.75732 3.78142 2.53618 2.86487 3.34664 5.87529 4.69446 147 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 129 2.74259 5.06100 1.96738 1.92545 4.31504 3.40060 3.70887 3.73311 2.54581 3.31413 2.48413 2.89970 3.86784 2.85513 3.03705 2.72867 2.98803 3.38829 5.54848 4.16758 148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19624 4.91858 0.61958 0.77255 0.48576 0.95510\n- 130 3.30423 4.66293 4.86264 4.35558 3.27708 4.50949 4.94619 2.13852 4.18154 0.89280 3.10170 4.58633 4.78780 4.37712 4.32523 3.89806 3.56001 1.73317 5.32457 4.18621 149 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14917 4.19624 2.09132 0.61958 0.77255 0.48576 0.95510\n- 131 2.89921 5.26238 2.61926 1.45860 4.60758 3.40868 3.70215 4.03971 1.79844 3.54551 4.38145 2.90069 3.90938 2.84530 2.72871 2.84748 3.13851 3.66593 5.67130 4.32314 150 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02563 4.07270 4.79504 0.61958 0.77255 0.62264 0.76900\n- 132 2.76975 5.05442 2.50818 1.41747 4.49131 3.28326 3.78801 3.94700 2.65302 3.52441 4.36520 2.86899 3.85715 2.95504 3.12108 1.97977 3.07224 3.55121 5.70516 4.31195 151 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02563 4.07270 4.79504 0.61958 0.77255 0.62264 0.76900\n- 133 3.13895 5.27732 2.59108 0.77073 4.65087 3.41364 4.02396 4.14543 2.93090 3.73234 4.70247 3.06556 4.02922 3.23855 3.35698 3.10377 3.44632 3.81040 5.78453 4.51284 152 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02563 4.07270 4.79504 0.61958 0.77255 0.62264 0.76900\n- 134 2.83772 4.69039 3.14717 2.03340 3.68426 3.60465 3.92396 2.91204 2.76738 1.52912 3.63850 3.26633 4.05354 3.17622 3.11318 2.98209 3.08775 2.76488 5.21251 3.92829 153 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01732 4.06439 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-B_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,470 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-B_9\n-LENG 149\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:42 2020\n-NSEQ 8\n-EFFN 0.582031\n-CKSUM 3243789355\n-GA 217 217;\n-STATS LOCAL MSV -10.0733 0.70959\n-STATS LOCAL VITERBI -10.8903 0.70959\n-STATS LOCAL FORWARD -4.7596 0.70959\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52219 4.38292 2.80986 2.63970 3.27976 2.98128 3.92671 2.81283 2.68200 2.42426 3.67536 3.03367 3.73222 3.01709 2.90049 2.66374 2.87821 2.62012 3.88997 3.50550\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19591 3.93142 1.84327 0.61958 0.77255 0.00000 *\n- 1 2.65991 4.48867 3.15030 2.35060 3.55570 3.47967 3.79969 2.76611 2.63356 2.42305 2.31388 3.18113 3.92085 3.05793 2.96654 2.82462 2.91446 2.59864 5.06074 3.79264 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03483 3.77035 4.49269 0.61958 0.77255 0.62038 0.77163\n- 2 2.26691 4.74578 1.99867 2.27679 4.24193 3.13504 3.69623 3.64595 2.60772 3.27676 4.12107 2.79278 2.83017 2.87323 3.09189 2.57615 2.87164 3.26255 5.50967 4.14249 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03483 3.77035 4.49269 0.61958 0.77255 0.40994 1.08972\n- 3 2.57854 4.60601 2.73455 2.50960 3.81286 3.40549 3.66494 3.18169 2.50694 2.83478 2.64369 3.00238 3.82162 2.54810 2.92910 2.66404 2.52765 2.90810 5.15746 3.85994 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 4 2.13241 4.49550 2.95176 2.57822 4.13074 3.15913 3.79867 3.52651 2.65214 3.17283 4.00204 2.13688 3.12074 2.98798 3.06953 2.52762 2.32357 3.12923 5.42173 4.12233 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 5 2.61219 4.24780 3.96906 3.55237 3.66577 3.55086 4.41000 2.16424 3.43845 2.41618 3.56159 3.75209 4.12688 3.77727 3.69295 2.96479 2.36713 1.27311 5.34432 4.11692 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 6 2.49476 4.45413 3.13938 2.69661 3.89279 3.27842 3.79357 3.21098 2.35251 2.93457 3.81315 3.10856 3.80678 3.01544 2.96122 1.78959 2.81317 2.46689 5.24026 3.96416 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 7 2.58423 4.31375 3.57586 3.16606 1.94225 3.42149 3.85673 2.91251 3.13040 2.57368 3.60155 3.42928 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 142 1.49859 4.15296 3.62344 3.20530 3.88846 3.12396 4.15827 2.85118 3.14600 2.84018 3.80385 3.39260 3.79237 3.46243 3.44739 2.53769 2.20870 2.27022 5.36252 4.14841 142 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 143 2.72665 4.89100 3.01078 2.50124 4.16386 3.45786 3.60074 3.57152 1.74948 2.62845 3.97933 2.68225 3.86183 2.52656 2.50819 2.74883 2.94375 3.25647 5.32269 4.03217 143 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 144 2.73940 5.16055 2.19374 2.18283 4.48247 2.81065 3.66043 3.96181 2.53338 3.48879 4.30030 1.98790 3.78656 2.35848 3.04455 2.68670 3.00549 3.56255 5.66313 4.23904 144 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 145 2.67723 4.84507 2.82054 2.45019 4.22398 3.34324 3.66130 3.64896 2.07926 3.22359 4.06258 2.94321 3.82756 2.52480 2.68881 1.82865 2.94055 3.30169 5.41225 4.10049 145 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 146 2.76580 5.26229 2.15837 1.93574 4.55857 3.26226 3.64077 4.04235 2.33139 3.54281 4.34471 2.03212 3.78777 2.56300 3.00819 2.69371 3.02040 3.63239 5.70186 4.26421 146 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 147 2.25027 4.59538 2.96505 2.26317 3.91753 3.33519 3.68828 3.26819 2.52958 2.94790 3.79507 2.73035 3.79500 2.87737 2.95818 2.62144 2.36383 2.68458 5.23733 3.93513 147 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09300 3.93142 2.67088 0.61958 0.77255 0.48576 0.95510\n- 148 2.74352 5.05778 2.53788 1.73028 4.38853 3.30211 3.62714 3.81714 2.03786 3.36368 4.19469 2.81244 3.80456 2.77763 2.75320 2.45354 2.99377 3.45409 5.53501 4.17701 148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14184 3.86990 2.19484 0.61958 0.77255 0.54195 0.87135\n- 149 1.95970 4.17195 3.31515 2.91912 3.82368 3.07058 3.95614 2.97392 2.88511 2.80705 3.75481 3.20053 2.48170 3.22746 3.21620 2.47467 2.68931 2.34531 5.25936 4.01689 149 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 3.75182 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-C_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-C_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,404 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-C_11\n-LENG 127\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 34\n-EFFN 2.203857\n-CKSUM 1944363356\n-GA 80 80;\n-STATS LOCAL MSV -9.9574 0.71237\n-STATS LOCAL VITERBI -10.8487 0.71237\n-STATS LOCAL FORWARD -4.0337 0.71237\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42481 4.50808 2.98225 2.55599 3.43510 3.11579 3.77753 2.85231 2.49496 2.21565 3.66349 3.00127 3.79540 3.01614 2.99487 2.70722 2.91995 2.78995 4.97052 3.28187\n- 2.68622 4.42140 2.77518 2.73115 3.46377 2.40520 3.72517 3.29361 2.67743 2.69378 4.24397 2.90317 2.73762 3.18141 2.89811 2.37864 2.77542 2.98541 4.58500 3.61526\n- 0.93971 1.26683 1.11616 0.96919 0.47705 0.00000 *\n- 1 2.49591 4.74360 2.94360 2.43856 3.95674 3.49227 3.70346 2.93210 2.53113 2.99046 2.49982 2.89164 3.48874 2.62861 2.80876 2.70251 2.62070 3.06119 5.26462 3.95179 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02028 4.30405 5.02639 0.61958 0.77255 0.81745 0.58260\n- 2 2.46211 4.96900 3.00408 2.28354 4.23859 3.26285 3.67092 3.31900 2.27484 3.24151 3.20130 2.60269 3.50886 2.64198 2.91950 2.44826 2.44822 3.31850 5.45010 4.09045 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01864 4.38768 5.11002 0.61958 0.77255 0.35496 1.20799\n- 3 2.41906 4.84944 3.21488 2.46350 3.64765 3.37175 3.81400 3.21961 2.46845 3.09587 2.20680 2.58866 3.67675 2.77471 2.89994 2.81188 2.83679 3.00685 5.37112 3.69581 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01422 4.65604 5.37839 0.61958 0.77255 0.49678 0.93773\n- 4 2.66654 5.02436 3.11624 2.09312 4.28254 3.57212 3.52498 3.38469 2.09764 2.21056 3.74129 2.69713 3.96282 2.78837 3.02327 2.66073 2.74354 3.11162 5.51267 4.16176 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67618 5.39852 0.61958 0.77255 0.52232 0.89929\n- 5 3.08132 5.54051 2.29729 2.51148 4.93113 3.56914 4.01894 4.43178 2.90662 3.93412 4.73560 1.03162 4.12370 3.16250 3.17319 2.31830 3.36115 3.99580 6.08794 4.64279 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67618 5.39852 0.61958 0.77255 0.52232 0.89929\n- 6 2.94925 4.43353 4.33557 3.79051 3.43999 4.03156 4.37527 2.19314 3.63661 0.96262 3.40659 3.46823 3.61057 3.89895 3.82441 3.34441 3.19331 2.51665 5.05572 3.86322 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67618 5.39852 0.61958 0.77255 0.52232 0.89929\n- 7 3.46123 6.17964 0.78001 1.65180 5.45915 3.59765 4.22056 5.03247 3.34487 4.48082 5.36059 3.04321 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69427 5.41661 0.61958 0.77255 0.48576 0.95510\n- 120 3.27042 5.57977 3.49713 2.52510 5.04517 3.90109 3.89660 4.41815 0.85118 3.81814 4.63937 3.05540 4.27698 2.77448 2.25108 3.22839 3.44831 4.04508 5.84887 4.61890 139 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69427 5.41661 0.61958 0.77255 0.48576 0.95510\n- 121 0.86362 4.48566 4.16665 3.68321 4.01627 3.61858 4.50613 2.65108 3.60961 3.02555 3.96894 3.85684 4.23141 3.88707 3.88401 2.54566 3.12522 2.42065 5.50940 4.30463 140 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69427 5.41661 0.61958 0.77255 0.48576 0.95510\n- 122 2.57291 4.77263 3.31079 2.74910 3.96335 3.03801 3.86315 3.10510 2.39116 1.97474 2.84714 3.04974 3.62580 2.89475 2.42548 2.86351 2.99818 3.07748 5.30985 4.01942 141 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03215 4.69427 3.79466 0.61958 0.77255 0.48576 0.95510\n- 123 2.64719 5.24754 2.88060 1.95699 4.58323 2.55245 3.72312 4.06277 2.05675 3.54890 4.29143 3.00305 3.57187 2.41679 2.95416 2.41921 2.82131 3.17239 5.68603 4.28037 142 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07527 4.67605 2.76165 0.61958 0.77255 0.52257 0.89894\n- 124 2.39477 5.24864 2.18077 2.19373 4.58547 3.29897 3.71241 4.06739 1.87978 3.55069 4.29337 2.64471 3.55444 2.81297 2.95090 2.57855 2.98509 3.22370 5.68607 4.27688 143 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17088 4.61560 1.91610 0.61958 0.77255 0.63171 0.75861\n- 125 2.71116 5.19753 2.74780 1.82172 4.52957 3.00271 3.67015 4.00857 2.14826 3.28085 4.24382 2.77856 3.87043 2.61162 2.91027 2.20019 2.78223 3.58159 5.63672 4.22974 144 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07881 4.46201 2.74503 0.61958 0.77255 0.84377 0.56227\n- 126 2.67334 4.98709 2.85661 1.99422 3.68130 3.47514 3.67654 3.69649 2.36154 3.26076 4.04884 2.81244 3.86967 2.68094 2.92746 2.20967 2.72994 2.58255 5.46658 4.10415 145 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11326 4.40158 2.35574 0.61958 0.77255 0.90909 0.51566\n- 127 2.51589 5.09131 2.68287 2.18000 4.40646 3.12328 3.63610 3.87100 2.22394 3.38655 4.14776 2.78897 3.17462 2.74671 2.88318 2.03196 2.89555 3.19080 5.54889 4.15588 146 s - - -\n- 2.68635 4.42255 2.77549 2.73069 3.46384 2.40481 3.72524 3.29384 2.67747 2.69385 4.24720 2.90315 2.73756 3.18097 2.89789 2.37873 2.77506 2.98548 4.58507 3.61533\n- 0.67240 0.71434 * 1.06428 0.42309 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-C_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_III-C_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,563 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_III-C_14\n-LENG 180\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 7\n-EFFN 0.864746\n-CKSUM 390311613\n-GA 110 110;\n-STATS LOCAL MSV -10.4025 0.70672\n-STATS LOCAL VITERBI -11.3021 0.70672\n-STATS LOCAL FORWARD -4.7276 0.70672\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60910 4.68221 2.84369 2.39286 3.34953 3.19476 3.72374 2.76248 2.37913 2.32482 3.68432 2.86252 3.93002 3.06584 2.99191 2.77035 3.06522 2.75789 4.68156 3.40787\n- 2.68626 4.42233 2.77527 2.73131 3.46362 2.40507 3.72502 3.29362 2.67728 2.69363 4.24510 2.90332 2.73747 3.18154 2.89809 2.37879 2.77527 2.98526 4.58485 3.61511\n- 0.41486 1.74867 1.79840 0.94834 0.49002 0.00000 *\n- 1 2.62922 4.58739 3.07594 2.60630 3.75028 3.44087 3.69743 3.15358 2.48658 2.79174 2.38751 2.58284 3.86730 2.53388 2.84692 2.73453 2.87228 2.89877 5.11509 3.82152 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94179 4.66413 0.61958 0.77255 0.65392 0.73397\n- 2 2.56376 4.52384 3.10460 2.63362 3.78252 3.37686 3.73279 2.66585 2.55555 2.82803 3.72175 3.08413 3.83971 2.49257 2.92999 1.97576 2.83613 2.87255 5.15058 3.85855 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94179 4.66413 0.61958 0.77255 0.65392 0.73397\n- 3 2.77421 5.28589 2.08366 1.77460 4.58700 3.26130 3.64589 4.07507 2.14014 3.56989 4.37023 2.33467 3.79067 2.78378 3.02124 2.69836 3.03015 3.65882 5.72419 4.28047 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94179 4.66413 0.61958 0.77255 0.51446 0.91086\n- 4 2.57950 4.69542 2.63305 2.46452 3.93796 2.95560 3.65397 3.33039 2.48733 2.97028 3.12559 2.46748 3.81307 2.82702 2.93935 2.63816 2.82145 2.63713 5.24228 3.92343 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02671 4.03170 4.75405 0.61958 0.77255 0.43489 1.04225\n- 5 2.60310 4.57358 2.75042 2.34155 3.71987 3.48136 3.70431 3.12774 2.58747 2.52167 3.07680 3.08340 3.87214 2.92426 3.01161 2.71060 2.83511 2.86468 5.09448 2.62276 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 6 2.63422 4.75142 3.01820 2.51123 4.00778 3.43622 3.67632 3.40977 2.21386 3.03213 2.77795 2.23367 3.85240 2.84660 2.86039 2.38344 2.87438 3.10188 5.28578 3.97482 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 7 3.38672 4.71261 4.91129 4.38934 3.15854 4.62387 4.95248 1.86293 4.19799 0.82724 2.97901 4.65016 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 173 3.29538 5.05788 3.39572 3.18638 3.48168 3.67531 0.72205 4.03609 3.02417 3.49646 4.56360 3.58327 4.24429 3.55767 3.27197 3.36588 3.60974 3.76688 4.94181 3.42711 176 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 174 0.71549 4.33020 3.72422 3.53485 4.30893 3.14679 4.52597 3.47177 3.55780 3.34160 4.35235 3.61808 3.90950 3.87781 3.78673 2.68122 2.97569 3.08361 5.71146 4.54116 177 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 175 3.14639 5.25788 3.57351 2.88022 4.74146 3.74409 3.66179 4.07897 1.12575 3.49760 4.37078 3.27158 4.10596 2.79392 1.66380 3.13524 3.30341 3.75895 5.51715 4.36598 178 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 176 0.97954 4.19574 3.58871 3.33417 4.34385 2.99566 4.36351 3.67693 3.37597 3.44667 4.30342 3.42505 3.76324 3.66359 3.65340 1.97156 2.77606 3.15772 5.71945 4.51265 179 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 177 2.67941 4.46451 3.44087 2.86582 3.56109 3.60581 3.80787 2.90339 2.35633 2.03552 2.41672 3.28815 3.98043 2.68774 2.96498 2.86395 2.90471 2.70860 5.00676 3.77285 180 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 178 2.85774 5.05399 2.55305 1.75751 4.60229 1.37253 3.93047 4.07133 2.84566 3.65545 4.51972 2.96586 3.92249 3.12129 3.30569 2.85848 3.19145 3.66239 5.79503 4.45553 181 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02459 4.11332 4.83566 0.61958 0.77255 0.48576 0.95510\n- 179 3.08021 5.65800 1.01513 1.84802 4.94552 3.27639 3.87552 4.47963 2.95000 3.98517 4.86800 2.74590 3.92807 3.05443 3.57210 2.94816 3.38286 4.05043 6.12625 4.60761 182 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19485 4.11332 1.82828 0.61958 0.77255 0.48576 0.95510\n- 180 2.74466 5.14787 1.71759 2.20109 4.48723 3.25553 3.67440 3.95835 2.17885 3.49497 4.31096 2.75977 3.79536 2.82395 3.04211 2.29823 3.01508 3.56015 5.66905 4.24926 183 d - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67725 2.69357 4.24692 2.90325 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.22632 1.59681 * 0.27743 1.41769 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_IV-A_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr5gr11_IV-A_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,398 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr5gr11_IV-A_10\n-LENG 125\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 6\n-EFFN 0.635742\n-CKSUM 3345017869\n-GA 300 300;\n-STATS LOCAL MSV -9.9503 0.71264\n-STATS LOCAL VITERBI -10.5966 0.71264\n-STATS LOCAL FORWARD -3.9971 0.71264\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.21145 4.38661 2.75064 2.76185 3.52113 3.09534 3.81312 2.70396 2.72772 2.50517 3.74666 3.16056 3.54687 3.07219 2.92287 2.64872 2.68652 2.66441 4.36907 3.72951\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.00000 *\n- 1 2.78549 4.51546 3.51216 3.04070 3.40692 3.65521 3.95093 2.74878 2.78369 2.18783 1.75925 3.43068 4.07542 2.69170 3.06069 2.99986 3.03978 2.66087 5.01939 3.76205 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 2 2.54006 4.56024 3.02453 2.59597 3.92144 3.30608 3.00532 3.35807 2.56061 3.00169 3.85840 3.04672 2.97101 2.95143 2.94664 2.63700 1.89161 3.03516 5.24872 3.94283 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 3 2.43816 4.40791 3.05494 2.78156 4.10203 3.13067 3.96117 3.45369 2.82718 3.19471 4.07822 2.52896 3.78026 3.20171 3.17285 2.57523 1.44479 3.06873 5.44977 4.16080 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 4 2.59520 4.40389 3.44833 3.05018 3.67174 3.39035 4.04655 2.35260 2.96131 2.59472 3.68193 3.38901 1.65024 3.34778 3.27363 2.79929 2.94320 2.61666 5.20266 3.92267 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 5 2.43816 4.40791 3.05494 2.78156 4.10203 3.13067 3.96117 3.45369 2.82718 3.19471 4.07822 2.52896 3.78026 3.20171 3.17285 2.57523 1.44479 3.06873 5.44977 4.16080 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 6 2.58477 4.62465 2.98726 2.28924 3.89522 3.38291 3.69470 3.23958 2.51566 2.57798 3.77977 3.01305 2.55913 2.88780 2.92701 2.66808 2.49303 2.95275 5.22386 3.92577 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 7 2.93195 5.48149 1.63959 1.37194 4.76902 3.21661 3.75524 4.28069 2.76301 3.79094 4.64584 2.68435 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 118 3.06131 5.02748 3.24361 2.84794 4.43589 3.53970 3.81477 3.87134 0.91399 3.41580 4.37273 3.26794 4.03379 3.00127 2.45312 3.09738 3.30776 3.57393 5.45156 4.27844 122 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 119 2.26948 4.81052 2.67349 1.64485 4.24707 3.27278 3.73341 3.57022 2.56635 3.24376 4.09516 2.90353 3.80628 2.90211 3.01046 2.66385 2.53423 3.22360 5.50712 4.16195 123 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 120 1.82407 4.33537 3.16015 2.80195 4.08708 3.10569 3.94646 3.41776 2.84184 3.14230 3.99503 2.56422 3.74349 3.17635 3.21315 2.50872 1.85695 3.02018 5.42849 4.16665 124 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10934 3.96862 2.46891 0.61958 0.77255 0.48576 0.95510\n- 121 2.79398 5.15087 2.57699 1.74320 4.47250 3.34423 3.60926 3.90728 2.02315 3.41368 4.24046 2.82676 3.82713 2.34127 2.64180 2.74904 3.02716 3.53921 5.55646 4.20776 125 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11935 3.89012 2.38535 0.61958 0.77255 0.55892 0.84823\n- 122 1.69323 4.55093 2.73566 2.15221 4.06552 3.17345 3.80144 3.30480 2.65845 3.07144 3.98618 2.96504 3.76674 3.01615 3.04420 2.62775 2.87708 2.98680 5.39898 4.09953 126 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80442 4.52677 0.61958 0.77255 0.62746 0.76345\n- 123 3.08996 4.50130 4.40905 3.89927 3.09851 4.23881 4.57341 1.78164 3.70231 1.17520 2.98144 4.19483 4.53055 3.98734 3.90485 3.60775 3.33923 2.00737 5.08269 3.86580 127 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80442 4.52677 0.61958 0.77255 0.62746 0.76345\n- 124 2.60679 4.85770 1.89825 2.23103 4.36343 2.47751 3.70372 3.82801 2.63397 3.40629 4.23714 2.76278 2.85895 2.87625 3.13983 2.60794 2.92656 3.41560 5.59449 4.21230 128 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03365 3.80442 4.52677 0.61958 0.77255 0.62746 0.76345\n- 125 2.60726 4.76437 2.26291 2.35617 3.16170 3.32993 3.61171 3.37896 2.18544 3.00650 3.86655 2.87725 3.78033 2.79649 2.90586 2.63958 2.85268 3.07736 5.21842 3.84255 129 k - - -\n- 2.68625 4.42232 2.77526 2.73130 3.46286 2.40506 3.72501 3.29361 2.67748 2.69362 4.24697 2.90334 2.73710 3.18153 2.89808 2.37894 2.77526 2.98525 4.58484 3.61510\n- 0.23850 1.55026 * 0.93416 0.49909 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1655 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr6gr7_III-B_III-C_1\n-LENG 544\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:43 2020\n-NSEQ 97\n-EFFN 1.340973\n-CKSUM 1515714198\n-GA 46 46;\n-STATS LOCAL MSV -12.4710 0.69763\n-STATS LOCAL VITERBI -13.0102 0.69763\n-STATS LOCAL FORWARD -5.9018 0.69763\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59889 4.40708 3.07136 2.64753 3.23088 2.73888 3.61999 2.89386 2.62324 2.51357 3.66965 3.08890 3.43202 2.91253 2.83695 2.64500 2.85786 2.76606 4.07246 3.44927\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14248 4.36029 2.12011 0.61958 0.77255 0.00000 *\n- 1 3.02001 4.46718 4.39586 3.68023 2.88505 4.14524 4.41951 2.40064 3.69023 1.62011 1.41468 4.09198 4.45002 3.90785 3.87943 3.45231 3.17888 2.40251 4.98818 3.80808 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08014 4.23946 2.77104 0.61958 0.77255 0.50157 0.93033\n- 2 2.36760 4.61703 2.99188 2.61296 3.80501 3.32013 3.64032 3.12266 2.54710 2.85271 3.03017 3.08017 3.17271 2.93183 2.96738 2.41563 2.64163 2.67445 5.15796 3.43969 2 a - - -\n- 2.68626 4.42244 2.77502 2.73120 3.46373 2.40532 3.72492 3.29288 2.67756 2.69367 4.24691 2.90335 2.73686 3.18148 2.89816 2.37900 2.77513 2.98526 4.58496 3.61522\n- 0.48277 1.18981 2.54275 1.10872 0.40045 0.51273 0.91344\n- 3 2.31598 5.02682 2.37062 2.26853 4.14805 3.27015 3.52019 3.59672 2.31633 3.20956 3.99318 2.45599 3.50813 2.70445 2.85187 2.58015 2.85938 3.33718 5.48694 4.10367 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02849 4.23709 4.29463 0.61958 0.77255 0.48186 0.96138\n- 4 2.30584 4.35058 2.96534 2.48836 4.01068 3.42113 3.18920 3.28002 2.47707 2.82839 3.86216 2.74251 3.39128 2.73945 2.96371 2.28455 2.84663 3.11068 4.77148 3.44570 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02015 4.31051 5.03286 0.61958 0.77255 0.55549 0.85282\n- 5 2.70650 5.20775 2.33401 2.13589 4.54210 3.42055 3.64770 4.02485 2.01321 3.50608 4.25648 2.23095 3.84346 2.70030 2.68962 2.51869 2.85472 3.59366 5.64079 4.22805 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02975 4.31051 4.14230 0.61958 0.77255 0.55549 0.85282\n- 6 2.65269 5.09528 2.71452 2.06800 4.41555 3.43090 3.37345 3.88170 2.01102 2.80193 4.14357 2.78160 3.82517 2.57651 2.65027 2.61078 2.88325 3.47280 5.54064 3.64257 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30110 5.02345 0.61958 0.77255 0.50890 0.91919\n- 7 2.99027 4.36815 4.61613 4.06223 3.46312 4.23116 4.64972 1.64925 3.94683 2.27579 3.28604 4.263'..b'.68619 4.42226 2.77518 2.73124 3.46355 2.40509 3.72495 3.29355 2.67741 2.69356 4.24690 2.90346 2.73740 3.18145 2.89800 2.37887 2.77520 2.98519 4.58478 3.61504\n- 0.23982 2.96254 1.82300 0.44879 1.01721 0.54724 0.86404\n- 537 2.64671 5.09715 2.31854 2.10948 4.13559 2.64193 3.60650 3.87954 2.33162 3.38866 4.15097 2.69441 3.79701 2.54305 2.84069 2.48401 2.83079 3.47115 5.54703 4.06095 576 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02374 4.14823 4.87057 0.61958 0.77255 0.44443 1.02496\n- 538 3.50666 4.82174 4.97058 4.47695 1.01731 4.61405 4.39215 2.56433 4.31145 1.59205 2.91946 4.54673 4.84434 4.36972 4.38519 3.96857 3.73065 2.67611 4.59328 3.06791 577 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11561 4.30783 2.34640 0.61958 0.77255 0.53875 0.87581\n- 539 2.63454 5.01694 2.89721 2.16759 4.31725 3.42343 3.61120 3.47460 2.04309 3.29992 3.96250 2.84864 3.81588 2.31098 2.74231 2.56760 2.47621 3.28447 5.47465 4.09984 578 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02199 4.22418 4.94652 0.61958 0.77255 0.47298 0.97588\n- 540 2.85569 5.20111 3.18291 2.53144 4.57602 3.58998 3.55659 3.99195 1.56075 3.12651 4.25593 3.00583 3.96425 2.18973 2.08882 2.76999 2.97044 3.61278 5.56651 4.26614 579 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31672 5.03906 0.61958 0.77255 0.54724 0.86404\n- 541 2.73936 4.22099 4.13347 3.44605 3.19548 3.84275 4.13704 2.35398 3.31503 1.33539 3.22322 3.79293 4.19869 3.50587 3.61996 3.13060 2.97061 2.01545 4.83058 3.51684 580 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31672 5.03906 0.61958 0.77255 0.46201 0.99430\n- 542 3.85978 5.07068 4.93043 4.61360 1.80217 4.62257 3.66286 3.61108 4.42316 2.96938 4.19073 4.30082 4.92324 4.36712 4.42460 3.77918 4.07567 3.50522 0.95925 1.89014 581 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17785 4.35444 1.89656 0.61958 0.77255 0.49440 0.94145\n- 543 2.53721 4.59423 3.03574 2.73170 4.36063 1.55823 3.97968 3.78430 2.66772 3.40900 4.23449 3.14177 2.27175 3.17545 3.23103 2.59754 2.78117 3.34166 5.63552 4.34361 582 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04114 4.19914 3.67704 0.61958 0.77255 0.68573 0.70062\n- 544 2.61218 4.98872 2.71307 2.27129 4.14667 3.07369 3.54696 3.67112 2.30037 3.16174 3.96375 2.51224 3.74591 2.52519 2.81488 2.54896 2.44951 3.17002 5.45363 4.07632 583 e - - -\n- 2.68627 4.42234 2.77523 2.73092 3.46363 2.40518 3.72504 3.29363 2.67743 2.69364 4.24699 2.90344 2.73723 3.18140 2.89796 2.37890 2.77522 2.98517 4.58455 3.61512\n- 0.36639 1.18166 * 0.57831 0.82290 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,677 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr6gr7_III-B_III-C_2\n-LENG 218\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:44 2020\n-NSEQ 11\n-EFFN 1.646240\n-CKSUM 2486930461\n-GA 51 51;\n-STATS LOCAL MSV -10.6123 0.70434\n-STATS LOCAL VITERBI -11.5015 0.70434\n-STATS LOCAL FORWARD -4.9334 0.70434\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66828 4.60323 2.93086 2.62892 3.22711 2.71836 3.65122 2.82365 2.58422 2.47014 3.76324 3.07249 3.09073 3.13884 2.99347 2.69172 2.83226 2.69360 4.89971 3.38401\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.00000 *\n- 1 2.39887 5.04617 3.01476 2.31047 4.33103 2.99321 3.69145 3.23566 2.24631 3.32503 3.40069 2.22826 3.88918 2.81239 2.59192 2.49922 2.92844 3.40416 5.51670 4.14689 1 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 2 2.71000 4.75311 3.22258 2.21462 2.60576 3.57557 3.78059 3.34713 1.96749 2.99065 3.24040 3.15206 3.96132 2.97083 2.61202 2.79182 2.93968 3.06442 3.88051 3.97514 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 3 2.70108 4.54546 3.40012 2.85238 3.69708 3.62022 3.87553 3.08760 2.81956 2.00929 3.65732 2.51907 4.01570 3.14620 3.21015 2.15951 2.58521 2.84156 5.10844 2.87069 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 4 2.70187 5.03283 2.62160 2.46757 4.31134 3.50122 3.69881 2.72976 2.12190 2.92579 4.09258 2.33814 3.89485 2.61375 2.94011 2.70182 2.50835 3.38667 5.50716 4.14148 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 5 2.70247 4.85122 3.11273 1.89869 2.67620 3.53643 3.75274 3.48715 2.56939 3.10644 3.93093 3.08364 3.30018 2.66779 3.02544 2.27686 2.93554 2.82365 5.36619 4.04169 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 6 2.69721 4.97477 2.79454 2.49470 4.23634 3.06930 3.70918 3.01070 2.09406 2.80108 4.03908 2.29759 3.90195 2.84320 2.70840 2.71075 2.92835 2.82053 5.46088 4.10821 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 7 2.70076 4.58420 3.36141 2.79758 2.49924 3.61638 3.84178 3.12600 2.36354 2.23322 3.67805 2.7827'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 211 2.67848 3.31677 3.18388 2.63686 4.20390 3.48991 3.80941 3.62022 2.59787 3.22627 4.03946 2.35394 3.93318 2.96611 2.32408 1.82569 2.61891 3.27279 5.46486 4.14431 348 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 212 2.19017 4.26152 3.99542 3.41633 3.35192 3.79131 4.08080 2.66765 3.29647 1.50427 3.34850 3.69627 4.16391 3.56666 3.00008 3.06990 2.95943 2.13930 4.86544 3.15985 349 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 213 3.21027 5.31137 2.20139 2.87901 5.15845 0.62025 4.47962 4.74584 3.58659 4.31093 5.19970 3.38602 4.27231 3.71391 4.09563 3.23769 3.62729 4.22424 6.30350 5.03095 350 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 214 4.25304 5.48596 4.81062 4.68797 2.59265 4.59685 4.08627 4.19870 4.53687 3.48295 4.80920 4.56482 5.07076 4.67811 4.57545 4.31058 4.55042 4.10134 4.24716 0.34693 351 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 215 2.60700 4.54961 3.70371 3.63097 4.96215 0.61033 4.80917 4.50238 3.89792 4.17031 4.98595 3.72498 4.07086 4.12537 4.15795 2.24594 3.14900 3.78206 6.26291 5.08305 352 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 216 2.72454 4.80042 3.21335 2.64524 4.01151 3.57731 3.77127 2.90771 2.37458 2.72498 3.88062 3.14177 3.96237 2.49433 2.12319 2.53259 2.95254 3.11867 5.31376 2.70541 353 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 217 2.90238 4.34705 4.41020 3.84009 1.45976 2.94540 4.24773 2.60946 3.70232 1.77583 2.82647 4.01139 4.36134 3.89531 3.85278 3.31198 3.13766 2.50397 4.79059 3.49926 354 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.49156 5.21390 0.61958 0.77255 0.48576 0.95510\n- 218 2.75909 5.18796 2.08561 1.86390 4.49521 3.48604 3.72139 3.95333 2.23690 3.47701 4.24650 2.96590 3.90952 2.83737 2.98728 2.73083 2.67952 2.49578 5.64464 4.24803 355 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01133 4.48610 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-B_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-B_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,794 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr6gr7_III-B_III-C_3\n-LENG 257\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:44 2020\n-NSEQ 8\n-EFFN 1.667969\n-CKSUM 1289697966\n-GA 47 47;\n-STATS LOCAL MSV -10.8457 0.70264\n-STATS LOCAL VITERBI -11.7520 0.70264\n-STATS LOCAL FORWARD -4.9945 0.70264\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64410 4.63448 2.94080 2.60127 3.25616 2.80394 3.66760 2.84670 2.54124 2.47605 3.74946 3.03743 3.18144 3.12705 2.95627 2.65774 2.85333 2.70656 4.81238 3.34766\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09325 4.50028 2.55197 0.61958 0.77255 0.00000 *\n- 1 2.68145 4.53423 3.36812 2.27658 3.69844 3.60272 3.84861 3.05386 2.77931 2.26790 2.37607 3.26702 3.99202 3.10918 3.17312 2.40693 2.47748 2.81126 5.10529 3.84635 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42498 5.14732 0.61958 0.77255 0.60274 0.79255\n- 2 2.68468 4.86264 3.09280 2.53785 4.09839 3.51545 2.95586 2.82335 2.11264 3.11987 3.93777 2.47598 3.90651 2.87423 2.96362 2.25788 2.91587 2.74905 5.36774 4.03960 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42498 5.14732 0.61958 0.77255 0.60274 0.79255\n- 3 2.69349 4.38643 3.61318 3.04516 2.59924 3.68319 3.94069 2.41601 2.02993 2.56102 3.48003 3.43841 3.03235 3.28760 3.31566 2.93465 2.92615 2.23996 4.97507 3.74228 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42498 5.14732 0.61958 0.77255 0.60274 0.79255\n- 4 2.94221 4.42911 4.20158 3.64432 2.80953 3.96504 3.91822 2.33869 3.45462 2.55831 3.53529 3.82963 4.32343 3.71956 2.79287 3.25636 3.17024 2.70830 2.61221 1.51643 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42498 5.14732 0.61958 0.77255 0.60274 0.79255\n- 5 2.69920 4.65687 3.27904 2.71594 3.83697 3.58394 2.95661 2.53759 2.17182 2.88489 2.41487 2.62484 3.96883 3.01016 3.03476 2.81127 2.92840 2.95633 5.19288 3.91425 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42498 5.14732 0.61958 0.77255 0.41900 1.07207\n- 6 2.73499 5.16941 2.96311 1.87330 4.49014 3.49786 3.69261 3.95311 1.89244 3.46040 3.26061 2.52376 2.86925 2.80167 2.89496 2.70905 2.96585 3.54777 5.61360 4.22590 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.50028 5.22262 0.61958 0.77255 0.48576 0.95510\n- 7 2.70432 4.82978 3.15340 2.17537 3.07463 3.55082 3.75567 2.69489 2.26426 2.68211 3.90638 2.68409'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.50028 5.22262 0.61958 0.77255 0.48576 0.95510\n- 250 2.58579 4.53266 3.72406 3.63156 4.96105 0.67575 4.79817 4.48887 3.88210 4.15314 4.95997 3.71804 4.05849 4.10673 4.14867 1.99684 3.12639 3.76466 6.26506 5.08491 351 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.50028 5.22262 0.61958 0.77255 0.48576 0.95510\n- 251 2.72227 4.59543 3.39846 2.82674 3.75954 3.63619 3.85128 2.49969 2.40273 2.39985 3.68927 3.28089 4.01748 3.09962 2.09219 2.46865 2.95108 2.88575 5.14500 3.00289 352 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.50028 5.22262 0.61958 0.77255 0.48576 0.95510\n- 252 2.88944 4.33920 4.38694 3.81685 1.45080 2.87957 4.23577 2.61888 3.68090 1.90377 2.65937 3.99222 4.34842 3.87801 3.83580 3.29470 3.12523 2.50540 4.79002 3.50011 353 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.50028 5.22262 0.61958 0.77255 0.48576 0.95510\n- 253 3.34771 6.04232 1.19585 1.11598 5.31759 3.49565 4.10712 4.88825 3.21356 4.34244 5.22113 2.94464 4.15935 3.28228 3.87592 3.18965 3.65195 4.42287 6.47596 4.90724 354 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.50028 5.22262 0.61958 0.77255 0.48576 0.95510\n- 254 2.20653 4.34445 3.75341 2.70920 3.48239 2.74184 4.01686 2.36591 3.12490 2.19669 3.45859 3.54582 4.11552 3.41007 3.43661 2.99737 2.94986 1.89775 4.96092 3.74163 355 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09325 4.50028 2.55197 0.61958 0.77255 0.48576 0.95510\n- 255 2.75187 5.10783 3.04873 2.50305 4.46916 2.63678 3.70349 3.91200 2.09204 3.42773 4.20616 3.02421 3.08163 2.82059 1.88379 2.32358 2.98579 3.52072 5.58064 4.22885 356 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42498 5.14732 0.61958 0.77255 0.60274 0.79255\n- 256 2.73297 5.22365 2.28750 2.00124 4.55049 3.45339 3.68302 4.03140 2.13618 3.52090 4.27318 2.37300 3.87543 2.78999 2.94506 2.38321 2.96857 3.60544 5.66290 3.12489 357 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20282 4.42498 1.76259 0.61958 0.77255 0.60274 0.79255\n- 257 2.64984 4.71028 2.41814 2.57135 3.91010 3.50145 3.72016 2.63641 2.12547 2.92174 2.71414 3.07152 3.89430 2.90396 2.98244 2.72634 2.88189 2.97829 5.24293 3.93922 358 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01456 4.23672 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-C_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr6gr7_III-C_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,767 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr6gr7_III-B_III-C_4\n-LENG 248\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:44 2020\n-NSEQ 32\n-EFFN 1.691406\n-CKSUM 1923563834\n-GA 91 91;\n-STATS LOCAL MSV -10.8604 0.70300\n-STATS LOCAL VITERBI -11.6594 0.70300\n-STATS LOCAL FORWARD -4.9762 0.70300\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61489 4.56811 3.00344 2.57918 3.09024 2.82007 3.74028 2.83062 2.49608 2.52153 3.73501 3.07130 3.25674 3.08084 2.97038 2.67582 2.86492 2.74886 4.52297 3.38770\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50960 5.23194 0.61958 0.77255 0.00000 *\n- 1 2.77186 4.19594 4.40778 3.81638 2.91968 3.56115 4.23615 1.73755 3.10965 1.56722 3.27002 3.96044 4.27474 3.86138 3.79306 3.21537 3.00461 2.08721 4.83401 3.65084 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50960 5.23194 0.61958 0.77255 0.48576 0.95510\n- 2 2.43783 5.15771 2.65824 2.19194 4.01993 3.48246 3.67219 3.46359 2.23097 3.25889 4.20424 2.63261 3.87563 2.43028 2.80251 2.20939 2.81100 3.53655 5.60366 4.20631 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50960 5.23194 0.61958 0.77255 0.48576 0.95510\n- 3 2.52079 4.23209 3.22441 2.66432 3.67307 3.57336 3.79081 3.00013 2.25257 2.55250 3.80769 2.51591 3.65130 2.75283 2.88391 2.49872 2.72583 3.03010 4.49392 3.47234 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50960 5.23194 0.61958 0.77255 0.48576 0.95510\n- 4 2.72643 4.32293 3.34726 3.25748 3.16763 3.75633 3.62227 2.77136 3.18327 1.28144 3.03157 3.59155 4.13194 3.45915 3.46945 2.84885 2.95890 2.57444 4.88991 3.65668 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50960 5.23194 0.61958 0.77255 0.48576 0.95510\n- 5 2.80043 4.40124 3.92062 3.35987 3.50115 3.82705 4.15368 2.13636 3.25985 2.24788 3.14731 3.69190 1.57683 3.55819 3.54622 2.95327 3.04670 2.48869 5.04597 3.83239 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50960 5.23194 0.61958 0.77255 0.48576 0.95510\n- 6 2.56659 5.06298 2.87659 2.45981 4.35160 3.50132 3.69420 3.79847 1.98756 2.93404 4.11944 2.85363 2.42294 2.72236 2.69752 2.49124 2.93421 3.27020 4.67572 4.15830 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.50960 5.23194 0.61958 0.77255 0.48576 0.95510\n- 7 2.70296 3.99723 3.74325 3.17303 2.94518 2.35761 3.98263 2.81571 3.10672 2.28092 3.44506 3.2605'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21612 4.93847 0.61958 0.77255 0.84983 0.55772\n- 241 2.61216 4.39267 3.39601 2.35803 3.27120 3.56652 3.81288 2.50634 2.79492 2.14344 3.49261 2.88881 3.94853 3.10935 3.17106 2.68560 2.70813 2.52520 4.97013 3.72365 288 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21612 4.93847 0.61958 0.77255 0.84983 0.55772\n- 242 2.43395 4.32731 2.57356 2.21189 4.23624 3.20193 3.61743 3.67854 2.22477 2.89949 4.01505 2.92030 3.29506 2.74055 2.73811 2.53253 2.85035 3.31148 5.43014 3.62796 289 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21612 4.93847 0.61958 0.77255 0.84983 0.55772\n- 243 2.53094 4.97791 2.61616 1.77530 4.25522 3.41649 3.63906 3.69563 2.42123 2.92584 4.04392 2.91667 3.82633 2.76743 2.90198 2.41291 2.75053 3.33168 5.45659 3.65600 290 e - - -\n- 2.68617 4.42248 2.77525 2.73104 3.46301 2.40529 3.72492 3.29333 2.67725 2.69346 4.24713 2.90328 2.73755 3.18157 2.89812 2.37886 2.77523 2.98532 4.58500 3.61526\n- 0.76510 0.83898 2.27730 1.03386 0.43949 0.84983 0.55772\n- 244 2.58032 4.35503 3.37717 2.81149 3.24732 3.30919 3.78208 2.60330 2.40575 2.45736 3.45568 2.87920 3.91849 3.08328 3.14211 2.49690 2.81206 2.42054 4.13523 3.68289 294 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02453 4.11586 4.83821 0.61958 0.77255 0.93173 0.50066\n- 245 2.67094 5.02238 2.87529 1.82737 4.32330 3.41682 3.61141 3.76211 2.01980 3.07471 4.08490 2.73797 3.82496 2.59452 2.75176 2.65770 2.89955 3.11944 5.46994 4.11114 295 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02453 4.11586 4.83821 0.61958 0.77255 0.73128 0.65641\n- 246 2.51875 4.80958 2.88176 2.36939 3.66092 2.34012 3.09567 3.46034 2.46391 2.90450 3.88338 2.98669 3.84396 2.81359 2.80703 2.54418 2.85395 2.98298 5.31572 3.98342 296 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02193 4.22672 4.94907 0.61958 0.77255 0.84025 0.56493\n- 247 2.64010 4.22952 3.43472 3.18476 3.03391 3.67271 3.91767 2.67611 2.90130 2.13607 3.32562 3.51018 4.04627 3.37647 3.37976 2.93961 2.87202 2.25588 2.21902 3.48609 297 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02193 4.22672 4.94907 0.61958 0.77255 0.84025 0.56493\n- 248 2.63539 4.98270 2.94540 2.00014 4.27002 3.42981 3.62003 3.71327 2.20012 2.80881 4.04045 2.65606 3.82228 2.53902 2.70422 2.52283 2.86544 3.14972 5.44836 3.68815 298 e - - -\n- 2.68644 4.41974 2.77498 2.73110 3.46350 2.40514 3.72504 3.29327 2.67721 2.69389 4.24724 2.90361 2.73766 3.18113 2.89806 2.37909 2.77520 2.98518 4.58350 3.61515\n- 0.76872 0.62289 * 1.19142 0.36210 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr7_III-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cmr7_III-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,584 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cmr7_III-B_1\n-LENG 187\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:44 2020\n-NSEQ 10\n-EFFN 1.215820\n-CKSUM 689240417\n-GA 61 61;\n-STATS LOCAL MSV -10.3274 0.70623\n-STATS LOCAL VITERBI -11.5127 0.70623\n-STATS LOCAL FORWARD -4.6613 0.70623\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.75365 4.39919 2.87986 2.67453 3.34280 3.13145 3.78822 2.52119 2.58908 2.47703 3.75407 2.71701 3.47946 3.06222 3.12502 2.68994 2.79836 2.54426 5.10292 3.39863\n- 2.68616 4.42247 2.77542 2.73119 3.46376 2.40500 3.72517 3.29376 2.67738 2.69377 4.24330 2.90369 2.73703 3.18169 2.89823 2.37856 2.77542 2.98541 4.58499 3.61525\n- 0.40503 1.27284 2.93733 1.28142 0.32524 0.00000 *\n- 1 2.59192 4.50108 3.28150 2.78595 3.81246 2.42618 3.85970 3.17969 2.76632 2.86940 2.19200 2.65395 3.91548 3.10442 3.15716 2.73691 2.43560 2.89796 5.19519 3.93066 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 4.25352 4.97587 0.61958 0.77255 0.44826 1.01815\n- 2 2.63554 4.75186 3.07783 2.26693 4.03214 2.87415 3.73526 3.43544 2.56028 3.06354 3.01066 3.05600 3.88061 2.90618 3.00796 1.92373 2.50665 3.12047 5.32898 4.01328 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 3 2.73128 5.00836 2.99847 2.49823 4.34678 3.47866 3.69961 3.77274 2.11657 3.32414 4.12566 3.01277 3.90050 2.01580 2.79366 2.45581 2.04123 3.41025 5.50779 4.17203 8 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 4 2.32470 4.70650 3.14581 2.61714 3.99705 3.46575 3.76403 3.38934 2.58113 3.02735 3.03019 3.10073 3.89760 2.25382 3.00584 1.87007 2.89514 3.08370 5.30900 4.00698 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 5 2.66963 5.02613 2.54863 1.89048 4.31707 3.43838 3.65594 3.75834 2.42546 3.30949 4.09145 2.93473 3.84667 2.77902 2.64200 2.66095 2.33398 2.75156 5.50035 4.12595 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 6 2.95427 5.43964 2.55229 1.23241 4.76755 3.43741 3.79235 4.24557 2.16312 3.72774 4.53559 2.37718 3.96066 2.92979 3.02438 2.88011 3.20505 3.83275 5.86014 4.44381 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 7 3.33127 4.83658 4.18123 3.70455 2.36845 4.17306 3.68087 3.38746 3.48988 2.88594 3.96381 3.85334 4.52033'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 180 3.38340 4.69975 4.95913 4.47645 1.21291 4.53487 4.48292 1.69242 4.32867 1.88021 3.25375 4.54212 4.80620 4.40948 4.40317 3.90534 3.62231 2.38723 4.71732 3.22221 228 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 181 2.81040 5.05696 3.00418 2.57938 4.50001 3.48268 3.77119 3.95129 2.39230 3.47731 4.29006 1.63638 3.95541 2.91188 1.93904 2.47887 3.07191 3.56287 5.61127 4.28911 229 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 182 3.92491 5.23714 4.50165 4.32934 2.44732 4.35342 3.90761 3.88372 4.17763 3.22131 4.51532 4.29244 4.82520 4.37381 4.26400 4.00993 4.21810 3.77653 4.10089 0.47199 230 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 183 2.91732 4.67439 3.63623 3.28346 2.90253 3.68163 3.88017 3.41710 3.24582 3.01605 4.01391 3.56967 4.20991 3.56410 3.53893 1.87698 3.24105 3.16397 4.50183 1.24714 231 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 184 1.79416 4.32581 3.69921 3.31432 4.41019 3.12988 4.34460 3.79015 3.31316 3.49415 4.31767 3.47326 3.85789 3.60501 3.64159 1.36104 1.74728 3.27312 5.75528 4.54357 232 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 185 2.94326 4.40479 4.34242 3.79373 3.46586 4.08277 4.48475 1.67469 3.66933 1.79443 3.35615 4.05762 4.44618 3.93866 3.89542 3.40354 1.74722 2.07163 5.18724 3.99915 233 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.33774 4.30106 1.29805 0.61958 0.77255 0.48576 0.95510\n- 186 2.73527 5.09057 2.74904 2.12213 4.41872 3.39038 3.60699 3.85440 1.94025 3.36655 4.16917 2.87896 3.83123 2.16942 2.65533 2.37325 2.96425 3.47956 5.51541 4.16823 234 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02784 3.99115 4.71350 0.61958 0.77255 0.80315 0.59405\n- 187 2.72277 5.11019 2.08322 2.23850 4.44445 3.28225 3.67232 3.92184 2.52044 3.45699 4.26554 2.79211 3.80214 2.02064 3.01671 2.17682 2.98889 3.52572 5.63046 4.21911 235 q - - -\n- 2.68629 4.42093 2.77530 2.73134 3.46365 2.40504 3.72505 3.29365 2.67724 2.69337 4.24700 2.90357 2.73750 3.18116 2.89811 2.37877 2.77530 2.98529 4.58488 3.61514\n- 0.30326 1.34097 * 0.97745 0.47204 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1481 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME corA_III-B_2\n-LENG 486\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:45 2020\n-NSEQ 4\n-EFFN 0.527344\n-CKSUM 1866039877\n-GA 300 300;\n-STATS LOCAL MSV -11.8579 0.69815\n-STATS LOCAL VITERBI -12.8189 0.69815\n-STATS LOCAL FORWARD -5.9510 0.69815\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56926 4.32203 2.97024 2.70121 2.99977 2.86915 3.68476 2.87000 2.75198 2.38770 3.75069 3.10144 3.29269 3.04057 2.95291 2.70443 2.89315 2.65984 4.15878 3.37555\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98493 4.58478 3.61504\n- 0.14601 2.07733 4.54843 0.38092 1.14958 0.00000 *\n- 1 2.73951 4.50610 3.41802 2.94007 3.42800 3.59898 3.88037 2.77294 2.69247 2.23337 1.98730 3.34507 4.01823 2.56803 2.98197 2.93355 2.99089 2.66682 5.00909 3.74542 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 2 3.28304 4.67899 4.26561 3.98367 0.98019 3.96854 3.88554 2.80413 3.89017 2.16959 3.53128 4.04115 4.42656 4.05270 4.00506 3.55207 3.58412 2.79630 4.12851 2.49295 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 3 2.96879 5.08435 2.49534 0.99783 4.43296 3.28644 3.87468 3.89074 2.75765 3.50461 4.47757 2.94351 3.89189 3.08979 3.16868 2.94907 3.27310 3.57248 5.60083 4.32284 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 4 2.58281 4.56096 3.02454 2.64206 3.75384 3.31060 2.43883 3.33045 2.53798 2.97617 3.87586 3.07408 3.83111 2.98604 2.87923 2.68560 1.96450 3.02643 5.13161 3.76805 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 5 1.45252 4.16893 3.69993 3.32180 3.79631 3.20168 4.25129 2.59064 3.25381 2.65494 3.72435 3.49094 3.86754 3.57909 3.53061 2.63322 2.80489 1.94701 5.36328 4.13526 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 6 2.65009 4.38369 3.57299 3.06607 3.58769 3.52091 3.94601 2.61322 2.72657 2.50174 3.55759 3.40861 3.99756 3.24337 2.43087 2.88418 2.94044 1.60163 5.09192 3.83762 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 7 2.82348 4.36046 4.15257 3.81612 3.56420 3.74431 4.61439 2.04877 3.68421 2.24770 3.52619 4.00286 4.30'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03291 3.82608 4.54843 0.61958 0.77255 0.54353 0.86915\n- 479 2.64125 4.57857 3.10336 2.68947 3.73123 3.39736 3.76610 3.02376 2.50368 2.68103 3.71703 3.12597 3.88249 1.98845 2.82582 2.76103 2.92333 2.32978 5.16572 3.85345 690 q - - -\n- 2.68596 4.42266 2.77560 2.73164 3.46394 2.40530 3.72535 3.29394 2.67688 2.69300 4.24730 2.90387 2.73714 3.18084 2.89841 2.37858 2.77526 2.98559 4.58099 3.61544\n- 0.22328 1.66321 4.54843 2.46775 0.08859 0.54353 0.86915\n- 480 3.10403 4.58055 4.11459 3.75512 3.11952 3.92245 4.42544 2.32210 3.52328 0.93455 3.15858 4.03499 4.36639 3.90275 3.70659 3.48917 3.40074 2.34722 4.98109 3.69341 710 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03291 3.82608 4.54843 0.61958 0.77255 0.45126 1.01287\n- 481 2.98428 5.05098 3.38785 2.76360 4.46997 3.59932 3.59127 3.83272 1.64617 3.30989 4.19419 3.16292 3.98679 2.73719 1.39842 2.99700 3.16478 3.52652 5.37636 4.20034 711 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89207 4.61442 0.61958 0.77255 0.48576 0.95510\n- 482 3.27510 4.75616 3.86701 3.59991 2.29344 3.85284 3.62725 3.28155 3.45686 2.73047 3.95450 3.74737 4.32615 3.75821 3.63662 3.40991 3.56183 3.15300 3.93801 0.93381 712 y - - -\n- 2.68685 4.41967 2.77549 2.73024 3.46247 2.40587 3.72593 3.29337 2.67715 2.69232 4.24788 2.90406 2.73673 3.18090 2.89860 2.37916 2.77583 2.98490 4.58575 3.61522\n- 0.28928 1.72921 2.60682 3.31231 0.03711 0.48576 0.95510\n- 483 2.29365 4.21296 3.16753 2.98201 4.03053 2.94377 4.09273 3.54726 3.05261 3.27141 4.20200 3.21367 3.67893 3.40577 3.33949 1.16322 2.77046 3.09256 5.40694 4.11402 759 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03291 3.82608 4.54843 0.61958 0.77255 0.54353 0.86915\n- 484 2.91404 5.01321 2.47076 1.09328 4.35388 3.24532 3.82926 3.79860 2.70405 3.42362 4.40063 2.90920 3.84798 3.04649 3.10737 2.90176 3.21824 3.48759 5.53429 4.25754 760 e - - -\n- 2.68577 4.42278 2.77539 2.73012 3.46407 2.40519 3.72459 3.29350 2.67732 2.69345 4.24743 2.90322 2.73760 3.18148 2.89854 2.37894 2.77573 2.98529 4.58321 3.61556\n- 0.36181 1.66321 2.17109 2.72617 0.06771 0.45126 1.01287\n- 485 3.17429 4.56852 4.21982 3.79536 1.81750 4.01032 3.51835 2.91544 3.61755 2.29158 3.52700 3.81585 4.36529 3.77869 3.75952 3.38812 3.41354 2.84522 1.84540 2.07756 786 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03414 3.79019 4.51254 0.61958 0.77255 0.57212 0.83086\n- 486 2.43074 1.32186 3.90413 3.61368 3.64727 3.08010 4.29595 2.77065 3.44110 2.69038 3.80985 3.64230 3.77483 3.79479 3.59094 2.70087 2.88551 2.52455 5.08987 3.93419 787 c - - -\n- 2.68645 4.42315 2.77506 2.73114 3.46444 2.40531 3.72584 3.29328 2.67706 2.69286 4.24630 2.90358 2.73796 3.18030 2.89696 2.37907 2.77575 2.98566 4.58567 3.61434\n- 0.24071 1.54212 * 3.22405 0.04061 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-B_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-B_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1676 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME corA_III-B_III-D_1\n-LENG 551\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:44 2020\n-NSEQ 45\n-EFFN 3.897400\n-CKSUM 85105043\n-GA 100 100;\n-STATS LOCAL MSV -11.9704 0.69758\n-STATS LOCAL VITERBI -12.9442 0.69758\n-STATS LOCAL FORWARD -6.0442 0.69758\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62022 4.48886 2.92619 2.62573 3.10260 2.99879 3.68539 2.87852 2.65193 2.43831 3.69397 2.99590 3.39250 3.02929 2.86541 2.63872 2.82099 2.80261 4.48018 3.23650\n- 2.68020 4.42341 2.77550 2.72918 3.46377 2.40726 3.72486 3.29328 2.68084 2.68608 4.24240 2.90834 2.73786 3.17791 2.89713 2.38167 2.77965 2.98740 4.57529 3.61522\n- 1.69011 0.84957 0.94700 3.84396 0.02164 0.00000 *\n- 1 2.76012 5.18384 3.04158 2.48284 3.62401 3.53961 3.71863 3.96428 2.02283 3.47306 4.23426 2.71234 2.63951 2.57962 2.05362 2.46986 2.98884 3.56221 5.62634 4.24517 72 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06240 4.60912 2.98507 0.61958 0.77255 1.24260 0.34057\n- 2 2.71693 3.72734 2.76313 2.51405 4.26757 2.44645 3.73211 3.69948 2.31515 3.27440 4.06847 2.58289 3.92213 2.86510 2.98453 2.13217 2.67061 3.34961 3.86020 4.13542 73 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01563 4.56235 5.28469 0.61958 0.77255 1.28268 0.32475\n- 3 2.72612 5.06677 2.74519 2.07994 4.34794 3.52176 3.72047 3.79033 2.14670 2.51474 4.12567 3.01967 3.91654 2.60305 2.96292 2.45843 2.95758 2.47069 5.53905 4.17071 74 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01563 4.56235 5.28469 0.61958 0.77255 1.28268 0.32475\n- 4 2.50709 5.10858 2.66990 2.15068 4.41016 3.51067 3.71178 3.86313 2.47071 3.39795 4.16821 3.00262 3.90791 2.82733 2.56852 1.90885 2.67420 2.74477 5.57629 4.19626 75 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01563 4.56235 5.28469 0.61958 0.77255 1.28268 0.32475\n- 5 2.13231 5.10534 2.50698 2.47507 4.40252 3.06522 3.71305 3.85267 1.99068 3.38914 4.16246 3.01165 3.91415 2.82989 2.55407 2.72007 2.96170 3.47092 3.00493 4.19357 76 k - - -\n- 2.68604 4.42241 2.77513 2.73139 3.46326 2.40529 3.72510 3.29256 2.67736 2.69331 4.24706 2.90339 2.73755 3.18162 2.89787 2.37903 2.77535 2.98534 4.58493 3.61519\n- 0.95845 0.49193 5.28469 0.07307 2.65268 1.28268 0.32475\n- 6 2.41566 4.20619 4.13628 3.55161 2.87782 2.90704 4.11390 2.65000 3.43884 1.88878 2.60422 3.77634 3.12645 3.66595 3.63387 3.09475 2.61821 2.08588 4.81871 3.62496 78 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01563 4.56235 5.28469 0.61958 0.77255 1.28268 0.32475\n- 7 2.19214 5.28423 2.34231 1.94509 4.62040 3.49596 3.72129 4.10705 2.28244 3.58572 4.33110 2.64864 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19806 4.89201 1.75927 0.61958 0.77255 0.86785 0.54448\n- 544 2.50816 5.18604 2.86532 2.49413 4.49550 3.40758 2.80145 3.70822 2.34237 3.47600 4.23625 2.31395 3.35111 2.61206 2.98047 2.59046 2.28538 3.55740 4.44798 3.59591 811 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11087 4.70745 2.34423 0.61958 0.77255 0.86563 0.54609\n- 545 2.80826 4.61843 3.55929 2.69833 3.77477 3.74343 3.96264 2.11801 2.07507 1.95534 3.71223 3.41847 4.12201 3.23613 2.63422 2.98407 3.03650 2.61924 5.18167 3.93590 812 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01358 4.70184 5.42418 0.61958 0.77255 0.66396 0.72321\n- 546 2.21225 5.30251 3.08351 2.33189 4.63554 2.90149 3.79076 4.11196 1.61702 3.35394 4.34763 2.78851 3.44019 2.89167 2.85725 2.48634 2.78520 3.68694 5.74326 4.34108 813 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17155 4.86252 1.89772 0.61958 0.77255 0.91682 0.51048\n- 547 2.45664 5.20182 2.80477 2.30786 4.51759 3.55020 3.74016 3.52725 2.01869 3.49427 4.25042 2.74962 3.94293 2.84695 2.06260 2.74194 2.71720 3.15922 5.65221 3.39360 814 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03378 4.70452 3.72285 0.61958 0.77255 1.08107 0.41435\n- 548 2.77108 5.25875 2.51741 2.16242 4.59533 3.54283 3.73248 4.07422 1.84723 3.55955 3.76284 3.01380 3.93823 2.83250 2.68427 1.91235 2.80426 3.64502 5.69568 4.29131 815 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12208 4.69839 2.24610 0.61958 0.77255 1.13333 0.38855\n- 549 2.72576 4.96303 2.74112 2.38583 3.03650 3.54921 3.20349 3.03556 2.34854 3.01913 4.03060 2.60711 3.35062 2.89287 2.71844 2.75008 2.95705 2.56689 5.45826 4.11458 816 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01518 4.59148 5.31383 0.61958 0.77255 1.23828 0.34232\n- 550 2.41868 5.16854 2.73222 2.14624 4.48554 2.55753 3.70199 3.54270 2.35063 3.46175 4.21687 2.66698 2.66686 2.80829 2.74509 2.70332 2.95860 3.54405 4.29864 4.22493 817 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06412 4.59148 2.95713 0.61958 0.77255 0.96763 0.47801\n- 551 2.42472 5.10721 3.04299 2.21255 4.39926 3.11077 3.72516 3.14610 2.27187 2.81964 4.16246 3.02395 3.32142 2.59629 2.68367 2.14561 2.96657 3.46907 5.57287 4.19710 818 s - - -\n- 2.68611 4.42157 2.77564 2.73130 3.46421 2.40469 3.72530 3.29340 2.67582 2.69338 4.24757 2.90388 2.73785 3.18144 2.89743 2.37932 2.77564 2.98555 4.58348 3.61539\n- 1.02723 0.44316 * 1.29093 0.32160 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1064 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME corA_III-D_3\n-LENG 347\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:45 2020\n-NSEQ 12\n-EFFN 1.379883\n-CKSUM 1053083338\n-GA 62 62;\n-STATS LOCAL MSV -11.2380 0.70018\n-STATS LOCAL VITERBI -12.2176 0.70018\n-STATS LOCAL FORWARD -5.4801 0.70018\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.22857 4.26204 3.04624 2.74906 3.33004 2.77410 3.72331 2.93203 2.82352 2.49376 3.81308 3.21597 3.23422 3.14340 2.80668 2.67303 2.72921 2.61653 4.35667 3.74043\n- 2.68582 4.42269 2.77490 2.73154 3.46398 2.40545 3.72538 3.29398 2.67766 2.69350 4.24439 2.90391 2.73738 3.18190 2.89787 2.37931 2.77413 2.98406 4.58521 3.61547\n- 0.59982 1.32955 1.67936 1.92606 0.15750 0.00000 *\n- 1 2.46277 4.29162 4.44297 3.88116 3.37736 4.09523 4.48459 1.76456 3.76953 2.09034 2.23005 4.10326 4.43073 3.99481 3.95868 3.41368 3.13288 1.54664 5.10343 3.92748 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02423 4.12790 4.85025 0.61958 0.77255 0.71601 0.67079\n- 2 3.01469 4.75689 3.74014 3.67575 4.79841 0.42513 4.77293 4.46758 3.89134 4.08693 5.07016 3.90548 4.15560 4.19575 4.09218 3.19512 3.51572 3.94645 5.81847 4.91154 12 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02423 4.12790 4.85025 0.61958 0.77255 0.71601 0.67079\n- 3 2.55135 4.33947 3.44588 2.92445 3.59809 2.27267 3.89078 2.43612 2.87294 2.32654 3.55990 3.30542 3.92327 3.19687 3.22567 2.23778 2.83521 2.64520 5.03985 3.79366 13 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02423 4.12790 4.85025 0.61958 0.77255 0.71601 0.67079\n- 4 1.75513 4.29560 3.44125 3.03327 4.26279 3.07662 4.11924 3.66690 3.04756 3.33718 4.15724 3.28650 2.97014 3.35302 3.41182 1.47903 2.40896 3.17899 5.59087 4.35320 14 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02423 4.12790 4.85025 0.61958 0.77255 0.71601 0.67079\n- 5 1.97080 4.60547 3.13941 2.65172 4.19472 2.71285 3.80595 3.61115 2.57993 3.22161 4.03782 3.08694 3.81411 2.97697 2.13498 2.14104 2.84182 3.21708 5.44869 4.15315 15 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02423 4.12790 4.85025 0.61958 0.77255 0.71601 0.67079\n- 6 1.73544 4.47549 3.24236 2.77092 4.11443 2.25583 3.89140 3.51010 2.72534 3.16005 3.99166 3.16019 3.81072 3.09216 2.63178 2.58293 2.39648 3.12219 5.42071 4.14844 16 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02423 4.12790 4.85025 0.61958 0.77255 0.71601 0.67079\n- 7 2.28272 4.76834 3.02984 2.47672 4.02445 3.43093 3.64858 3.43406 2.43044 2.75319 3.86372 2.98552 3.251'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30104 4.37801 1.39674 0.61958 0.77255 0.48576 0.95510\n- 340 2.68878 4.35851 3.60447 3.05279 2.68671 3.65045 3.78096 2.84428 2.94161 2.52142 3.46244 3.40797 4.03250 3.26535 2.80268 2.91782 2.54282 2.63598 4.59437 1.95795 412 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02488 4.10185 4.82420 0.61958 0.77255 0.79714 0.59895\n- 341 2.85426 5.17687 2.96246 1.94181 4.54319 3.50718 3.63306 3.95919 2.15303 3.43578 4.24995 2.99478 3.92115 2.31264 1.75914 2.82513 3.06417 3.59112 5.54237 4.24388 413 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02488 4.10185 4.82420 0.61958 0.77255 0.67904 0.70745\n- 342 2.23258 4.70282 2.50693 2.50364 4.19366 3.28770 3.76383 3.59879 2.61035 3.22163 4.03950 2.98884 2.67616 2.92944 3.06926 2.61205 2.01132 3.22275 5.46284 4.13205 414 t - - -\n- 2.68610 4.42233 2.77501 2.73131 3.46361 2.40520 3.72502 3.29331 2.67724 2.69330 4.24697 2.90354 2.73747 3.18154 2.89808 2.37894 2.77527 2.98526 4.58484 3.61511\n- 0.39702 1.40810 2.48808 0.67252 0.71421 0.35481 1.20834\n- 343 1.85671 4.38724 3.45417 3.08581 4.46862 1.64566 4.21934 3.90854 3.14953 3.54833 4.34841 3.34226 2.43731 3.44008 3.52643 1.97058 2.84655 3.35870 5.76977 4.52555 417 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02111 4.26457 4.98691 0.61958 0.77255 0.56851 0.83556\n- 344 2.42672 5.07796 2.77507 1.56186 4.41179 3.40904 3.70065 3.86099 2.48844 3.40368 4.19296 2.92175 3.86439 2.55809 2.96606 2.44538 2.64617 3.47495 5.58807 4.20619 418 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15473 4.26457 2.04563 0.61958 0.77255 0.56851 0.83556\n- 345 2.47609 4.40315 3.37800 3.14362 4.31688 3.15343 4.26377 3.64640 3.17038 3.37280 4.30212 3.39077 1.10185 3.53678 3.46895 2.64437 2.43032 3.21961 5.66983 4.44383 419 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02409 4.13392 4.85627 0.61958 0.77255 0.71034 0.67624\n- 346 1.84249 1.94459 3.63539 3.14845 3.77106 3.31283 4.04935 3.02883 2.53396 2.82248 3.72485 3.41247 3.89628 3.36942 3.28689 2.68580 2.83061 2.73829 5.19833 3.98102 420 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17469 4.13392 1.93613 0.61958 0.77255 0.71034 0.67624\n- 347 2.59083 4.57999 3.03373 2.33526 3.81234 3.41912 3.70492 2.60899 2.55514 2.84392 3.71204 2.68264 3.84630 2.91348 2.96650 2.69187 2.21282 2.85793 5.16463 3.87506 421 t - - -\n- 2.68629 4.42236 2.77531 2.73117 3.46365 2.40524 3.72458 3.29365 2.67752 2.69366 4.24701 2.90358 2.73751 3.18157 2.89812 2.37802 2.77531 2.98529 4.58488 3.61514\n- 0.49958 0.93340 * 0.67756 0.70898 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/corA_III-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1622 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME corA_III-D_5\n-LENG 533\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:45 2020\n-NSEQ 8\n-EFFN 1.058594\n-CKSUM 3066116709\n-GA 300 300;\n-STATS LOCAL MSV -11.4961 0.69773\n-STATS LOCAL VITERBI -12.9241 0.69773\n-STATS LOCAL FORWARD -6.5240 0.69773\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44290 4.47710 2.93551 2.63417 3.43505 2.89634 3.71827 2.86323 2.81441 2.38418 3.66773 3.19985 3.33645 3.07433 2.76190 2.67390 2.83231 2.59458 3.99681 3.73971\n- 2.68630 4.42237 2.77531 2.73135 3.46366 2.40510 3.72506 3.29366 2.67737 2.69347 4.24551 2.90358 2.73751 3.18158 2.89768 2.37898 2.77531 2.98461 4.58489 3.61515\n- 0.27326 1.46594 4.79775 1.07008 0.42004 0.00000 *\n- 1 2.51673 4.34959 3.37631 2.90765 3.69133 2.46768 3.91008 3.03662 2.85943 2.73102 2.03138 3.27510 2.95868 3.20049 3.20579 2.70298 2.83230 2.77033 5.11937 3.87525 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17072 4.07540 1.96639 0.61958 0.77255 0.48576 0.95510\n- 2 2.53912 4.61670 2.99176 2.56199 4.11127 3.27510 3.72226 3.49435 2.03401 3.12672 3.96636 3.01335 3.79079 2.90013 2.81954 2.06375 2.27230 3.13922 5.36198 4.07144 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93417 4.65651 0.61958 0.77255 0.62320 0.76836\n- 3 2.85035 5.36662 1.63879 1.72421 4.68097 2.50701 3.71397 4.18243 2.69320 3.69281 4.52618 2.67913 3.80217 2.87380 3.26829 2.75664 3.13355 3.76164 5.86047 4.38191 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93417 4.65651 0.61958 0.77255 0.62320 0.76836\n- 4 2.42583 4.29450 3.32871 2.88970 3.76793 2.41269 3.91613 3.02237 2.83545 2.32416 3.71789 3.23054 3.81070 3.19049 3.17717 2.60684 1.99542 2.73257 5.18870 3.93632 8 t - - -\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40516 3.72497 3.29272 2.67744 2.69358 4.24693 2.90350 2.73743 3.18149 2.89804 2.37890 2.77523 2.98521 4.58480 3.61506\n- 0.29069 1.41570 4.65651 0.24828 1.51477 0.62320 0.76836\n- 5 2.74895 4.46775 3.55902 3.00667 3.34800 3.69497 3.91803 2.65933 2.80490 1.87357 2.31995 3.41587 4.06044 2.51033 3.11216 2.97338 2.97978 2.57852 4.97108 3.73920 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93417 4.65651 0.61958 0.77255 0.62320 0.76836\n- 6 2.34567 4.26688 3.26034 3.07896 4.13785 2.99563 4.18712 3.66879 3.15688 3.38427 4.30521 3.29388 3.73952 3.50138 3.44102 1.00173 2.83042 3.19040 5.50541 4.22169 11 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93417 4.65651 0.61958 0.77255 0.62320 0.76836\n- 7 2.27602 4.20687 3.29407 3.02175 4.18080 2.08185 4.12358 3.51452 3.07072 3.26203 4.13143 3.24719 3.70'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94194 4.66429 0.61958 0.77255 0.70026 0.68609\n- 526 2.74182 4.37786 3.83961 3.38427 3.39019 3.67318 4.22352 2.38559 3.21004 1.39573 3.32101 3.68035 4.15491 3.58428 3.46778 3.05397 2.28468 2.28156 5.10986 3.87742 618 l - - -\n- 2.68631 4.42238 2.77533 2.73136 3.46367 2.40526 3.72432 3.29367 2.67754 2.69368 4.24703 2.90360 2.73651 3.18159 2.89754 2.37884 2.77533 2.98531 4.58490 3.61516\n- 0.29881 1.39080 4.66429 1.19794 0.35927 0.70026 0.68609\n- 527 2.78380 4.47338 3.60668 3.16994 3.09465 3.53117 3.86076 3.12561 2.99298 2.71423 3.72976 3.48329 2.34914 3.39150 3.25916 2.97859 3.07850 2.91092 1.68556 3.15055 623 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94194 4.66429 0.61958 0.77255 0.70026 0.68609\n- 528 2.67368 4.42263 3.57129 3.04756 3.63148 3.54049 3.92999 2.67895 2.67885 2.55296 3.59314 3.39954 4.00692 3.21474 2.27551 2.89566 2.95642 1.62540 5.11249 3.86150 624 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94194 4.66429 0.61958 0.77255 0.70026 0.68609\n- 529 2.71352 4.40731 3.63089 3.05664 3.43029 3.66555 3.91870 2.58978 2.76097 1.80318 3.36894 3.43488 4.05161 3.22573 2.41430 2.95884 2.95443 2.12327 4.98900 3.75289 625 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94194 4.66429 0.61958 0.77255 0.70026 0.68609\n- 530 2.84492 4.59063 3.45961 3.30872 4.29781 3.27421 4.38042 3.86113 3.37197 3.48043 4.53331 3.60839 0.70804 3.75865 3.60958 3.01460 3.29197 3.49858 5.46527 4.41945 626 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94194 4.66429 0.61958 0.77255 0.70026 0.68609\n- 531 2.88688 5.04562 3.01144 2.12962 4.41125 3.49073 3.63959 3.80966 2.10249 3.32628 4.19400 3.04373 3.92881 2.78990 1.48741 2.88730 3.10239 3.48477 5.43883 4.19136 627 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94194 4.66429 0.61958 0.77255 0.70026 0.68609\n- 532 2.78573 4.96037 3.12904 2.57206 4.33719 3.48863 3.59924 3.72649 1.83108 3.24973 4.08714 3.03636 2.74663 2.73996 1.84092 2.79928 3.00001 3.39191 5.38662 4.13151 628 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02926 3.94194 4.66429 0.61958 0.77255 0.70026 0.68609\n- 533 2.84307 4.96137 2.86597 2.52810 3.81401 3.44739 1.85697 3.69432 2.31299 3.21615 4.11665 3.01101 3.91798 2.31848 2.62424 2.85424 3.08206 3.38847 5.14388 3.70333 629 h - - -\n- 2.68634 4.42241 2.77536 2.73111 3.46370 2.40513 3.72511 3.29370 2.67715 2.69371 4.24706 2.90363 2.73756 3.18163 2.89724 2.37868 2.77536 2.98535 4.58314 3.61519\n- 0.28934 1.38133 * 1.38445 0.28830 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa3_I_II_III_IV_V_VI_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa3_I_II_III_IV_V_VI_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,377 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa3_I_II_III_IV_V_VI_2\n-LENG 118\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:45 2020\n-NSEQ 282\n-EFFN 282.000000\n-CKSUM 2479399980\n-GA 29.8 29.8;\n-STATS LOCAL MSV -9.3586 0.71443\n-STATS LOCAL VITERBI -10.7935 0.71443\n-STATS LOCAL FORWARD -3.9661 0.71443\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60369 4.61271 2.92329 2.47832 3.60223 2.75978 3.74715 2.84148 2.66896 2.19166 3.81770 3.31454 3.24834 3.41263 2.69844 2.57558 2.98379 2.74787 4.80006 3.55962\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01034 8.81473 4.59129 0.61958 0.77255 0.00000 *\n- 1 2.89374 4.44363 2.39971 2.05342 3.19862 3.37908 3.98099 3.09709 2.62407 4.26588 2.61513 2.41934 3.15288 4.20118 3.21848 2.17335 3.04929 3.26869 8.77157 3.53061 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01944 8.80462 3.95810 0.61958 0.77255 0.18414 1.78271\n- 2 3.45296 5.81298 3.15106 1.83817 3.22141 2.24985 5.14252 3.00707 3.72751 1.94576 2.77850 3.93321 3.11294 2.89989 2.95569 2.47005 4.15458 2.93081 5.98163 5.03361 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00597 8.83099 5.14803 0.61958 0.77255 0.35561 1.20646\n- 3 2.86584 5.62720 2.47699 3.65510 4.13622 3.59614 5.61856 1.95283 1.70750 2.41072 3.06159 4.41005 3.39617 3.93319 3.31236 2.30639 3.86465 3.36237 8.77412 2.72189 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00021 8.85859 9.58094 0.61958 0.77255 1.35360 0.29882\n- 4 3.56076 5.12275 3.66527 3.20327 3.94767 2.83351 2.65666 2.31140 3.19775 2.23994 3.70047 2.97992 2.78266 4.14550 2.22204 2.88102 3.10944 2.05757 5.23305 4.68244 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03021 8.87815 3.51922 0.61958 0.77255 1.35360 0.29882\n- 5 2.41362 8.38050 2.92875 2.21875 4.04768 3.83332 5.67351 2.74253 3.58848 2.66205 3.04762 4.83886 3.04906 4.83025 1.62626 2.72507 2.57472 4.15117 8.81961 2.54297 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02430 8.86867 3.73510 0.61958 0.77255 1.57006 0.23323\n- 6 3.35908 4.97323 3.57190 2.98871 3.93413 2.33345 5.59124 4.28019 1.85756 2.09431 3.65641 3.67507 2.24304 2.48780 2.86418 2.87748 3.09021 2.95351 8.81835 4.19617 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00021 8.85747 9.57982 0.61958 0.77255 1.50575 0.25084\n- 7 3.36663 3.78428 4.50939 3.16060 4.55342 5.07493 3.11367 2.04542 4.01004 1.63144 2.4063'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01224 9.07344 4.41872 0.61958 0.77255 0.53473 0.88148\n- 111 2.86803 5.95803 3.44986 2.05590 3.79890 2.98193 2.82101 2.53601 2.94311 1.80493 4.62735 4.31905 2.24088 3.64917 2.50438 3.47076 3.25779 3.33648 5.83023 5.01937 291 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00018 9.03540 9.75775 0.61958 0.77255 0.69013 0.69618\n- 112 3.26220 4.43527 2.30940 2.12663 3.63393 2.94615 2.91694 2.71128 2.56543 3.01373 4.11339 3.38608 3.14567 4.01353 2.27549 2.46674 3.32772 2.82481 8.98814 4.46039 292 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00448 9.02917 5.43862 0.61958 0.77255 0.13789 2.04945\n- 113 3.32588 8.54080 2.44095 2.65457 5.21424 2.47705 5.07316 2.79809 2.43948 2.90637 3.88459 2.72952 5.24633 3.20430 1.83700 2.45826 4.12878 2.25478 8.97357 4.57622 293 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00018 9.01030 9.73264 0.61958 0.77255 0.58898 0.80944\n- 114 2.50387 3.90782 3.58025 2.75085 4.35749 3.30970 5.79422 4.03742 2.36825 1.96847 6.12287 4.72748 3.69647 3.33715 2.44682 2.37214 2.97725 1.99474 5.23105 2.82183 294 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00018 9.00026 9.72260 0.61958 0.77255 0.79532 0.60045\n- 115 2.68702 4.23007 2.58534 1.69755 3.38417 4.09442 4.50562 3.00315 1.90038 2.34401 5.05634 3.66998 4.32873 3.52901 3.93610 2.18328 3.24293 3.17253 4.40249 6.02934 295 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00019 8.98663 9.70897 0.61958 0.77255 0.33175 1.26466\n- 116 2.37197 6.15912 3.90567 2.65502 2.47942 3.57207 6.94231 4.00444 2.67485 2.83764 3.98719 2.25790 3.25631 3.87437 1.74385 2.39381 3.38631 2.66015 8.90234 5.76365 296 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00019 8.95247 9.67482 0.61958 0.77255 0.48576 0.95510\n- 117 2.63693 8.40168 3.03030 2.95031 4.92524 2.95199 3.37004 2.95800 2.82514 1.68863 3.27455 4.47692 3.37513 3.81657 2.53520 2.51159 3.26126 2.28145 4.52502 3.88359 297 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00020 8.91821 9.64055 0.61958 0.77255 0.48576 0.95510\n- 118 2.84087 5.25118 3.57983 1.79096 3.84303 2.19545 3.95357 3.02260 2.28313 2.57971 6.06131 4.39976 4.14046 3.98644 2.57968 2.83878 2.36307 2.84688 8.87805 3.58770 298 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00013 8.91814 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,350 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_10\n-LENG 109\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 4\n-EFFN 0.503906\n-CKSUM 3493866725\n-GA 150 150;\n-STATS LOCAL MSV -9.8778 0.71567\n-STATS LOCAL VITERBI -10.5335 0.71567\n-STATS LOCAL FORWARD -4.3568 0.71567\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58845 4.57049 2.92311 2.43445 3.30842 2.97027 3.93304 2.83104 2.57341 2.30086 3.68804 3.17464 3.80854 3.25238 2.72992 2.68413 3.02817 2.57275 5.02873 3.27604\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.00000 *\n- 1 2.97087 4.51925 4.05178 3.64534 3.20855 3.83573 4.37996 2.38437 3.41332 1.80283 1.37362 3.92258 4.29629 3.79501 3.61839 3.32024 3.27619 2.39076 5.04971 3.81172 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 2 2.31597 4.23644 3.20823 3.02400 4.07846 2.96628 4.13384 3.60134 3.09793 3.32136 4.24719 3.24849 3.70524 3.44704 3.38396 1.08767 2.79625 3.13595 5.45075 4.16198 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 3 2.83095 5.14265 2.48095 1.50467 4.46363 3.30739 3.65732 3.88370 2.05202 3.43197 4.29193 2.81656 3.83436 2.81564 2.74521 2.78726 3.08232 3.53085 5.58719 4.23588 3 e - - -\n- 2.68621 4.42228 2.77522 2.73126 3.46309 2.40516 3.72497 3.29357 2.67722 2.69358 4.24693 2.90350 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.15489 2.01435 4.59707 0.65653 0.73116 0.48576 0.95510\n- 4 3.15771 4.61926 4.19314 3.83291 3.13642 3.98506 4.48794 2.34049 3.60064 0.87242 3.15851 4.10818 4.41998 3.96843 3.77638 3.55606 3.45182 2.37843 5.01661 3.74048 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 5 1.31377 4.12622 3.29609 3.06181 4.20495 2.09983 4.16265 3.53495 3.15474 3.29575 4.16140 3.23914 3.64774 3.44847 3.45712 2.37996 2.68519 3.04248 5.55547 4.34961 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 6 2.77927 5.26480 1.95768 1.74127 4.56033 3.23553 3.63949 4.03790 2.10863 3.54723 4.36308 2.70141 3.77873 2.78514 3.00922 2.70302 3.03847 3.63434 5.70832 4.27059 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 7 3.14886 4.52638 4.55346 4.03512 3.12641 4.34359 4.68297 1.69396 3.85075 1.13812 2.98179 4.31875 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 102 2.80983 4.35172 4.12850 3.79161 3.55163 3.72629 4.59291 2.04988 3.65943 2.23820 3.51634 3.98111 4.28661 4.01903 3.87173 3.22990 3.17128 1.02205 5.33648 4.06827 115 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 103 2.97404 4.93809 3.15019 2.77112 4.32503 3.46335 3.76023 3.75442 1.03520 3.31897 4.28021 3.19552 3.96346 2.95151 2.43176 3.01582 3.22709 3.46205 5.37869 4.19175 116 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 104 2.22760 4.19117 3.09559 2.90991 4.27716 1.55194 4.10558 3.74767 3.08086 3.42455 4.26298 3.15341 3.64310 3.37269 3.40926 1.84002 2.71124 3.19531 5.59967 4.35383 117 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 105 2.69826 4.83906 2.49691 1.86995 4.36937 1.70676 3.80402 3.81400 2.69841 3.42765 4.30013 2.87414 3.79345 3.00266 3.13264 2.72058 3.03214 3.42791 5.58750 4.26800 118 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 106 2.79247 5.02657 2.71861 1.64169 4.35338 3.36911 3.63302 3.77887 2.24994 3.31880 4.17590 2.90684 3.84749 2.78706 2.12805 2.77895 3.03100 3.43890 5.46547 4.15636 119 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 107 2.95406 5.06580 2.48830 1.02217 4.41227 3.27540 3.86227 3.86661 2.74307 3.48333 4.45717 2.93393 3.88006 3.07782 3.15222 2.93617 3.25828 3.55019 5.58341 4.30555 120 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 108 2.79816 5.18264 1.83311 2.13955 4.51076 3.17226 3.72656 4.05763 2.70526 3.61210 4.46891 1.67577 3.78487 2.90539 3.24506 2.73643 3.10317 3.64953 5.74241 4.28451 121 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03133 3.87472 4.59707 0.61958 0.77255 0.48576 0.95510\n- 109 2.95406 5.06580 2.48830 1.02217 4.41227 3.27540 3.86227 3.86661 2.74307 3.48333 4.45717 2.93393 3.88006 3.07782 3.15222 2.93617 3.25828 3.55019 5.58341 4.30555 122 e - - -\n- 2.68609 4.42238 2.77533 2.73090 3.46367 2.40526 3.72508 3.29367 2.67732 2.69346 4.24703 2.90360 2.73753 3.18160 2.89814 2.37884 2.77509 2.98472 4.58490 3.61516\n- 0.14475 2.00422 * 1.68258 0.20566 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,368 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_11\n-LENG 115\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 7\n-EFFN 0.919434\n-CKSUM 37009115\n-GA 46 46;\n-STATS LOCAL MSV -9.5617 0.71434\n-STATS LOCAL VITERBI -10.3480 0.71434\n-STATS LOCAL FORWARD -4.6263 0.71434\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.35146 4.61194 2.91605 2.51185 3.53620 3.13908 3.91344 2.86959 2.60124 2.36660 3.58263 3.19232 3.49101 3.11179 2.75914 2.69756 2.95626 2.60047 5.22805 3.31730\n- 2.68621 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24577 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61440\n- 0.53722 1.54762 1.59517 0.23577 1.56049 0.00000 *\n- 1 2.60356 4.62378 3.07188 2.56598 3.82625 3.41838 3.67815 3.21266 2.45071 2.81423 2.96126 3.04201 2.86908 2.23317 2.83044 2.69100 2.84989 2.95033 5.17202 3.87959 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92784 4.65019 0.61958 0.77255 0.69607 0.69023\n- 2 2.79007 5.18696 2.49635 1.74614 4.50841 3.31650 3.63438 3.95993 1.99063 3.47015 4.28936 2.33566 3.82067 2.77640 2.77801 2.73719 3.03461 3.57685 5.61693 4.23787 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92784 4.65019 0.61958 0.77255 0.69607 0.69023\n- 3 2.19750 4.97118 2.49343 1.89913 4.34944 3.25341 3.69069 3.77522 2.54128 3.36399 4.19597 2.11721 3.79289 2.85268 3.00990 2.68037 2.97247 3.40323 5.57133 4.19122 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92784 4.65019 0.61958 0.77255 0.69607 0.69023\n- 4 2.67963 5.00941 1.97938 2.26272 4.34233 3.28517 3.64651 3.76811 2.14253 3.34201 4.15885 2.80699 3.78599 2.79364 2.93991 2.65949 2.36050 3.39699 5.54130 4.15693 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92784 4.65019 0.61958 0.77255 0.47777 0.96802\n- 5 2.60745 4.37855 3.39043 2.83420 3.47177 3.55024 3.78637 2.86351 2.74026 2.53641 2.47771 3.25541 3.93533 2.58140 3.09194 2.80209 2.50010 2.64510 4.92004 2.92124 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02564 4.07239 4.79473 0.61958 0.77255 0.56639 0.83834\n- 6 2.38962 4.94994 2.78195 2.12347 4.29272 3.36730 3.66013 3.72087 2.08576 3.28533 4.09257 2.90766 3.82548 2.80185 2.85150 1.96998 2.92136 3.35601 5.48289 4.13075 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02564 4.07239 4.79473 0.61958 0.77255 0.56639 0.83834\n- 7 2.78189 5.16295 2.57743 1.80533 4.48730 3.35384 3.68193 3.94624 2.44654 3.46970 4.28148 2.84980 3.8510'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02773 3.99485 4.71719 0.61958 0.77255 0.49557 0.93962\n- 108 2.80419 5.15536 2.70514 2.01061 4.51305 2.64406 3.67088 3.94907 1.59400 3.46062 4.27247 2.90477 3.87600 2.80661 2.72692 2.77094 3.04375 3.56845 5.60325 4.25416 109 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02534 4.08365 4.80600 0.61958 0.77255 0.55467 0.85393\n- 109 2.11202 4.76961 2.70307 2.04549 4.35171 1.79610 3.84357 3.76101 2.72763 3.38442 4.21966 2.96297 3.82875 3.02494 3.17994 2.67199 2.96032 3.36114 5.61387 4.27483 110 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02534 4.08365 4.80600 0.61958 0.77255 0.55467 0.85393\n- 110 2.66051 4.90258 3.01019 2.25478 4.18183 2.95854 3.61259 3.59663 1.94373 3.16375 3.03358 2.96456 3.83859 2.75028 2.39828 2.67548 2.88413 3.25903 5.36464 4.04177 111 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13443 4.08365 2.21696 0.61958 0.77255 0.55467 0.85393\n- 111 2.35079 4.97931 2.86195 2.17489 4.29472 3.40604 3.60130 3.71443 2.25248 3.25561 4.06679 2.91575 3.82792 2.13359 2.34094 2.69085 2.92365 3.36101 5.42978 4.10206 112 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02823 3.97745 4.69979 0.61958 0.77255 0.65548 0.73228\n- 112 2.59171 4.76301 2.51547 2.40959 4.05576 3.35057 3.65103 3.44973 2.24334 3.07833 3.90579 2.92376 3.79684 2.81378 2.91952 2.16396 2.84487 2.56215 5.32874 3.99485 113 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02823 3.97745 4.69979 0.61958 0.77255 0.65548 0.73228\n- 113 2.31129 4.82730 2.93100 2.45808 4.16071 3.38749 3.63649 3.55718 2.11434 3.14695 3.97423 2.95755 3.82400 2.15735 2.70821 2.67417 2.52321 3.22240 5.36347 4.05185 114 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02823 3.97745 4.69979 0.61958 0.77255 0.65548 0.73228\n- 114 1.26256 4.15168 3.54778 3.22990 4.11901 3.00875 4.23383 3.23519 3.21061 3.12450 4.04772 3.36834 3.73836 3.52844 3.49681 2.46037 2.01540 2.84477 5.53947 4.33236 115 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02823 3.97745 4.69979 0.61958 0.77255 0.65548 0.73228\n- 115 2.75339 5.06326 2.91151 2.17056 4.41405 2.87447 3.58939 3.83022 1.75596 3.33429 4.14245 2.93705 3.85321 2.71680 2.19171 2.73519 2.97067 3.46553 5.46782 4.15755 116 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01909 3.96831 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,341 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_12\n-LENG 106\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 6\n-EFFN 0.870117\n-CKSUM 359707349\n-GA 100 100;\n-STATS LOCAL MSV -9.4079 0.71613\n-STATS LOCAL VITERBI -10.2228 0.71613\n-STATS LOCAL FORWARD -4.0184 0.71613\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41078 4.57953 2.86629 2.61426 3.45493 3.00262 4.00375 2.66761 2.67265 2.49020 3.62979 3.09891 3.47669 3.19514 2.86704 2.63357 2.91469 2.47487 5.21745 3.41146\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.00000 *\n- 1 2.99939 4.50406 4.06172 3.59384 1.36207 3.92360 3.69326 2.99562 3.50061 2.58515 3.63163 3.74442 4.30874 3.69633 3.71089 2.44245 3.24566 2.82211 4.06068 2.09886 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 2 3.21151 4.49353 4.98320 4.45101 3.45258 4.60203 5.06523 1.29986 4.33983 1.53941 3.24341 4.66404 4.83915 4.52546 4.49117 3.97081 3.45534 1.44612 5.46239 4.31932 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 3 3.01436 4.81292 3.38783 3.00140 2.82672 3.74082 3.68636 3.38856 2.81604 2.90527 3.93405 3.38127 4.16939 2.28363 3.10853 3.10565 3.25505 3.17997 4.41234 1.38524 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 4 1.84875 4.23262 3.54082 3.17177 4.28202 3.03531 4.21756 3.64297 3.17845 3.36057 4.19249 3.35124 3.75724 3.47751 3.50785 1.39608 1.98534 3.14542 5.63067 4.41399 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 5 2.92606 5.30214 2.59308 1.32637 4.64392 3.41395 3.73243 4.08247 1.91611 3.58924 4.42720 2.90495 3.92694 2.87782 2.79729 2.86945 3.17002 3.70539 5.71662 4.35798 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 6 2.46896 4.53184 3.03739 2.70085 4.30310 3.17490 3.93484 3.73311 2.79773 3.36395 4.18330 2.25140 3.79704 3.12708 3.20813 1.56333 2.26890 3.28383 5.58377 4.28312 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 7 2.54390 4.36900 3.41820 2.97012 2.48944 3.38213 3.91634 3.08610 2.95646 2.77106 3.69549 3.31794 1.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 99 3.24336 4.62376 4.74051 4.23781 3.23741 4.41945 4.85306 2.12348 4.05889 0.92611 3.07396 4.48051 4.71446 4.27817 4.21803 3.80676 3.50249 1.79011 5.26879 4.11458 113 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 100 0.71215 4.33230 3.72795 3.53896 4.31260 3.14877 4.52963 3.47595 3.56201 3.34561 4.35616 3.62123 3.91179 3.88175 3.79057 2.68337 2.97807 3.08720 5.71478 4.54492 114 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 101 3.29489 4.68706 4.68967 4.15115 3.11914 4.44299 4.74436 2.27849 3.93706 1.26824 1.42461 4.42859 4.68813 4.15841 4.09446 3.80460 3.52940 2.39098 5.15432 4.02244 115 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 102 1.28380 4.20967 3.55880 3.27478 4.36006 2.99828 4.32265 3.72640 3.31781 3.46237 4.30294 3.39556 3.75640 3.60489 3.61645 1.46238 2.76941 3.19156 5.71887 4.50759 116 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 103 2.71413 4.23211 3.98105 3.43339 3.21789 3.78176 4.07512 1.65625 3.30846 2.25888 3.29608 3.70328 4.16266 3.58784 3.54307 3.08253 2.45188 2.22673 4.80210 2.59454 117 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 104 1.48995 4.27315 3.56920 3.12263 3.91803 3.22374 4.11082 3.08980 3.08705 2.93133 3.84778 3.38135 2.49145 3.39993 3.41968 2.61186 2.80930 2.21543 5.35106 4.12314 118 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 105 2.60014 4.70785 2.76638 2.58918 4.41200 3.19000 3.95774 3.95489 2.84696 3.56335 4.40343 1.38156 3.84312 3.16149 3.26250 1.98131 2.99231 3.48409 5.69336 4.32795 119 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 106 2.90853 5.10447 3.24644 2.66795 4.53327 2.70058 3.65554 3.91432 1.72490 3.39918 4.23366 3.12198 3.98148 2.78831 1.55339 2.90864 3.11331 3.56724 5.49455 4.25920 120 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01657 4.10852 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,428 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_13\n-LENG 135\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 3\n-EFFN 0.600586\n-CKSUM 2383089033\n-GA 200 200;\n-STATS LOCAL MSV -9.7788 0.71125\n-STATS LOCAL VITERBI -10.7183 0.71125\n-STATS LOCAL FORWARD -4.5129 0.71125\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67811 4.49367 2.78198 2.43831 3.23998 3.25787 3.70347 2.77854 2.57952 2.43734 3.69569 2.88918 3.44716 2.89997 2.88011 2.71349 3.02286 2.78453 4.57786 3.41564\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.00000 *\n- 1 3.02649 4.56411 4.12690 3.72604 3.24029 3.88786 4.44454 2.42312 3.49010 1.82439 1.24658 3.99457 4.34910 3.86739 3.68692 3.38299 3.33333 2.43751 5.09056 3.85852 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 2 1.59262 4.14416 3.37592 3.10182 4.22308 2.92613 4.17853 3.57270 3.15310 3.32045 4.17502 3.26753 3.67132 3.45521 3.46027 1.43383 2.69098 3.07007 5.58621 4.35932 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 3 3.01483 5.14000 2.51898 0.92729 4.49534 3.32091 3.91415 3.96354 2.80376 3.56918 4.54020 2.97474 3.92895 3.12841 3.21994 2.99002 3.31966 3.64002 5.65337 4.37583 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 4 2.62664 4.72690 2.92017 2.55972 4.23737 3.29007 3.73316 3.65863 1.84813 3.26045 4.11152 3.01294 3.82527 2.90862 2.72094 1.76123 2.93380 3.28895 5.43766 4.14063 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 5 3.03824 5.00448 3.21900 2.82724 4.40734 3.51976 3.79982 3.84116 0.94398 3.39065 4.34842 3.24848 4.01518 2.98735 2.44643 3.07562 3.28625 3.54495 5.43260 4.25578 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21262 3.94443 1.75923 0.61958 0.77255 0.48576 0.95510\n- 6 2.64101 4.62824 2.66067 2.53724 3.97559 3.11696 3.84519 3.66642 2.74185 3.32659 4.28520 1.36049 3.76531 3.12072 3.09032 2.71417 3.02119 3.29943 5.29433 3.93378 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03496 3.76677 4.48912 0.61958 0.77255 0.63395 0.75607\n- 7 2.26901 4.18605 3.12003 2.93436 3.97218 2.91814 4.04546 3.48202 3.00069 3.21187 4.14951 3.17403 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 128 1.59262 4.14416 3.37592 3.10182 4.22308 2.92613 4.17853 3.57270 3.15310 3.32045 4.17502 3.26753 3.67132 3.45521 3.46027 1.43383 2.69098 3.07007 5.58621 4.35932 135 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 129 1.80668 4.50068 2.84691 2.62238 4.21822 3.11022 3.91008 3.60895 2.79329 3.31138 4.17721 1.75894 3.75943 3.12641 3.18271 2.56799 2.86005 3.19362 5.53309 4.21439 136 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 130 2.78479 4.93530 2.70580 2.44902 3.79895 3.35823 1.93227 3.74294 2.47821 3.29086 4.17403 2.19930 3.87810 2.91968 2.84616 2.79340 3.05679 3.40593 5.17016 3.68985 137 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 131 2.83309 5.17042 2.50794 1.78962 4.46307 3.33011 3.67140 3.92451 2.39492 3.44525 4.29994 2.83179 3.84987 1.81747 2.79012 2.78767 3.08348 3.56512 5.60280 4.23451 138 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 132 2.67757 4.60592 3.16836 2.73697 3.76680 3.45220 3.80970 3.02065 2.55705 2.70610 3.73545 3.17503 3.92731 1.87723 2.88463 2.80284 2.95489 2.19249 5.20250 3.89824 139 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21262 3.94443 1.75923 0.61958 0.77255 0.48576 0.95510\n- 133 2.89171 4.73160 3.37214 2.91026 4.05936 3.39550 3.75807 3.59658 2.21040 3.13213 4.13850 3.27641 3.90631 2.98668 1.15372 2.98297 3.16694 3.32597 5.18744 4.01307 140 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03496 3.76677 4.48912 0.61958 0.77255 0.63395 0.75607\n- 134 2.62245 4.39351 3.21887 3.04552 4.04335 3.08717 4.12907 3.56452 3.09426 3.20182 4.24969 3.36115 1.05010 3.48649 3.34897 2.78747 3.05656 3.22174 5.25604 4.16377 141 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03496 3.76677 4.48912 0.61958 0.77255 0.63395 0.75607\n- 135 1.17803 4.14543 3.35960 3.14995 3.95086 2.97191 4.18388 3.06116 3.16349 2.94702 3.99381 3.32494 3.70148 3.51541 3.41919 2.49829 2.76847 2.73430 5.38888 4.17800 142 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02367 3.75548 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,323 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_3\n-LENG 100\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 7\n-EFFN 1.589355\n-CKSUM 3196895862\n-GA 25 25;\n-STATS LOCAL MSV -9.4956 0.71754\n-STATS LOCAL VITERBI -10.3153 0.71754\n-STATS LOCAL FORWARD -4.0621 0.71754\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45183 4.72047 2.99042 2.49034 3.40869 3.16183 3.95304 2.77490 2.54475 2.40737 3.61552 3.17118 3.51512 3.20241 2.73546 2.65902 2.87954 2.57459 5.21521 3.37111\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.00000 *\n- 1 2.69918 4.30194 3.80271 3.23951 2.32224 2.89041 4.00987 2.75264 3.16908 2.08894 3.41493 2.44471 4.10911 3.44362 3.45802 2.99513 2.93632 2.11783 4.88624 3.65297 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 2 3.41299 4.72352 5.14297 4.59376 1.35254 4.63741 4.77387 2.41385 4.44382 1.35530 3.17266 4.69944 4.86865 4.49696 4.49360 3.98478 3.63932 1.89901 5.03249 3.71695 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 3 2.29485 4.46227 4.88823 4.32871 3.53790 4.40465 4.82131 1.71036 4.20170 1.36316 3.40327 4.48369 4.71365 4.38749 4.33036 3.74115 3.36651 1.56942 5.32440 4.16049 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 4 2.84940 5.05215 3.11462 2.13933 4.23038 3.60185 3.76614 3.73140 2.44196 3.29938 4.12728 3.12056 4.00552 2.52971 2.43760 2.86646 3.07186 3.40752 5.45356 1.74517 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 5 2.69149 4.69247 3.24175 2.68675 3.89464 3.56562 3.80022 2.79794 2.65760 2.93585 3.11333 3.17164 2.62695 2.44030 3.08364 1.95510 2.92767 3.00377 5.24423 3.95486 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 6 2.96470 5.42600 2.70585 1.27940 4.77795 2.48282 3.83953 4.24992 1.97357 3.73641 4.53134 2.99210 4.01266 2.97016 3.05016 2.90564 3.21363 3.83453 5.87038 4.46707 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 7 2.62050 4.69849 3.24824 2.88844 4.53545 3.33296 4.11903 3.97690 2.97899 3.59152 4.39655 2.17371 3.960'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 93 0.41507 4.61321 4.19492 4.06267 4.77284 3.41438 4.99327 4.00167 4.09846 3.84968 4.84091 4.02138 4.21142 4.38449 4.27433 2.97254 3.29277 3.53897 6.12857 5.01880 133 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 94 3.65207 4.92169 5.42885 4.84818 1.97899 4.92379 5.10613 2.49556 4.69997 0.94559 1.77445 5.01485 5.03673 4.64398 4.69428 4.28088 3.85740 2.73118 5.24019 4.12652 134 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 95 1.19641 4.40096 3.94543 3.68541 4.73574 3.18452 4.68940 4.14293 3.72759 3.85869 4.67346 3.69933 3.97677 3.98613 3.99590 1.07574 2.98826 3.51625 6.08256 4.90155 135 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 96 3.11733 4.46489 4.84146 4.29029 1.96024 4.25401 4.24147 1.73020 4.11440 1.71732 3.30685 4.29046 4.56678 4.19829 4.15220 3.57509 3.34379 2.55984 4.55527 1.98445 136 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 97 1.51145 4.45441 3.73592 3.40379 4.62524 3.22170 4.48086 4.05063 3.44981 3.72051 4.52992 3.56877 1.38515 3.73379 3.78237 1.91564 2.97751 3.47994 5.95045 4.73560 137 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 98 2.19689 5.02032 2.97814 2.54072 4.47368 3.45685 3.81259 3.92118 2.26244 3.47199 4.25959 2.04640 3.93310 2.94653 3.04072 1.75333 3.01023 3.51619 5.65557 4.29473 138 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 99 3.27522 5.49450 3.61251 2.40894 4.99771 3.88426 3.80075 4.33082 1.50836 3.71674 4.56236 3.36858 4.23936 2.92065 1.15321 3.24013 3.43040 3.98360 5.72537 4.55188 139 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.46837 5.19071 0.61958 0.77255 0.48576 0.95510\n- 100 2.71242 4.68201 3.34080 2.78401 3.94505 3.56952 3.85390 3.31850 2.65997 2.37027 3.84317 3.24068 3.99278 3.06438 2.31038 2.27583 1.83197 3.03806 5.28483 4.01112 140 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01160 4.46278 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,326 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_4\n-LENG 101\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 6\n-EFFN 0.905273\n-CKSUM 2457019553\n-GA 30 30;\n-STATS LOCAL MSV -9.6780 0.71730\n-STATS LOCAL VITERBI -10.2691 0.71730\n-STATS LOCAL FORWARD -3.8654 0.71730\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38977 4.58238 2.88428 2.57633 3.41034 2.91289 3.98519 2.71543 2.68844 2.54180 3.65947 3.07769 3.50887 3.20015 2.81808 2.65022 2.87804 2.53564 5.19117 3.39707\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.00000 *\n- 1 2.18852 4.17701 3.82067 3.28822 2.18512 2.82878 4.02274 2.62449 3.21382 2.42919 3.37671 3.55112 4.00905 3.47729 3.47694 2.86564 2.84522 2.03095 4.86851 3.63668 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 2 2.81795 4.45523 3.91575 3.54824 1.22600 3.65280 3.91674 3.00807 3.49394 2.61657 3.70766 3.70513 4.18958 3.73480 3.71661 2.29466 3.15610 2.82043 4.40176 2.81102 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 3 3.20516 4.47887 5.00913 4.48567 3.54592 4.62307 5.12363 1.31448 4.38089 1.75058 3.33599 4.69253 4.87032 4.58879 4.54286 3.99785 3.45325 1.23431 5.54243 4.37699 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 4 2.83422 4.77443 3.31806 2.78215 3.50051 3.62352 3.69126 3.37820 2.41113 2.96835 3.87474 3.21667 4.01468 2.48922 2.31825 2.91860 3.05216 3.12129 4.91953 1.80389 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 5 2.07744 4.31502 3.49462 2.99361 3.80029 3.31273 3.98688 2.50768 2.95368 2.84418 3.73394 3.32223 3.87241 3.26984 3.30948 1.74848 2.35761 2.75349 5.21876 3.98133 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 6 2.92799 5.30448 2.63885 1.39126 4.65329 3.43400 3.72830 4.08980 1.79259 3.58864 4.42167 2.92323 3.93538 2.86995 2.75884 2.87307 3.16727 3.71099 5.70961 4.35815 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 7 2.50389 4.59307 2.98962 2.65594 4.32934 3.20210 3.91139 3.76314 2.76570 3.38385 4.20024 1.91982 3.810'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 94 3.26201 4.63745 4.77184 4.26859 3.24383 4.44338 4.87708 2.13158 4.08979 0.90848 3.07739 4.50869 4.73391 4.30295 4.24464 3.83161 3.52038 1.79299 5.28134 4.13151 114 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 95 0.69090 4.34609 3.75230 3.56584 4.33652 3.16174 4.55355 3.50322 3.58953 3.37181 4.38105 3.64179 3.92681 3.90749 3.81568 2.69748 2.99367 3.11065 5.73646 4.56948 115 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 96 3.33453 4.70968 4.76611 4.22224 3.11594 4.50231 4.79775 2.28240 4.01545 1.18199 1.47264 4.49596 4.72770 4.21076 4.16053 3.86313 3.56484 2.41043 5.17186 4.05912 116 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 97 1.19167 4.21603 3.58692 3.30524 4.37520 3.00712 4.34654 3.74059 3.34702 3.47850 4.31903 3.41590 3.76810 3.63194 3.64172 1.54284 2.78016 3.20322 5.73561 4.52719 117 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 98 2.71228 4.24334 3.94678 3.40001 3.17595 3.76480 4.03208 1.85240 3.27727 2.29034 3.31382 3.67329 4.14810 3.55746 3.51698 3.06294 2.44486 2.29527 4.75250 2.21219 118 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 99 1.67936 4.29179 3.56222 3.11775 3.93704 3.23473 4.11483 3.10819 3.08398 2.94797 3.86507 3.38312 2.06631 3.39938 3.41957 2.62237 2.82181 2.21956 5.36786 4.13774 119 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 100 2.76040 5.03278 2.71072 2.41942 4.45751 3.36250 3.74551 3.91347 2.14017 3.45947 4.27912 1.62364 3.87963 2.89699 2.88876 2.32147 3.03687 3.52320 5.62079 4.26400 120 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 4.13688 4.85922 0.61958 0.77255 0.48576 0.95510\n- 101 2.80822 5.13266 2.99649 2.19089 4.49539 2.74679 3.63276 3.91224 1.95232 3.40364 4.20717 2.99457 3.90664 2.75586 1.78099 2.78687 3.02239 3.54123 5.52529 4.21750 121 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01623 4.12909 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,509 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_5\n-LENG 162\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 6\n-EFFN 0.500977\n-CKSUM 2338122867\n-GA 150 150;\n-STATS LOCAL MSV -10.0528 0.70823\n-STATS LOCAL VITERBI -10.9225 0.70823\n-STATS LOCAL FORWARD -4.2495 0.70823\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58331 4.19787 2.90718 2.75926 3.22674 3.12745 3.97121 2.56592 2.66437 2.40823 3.71527 3.18735 3.30087 3.23646 2.97175 2.59310 2.91868 2.46680 4.92990 3.25001\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17076 3.87253 1.99385 0.61958 0.77255 0.00000 *\n- 1 2.86946 4.44216 3.90607 3.49405 3.16001 3.73236 4.26071 2.32270 3.26754 1.78010 1.66448 3.78674 4.19658 3.66121 3.48777 3.20226 3.17442 2.31175 4.97988 3.72670 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03601 3.73778 4.46013 0.61958 0.77255 0.59473 0.80232\n- 2 2.84536 4.91318 2.44849 1.23529 4.24413 3.19329 3.77602 3.67118 2.64001 3.31301 4.29899 2.87300 3.79325 2.99850 3.03007 2.84560 3.15065 3.37132 5.44199 4.17055 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03601 3.73778 4.46013 0.61958 0.77255 0.59473 0.80232\n- 3 2.11953 4.70238 2.54485 1.81736 4.13943 3.17553 3.72179 3.40618 2.56694 3.13599 4.04853 2.85336 3.75364 2.91795 2.97565 2.64950 2.91843 3.08956 5.43831 4.10758 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03601 3.73778 4.46013 0.61958 0.77255 0.42320 1.06407\n- 4 2.45515 4.28991 3.37767 2.93092 3.60899 3.28023 3.90816 2.90863 2.83370 2.62419 2.59170 3.26436 3.83623 3.20738 3.15604 1.79804 2.79846 2.66271 5.08969 3.80962 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 5 2.95222 5.06346 2.48744 1.02528 4.40966 3.27401 3.86073 3.86357 2.74126 3.48064 4.45460 2.93275 3.87858 3.07634 3.15016 2.93456 3.25643 3.54737 5.58121 4.30338 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 6 2.30035 4.27094 3.08027 2.82431 4.14715 2.98586 3.99551 3.59720 2.90513 3.27127 4.13302 3.12685 1.84888 3.24532 3.24639 1.87429 2.74389 3.12994 5.48028 4.20889 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 7 3.00863 4.37918 4.56222 4.07276 3.43457 4.25683 4.81140 1.25807 3.94098 1.94554 3.26564 4.31672 4.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 155 1.57260 4.17030 3.72075 3.33303 3.75507 3.24221 4.25405 2.49767 3.26197 2.59567 3.67680 3.51188 3.89306 3.58680 3.53842 2.66889 2.81756 1.81560 5.33901 4.11133 159 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 156 2.31492 4.23536 3.20636 3.02206 4.07630 2.96523 4.13195 3.59888 3.09583 3.31908 4.24511 3.24688 3.70402 3.44512 3.38191 1.09096 2.79504 3.13398 5.44876 4.15980 160 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 157 3.15527 4.61749 4.18962 3.82940 3.13562 3.98227 4.48512 2.33960 3.59715 0.87512 3.15843 4.10488 4.41757 3.96547 3.77323 3.55304 3.44949 2.37696 5.01500 3.73835 161 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 158 1.01367 4.19197 3.46257 3.25379 4.05236 3.01653 4.27584 3.17787 3.27005 3.05949 4.09125 3.40342 3.75574 3.61119 3.52062 2.54224 2.81959 2.83226 5.47951 4.27975 162 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 159 2.98458 4.36115 4.53482 4.04203 3.46820 4.23091 4.79312 1.49483 3.91755 2.00074 3.30115 4.28761 4.58592 4.20702 4.14027 3.61271 3.25982 1.21028 5.39402 4.17588 163 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 160 2.66484 4.44035 3.33864 3.23801 4.38046 0.72901 4.35835 3.98003 3.41930 3.63417 4.60986 3.50292 3.83149 3.74344 3.65540 2.83675 3.14608 3.50833 5.47566 4.48234 164 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87253 4.59488 0.61958 0.77255 0.48576 0.95510\n- 161 2.66484 4.44035 3.33864 3.23801 4.38046 0.72901 4.35835 3.98003 3.41930 3.63417 4.60986 3.50292 3.83149 3.74344 3.65540 2.83675 3.14608 3.50833 5.47566 4.48234 165 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17076 3.87253 1.99385 0.61958 0.77255 0.48576 0.95510\n- 162 2.84536 4.91318 2.44849 1.23529 4.24413 3.19329 3.77602 3.67118 2.64001 3.31301 4.29899 2.87300 3.79325 2.99850 3.03007 2.84560 3.15065 3.37132 5.44199 4.17055 166 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02438 3.72615 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,431 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_6\n-LENG 136\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 6\n-EFFN 0.864258\n-CKSUM 3054033175\n-GA 100 100;\n-STATS LOCAL MSV -10.0003 0.71113\n-STATS LOCAL VITERBI -10.5880 0.71113\n-STATS LOCAL FORWARD -4.4396 0.71113\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39080 4.57980 2.83064 2.49815 3.66026 3.24261 3.86442 2.90434 2.57394 2.29403 3.64989 3.15189 3.49311 3.11358 2.71451 2.72792 3.01761 2.57948 4.67821 3.50314\n- 2.68625 4.42232 2.77526 2.73130 3.46360 2.40519 3.72501 3.29361 2.67747 2.69361 4.24459 2.90353 2.73746 3.18153 2.89807 2.37857 2.77526 2.98525 4.58484 3.61510\n- 0.25377 1.53161 4.83537 0.67066 0.71615 0.00000 *\n- 1 2.12613 4.26690 3.59947 3.11757 3.62763 3.37932 4.02339 2.88372 3.03854 2.63941 1.87742 3.41314 3.92342 3.36350 3.34635 2.21845 2.83740 2.63635 5.10223 3.87698 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 2 2.93774 5.31417 2.54730 1.24300 4.64950 3.39966 3.74902 4.09114 2.05662 3.60623 4.45123 2.89316 3.92790 2.89925 2.85539 2.87817 3.18780 3.71549 5.73936 4.37215 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14162 4.11303 2.15686 0.61958 0.77255 0.48576 0.95510\n- 3 2.50097 4.53967 3.15249 2.67486 4.09931 3.26220 3.78068 3.49475 2.51326 3.12763 3.96689 3.08978 3.79847 2.96754 2.31004 1.82045 2.32302 3.12644 5.36515 4.08870 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02761 3.99903 4.72137 0.61958 0.77255 0.60367 0.79142\n- 4 2.56904 4.28187 3.72288 3.32138 3.67043 3.43186 4.22520 2.51962 3.24127 2.55242 3.62879 3.57154 2.69459 3.58125 3.51849 2.84626 2.93362 1.32831 5.24279 4.00611 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02761 3.99903 4.72137 0.61958 0.77255 0.60367 0.79142\n- 5 2.83010 5.36003 1.93729 1.70362 4.65290 3.26751 3.68817 4.15062 2.58078 3.64371 4.45405 2.72692 3.81901 2.06579 3.11353 2.74411 3.09243 3.73153 5.79842 4.33919 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02761 3.99903 4.72137 0.61958 0.77255 0.60367 0.79142\n- 6 2.60002 4.43149 3.24295 2.37427 3.60205 2.79841 3.77809 2.29294 2.69624 2.36538 3.53710 3.18321 3.90894 3.04295 3.07462 2.76995 2.84087 2.61538 5.02922 3.76870 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15065 3.99903 2.10771 0.61958 0.77255 0.60367 0.79142\n- 7 2.68598 4.74864 3.04022 2.60885 4.19272 3.36723 3.68689 3.49465 1.57347 3.14401 4.03210 3.05092 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 129 2.34716 4.37502 4.27298 3.75157 3.40129 3.96942 4.47297 2.16802 3.62829 1.32292 3.27279 4.00379 4.37459 3.89952 3.85592 3.31602 3.15653 1.76954 5.17813 3.99883 142 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 130 3.13810 5.24705 3.54434 2.87247 4.72312 3.73363 3.66792 4.06720 1.07015 3.49279 4.36760 3.26707 4.10232 2.80184 1.78345 3.12898 3.29990 3.74749 5.51666 4.36064 143 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 131 2.87172 5.20602 3.10216 2.16330 4.60785 3.55128 3.61270 4.01082 1.60485 3.45941 4.26503 3.03119 3.93643 2.31808 2.02287 2.83998 3.06926 3.63458 5.53851 4.26048 144 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 132 2.94551 4.33844 4.51822 3.94434 2.99882 4.09907 4.29925 1.61020 3.76873 1.48912 3.06449 4.10641 4.40431 3.95102 3.89374 3.41434 3.17384 2.28494 2.94112 3.46474 145 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 133 3.40345 4.75181 4.86731 4.32249 3.08894 4.59950 4.88539 2.25678 4.11887 0.80348 2.28489 4.60084 4.78838 4.28162 4.24791 3.96726 3.62881 2.41326 5.19506 4.10701 146 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 134 2.72257 4.93732 2.98271 1.81169 4.15894 3.47167 3.64472 3.62120 1.92177 3.18781 4.01448 2.99145 3.87750 2.79574 2.69405 2.73731 2.94640 3.29410 3.32112 4.02984 147 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11303 4.83537 0.61958 0.77255 0.48576 0.95510\n- 135 2.63721 4.47767 3.46096 3.14879 3.89498 1.23127 4.17064 3.25793 3.11693 2.12213 3.99693 3.45515 3.97735 3.49299 3.41638 2.82125 3.02982 2.98062 5.34279 4.06288 148 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26465 4.11303 1.53171 0.61958 0.77255 0.48576 0.95510\n- 136 2.71049 4.73762 3.17602 2.69391 4.18258 3.37777 3.70503 3.61555 2.23813 3.18059 4.06633 3.11470 2.66380 2.88459 1.57170 2.77900 2.98762 3.28441 5.33048 4.09424 149 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02109 3.86947 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,404 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_7\n-LENG 127\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 4\n-EFFN 0.550781\n-CKSUM 923975260\n-GA 28 28;\n-STATS LOCAL MSV -9.7217 0.71227\n-STATS LOCAL VITERBI -10.6419 0.71227\n-STATS LOCAL FORWARD -4.1858 0.71227\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47481 3.89803 2.80279 2.70125 3.46912 3.01308 4.00991 2.62006 2.62123 2.38903 3.66366 3.14597 3.62179 3.21231 2.95575 2.63738 2.87531 2.56101 5.14085 3.39926\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18811 3.90913 1.88771 0.61958 0.77255 0.00000 *\n- 1 2.88277 4.45184 3.92597 3.51419 3.16551 3.74677 4.27645 2.32991 3.28716 1.78144 1.62108 3.80494 4.20999 3.67885 3.50543 3.21807 3.18751 2.32150 4.98863 3.73790 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03533 3.75635 4.47870 0.61958 0.77255 0.61169 0.78183\n- 2 2.26500 4.18153 3.11191 2.92638 3.96186 2.91385 4.03746 3.47056 2.99193 3.20151 4.14057 3.16739 3.64391 3.35155 3.27879 1.28116 2.73714 3.03159 5.34476 4.04567 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03533 3.75635 4.47870 0.61958 0.77255 0.61169 0.78183\n- 3 2.35758 4.20090 3.33154 3.08317 3.87238 3.04267 4.10847 2.98571 3.02376 2.85303 3.91478 3.30855 3.73880 3.42563 3.28556 2.55801 1.38593 2.69330 5.32088 4.09026 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03533 3.75635 4.47870 0.61958 0.77255 0.61169 0.78183\n- 4 2.61067 4.38273 3.20607 3.03177 4.02924 3.07701 4.11570 3.54826 3.07969 3.18652 4.23444 3.34813 1.07521 3.47230 3.33507 2.77552 3.04412 3.20665 5.24431 4.14977 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03533 3.75635 4.47870 0.61958 0.77255 0.61169 0.78183\n- 5 2.64709 4.35101 3.50401 2.96958 3.49766 3.60063 3.90462 2.11441 2.38459 2.35207 3.41573 3.36545 4.00438 3.19313 3.06527 2.90061 2.89790 1.99043 5.03814 3.79197 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03533 3.75635 4.47870 0.61958 0.77255 0.61169 0.78183\n- 6 2.35758 4.20090 3.33154 3.08317 3.87238 3.04267 4.10847 2.98571 3.02376 2.85303 3.91478 3.30855 3.73880 3.42563 3.28556 2.55801 1.38593 2.69330 5.32088 4.09026 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03533 3.75635 4.47870 0.61958 0.77255 0.41437 1.08103\n- 7 2.60157 4.57678 3.10942 2.60209 3.75738 3.43000 3.69155 3.13531 2.47802 2.73818 2.73603 3.06924 3.1029'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 120 2.67686 4.84701 2.60266 1.63577 4.24773 3.26582 3.73359 3.56229 2.55482 3.24138 4.12264 2.88587 3.81267 2.91040 2.97908 2.70169 2.23119 3.23212 5.50970 4.16513 120 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 121 2.64667 4.86084 2.68520 2.37560 4.28286 3.27777 3.67063 3.72642 2.11618 3.29714 4.12469 2.15988 3.79361 2.83073 2.80947 2.12223 2.92779 3.35187 5.47826 4.13723 121 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 122 2.90953 4.89670 2.92684 2.68190 4.07017 3.39004 3.84061 3.70632 2.50010 3.20506 4.23165 3.14204 3.94388 1.17029 2.78366 2.95563 3.20636 3.43364 5.33559 4.03168 122 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 123 1.62932 4.15841 3.26945 3.05647 4.27206 1.54805 4.18630 3.62512 3.17909 3.36950 4.22958 3.24396 3.66428 3.46745 3.48627 2.39833 2.71225 3.11058 5.61035 4.40333 123 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 124 2.24811 1.63214 3.82629 3.49854 3.97354 1.89974 4.30798 3.28622 3.40898 3.09438 4.00190 3.49877 3.72132 3.70348 3.61823 2.47531 2.73041 2.87947 5.36375 4.20981 124 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03025 3.90913 4.63147 0.61958 0.77255 0.48576 0.95510\n- 125 2.71367 4.82119 2.88139 2.54701 4.33520 2.27907 3.72646 3.75697 1.53537 3.33199 4.18956 3.01198 3.84597 2.89849 2.65554 2.75372 3.00576 3.38911 5.46401 4.19841 125 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18811 3.90913 1.88771 0.61958 0.77255 0.48576 0.95510\n- 126 2.35758 4.20090 3.33154 3.08317 3.87238 3.04267 4.10847 2.98571 3.02376 2.85303 3.91478 3.30855 3.73880 3.42563 3.28556 2.55801 1.38593 2.69330 5.32088 4.09026 126 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03533 3.75635 4.47870 0.61958 0.77255 0.61169 0.78183\n- 127 2.85946 4.93494 2.45201 1.20380 4.26785 3.20404 3.78649 3.69866 2.65275 3.33672 4.32041 2.87960 3.80445 3.00758 3.04594 2.85675 3.16438 3.39628 5.46194 4.18898 127 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02392 3.74494 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,371 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_8\n-LENG 116\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 2\n-EFFN 0.402344\n-CKSUM 226353944\n-GA 200 200;\n-STATS LOCAL MSV -9.3641 0.71416\n-STATS LOCAL VITERBI -10.5064 0.71416\n-STATS LOCAL FORWARD -4.2947 0.71416\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36319 4.11452 2.90930 2.53915 3.46008 2.80352 3.74107 2.86040 2.79297 2.38757 3.80202 3.27574 3.59769 3.32939 2.65985 2.59726 3.07613 2.47025 4.75898 3.77305\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.00000 *\n- 1 2.91144 4.47319 3.96799 3.55732 3.17835 3.77684 4.31030 2.34647 3.32892 1.78624 1.53332 3.84376 4.23852 3.71682 3.54291 3.25177 3.21604 2.34324 5.00794 3.76195 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 2 2.28072 4.19900 3.14304 2.95724 4.00083 2.93045 4.06826 3.51397 3.02571 3.24092 4.17490 3.19308 3.66335 3.38155 3.31277 1.21285 2.75547 3.06599 5.37995 4.08441 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 3 3.07102 4.55716 4.06533 3.70691 3.10991 3.88283 4.38674 2.31233 3.47532 0.97587 3.16059 3.98955 4.33279 3.86210 3.66310 3.44769 3.36958 2.32936 4.95932 3.66429 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 4 2.74801 4.31390 4.01740 3.68015 3.49623 3.64235 4.49576 2.06134 3.54665 2.19812 3.47515 3.88167 4.20856 3.91289 3.76614 3.14265 3.11235 1.12783 5.26699 3.99291 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 5 2.89002 4.97982 2.46164 1.13983 4.31705 3.22719 3.81005 3.75576 2.68114 3.38625 4.36581 2.89548 3.82878 3.02872 3.08035 2.88163 3.19441 3.44836 5.50331 4.22786 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 6 2.57516 4.35592 3.23299 3.12383 4.26326 0.85784 4.24698 3.84589 3.29441 3.50933 4.48601 3.39780 3.74458 3.62500 3.53709 2.74524 3.05053 3.38922 5.37683 4.36324 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 7 2.82391 4.80348 2.85654 2.61232 3.96119 3.31750 3.76918 3.58217 2.43905 3.09197 4.12421 3.07053 3.87'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 109 2.74801 4.31390 4.01740 3.68015 3.49623 3.64235 4.49576 2.06134 3.54665 2.19812 3.47515 3.88167 4.20856 3.91289 3.76614 3.14265 3.11235 1.12783 5.26699 3.99291 109 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 110 2.90473 4.86144 3.07543 2.71386 4.23027 3.40035 3.72182 3.65519 1.14858 3.23810 4.20559 3.14102 3.90771 2.91909 2.42439 2.95288 3.16474 3.36797 5.31804 4.12045 110 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 111 1.13028 4.15731 3.38741 3.17741 3.97841 2.98341 4.20816 3.09276 3.19172 2.97759 4.01968 3.34558 3.71559 3.54047 3.44632 2.50918 2.78132 2.76062 5.41337 4.20549 111 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 112 3.07102 4.55716 4.06533 3.70691 3.10991 3.88283 4.38674 2.31233 3.47532 0.97587 3.16059 3.98955 4.33279 3.86210 3.66310 3.44769 3.36958 2.32936 4.95932 3.66429 112 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 113 1.13028 4.15731 3.38741 3.17741 3.97841 2.98341 4.20816 3.09276 3.19172 2.97759 4.01968 3.34558 3.71559 3.54047 3.44632 2.50918 2.78132 2.76062 5.41337 4.20549 113 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 114 2.57516 4.35592 3.23299 3.12383 4.26326 0.85784 4.24698 3.84589 3.29441 3.50933 4.48601 3.39780 3.74458 3.62500 3.53709 2.74524 3.05053 3.38922 5.37683 4.36324 114 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 115 2.57516 4.35592 3.23299 3.12383 4.26326 0.85784 4.24698 3.84589 3.29441 3.50933 4.48601 3.39780 3.74458 3.62500 3.53709 2.74524 3.05053 3.38922 5.37683 4.36324 115 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03394 3.79585 4.51819 0.61958 0.77255 0.48576 0.95510\n- 116 2.92233 4.76304 3.40551 2.93532 4.09822 3.42248 3.77472 3.63624 2.21532 3.16631 4.17040 3.29997 3.93052 3.00054 1.10248 3.01132 3.19466 3.36399 5.21352 4.04414 116 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02297 3.78488 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_I-A_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,404 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_I-A_9\n-LENG 127\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 6\n-EFFN 0.653320\n-CKSUM 1102059562\n-GA 150 150;\n-STATS LOCAL MSV -9.8628 0.71231\n-STATS LOCAL VITERBI -10.7705 0.71231\n-STATS LOCAL FORWARD -4.1238 0.71231\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49014 4.45256 2.89083 2.46022 3.40064 2.97390 3.88211 2.81747 2.48383 2.39447 3.73096 3.07258 3.55636 3.17323 2.91964 2.71734 3.02802 2.70138 4.26513 3.35862\n- 2.68621 4.42228 2.77522 2.73126 3.46356 2.40515 3.72497 3.29357 2.67743 2.69357 4.24571 2.90349 2.73742 3.18149 2.89786 2.37889 2.77522 2.98521 4.58479 3.61506\n- 0.40163 1.60353 2.04338 0.27146 1.43660 0.00000 *\n- 1 2.41283 4.26181 3.34928 2.86761 3.66823 3.25499 3.86483 2.92829 2.78797 2.68574 2.80458 3.21494 3.79805 3.14433 3.12936 1.97274 2.41162 2.65737 5.10179 3.85310 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03206 3.85208 4.57442 0.61958 0.77255 0.60142 0.79415\n- 2 2.59425 4.30405 3.46162 2.93992 3.10505 3.52334 3.74250 2.77832 2.83621 2.46027 2.90952 3.30549 3.93697 3.17551 3.15406 2.42111 2.84582 2.57078 4.63466 2.35303 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03206 3.85208 4.57442 0.61958 0.77255 0.60142 0.79415\n- 3 2.96576 4.34080 4.49100 3.94945 2.66596 4.19829 4.54568 1.57561 3.84655 1.79847 3.10221 4.19069 4.49642 4.05263 4.03909 3.53390 3.21028 1.55136 5.05571 3.81984 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03206 3.85208 4.57442 0.61958 0.77255 0.60142 0.79415\n- 4 2.56318 4.72712 2.07034 2.33323 4.28827 3.11374 3.77873 3.76268 2.72479 3.38929 4.24022 2.83480 3.73588 2.97280 3.20267 1.65814 2.91734 3.34763 5.57287 4.19324 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03206 3.85208 4.57442 0.61958 0.77255 0.60142 0.79415\n- 5 2.67870 4.73594 2.85564 1.73054 3.89401 3.39503 3.70667 3.16509 2.48972 2.82236 3.06234 2.99092 3.85691 2.89770 2.87958 2.74359 2.93174 2.93187 5.26988 3.95025 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03206 3.85208 4.57442 0.61958 0.77255 0.60142 0.79415\n- 6 2.97310 4.35534 4.50747 4.01431 3.45236 4.21096 4.76850 1.48742 3.88884 1.98569 3.28738 4.26334 4.56790 4.17973 4.11354 3.59162 3.24855 1.24440 5.37583 4.15759 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03206 3.85208 4.57442 0.61958 0.77255 0.60142 0.79415\n- 7 3.11508 4.48304 4.56651 4.01794 2.49791 4.31563 4.51727 1.80739 3.89795 1.21587 2.90768 4.27041 4.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12106 3.98050 2.35026 0.61958 0.77255 0.48576 0.95510\n- 120 2.72274 4.92768 2.85931 2.44595 4.28984 3.38415 3.61195 3.70660 1.75804 3.25133 4.08640 2.93910 3.83733 2.44064 2.53127 2.22905 2.96193 3.36072 5.41123 4.11188 124 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89028 4.61262 0.61958 0.77255 0.56989 0.83376\n- 121 2.75933 5.09748 2.46326 1.62466 4.43367 2.76730 3.65105 3.87383 2.16385 3.41755 4.24882 2.78978 3.80415 2.80452 2.85696 2.72140 3.01799 3.50173 5.58983 4.21567 125 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89028 4.61262 0.61958 0.77255 0.56989 0.83376\n- 122 2.45031 2.60910 3.59504 3.06766 3.46505 3.37898 3.92441 2.39928 2.97344 2.51068 3.43703 2.85914 3.87838 3.28959 3.27590 2.70672 2.46305 2.41626 4.94002 3.71488 126 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89028 4.61262 0.61958 0.77255 0.56989 0.83376\n- 123 2.96725 5.08243 2.49459 1.00033 4.43082 3.28529 3.87338 3.88824 2.75612 3.50241 4.47545 2.94250 3.89065 3.08854 3.16696 2.94772 3.27155 3.57017 5.59903 4.32105 127 e - - -\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40499 3.72500 3.29359 2.67721 2.69360 4.24695 2.90352 2.73745 3.18151 2.89806 2.37873 2.77525 2.98523 4.58482 3.61508\n- 0.17223 1.90860 4.61262 0.90084 0.52126 0.56989 0.83376\n- 124 2.68671 4.46060 3.36415 3.26570 4.40809 0.70216 4.38507 4.01186 3.44942 3.66381 4.63954 3.52840 3.85231 3.77213 3.68369 2.85910 3.16932 3.53673 5.49873 4.51052 131 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03084 3.89028 4.61262 0.61958 0.77255 0.43653 1.03923\n- 125 2.80389 4.56772 3.49970 3.41329 4.55192 0.58030 4.52617 4.17857 3.60919 3.81894 4.79618 3.66411 3.96229 3.92488 3.83261 2.97904 3.29354 3.68606 5.61773 4.65775 132 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02814 3.98050 4.70285 0.61958 0.77255 0.48576 0.95510\n- 126 2.73438 5.10191 2.16159 1.56427 4.38869 3.29433 3.67571 3.79049 2.54575 3.39045 4.21955 2.79136 3.80920 2.82559 3.05317 2.69880 2.99400 2.91326 5.60635 4.19794 133 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02814 3.98050 4.70285 0.61958 0.77255 0.48576 0.95510\n- 127 2.77012 5.18674 2.61418 1.84228 4.51632 3.35988 3.61709 3.96757 1.97278 3.45958 4.26053 2.51421 3.82828 2.37335 2.71215 2.72098 3.00365 3.57600 5.59487 4.22407 134 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01903 3.97139 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_III-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_III-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,458 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_III-B_1\n-LENG 145\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:45 2020\n-NSEQ 2\n-EFFN 0.371094\n-CKSUM 943850262\n-GA 200 200;\n-STATS LOCAL MSV -9.8008 0.70999\n-STATS LOCAL VITERBI -10.7996 0.70999\n-STATS LOCAL FORWARD -4.1163 0.70999\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40496 3.60388 3.04637 2.64654 3.43050 2.52869 3.88752 2.84640 2.94971 2.46317 3.72122 3.27683 3.34912 3.41033 2.64802 2.76326 2.92849 2.47562 4.80991 3.64310\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.88474 4.98764 1.07680 2.28299 4.35233 3.13761 3.84940 3.91835 2.91560 3.54666 4.52580 2.83273 3.78365 3.09087 3.41504 2.86115 3.22238 3.56966 5.54066 4.24644 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.90921 2.98827 1.14741 2.98635 3.17025 3.33055 5.19059 4.01682 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.81294 3.01475 3.05797 2.86534 3.17483 3.41477 5.47667 4.20272 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.54708 4.32883 3.19946 3.08782 4.22483 0.90597 4.21134 3.80228 3.25469 3.46879 4.44633 3.36461 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 138 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 138 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 139 1.17216 4.14682 3.36293 3.15321 3.95417 2.97327 4.18677 3.06495 3.16685 2.95070 3.99690 3.32739 3.70315 3.51837 3.42243 2.49955 2.76997 2.73744 5.39182 4.18130 139 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 140 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.90921 2.98827 1.14741 2.98635 3.17025 3.33055 5.19059 4.01682 140 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 141 1.17216 4.14682 3.36293 3.15321 3.95417 2.97327 4.18677 3.06495 3.16685 2.95070 3.99690 3.32739 3.70315 3.51837 3.42243 2.49955 2.76997 2.73744 5.39182 4.18130 141 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 142 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 142 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 143 1.17216 4.14682 3.36293 3.15321 3.95417 2.97327 4.18677 3.06495 3.16685 2.95070 3.99690 3.32739 3.70315 3.51837 3.42243 2.49955 2.76997 2.73744 5.39182 4.18130 143 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 144 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.90921 2.98827 1.14741 2.98635 3.17025 3.33055 5.19059 4.01682 144 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 145 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 145 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_III-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csa5gr11_III-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,428 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csa5gr11_III-B_2\n-LENG 135\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 9\n-EFFN 0.663574\n-CKSUM 2937475355\n-GA 200 200;\n-STATS LOCAL MSV -9.8664 0.71116\n-STATS LOCAL VITERBI -10.6076 0.71116\n-STATS LOCAL FORWARD -4.4649 0.71116\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54182 4.65847 2.93554 2.51456 3.19116 3.30269 3.80376 2.73835 2.56942 2.36714 3.63711 3.01856 3.52826 3.14431 2.76027 2.72941 2.88890 2.68825 5.00952 3.32150\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09659 3.98737 2.61020 0.61958 0.77255 0.00000 *\n- 1 2.74256 5.16963 2.04946 2.16840 4.50267 2.59440 3.66548 3.98088 2.37812 3.50811 4.32133 2.04670 3.78229 2.81466 3.07607 2.68703 3.01301 3.57760 5.68492 4.25527 1 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02990 3.92068 4.64303 0.61958 0.77255 0.54975 0.86060\n- 2 2.78793 4.34618 3.81623 3.27689 1.91332 3.75596 3.64168 2.83147 2.55122 2.45964 3.44821 3.52914 4.11648 3.41815 3.41022 3.03456 3.01590 2.64336 3.44802 2.27384 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02990 3.92068 4.64303 0.61958 0.77255 0.54975 0.86060\n- 3 2.84969 4.30283 4.30593 3.79976 3.54322 4.00794 4.58668 1.69818 3.68492 2.18329 3.39068 4.05422 4.41822 3.98939 3.93320 3.36994 2.77527 1.21827 5.33509 4.12194 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02990 3.92068 4.64303 0.61958 0.77255 0.54975 0.86060\n- 4 2.76332 4.76165 2.73495 2.62522 4.13271 3.21623 3.95981 3.85335 2.86747 3.49472 4.44960 1.07549 3.87041 3.23256 3.22384 2.82861 3.14671 3.47069 5.43309 4.07751 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02990 3.92068 4.64303 0.61958 0.77255 0.44773 1.01909\n- 5 3.30032 4.66686 4.65524 4.15902 2.41217 4.41354 4.49881 2.28300 4.01128 0.90105 2.94906 4.37864 4.65940 4.15420 4.15091 3.78873 3.53464 2.40014 4.79161 3.41559 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98737 4.70971 0.61958 0.77255 0.48576 0.95510\n- 6 3.28576 4.71461 4.37358 4.01508 3.18241 4.12728 4.63483 2.39395 3.78168 0.74570 3.17152 4.27936 4.54361 4.12248 3.93850 3.71319 3.57520 2.46090 5.10223 3.85171 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98737 4.70971 0.61958 0.77255 0.48576 0.95510\n- 7 3.41629 4.85863 4.00927 3.76120 2.30487 3.96508 3.67720 3.40980 3.61546 2.83383 4.07313 3.86715 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02927 3.94168 4.66402 0.61958 0.77255 0.53050 0.88749\n- 128 2.66962 4.94655 2.72452 1.90437 4.18420 3.36176 3.60845 3.64223 2.18003 3.20901 4.02595 2.55813 3.80354 2.75708 2.79511 2.66567 2.90450 3.29919 5.39640 3.11138 137 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10654 3.94168 2.50536 0.61958 0.77255 0.53050 0.88749\n- 129 2.54493 4.43629 2.79768 2.64136 3.65837 3.42809 3.73232 2.58347 2.64187 2.68130 3.57728 2.88782 3.84841 2.97190 3.04862 2.69263 2.62280 2.23239 5.06431 3.78951 138 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86672 4.58907 0.61958 0.77255 0.48715 0.95289\n- 130 2.60576 4.52955 3.19800 2.65683 3.73489 2.86772 3.70482 2.55755 2.04378 2.58303 3.64524 3.11306 3.87327 2.92621 2.84651 2.73133 2.84428 2.77642 5.09717 3.82739 139 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02927 3.94168 4.66402 0.61958 0.77255 0.45877 0.99983\n- 131 2.88346 5.27094 2.31444 1.24207 4.58939 3.26255 3.75621 4.08780 2.64265 3.63511 4.49579 2.37992 3.85497 2.92754 3.12110 2.81684 3.16991 3.69774 5.77591 4.34650 140 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98737 4.70971 0.61958 0.77255 0.48576 0.95510\n- 132 2.72927 5.09725 2.17987 1.55582 4.36583 3.30863 3.66604 3.26378 2.52270 3.36731 4.19543 2.79984 3.81063 2.81356 3.02480 2.69510 2.98319 3.41454 5.58300 4.17756 141 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98737 4.70971 0.61958 0.77255 0.48576 0.95510\n- 133 2.60654 4.25410 3.65759 3.12382 3.48385 3.60220 4.00419 2.14300 3.04628 2.44969 3.42739 2.97200 4.02980 3.36251 3.36186 2.90127 2.46356 1.74688 5.00263 3.77312 142 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13980 3.98737 2.18998 0.61958 0.77255 0.48576 0.95510\n- 134 2.59720 4.75170 2.85994 2.41451 4.04111 3.34886 3.61976 3.45078 2.24298 3.05798 3.88896 2.40750 3.78916 2.60297 2.78629 2.38402 2.84407 2.76714 5.29289 3.97386 143 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11387 3.87877 2.44245 0.61958 0.77255 0.58598 0.81319\n- 135 1.89937 4.31859 2.86019 2.62739 4.17357 2.15891 3.88988 3.58682 2.80788 3.25493 4.09428 2.46220 3.65221 3.11429 3.19381 2.43098 2.72713 3.12688 5.48528 4.20221 144 a - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67736 2.69359 4.24694 2.90351 2.73744 3.18088 2.89805 2.37891 2.77524 2.98497 4.58481 3.61507\n- 0.22991 1.58282 * 0.66373 0.72346 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb1gr7_I-G_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb1gr7_I-G_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,533 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csb1gr7_I-U_1\n-LENG 170\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:46 2020\n-NSEQ 28\n-EFFN 2.259277\n-CKSUM 2381917744\n-GA 40 40;\n-STATS LOCAL MSV -10.0818 0.70750\n-STATS LOCAL VITERBI -11.3863 0.70750\n-STATS LOCAL FORWARD -4.7371 0.70750\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40983 4.53009 2.99059 2.63481 3.39076 2.87115 3.66345 2.94411 2.73798 2.47525 3.81743 3.13316 3.14021 3.03352 2.79594 2.58247 2.83023 2.64543 4.67509 3.61116\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.00000 *\n- 1 2.56977 4.34659 3.83623 4.04743 2.77826 4.10806 4.43483 1.90932 3.89706 1.16753 3.33719 4.17393 4.45374 4.06924 4.00347 3.41379 3.17635 2.30287 4.98720 3.81501 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 2 2.82298 4.43163 3.91551 3.33700 3.55537 3.84890 4.12288 2.65849 3.20593 1.88567 3.53089 3.67722 4.22584 3.52696 1.97267 2.54579 3.05676 1.87374 5.04270 3.83011 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 3 2.60238 3.23934 4.61234 4.00550 3.26467 3.93065 4.25762 1.62559 3.81764 1.97533 2.63063 4.05043 4.29556 3.97276 3.45944 2.79387 2.71671 2.27229 3.99654 3.61173 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 4 2.76831 5.21846 2.86940 1.85383 4.53946 3.55098 3.74032 3.17898 2.17740 3.51308 4.26569 2.68549 3.94395 2.84516 2.24614 2.74245 2.60973 3.26340 5.66549 3.67558 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 5 1.85792 4.63944 3.44792 2.64562 3.80255 3.69290 3.92753 2.83834 2.85772 2.70892 3.73499 3.34351 4.07700 3.00773 3.26107 2.27494 2.22011 2.62682 5.20114 3.53990 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 6 2.76968 5.27294 2.76697 1.80741 4.61525 3.54257 3.45572 4.09888 2.25870 3.30532 4.31458 2.83622 3.65619 2.55404 2.39297 2.61319 2.36214 3.66215 5.70680 4.29804 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 7 3.82544 5.08944 5.39334 4.91574 2.41190 4.92956 4.55738 2.92216 4.74007 0.58312 3.43603 4.86544 5.133'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 163 3.67125 4.87285 5.70005 5.21923 3.96925 5.24991 5.89759 0.63267 5.13537 2.05235 3.71042 5.39744 5.43420 5.31934 5.26677 4.68075 3.92485 1.69144 6.13028 4.97411 282 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 164 2.60766 4.60387 3.51610 1.88336 3.75899 3.72098 3.95781 2.86034 2.90133 2.81863 3.70135 3.39507 4.10348 3.23258 2.79612 2.95639 3.01473 1.69492 4.12255 3.91964 283 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 165 1.02421 4.61873 4.27049 4.13985 5.15860 0.99523 5.12583 4.59891 4.27072 4.31249 5.11492 4.02757 4.21977 4.46911 4.47056 2.89737 3.25233 3.86741 6.47625 5.36859 284 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 166 2.59210 4.30334 4.06461 2.53252 2.78056 3.84600 4.13384 2.20028 3.39012 2.50122 3.41583 3.75744 4.21802 3.29841 3.62531 2.83528 3.00627 2.40170 3.57919 2.05579 285 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 167 2.87631 5.32484 1.66018 2.49280 4.63011 2.21266 3.82836 4.10426 2.52221 3.20647 4.38655 2.24877 4.00910 2.94633 3.11813 2.84029 3.11567 3.69840 5.77728 3.71724 286 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 168 1.61201 4.36646 4.26537 3.71734 3.59656 3.41177 4.35490 2.26771 3.61827 2.63225 3.57896 3.92122 3.63377 3.86028 3.83467 3.17707 3.09852 1.40839 5.11956 3.92278 287 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 169 2.56657 5.07996 2.75318 2.35883 3.79619 3.08657 3.77201 3.19626 2.48549 3.13752 4.14076 2.82048 3.96641 2.89938 1.94087 2.65577 2.87708 2.78839 5.55922 4.19748 288 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71234 5.43468 0.61958 0.77255 0.48576 0.95510\n- 170 2.77120 5.03483 3.13287 2.14789 4.29303 3.23541 3.78713 3.72050 2.44615 2.98419 4.10113 3.10311 2.44783 2.92386 2.60737 2.65198 2.64427 2.33141 5.52446 4.17518 289 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00906 4.70797 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb2gr5_I-G_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb2gr5_I-G_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1517 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csb2gr5_I-U_1\n-LENG 498\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:47 2020\n-NSEQ 16\n-EFFN 4.152344\n-CKSUM 1843754400\n-GA 50 50;\n-STATS LOCAL MSV -11.6580 0.69805\n-STATS LOCAL VITERBI -12.7544 0.69805\n-STATS LOCAL FORWARD -5.8110 0.69805\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38648 4.52901 3.00544 2.66452 3.49027 2.83390 3.53493 3.05076 2.81913 2.43379 3.79225 3.25093 2.90697 3.05907 2.70255 2.66179 2.86106 2.71201 4.19063 3.62975\n- 2.68587 4.42235 2.77530 2.73134 3.46364 2.40495 3.72505 3.29364 2.67715 2.69365 4.24505 2.90357 2.73750 3.18157 2.89811 2.37897 2.77530 2.98529 4.58487 3.61514\n- 0.80857 1.51886 1.09200 0.10360 2.31859 0.00000 *\n- 1 2.91815 4.90600 2.47572 2.91213 4.21764 3.66597 4.13453 3.60141 3.06279 3.27029 1.24317 3.38258 4.17980 3.36155 3.49071 2.00487 3.21279 3.30927 5.59516 4.29248 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01249 4.78494 5.50729 0.61958 0.77255 0.76146 0.62920\n- 2 2.89573 5.09649 3.29666 2.74005 4.36079 3.71231 3.91724 3.77667 2.67577 3.37085 2.20507 3.25282 2.59980 2.57448 2.57414 1.68685 3.12912 3.44847 5.60364 4.27543 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94005 5.66240 0.61958 0.77255 0.24782 1.51641\n- 3 1.89340 5.09153 2.85867 2.49940 4.30832 3.82180 4.03451 3.71236 2.86080 3.34076 2.01239 3.37631 3.21727 3.20487 3.31383 3.03218 2.31897 3.41143 5.61123 2.72358 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00832 5.18966 5.91201 0.61958 0.77255 0.48576 0.95510\n- 4 3.82737 5.12043 5.76316 5.16894 1.91117 5.09410 5.39623 1.99800 4.99484 0.75784 3.50039 5.24860 5.30105 4.99327 4.97596 4.43926 2.79062 2.94795 5.64062 4.55633 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00832 5.18966 5.91201 0.61958 0.77255 0.48576 0.95510\n- 5 2.15839 3.19456 4.74189 4.16183 3.63229 2.21123 4.55051 2.91168 4.00844 2.05040 3.64550 4.25259 4.53604 4.19327 4.11930 3.44039 2.30908 1.45680 5.15512 3.97226 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00832 5.18966 5.91201 0.61958 0.77255 0.48576 0.95510\n- 6 2.84961 5.08887 5.88611 5.35627 4.09310 5.30006 5.81088 1.06489 5.23779 1.06405 3.87707 5.46469 5.52333 5.35457 5.29972 4.68516 4.09226 2.00290 6.10062 4.97762 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00832 5.18966 5.91201 0.61958 0.77255 0.48576 0.95510\n- 7 2.51678 5.31213 3.28446 1.72765 4.59588 3.07096 3.96051 2.68956 2.72377 3.00086 4.36988 3.26299 4.15'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00832 5.18966 5.91201 0.61958 0.77255 0.48576 0.95510\n- 491 2.32462 5.44257 1.58687 2.32091 4.77440 3.73988 3.92981 4.25121 2.35083 3.74210 4.48697 3.21243 2.79384 3.03077 2.71392 2.93166 3.19480 2.98285 5.88306 3.35123 561 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06660 5.18966 2.83269 0.61958 0.77255 0.48576 0.95510\n- 492 2.54550 3.29739 2.32057 2.19048 4.53039 2.97436 3.95297 3.96751 2.72731 3.53282 4.32047 3.25763 4.14157 3.08108 3.20332 1.97213 2.71736 2.25638 5.73896 4.37791 562 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00881 5.13188 5.85422 0.61958 0.77255 0.66088 0.72649\n- 493 2.26856 5.44796 3.17388 2.06826 4.78748 3.04762 2.68596 4.26999 2.35479 3.75122 4.49201 2.68899 1.96898 3.00962 3.14333 2.53596 3.18166 3.83602 5.88457 4.47574 563 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07700 5.13188 2.68518 0.61958 0.77255 0.66088 0.72649\n- 494 1.49916 5.38452 3.17756 1.23231 4.92848 3.72853 4.17252 4.39754 2.99162 3.92899 4.70594 3.34520 2.97291 3.30501 3.48174 2.50417 3.35958 3.94894 6.09663 4.70901 564 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07000 5.06430 2.79223 0.61958 0.77255 0.82338 0.57793\n- 495 2.48071 5.27701 2.06380 1.80951 4.57231 3.68254 3.89044 4.01876 2.65704 2.89802 4.33731 3.17522 4.08381 3.00880 3.14135 2.16661 3.13525 2.48752 5.74713 4.36814 565 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06978 5.00432 2.80200 0.61958 0.77255 0.94108 0.49464\n- 496 2.48825 3.25719 3.12369 2.26632 4.64677 2.93025 3.82791 4.11881 2.56899 3.61764 4.36708 2.64675 4.03143 2.49607 2.04200 2.06558 3.08921 3.70088 5.76492 4.36689 566 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14789 4.94518 2.03749 0.61958 0.77255 1.03925 0.43652\n- 497 1.69893 4.38620 4.01857 3.44628 2.25082 3.86055 4.16484 2.85204 3.36528 2.20791 3.50781 2.87541 4.24505 3.62627 3.62970 2.57939 3.05383 2.25849 4.99738 3.78856 567 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08941 4.80948 2.55901 0.61958 0.77255 1.21719 0.35106\n- 498 2.77725 4.77884 2.66707 2.34582 3.96756 3.65889 3.87876 2.71705 2.74613 2.52369 3.86474 3.25182 4.04543 2.58640 3.17950 2.87535 2.43110 2.40470 5.31841 2.90416 568 e - - -\n- 2.68499 4.42393 2.77552 2.73115 3.46439 2.40466 3.72663 3.29310 2.67700 2.69324 4.24642 2.90515 2.73815 3.18050 2.89863 2.37879 2.77492 2.98577 4.58329 3.61374\n- 0.99973 0.45883 * 2.09310 0.13159 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb2gr5_I-G_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb2gr5_I-G_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1679 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csb2gr5_I-U_2\n-LENG 552\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:47 2020\n-NSEQ 3\n-EFFN 0.635742\n-CKSUM 1284346989\n-GA 300 300;\n-STATS LOCAL MSV -11.9652 0.69755\n-STATS LOCAL VITERBI -12.8881 0.69755\n-STATS LOCAL FORWARD -6.1023 0.69755\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39383 4.30557 2.91695 2.76615 3.41555 2.71764 3.65241 2.82289 2.76089 2.46342 3.73965 3.20084 3.08135 3.19041 2.85490 2.64940 2.92323 2.64750 4.32621 3.57584\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.00000 *\n- 1 2.67840 1.95723 3.94425 3.45731 2.89554 3.59290 3.90447 2.71178 3.29256 2.44880 3.47458 3.63904 4.07629 3.58666 3.50588 2.96816 2.97828 2.51957 4.48750 2.11752 1 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 2 2.64604 4.33745 3.67427 3.27422 1.67556 3.48900 3.86017 2.90455 3.23064 2.55053 3.60080 3.50662 4.02390 3.50506 3.49814 2.07995 2.97904 2.69895 4.49492 2.95769 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 3 2.38235 4.22797 3.49453 3.16590 3.91018 1.63318 4.16553 3.02049 3.15793 2.93522 3.90231 3.38517 3.81987 3.48337 3.45409 2.59181 2.81183 1.88947 5.36561 4.12610 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 4 2.57224 4.39249 3.38296 3.03516 3.71536 1.66661 4.03898 3.04149 2.98300 1.91164 3.79360 3.36194 3.91111 3.36110 3.28765 2.76292 2.93781 2.79521 5.18778 3.90473 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 5 2.25802 4.19995 3.35202 3.04439 4.18362 2.98431 4.12443 3.53327 3.05919 3.27193 4.13174 3.25592 3.70383 3.38886 3.37697 1.42663 1.89464 3.06389 5.54270 4.30418 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 6 2.58406 4.26341 3.70116 3.26933 3.52696 3.49201 4.13599 1.59336 3.17142 2.46363 3.52431 3.54534 4.02728 3.51450 3.44850 2.14156 2.91588 2.25715 5.10273 3.83808 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 7 1.28926 4.14041 3.43038 3.15514 4.22445 2.93460 4.21215 3.56142 3.19891 3.32024 4.17730 3.30006 3.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 545 3.52425 4.79919 4.52537 4.18618 1.16760 4.30666 3.47448 3.20881 4.03935 2.55625 3.81547 4.01088 4.62312 4.04760 4.10110 3.67123 3.74964 3.13651 3.63073 1.41804 545 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 546 2.78791 4.55322 3.48132 3.39324 4.53266 0.59504 4.50711 4.15616 3.58755 3.79810 4.77503 3.64568 3.94742 3.90414 3.81253 2.96267 3.27663 3.66593 5.60189 4.63800 546 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 547 2.58561 4.33582 3.53859 3.12413 3.46777 3.42943 4.02048 2.75528 3.00184 1.57132 3.54202 3.43201 3.97104 3.38147 3.28699 2.09375 2.91952 2.56832 5.03320 3.72658 547 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 548 2.78791 4.55322 3.48132 3.39324 4.53266 0.59504 4.50711 4.15616 3.58755 3.79810 4.77503 3.64568 3.94742 3.90414 3.81253 2.96267 3.27663 3.66593 5.60189 4.63800 548 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 549 3.26403 4.69817 4.34360 3.98453 3.17409 4.10375 4.61013 2.38410 3.75132 0.76532 3.16818 4.25065 4.52299 4.09663 3.91140 3.68675 3.55415 2.44627 5.08761 3.83292 549 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 550 2.71170 1.91679 4.22973 3.74619 2.07508 3.66770 4.10686 2.48098 3.60667 2.20745 3.34906 3.84307 4.16166 3.82470 3.76982 3.06435 3.02648 2.33931 4.61390 3.18151 550 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 551 1.59047 4.51265 3.25798 2.80294 4.07025 3.28023 3.83572 3.40526 2.50402 3.07973 3.97366 3.17654 3.83829 3.04337 2.07172 2.66707 2.88288 3.06927 5.35090 4.10060 551 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96862 4.69097 0.61958 0.77255 0.48576 0.95510\n- 552 2.88270 4.62343 3.50037 3.35371 4.33967 3.30553 4.42282 3.91034 3.41934 3.52656 4.58090 3.65046 0.66680 3.80520 3.65351 3.05333 3.33196 3.54467 5.49934 4.46183 552 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 3.95940 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb3_I-G_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csb3_I-G_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1046 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csb3_I-U_1\n-LENG 341\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:47 2020\n-NSEQ 6\n-EFFN 1.391602\n-CKSUM 1798820470\n-GA 170 170;\n-STATS LOCAL MSV -11.0517 0.70031\n-STATS LOCAL VITERBI -11.9756 0.70031\n-STATS LOCAL FORWARD -5.4596 0.70031\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40511 4.36794 2.95910 2.63915 3.48546 2.85364 3.64925 2.96073 2.72661 2.46999 3.67688 3.16980 3.33982 3.08587 2.77871 2.56744 2.76712 2.69799 4.17050 3.69844\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.00000 *\n- 1 2.80865 5.16090 3.06667 2.11685 4.50215 3.54851 3.69220 3.93184 1.92866 3.43676 4.22523 3.03913 3.94335 2.81032 2.23791 2.79086 1.90914 3.55341 5.57616 4.24305 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 2 3.41593 4.69407 5.23104 4.67670 2.22125 4.72693 4.97730 1.12850 4.53735 1.46124 3.13684 4.81363 4.92291 4.58801 4.58577 4.08463 3.64150 2.23266 5.22090 4.01260 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 3 1.40045 4.43780 3.60169 3.15430 4.37195 3.22627 4.22942 3.78423 3.15211 3.44561 4.26262 3.41724 2.50339 3.45789 3.52512 1.92360 2.11945 3.30434 5.69884 4.45754 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 4 1.32598 4.39154 3.80305 3.62122 4.75137 1.06496 4.68318 4.15597 3.74956 3.87739 4.70238 3.66086 3.95366 3.99136 4.01096 2.65162 2.99034 3.52258 6.07749 4.91947 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 5 3.00890 5.32153 0.93770 2.45854 4.84278 3.40777 4.05623 4.26639 3.06429 3.88746 4.76004 3.00950 4.04739 3.23780 3.61371 2.97749 2.26843 3.84887 6.08063 4.64445 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 6 2.16619 4.44213 4.00191 3.48627 3.04367 3.86218 4.01866 2.79899 3.36104 1.99522 3.51290 3.74695 4.26461 3.64512 3.60579 3.17237 3.12916 2.63398 4.64288 1.52013 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 7 2.74835 5.00224 1.80588 2.51312 4.54991 3.37747 3.89936 3.99620 2.77146 3.57316 4.37770 3.02858 3.9331'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 334 2.76893 4.49766 3.58865 3.03406 3.27252 3.71019 3.85191 3.01147 2.91638 2.68765 3.60359 3.42375 4.09114 2.50250 3.24685 2.96833 2.38333 2.78920 2.12703 2.60690 359 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 335 3.46423 4.72345 5.30737 4.76214 3.42365 4.85585 5.27286 1.70438 4.63945 0.93931 3.19476 4.95639 5.03228 4.72450 4.72144 4.23184 3.69695 1.65532 5.52067 4.44902 360 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 336 2.84590 4.86593 3.10172 2.12762 3.99981 3.60856 3.84663 3.37506 2.61280 1.55485 3.89369 3.18074 4.03417 2.41532 2.98400 2.92039 3.07799 3.14012 5.35967 4.06899 361 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 337 3.00324 5.34716 3.27602 2.17642 4.77685 3.68264 3.71243 4.17395 1.78418 3.59872 4.40226 3.15854 4.05696 2.17201 1.56646 2.96698 3.19402 3.79087 5.65567 4.39023 362 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 338 3.42346 5.11731 4.19781 4.17392 5.24866 0.24879 5.23040 5.00419 4.42200 4.57901 5.57999 4.36488 4.52012 4.70656 4.57250 3.61426 3.94235 4.43321 6.17794 5.37799 363 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 339 2.72355 5.16258 2.91364 2.03709 4.49209 3.46850 3.66691 3.95514 1.93885 3.45537 4.21795 2.94708 3.87585 2.34274 2.84541 2.26047 2.43347 3.54697 5.60160 4.21581 364 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 340 2.29002 4.51792 4.71568 4.16704 3.40941 4.32716 4.73850 1.75891 4.03104 1.10912 3.25797 4.37558 4.64614 4.23248 4.18977 3.66597 3.37570 2.14547 5.26234 4.12060 365 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01872 4.38329 5.10563 0.61958 0.77255 0.48576 0.95510\n- 341 2.85586 4.33994 4.19009 3.63889 3.37657 3.95618 2.78928 1.32813 3.48290 2.34098 3.39925 3.89500 4.32629 3.77580 3.70035 3.26282 3.09805 1.88123 4.97894 3.72775 366 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01264 4.37720 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,725 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csc1gr5_I-D_1\n-LENG 234\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:47 2020\n-NSEQ 19\n-EFFN 0.765381\n-CKSUM 1558521853\n-GA 300 300;\n-STATS LOCAL MSV -10.5022 0.70356\n-STATS LOCAL VITERBI -11.5706 0.70356\n-STATS LOCAL FORWARD -5.1027 0.70356\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56681 4.59643 2.98720 2.60536 3.15990 2.95883 3.75458 2.89251 2.73206 2.40705 3.64753 3.15290 3.33655 3.15154 2.86788 2.59540 2.74533 2.67770 4.69634 3.22231\n- 2.68626 4.42234 2.77516 2.73121 3.46362 2.40521 3.72503 3.29343 2.67749 2.69363 4.24547 2.90342 2.73748 3.18155 2.89809 2.37880 2.77516 2.98498 4.58485 3.61512\n- 0.23014 1.87896 2.94070 1.13349 0.38847 0.00000 *\n- 1 3.01772 4.43650 4.45698 3.90020 2.74152 4.17394 4.48029 2.19534 3.78186 1.65906 1.72230 4.15341 4.46824 3.96832 3.96355 3.49704 3.25511 1.89782 4.98400 3.79586 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00768 4.73002 0.61958 0.77255 0.53318 0.88366\n- 2 2.63376 4.62856 2.99529 2.14381 3.82992 3.44387 3.69837 2.24511 2.52625 2.85837 3.72925 2.92614 3.86395 2.68528 2.92557 2.72576 2.77238 2.90278 5.17338 3.88447 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00768 4.73002 0.61958 0.77255 0.53318 0.88366\n- 3 2.43571 4.68881 2.91800 1.82069 3.96508 3.38800 3.70594 2.72640 2.53789 2.97576 3.84001 2.99314 3.83857 2.89009 2.96886 2.49658 2.86912 2.96728 5.28711 3.97389 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00768 4.73002 0.61958 0.77255 0.53318 0.88366\n- 4 2.74376 5.02006 3.04415 2.48084 4.35035 3.47845 2.87502 3.76305 1.98502 3.27763 4.08724 2.97823 3.86510 2.09583 2.27146 2.73769 2.71656 3.41085 5.41827 4.11969 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00768 4.73002 0.61958 0.77255 0.53318 0.88366\n- 5 2.30340 4.21648 3.41664 3.13684 4.14564 3.02853 4.18577 3.42441 3.12260 3.22613 4.12332 3.32494 3.75304 3.47329 3.41201 2.20602 1.21655 2.99962 5.53632 4.29771 9 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00768 4.73002 0.61958 0.77255 0.53318 0.88366\n- 6 3.60865 4.86345 4.57342 4.25103 1.42219 4.36001 3.47015 3.30975 4.10196 2.64829 3.91095 4.04290 4.67379 4.09214 4.15347 3.72787 3.83242 3.23214 3.61736 1.07776 10 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00768 4.73002 0.61958 0.77255 0.53318 0.88366\n- 7 2.66673 4.92983 2.77589 1.71052 4.21476 3.37431 3.63303 3.63201 2.38572 2.93148 4.03039 2.67441 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05309 4.77543 0.61958 0.77255 0.48576 0.95510\n- 227 2.62960 4.95538 2.95164 2.33684 4.25130 3.41529 3.28617 3.68555 2.08647 3.22682 4.01470 2.52773 3.80406 2.52256 2.46235 2.62628 2.55099 3.32081 4.69582 4.05741 234 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05309 4.77543 0.61958 0.77255 0.48576 0.95510\n- 228 3.16991 4.46267 4.89733 4.36886 3.45087 4.54803 5.01720 1.24258 4.25593 1.66731 3.24669 4.59561 4.79801 4.46554 4.42637 3.91621 3.41669 1.45065 5.45053 4.29198 235 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05309 4.77543 0.61958 0.77255 0.48576 0.95510\n- 229 2.68521 4.36085 4.61145 4.06492 3.42939 4.28225 4.71122 1.52430 3.95698 1.62093 3.26426 4.29803 4.58681 4.18546 4.14943 3.61988 3.25057 1.50504 5.27692 4.10714 236 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05309 4.77543 0.61958 0.77255 0.48576 0.95510\n- 230 2.48397 4.41564 3.22644 3.05032 4.26381 3.11675 4.21177 3.75954 3.13502 3.44760 4.36787 3.32538 1.06750 3.50130 3.43232 2.46824 2.94940 3.30175 5.60211 4.33757 237 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05309 4.77543 0.61958 0.77255 0.48576 0.95510\n- 231 2.59430 4.53675 3.18258 1.99372 3.33427 3.49028 3.71421 2.82073 2.59564 2.68987 3.25645 3.10389 3.87485 2.74038 3.01258 2.71531 2.82580 2.62337 5.08263 3.80343 238 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05309 4.77543 0.61958 0.77255 0.48576 0.95510\n- 232 3.08529 4.42210 4.70241 4.16111 3.44318 4.39711 4.83404 1.73828 4.04557 1.90144 2.84467 4.40766 4.67942 4.28058 4.24207 3.74490 3.33202 1.09137 5.36446 4.19459 239 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05309 4.77543 0.61958 0.77255 0.48576 0.95510\n- 233 2.78011 4.24971 4.18110 3.62031 2.58544 3.88588 4.18093 2.31670 3.50404 1.46649 3.14740 3.85438 4.24147 3.72875 3.70342 2.91089 3.02163 1.94068 4.79944 3.54495 240 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19115 4.05309 1.85390 0.61958 0.77255 0.48576 0.95510\n- 234 2.41554 4.71688 2.98473 2.41219 4.02576 2.91679 3.61819 3.42327 2.33438 3.03057 3.86174 2.96219 3.79809 2.68760 2.19887 2.63866 2.74068 2.97976 5.26745 3.96622 241 r - - -\n- 2.68599 4.42228 2.77522 2.73115 3.46357 2.40508 3.72497 3.29357 2.67743 2.69358 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58480 3.61506\n- 0.26334 1.46308 * 0.26437 1.45966 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,653 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csc1gr5_I-D_2\n-LENG 210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:47 2020\n-NSEQ 7\n-EFFN 1.493652\n-CKSUM 1146076959\n-GA 49.8 49.7;\n-STATS LOCAL MSV -10.2679 0.70478\n-STATS LOCAL VITERBI -11.4614 0.70478\n-STATS LOCAL FORWARD -5.0107 0.70478\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55483 4.57324 3.08740 2.71541 3.19249 2.98304 3.64646 2.85761 2.68952 2.47936 3.62296 2.95469 3.14501 3.06418 2.98440 2.69798 2.82282 2.64827 4.74372 3.03909\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.00000 *\n- 1 3.69955 4.94776 5.44844 4.91492 3.30908 5.04566 5.38434 1.73663 4.74429 0.67300 3.08200 5.14608 5.15447 4.78110 4.79272 4.45005 3.92280 2.37842 5.50288 4.45813 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 2 2.73643 4.92974 3.02418 2.18245 4.15990 3.52167 3.74570 3.58843 2.53082 3.18918 4.01138 3.05411 3.93260 2.45351 2.97310 2.76639 1.75225 3.26757 5.42167 3.02418 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 3 2.67881 3.04189 3.92817 3.35316 3.34986 3.73431 4.04294 2.66247 3.25774 1.77205 2.65464 2.66133 4.11672 3.51853 3.50770 3.01274 2.40875 2.46385 4.84946 3.64627 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 4 2.83433 4.36503 4.06338 3.48650 3.30028 3.90254 1.91240 2.10189 3.35599 1.90792 2.56668 3.78272 4.25465 3.63143 3.59783 3.18240 3.06417 2.49979 4.90710 3.68224 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 5 2.94967 5.46925 1.78856 1.96166 4.81237 2.52373 3.85747 4.31284 2.75218 3.80352 4.59550 2.91444 3.97933 2.99405 3.30015 1.70260 3.21701 3.87631 5.95733 4.49834 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 6 2.77553 5.22584 2.82302 2.07167 4.55542 3.46941 3.71789 4.02500 2.11906 3.52699 4.29478 2.45774 2.18305 2.83327 2.95491 2.32934 3.01403 3.61325 5.67787 4.27828 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 7 3.36866 4.66971 5.14042 4.64673 3.62129 4.69940 5.24138 2.01715 4.49863 1.46405 3.43912 4.82681 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 203 2.67382 4.23869 3.86386 3.28811 2.69842 2.51436 4.00335 2.30599 2.63054 2.43441 3.34859 3.59547 4.09915 3.46712 3.46834 2.99444 2.90596 2.14843 4.83130 2.78879 277 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 204 2.69869 4.13181 4.31977 3.72785 2.55923 2.49732 4.12873 2.17728 3.58154 1.99097 3.22872 3.86809 4.19221 3.77239 3.70820 3.12439 2.93090 2.04133 4.72377 2.70906 278 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 205 2.73619 4.54332 3.92388 3.60210 4.13829 3.49963 4.54776 3.16729 3.54069 3.07173 4.13705 3.78736 0.98422 3.88825 3.80593 2.96600 3.16873 1.97185 5.65912 4.42399 279 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 206 1.43567 4.58257 3.42720 2.91183 3.81293 3.58259 3.94431 3.14026 2.82136 2.80461 2.61573 3.33657 4.03091 2.54851 3.18443 2.87156 2.98267 2.90041 5.23224 3.97695 280 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 207 2.75323 4.99447 3.06067 2.57227 4.36233 1.84980 2.65600 3.80666 2.48685 3.36683 4.17098 3.07762 3.94417 2.91587 2.40292 2.29790 3.00829 3.43824 5.54997 4.21257 281 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 208 2.27799 4.26144 3.91924 2.36200 2.68523 3.77119 4.05532 2.24196 3.26009 2.06082 2.68221 3.64808 4.13937 3.51762 3.52049 3.04221 2.94096 2.46119 4.86808 3.66639 282 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 209 2.81290 5.13176 3.13605 2.20639 4.45197 3.57578 2.23950 3.87791 1.99996 2.55945 4.19070 3.06999 3.95919 2.82398 2.26627 2.80429 3.02921 3.51320 5.54710 4.22248 283 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42809 5.15044 0.61958 0.77255 0.48576 0.95510\n- 210 4.33236 5.36899 5.23148 5.08028 1.04872 4.91161 3.68729 3.92921 4.88283 3.13972 4.48007 4.50291 5.18520 4.64175 4.76018 4.31301 4.53851 3.87938 3.77582 0.90771 284 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01208 4.42228 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,794 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csc1gr5_I-D_3\n-LENG 257\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:47 2020\n-NSEQ 5\n-EFFN 0.532227\n-CKSUM 1100117001\n-GA 300 300;\n-STATS LOCAL MSV -10.7103 0.70257\n-STATS LOCAL VITERBI -11.7540 0.70257\n-STATS LOCAL FORWARD -5.0342 0.70257\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56005 4.23520 2.98648 2.75323 3.02122 2.88460 3.80206 2.81339 2.81646 2.39266 3.67110 3.21783 3.37220 3.20221 2.88322 2.67318 2.74141 2.61449 4.38393 3.21233\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67721 2.69358 4.24586 2.90350 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.15304 2.02470 4.61800 0.65676 0.73091 0.00000 *\n- 1 2.64588 4.31526 3.74715 3.26658 3.40627 3.57046 4.12253 2.45796 3.10310 2.13823 1.93780 3.56831 4.05837 3.47015 3.37408 2.93348 2.34805 2.33347 5.06863 3.85378 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 2 3.18107 4.63635 4.22676 3.86652 3.14424 4.01170 4.51497 2.34933 3.63405 0.84718 3.15960 4.13976 4.44294 3.99683 3.80640 3.58497 3.47419 2.39272 5.03214 3.76087 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 3 3.28027 4.75988 3.87229 3.60585 2.29353 3.85701 3.62893 3.28621 3.46270 2.73421 3.95880 3.75178 4.33022 3.76319 3.64173 3.41473 3.56701 3.15784 3.93825 0.92811 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 4 0.98087 4.20333 3.48587 3.27800 4.07521 3.02729 4.29735 3.20417 3.29485 3.08473 4.11385 3.42184 3.76868 3.63385 3.54391 2.55334 2.83229 2.85456 5.50005 4.30282 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 5 3.03125 4.86917 3.52423 3.03021 4.22961 3.51508 3.84053 3.77275 2.24598 3.28445 4.28383 3.38827 4.01636 3.05953 0.94357 3.11419 3.29552 3.49565 5.30315 4.15173 7 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 6 0.98087 4.20333 3.48587 3.27800 4.07521 3.02729 4.29735 3.20417 3.29485 3.08473 4.11385 3.42184 3.76868 3.63385 3.54391 2.55334 2.83229 2.85456 5.50005 4.30282 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 7 3.04910 4.46115 4.36892 3.98544 3.38962 4.09179 4.70913 1.04967 3.81404 1.97071 3.32116 4.22752 4.52'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 250 2.77986 4.32527 3.96105 3.42729 2.66475 3.82144 4.13304 2.32231 3.31865 1.51316 3.14057 3.73055 4.19722 3.59223 3.57522 3.13432 2.43419 2.24628 4.84130 3.55825 266 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 251 3.07556 4.41859 4.63806 4.09966 3.30261 4.36854 4.78075 1.53901 3.97873 1.47824 3.11511 4.36478 4.63513 4.20373 4.17483 3.71884 3.32019 1.52569 5.27770 4.11993 267 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 252 2.67919 4.85342 2.79584 2.18064 4.19646 3.34632 3.64538 3.60983 2.33361 3.19007 4.03293 2.92547 2.24300 2.80715 2.40288 2.70155 2.93307 3.27386 5.39044 4.07973 268 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 253 2.73021 4.50953 3.43702 2.89934 3.43520 3.64271 3.86096 2.37384 2.69679 1.95652 3.38017 3.32820 4.02172 2.24844 3.01886 2.92354 2.96401 2.55942 5.01393 3.74492 269 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 254 2.79164 5.20583 2.37450 1.68087 4.50256 3.26691 3.64839 3.97644 2.45669 3.49492 4.32268 2.24684 3.80227 2.40611 2.91259 2.73021 3.04832 3.59124 5.65318 4.24533 270 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 255 2.67516 5.06390 2.03568 2.23088 4.37653 2.82792 3.60794 3.83838 2.40676 3.36894 4.16885 2.78099 3.77043 2.42952 2.56499 2.64049 2.92484 3.45158 5.54261 4.14877 271 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 256 2.64420 4.24203 3.72235 3.15391 2.82812 3.67844 3.94720 2.22870 3.03734 2.17774 3.23878 3.50142 4.04708 3.34931 2.69471 2.95298 2.88059 1.95542 4.82717 3.58398 272 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89565 4.61800 0.61958 0.77255 0.48576 0.95510\n- 257 2.16298 4.35677 3.81115 3.38506 3.39239 3.62360 4.23879 2.36296 3.23984 1.40638 3.32969 3.66953 4.13075 3.60188 3.49816 3.02131 3.03522 2.25502 5.12251 3.88263 273 l - - -\n- 2.68620 4.42145 2.77521 2.73125 3.46356 2.40515 3.72496 3.29327 2.67743 2.69357 4.24692 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.18938 1.75718 * 0.31394 1.31142 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,788 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csc1gr5_I-D_4\n-LENG 255\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 3\n-EFFN 0.606445\n-CKSUM 2438839099\n-GA 240 240;\n-STATS LOCAL MSV -10.7334 0.70270\n-STATS LOCAL VITERBI -11.5740 0.70270\n-STATS LOCAL FORWARD -5.2254 0.70270\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52775 4.40891 3.09272 2.78170 3.18902 2.75273 3.82231 2.71711 2.75403 2.44473 3.62672 3.19388 3.21468 3.27208 2.92714 2.68158 2.86506 2.48782 4.62950 3.22372\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24525 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.21657 1.68546 4.67085 0.29071 1.37728 0.00000 *\n- 1 2.94708 4.40801 4.33769 3.81512 3.26196 4.06344 4.51815 2.08289 3.65993 1.79619 1.89928 4.07936 4.42612 3.93334 3.87349 3.41747 3.21414 1.60494 5.14125 3.96738 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 2 2.79175 4.56262 3.52168 2.98689 2.19031 3.62224 3.74994 3.01163 2.65105 2.55777 3.61553 3.35919 4.03577 3.15693 1.84037 2.95325 3.03761 2.83713 4.68336 3.21254 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 3 2.99252 4.43219 4.37381 3.89506 1.66829 4.04813 4.20720 2.26180 3.77721 1.88471 3.19126 4.05736 4.42197 3.96701 3.94967 3.41317 3.26127 1.76477 4.60177 3.12314 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 4 3.09469 4.58423 4.04788 3.59699 2.40609 3.98872 3.71796 2.79460 3.40002 1.76584 3.48686 3.77386 4.35160 3.68217 3.60448 3.33679 3.33445 2.71674 4.08109 1.47786 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 5 2.82393 5.07156 2.80203 1.67432 4.41268 3.41767 3.64302 3.83542 2.22257 3.35873 4.20699 2.94689 3.87953 2.78990 1.94006 2.80761 3.05447 3.48977 5.49107 4.19030 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 6 0.90953 4.23083 3.54045 3.33552 4.12870 3.05328 4.34849 3.26565 3.35374 3.14372 4.16743 3.46570 3.79971 3.68800 3.59887 2.58058 2.86321 2.90690 5.54827 4.35704 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 7 2.83440 5.17411 2.50752 1.78100 4.46712 3.33100 3.67270 3.92895 2.39734 3.44911 4.30317 2.83208 3.85'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03496 3.76689 4.48924 0.61958 0.77255 0.40147 1.10665\n- 248 2.85023 5.17878 2.59361 1.61322 4.51767 3.36655 3.65566 3.93860 1.79133 3.45953 4.30336 2.86611 3.86534 2.80265 2.66276 2.80637 3.08906 3.57696 5.59480 4.25699 250 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 249 2.75813 4.95723 2.47537 1.69598 4.45959 1.75119 3.81356 3.91474 2.71218 3.50728 4.37027 2.87021 3.82842 3.00135 3.16768 2.75915 3.08052 3.52190 5.66344 4.32061 251 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 250 2.86818 4.39000 4.23023 3.89594 3.60615 3.80216 4.68467 2.04828 3.76487 2.28015 3.56000 4.07349 4.35860 4.11930 3.97000 3.31065 3.22798 0.93428 5.40335 4.13958 252 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 251 2.83715 4.38924 3.90278 3.42897 2.75965 3.79101 3.87011 2.55705 3.28890 2.30496 3.43240 3.67088 4.20237 3.58551 3.52811 3.13061 3.10030 1.83484 4.40458 1.80385 253 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 252 2.55537 4.46247 3.11903 2.77800 3.80664 3.31066 3.90394 2.98875 2.79010 2.88057 3.84128 1.91099 3.87325 3.16392 3.14763 2.70752 2.89315 2.00212 5.24721 3.91833 254 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 253 2.32872 4.30092 3.13099 2.87568 4.20809 3.01448 4.04680 3.66281 2.96059 3.33288 4.18944 3.17075 1.69942 3.29606 3.30212 1.83865 2.77706 3.18267 5.53735 4.26920 255 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 254 0.90953 4.23083 3.54045 3.33552 4.12870 3.05328 4.34849 3.26565 3.35374 3.14372 4.16743 3.46570 3.79971 3.68800 3.59887 2.58058 2.86321 2.90690 5.54827 4.35704 256 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 3.94850 4.67085 0.61958 0.77255 0.48576 0.95510\n- 255 3.17160 4.58887 4.50221 3.96184 3.06373 4.30473 4.60047 2.20533 3.75976 1.20762 1.78830 4.25781 4.56493 4.00380 3.94158 3.65517 3.40678 2.29628 5.07110 3.92574 257 l - - -\n- 2.68625 4.42232 2.77527 2.73093 3.46361 2.40520 3.72502 3.29361 2.67713 2.69326 4.24697 2.90354 2.73747 3.18153 2.89808 2.37894 2.77527 2.98525 4.58484 3.61510\n- 0.20716 1.67605 * 0.93653 0.49756 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc1gr5_I-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,653 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csc1gr5_I-D_5\n-LENG 210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 13\n-EFFN 0.688721\n-CKSUM 3799543871\n-GA 300 300;\n-STATS LOCAL MSV -10.4891 0.70477\n-STATS LOCAL VITERBI -11.2003 0.70477\n-STATS LOCAL FORWARD -4.9533 0.70477\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41758 4.50204 3.05081 2.76600 3.20992 2.81838 3.70287 2.85890 2.78000 2.29413 3.59587 3.15618 3.21862 3.11059 2.93355 2.74520 2.80622 2.65810 4.59744 3.44314\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24556 2.90349 2.73742 3.18149 2.89803 2.37884 2.77522 2.98521 4.58479 3.61505\n- 0.38362 1.71547 1.97523 0.28636 1.39027 0.00000 *\n- 1 2.37028 4.34444 3.26128 2.73882 3.62084 3.02187 3.74721 2.97579 2.63196 2.67466 2.53370 3.14845 3.82195 3.01190 2.75273 2.48387 2.76590 2.71195 5.01518 3.76582 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03164 3.86489 4.58724 0.61958 0.77255 0.51433 0.91106\n- 2 2.41933 4.64250 3.01556 2.48353 3.89683 3.38692 3.63500 3.28797 2.24740 2.92540 3.24741 2.60812 3.47391 2.81249 2.86255 2.62560 2.49730 2.98697 5.19776 3.89339 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02954 3.93266 4.65501 0.61958 0.77255 0.50028 0.93232\n- 3 2.43887 4.53976 3.12808 2.58170 3.78366 3.41176 3.68287 3.14371 2.24346 2.81992 3.38260 3.05374 2.79993 2.88852 2.92482 2.54742 2.79857 2.58830 5.12824 3.84544 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02850 3.96774 4.69008 0.61958 0.77255 0.52219 0.89948\n- 4 2.55467 4.59113 2.87082 2.51107 3.79648 3.41884 3.64679 2.85080 2.49840 2.71588 3.68333 2.84817 3.29346 2.71539 2.93572 2.54652 2.57403 2.72903 5.13235 3.83426 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02850 3.96774 4.69008 0.61958 0.77255 0.52219 0.89948\n- 5 2.01788 4.20455 3.59499 3.02723 3.32721 3.57128 3.85621 2.28192 2.76626 2.37320 3.30845 3.38474 3.95706 3.24136 3.23588 2.83863 2.80200 2.28580 4.11574 3.58693 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02850 3.96774 4.69008 0.61958 0.77255 0.52219 0.89948\n- 6 2.78036 4.31842 4.01547 3.49112 3.44612 3.84983 4.30267 1.64755 3.36185 2.05333 3.34016 3.79736 4.25818 3.68605 3.63233 3.18085 2.09178 1.96658 5.14568 3.92878 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02850 3.96774 4.69008 0.61958 0.77255 0.52219 0.89948\n- 7 2.43493 4.38485 3.14387 2.93040 4.35935 1.65114 4.13710 3.83510 3.08488 3.48180 4.34048 3.24112 1.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 203 1.88763 4.41154 3.30465 2.74532 3.59138 3.23200 3.74101 2.97895 2.62481 2.53744 3.54843 3.17585 3.87839 3.00690 2.65019 2.72773 2.81106 2.72920 4.12068 3.72769 213 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 204 2.27255 5.07207 2.42061 1.70397 4.37440 3.31158 3.65075 3.82177 2.48682 3.37323 4.17801 2.80818 3.80048 2.62250 2.98279 2.66934 2.75263 3.44453 5.56832 4.17225 214 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 205 2.66983 4.72186 2.92709 1.69750 3.96762 3.43220 3.74706 2.62965 2.55839 2.91203 3.83956 3.02954 3.88432 2.93192 2.97355 2.74644 2.70141 2.85842 5.32493 4.01118 215 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 206 2.91274 4.42076 4.30590 3.97469 3.64904 3.85823 4.75457 2.05210 3.84447 2.31427 3.59577 4.14295 4.41257 4.19552 4.04405 3.37129 3.27182 0.87401 5.45517 4.19425 216 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 207 2.23139 4.55894 3.10938 2.56858 3.80621 2.72062 3.68354 2.99290 2.52612 2.71488 3.69909 3.04513 3.82481 2.73522 2.79210 2.42256 2.80126 2.90694 5.14502 3.85741 217 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 208 2.74823 5.00610 2.94381 2.46730 4.35744 3.44019 3.61557 3.78292 2.19220 3.30533 4.12275 2.72891 3.86449 1.90899 2.15821 2.53966 2.97485 3.42615 5.44738 4.14114 218 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 209 3.56249 4.88892 4.29769 4.03741 2.81212 3.88203 4.07042 3.59328 3.75758 2.96477 4.22075 4.16028 4.41108 4.13839 3.86227 3.76486 3.86989 3.48723 0.65717 2.80760 219 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00401 4.72635 0.61958 0.77255 0.48576 0.95510\n- 210 2.58475 4.81023 2.81684 2.40517 4.06288 3.40057 3.35052 3.48218 2.29055 3.07240 3.54947 2.78465 3.79192 2.73949 2.36026 2.61018 2.49177 2.99101 5.30108 3.96513 220 k - - -\n- 2.68622 4.42229 2.77513 2.73127 3.46295 2.40509 3.72498 3.29358 2.67744 2.69359 4.24693 2.90339 2.73743 3.18150 2.89804 2.37891 2.77523 2.98522 4.58481 3.61507\n- 0.15983 1.91250 * 0.66125 0.72609 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc2gr7_I-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csc2gr7_I-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,845 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csc2gr7_I-D_1\n-LENG 274\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 6\n-EFFN 1.297852\n-CKSUM 3933857711\n-GA 32 32;\n-STATS LOCAL MSV -11.0907 0.70207\n-STATS LOCAL VITERBI -11.8729 0.70207\n-STATS LOCAL FORWARD -5.2459 0.70207\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50948 4.22333 2.93695 2.62618 3.32716 2.84639 3.86247 2.85491 2.69734 2.50224 3.71413 3.04324 3.50048 3.12217 2.85920 2.58272 2.67550 2.60146 5.05599 3.56652\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.00000 *\n- 1 3.49551 5.14608 4.15540 4.07820 4.99348 3.80862 5.09257 4.69189 4.18209 4.25225 5.33786 4.32716 0.28783 4.55403 4.35099 3.68283 3.97670 4.27711 6.02144 5.12791 1 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 2 2.80564 5.02857 3.19977 2.60651 4.33892 2.73093 3.69873 3.74175 1.62221 3.28976 2.95327 3.09940 3.96112 2.83440 2.11406 2.81965 3.02116 3.40575 5.46564 4.17021 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 3 2.67089 4.77050 3.04491 2.71347 4.40899 1.46632 3.96380 3.83377 2.76859 3.44250 4.27165 3.16156 3.93584 2.32119 3.16849 2.74752 2.29251 3.42302 5.66102 4.35286 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 4 3.04842 5.31790 3.30651 2.73084 4.75157 3.69905 3.72732 4.13728 1.79606 3.57611 4.40145 1.97510 4.08377 2.84959 1.48726 3.02215 3.23770 3.77527 5.63441 4.39447 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 5 3.29887 4.65171 4.65863 4.19596 1.90978 4.28910 3.86134 2.94596 4.04687 2.51687 3.66612 4.15093 4.62012 4.12773 4.13326 3.61697 3.52895 1.98042 4.09746 1.19987 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 6 2.29769 4.33671 4.43289 3.89134 3.61658 4.05133 4.55587 1.77273 3.79412 2.45195 3.52207 4.10509 4.45370 4.04789 4.01124 3.38645 2.41568 1.26547 5.26641 4.06172 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 7 2.68156 4.90100 2.97354 2.51627 4.25672 3.43479 2.82740 3.69857 2.54837 3.28277 4.09040 2.33335 3.8916'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 267 3.06292 5.63500 1.88770 1.52249 4.95715 1.66210 3.91113 4.47820 2.90039 3.96255 4.79043 2.85938 3.99749 3.06747 3.49100 2.95629 3.34774 4.03562 6.11642 4.61615 325 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 268 2.17487 5.10573 1.28200 2.44903 4.70600 3.34149 3.94466 4.17006 2.87930 3.73506 4.54907 2.97973 3.94511 3.10668 3.40313 2.14181 3.14753 3.71561 5.92072 4.50959 326 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 269 2.28768 4.87305 2.98804 1.52358 4.11881 3.51236 3.82358 3.39720 2.64182 2.32596 3.98487 3.09495 3.96487 2.99903 3.07512 2.81756 3.01583 3.12151 5.44714 4.12369 327 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 270 3.21464 4.53684 4.95266 4.40495 2.43387 4.48577 4.79197 2.13294 4.27248 1.62196 3.24510 4.55325 4.75783 4.41120 4.37856 3.83215 3.45269 1.10556 5.16892 3.92060 328 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 271 2.26926 4.42765 3.49701 2.45470 3.60365 3.63443 3.91727 2.80306 2.90427 2.23870 3.54742 3.36489 4.02838 3.22063 3.27096 2.88862 2.39722 1.97498 5.05362 3.81117 329 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 272 2.27084 5.19773 1.83502 2.36375 4.53854 3.42367 3.71859 4.00753 2.03901 3.52093 4.29566 2.91480 2.86828 2.84030 3.00788 2.72473 3.00858 3.59608 5.68191 4.27557 330 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 273 2.84502 4.87926 3.17567 2.22262 4.07922 3.61397 3.79778 3.42491 1.97902 1.64888 3.94356 3.17983 4.02224 2.98235 2.79991 2.91260 3.06790 3.16549 5.36375 4.08861 331 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01955 4.34027 5.06262 0.61958 0.77255 0.48576 0.95510\n- 274 3.72896 5.06639 4.94219 4.60843 3.38834 4.57320 5.12281 2.63837 4.37509 0.45777 3.30683 4.84167 4.94330 4.62555 4.46436 4.23962 4.00968 2.79247 5.40978 4.23339 332 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01320 4.33392 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,488 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_1\n-LENG 155\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 17\n-EFFN 4.229248\n-CKSUM 2135896260\n-GA 37.3 35.9;\n-STATS LOCAL MSV -9.9713 0.70889\n-STATS LOCAL VITERBI -11.0759 0.70889\n-STATS LOCAL FORWARD -4.1437 0.70889\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30704 4.49196 2.99427 2.65452 3.47378 3.02322 3.68186 3.12087 2.76661 2.31684 3.80688 3.19645 3.36030 2.94799 2.53370 2.70780 2.92986 2.82775 4.08463 3.41976\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.00000 *\n- 1 1.96880 5.12989 3.40750 2.19843 2.51266 3.25417 4.02622 2.94545 2.83969 3.38257 4.20476 3.36281 4.20812 2.80095 2.49257 3.02486 2.09603 3.45455 5.64199 4.31791 1 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 2 2.81869 4.75087 5.28779 4.69822 2.02416 4.57262 4.76236 2.54672 4.50003 0.94494 3.58126 4.69371 4.89050 4.58274 4.50565 3.89274 3.62826 2.89540 5.13036 2.16763 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 3 2.45659 4.84135 3.68342 3.12002 4.00044 3.91639 2.75681 3.37356 3.09066 2.30906 3.93693 3.57389 4.29945 2.38633 2.91693 2.66569 2.24009 2.75280 3.50512 2.53469 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 4 2.96759 3.05714 2.80926 1.61214 4.79387 2.87491 2.63557 2.96982 2.39514 3.75884 4.50036 3.21483 4.13748 2.48728 2.81500 2.93383 3.19872 3.84341 5.89502 4.48953 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 5 1.72918 4.54753 4.30689 3.72669 3.66431 3.26122 4.37885 2.59840 3.61586 2.75131 3.66672 3.99704 4.45629 3.87535 2.56218 3.35666 3.24825 2.19169 1.74378 3.95820 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 6 2.64806 4.45443 4.66971 4.07399 3.52698 4.15243 2.73204 2.24939 3.09622 1.53862 3.57048 4.20199 4.51904 4.10833 4.03353 3.44915 3.25547 2.70536 2.53690 2.19655 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 7 2.96930 2.45353 2.79009 1.60843 4.79566 3.74506 3.93319 4.27537 2.41137 3.76039 4.50207 3.21587 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 148 3.75707 5.05961 5.65223 5.07550 3.66988 5.01377 5.26402 2.41423 4.88855 1.70416 3.61786 5.13874 5.25929 4.95065 4.90294 4.35775 3.98338 2.05857 0.86794 4.33822 255 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 149 1.33135 4.82245 4.51515 4.08795 4.50878 1.83120 4.91217 3.87371 4.04390 1.36945 4.48055 4.19116 4.51718 4.29782 4.30322 2.38670 3.44736 3.52096 5.95364 4.76282 256 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 150 2.98873 5.46054 3.25410 2.28452 4.79633 3.76454 3.94470 4.26928 2.20065 2.66182 3.21890 2.74356 4.15631 1.99267 1.85015 2.95740 2.83205 3.84652 5.89501 4.49927 257 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 151 2.69554 5.92811 0.99778 1.69742 5.27509 3.87416 4.27720 4.78363 3.15935 4.25820 5.03965 3.34246 4.40662 3.40763 3.70807 2.48869 2.87220 4.33397 6.39942 4.93354 258 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 152 5.44069 6.24723 6.11947 6.15549 1.41612 5.77585 4.31420 4.95111 5.91842 4.01358 5.44207 5.26605 6.01854 5.47024 5.64801 5.20947 5.62330 4.93218 4.37781 0.42475 259 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 153 3.57511 4.91234 5.26868 4.75915 2.62325 4.64445 2.31005 2.76327 4.56435 2.45306 4.03331 4.63703 4.98760 4.62172 4.57117 3.96631 3.80291 2.69692 3.16056 0.90518 260 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 154 2.99029 5.15699 3.41574 2.85576 4.39434 2.41005 4.03083 3.80474 2.82503 2.43181 4.23577 3.36857 4.21629 2.44287 1.64229 2.60412 2.73696 2.73430 5.66761 4.34288 261 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00819 5.20496 5.92731 0.61958 0.77255 0.48576 0.95510\n- 155 1.91371 5.45011 2.75678 2.67152 4.78407 2.87419 3.26813 4.26184 2.67510 3.75120 4.49495 2.58908 4.13933 2.39800 3.16600 2.03479 2.48950 3.14176 5.89089 4.48706 262 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00552 5.20230 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,452 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_2\n-LENG 143\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 59\n-EFFN 6.348694\n-CKSUM 3478459924\n-GA 32.8 32.3;\n-STATS LOCAL MSV -9.8939 0.71021\n-STATS LOCAL VITERBI -10.9197 0.71021\n-STATS LOCAL FORWARD -4.2492 0.71021\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.29061 4.63463 2.95568 2.68590 3.42178 2.98488 3.67654 3.17955 2.78808 2.29966 3.84268 3.21798 3.39587 2.96356 2.49318 2.70412 2.92277 2.83255 4.04455 3.48754\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.00000 *\n- 1 2.69527 5.60753 3.41563 2.85943 4.93267 3.41369 3.61492 4.40441 2.16550 3.43669 4.65370 2.71936 2.90010 3.22034 1.51226 2.85331 2.42400 2.75499 6.05229 4.65428 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 2 1.48082 5.63736 3.49897 2.86081 4.98770 1.16046 4.26005 4.43780 2.79483 3.96684 4.74491 3.53777 4.44613 2.98080 3.14444 3.05928 3.29855 4.04544 6.13664 4.76699 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 3 1.82422 5.31638 2.07631 2.79038 4.12014 3.35568 3.50627 3.61018 3.02118 3.11768 3.37515 2.89088 3.25278 3.36835 3.47948 2.84662 2.53132 2.56522 3.92085 4.03013 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 4 2.83018 4.07947 4.30163 3.72637 3.92778 4.23472 4.50604 2.98165 2.57674 1.53352 2.65629 4.06507 4.60967 3.59282 1.50990 3.14644 3.43478 2.84581 5.40376 4.19084 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 5 0.20116 5.25703 5.66732 5.65232 6.12309 4.05789 6.23817 5.59305 5.60102 5.31959 6.06220 4.96473 4.93966 5.68022 5.58353 3.04466 2.92725 4.67041 7.47118 6.46217 5 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 6 1.75805 5.65414 2.83004 2.15313 4.99927 3.50761 4.10416 3.78548 2.42509 3.95945 4.69479 2.84499 3.72962 2.68174 2.09026 2.52734 3.23573 2.96896 6.08679 4.67580 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 7 4.81921 5.99734 6.66684 6.09235 3.15745 6.18750 6.29641 3.03242 5.91599 0.24607 3.73459 6.31397 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 136 2.46570 4.68653 2.77704 2.50853 5.00088 3.26876 4.10655 4.48626 2.40797 3.59816 4.69674 2.91640 4.31341 2.46986 1.19309 3.10908 3.37771 4.04652 6.08823 4.67807 217 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 137 4.36575 5.61912 6.29469 5.70670 3.93972 5.66837 5.89531 2.79712 5.53110 1.81904 3.12849 5.81464 5.79289 5.46124 5.48503 5.03188 4.57514 2.88065 0.53226 4.92095 218 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 138 1.01790 4.19992 4.93611 4.42150 4.30042 1.77816 5.00918 3.64560 4.31087 1.84723 4.30059 4.48781 4.77002 4.52730 4.49419 2.78216 3.35278 2.93972 5.79104 4.60852 219 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 139 2.74202 5.62308 3.18219 2.43231 3.49404 3.44447 4.11191 4.43150 2.36404 2.84559 3.29666 3.13472 4.31659 1.96514 1.69165 2.99224 3.02015 4.00654 6.06382 3.80768 220 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 140 2.69933 5.93280 0.98356 2.20464 5.26733 3.41774 4.31181 4.76578 3.11177 4.23540 4.98886 3.03568 4.48606 2.93219 3.62976 2.12234 3.24337 4.32024 6.36588 4.92755 221 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 141 5.83312 6.60001 6.46935 6.53062 1.10668 6.12620 4.63097 5.33564 6.28947 4.37448 5.81498 5.59856 6.36313 5.81058 5.99885 5.56211 6.00950 5.31900 4.69222 0.51650 222 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 142 3.42323 5.28532 5.66029 5.18145 1.91587 5.01955 2.42976 3.10904 4.97584 3.03720 4.41686 4.98868 5.35697 4.99520 4.95360 4.34798 4.19929 3.24338 2.65339 0.82778 223 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00577 5.55456 6.27691 0.61958 0.77255 0.48576 0.95510\n- 143 2.78736 4.72982 3.23518 2.41932 4.06843 2.54270 3.41987 3.97816 2.73614 2.88360 3.91470 3.24023 4.32665 2.64861 1.51964 2.75725 2.91971 3.33435 6.02681 4.13608 224 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00388 5.55268 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,704 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_3\n-LENG 227\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 8\n-EFFN 0.753906\n-CKSUM 2927953756\n-GA 69.1 63.2;\n-STATS LOCAL MSV -10.6894 0.70387\n-STATS LOCAL VITERBI -11.5328 0.70387\n-STATS LOCAL FORWARD -4.8466 0.70387\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36172 4.25293 2.85566 2.70684 3.45380 2.97799 3.46607 3.05531 2.79398 2.42296 3.78067 3.18520 3.11340 3.11891 2.70193 2.71829 2.74041 2.77201 4.24065 3.53438\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37889 2.77521 2.98481 4.58479 3.61505\n- 0.34309 1.94153 1.91772 0.31816 1.30006 0.00000 *\n- 1 2.47237 4.28150 3.36197 2.88340 3.57567 3.33423 3.85564 2.89956 2.80053 2.60126 2.20715 3.24334 3.11542 3.15717 3.13248 2.35387 2.78231 2.65237 5.02673 3.77771 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89687 4.61922 0.61958 0.77255 0.50448 0.92589\n- 2 2.46619 4.36674 3.27497 2.76219 3.74019 3.31617 3.80943 3.08310 2.71541 2.78716 2.98192 3.16281 2.59355 3.05848 3.09480 2.38648 2.24637 2.79426 5.12932 3.87183 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02820 3.97831 4.70065 0.61958 0.77255 0.55433 0.85439\n- 3 2.68604 4.30418 3.74287 3.19231 2.83403 3.69696 3.99653 2.49901 3.11400 1.81223 3.24028 3.53994 2.55699 3.40034 3.41435 2.98166 2.93360 2.20278 4.85353 3.59111 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02820 3.97831 4.70065 0.61958 0.77255 0.55433 0.85439\n- 4 2.27999 4.20059 3.38649 3.09180 4.13546 3.00848 4.14849 3.43873 3.08595 3.21775 4.10065 3.29080 3.72795 3.42867 3.38595 2.04985 1.33121 3.00371 5.51620 4.27920 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02820 3.97831 4.70065 0.61958 0.77255 0.55433 0.85439\n- 5 2.55661 4.49755 3.28224 2.83721 4.01177 3.29871 3.85679 3.33426 2.54076 3.02475 3.93637 3.20448 3.85632 3.07756 2.36510 2.69097 1.53227 3.01751 5.32143 4.07135 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02820 3.97831 4.70065 0.61958 0.77255 0.55433 0.85439\n- 6 1.36871 4.60452 2.27291 2.54364 4.24327 3.16473 3.90851 3.55536 2.85720 3.29460 4.17551 3.00099 3.79581 3.11955 3.30135 2.63213 2.91998 3.17936 5.56681 4.24388 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02820 3.97831 4.70065 0.61958 0.77255 0.55433 0.85439\n- 7 2.86383 5.14863 2.58404 2.05277 4.44055 3.36642 3.69413 3.90050 2.37620 3.42541 4.29550 2.88539 3'..b'.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73708 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.17965 1.85829 4.76824 0.30368 1.33978 0.48576 0.95510\n- 220 2.88822 5.29240 1.44040 2.23631 4.36694 3.30381 2.27022 4.09560 2.69536 3.61316 4.46554 2.80247 3.87411 2.93690 3.21462 2.81993 3.16365 3.70724 5.64058 4.15749 235 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 221 2.61996 4.58753 3.30606 2.82404 4.08162 3.36322 3.83514 3.41793 2.47015 3.08302 3.98038 3.20888 3.89296 3.03891 2.12701 2.73791 1.57439 3.09897 5.35300 4.10429 236 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 222 3.35474 4.76746 4.46725 4.11113 3.21012 4.20066 4.71272 2.42697 3.87719 0.68775 3.18470 4.36973 4.60828 4.20377 4.02357 3.79666 3.64226 2.50872 5.14895 3.91122 237 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 223 2.64224 4.20432 3.85271 3.29074 3.36131 3.70066 4.05490 2.16118 3.20134 1.94821 3.31394 3.60072 4.09221 3.48245 3.47639 2.68790 2.38189 1.92603 4.90948 3.69988 238 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 224 2.61257 4.78428 2.86965 2.05279 4.08554 3.36662 3.67260 3.49440 2.47962 2.74457 3.93652 2.94646 3.20478 2.83524 2.92442 2.02996 2.86814 3.16466 5.35387 4.02086 239 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 225 2.65622 4.98648 2.53419 2.19029 4.26458 3.38104 3.61238 3.70226 2.23144 2.56983 4.05305 2.87601 3.80652 2.20931 2.82449 2.64598 2.88977 3.34144 5.44955 4.08505 240 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17965 4.04589 1.91772 0.61958 0.77255 0.48576 0.95510\n- 226 2.97291 5.08946 2.49736 0.99118 4.43868 3.28953 3.87817 3.89741 2.76174 3.51051 4.48325 2.94623 3.89520 3.09318 3.17328 2.95269 3.27726 3.57865 5.60564 4.32765 241 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89687 4.61922 0.61958 0.77255 0.62584 0.76532\n- 227 2.72117 5.20090 2.18227 1.87205 4.49165 3.26179 3.03608 3.97510 2.45787 3.48135 4.27675 2.40416 3.76899 2.49022 2.96836 2.65845 2.97188 3.56912 5.64198 4.21193 242 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02072 3.88696 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,632 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_4\n-LENG 203\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 11\n-EFFN 1.243408\n-CKSUM 2480311491\n-GA 56.9 55.1;\n-STATS LOCAL MSV -10.5137 0.70516\n-STATS LOCAL VITERBI -11.1294 0.70516\n-STATS LOCAL FORWARD -4.8873 0.70516\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42161 4.64604 2.97997 2.61171 3.38986 3.01318 3.75709 2.90720 2.68370 2.49075 3.70452 3.09707 3.31585 3.00848 2.73669 2.61947 2.82374 2.74620 4.39178 3.31296\n- 2.68592 4.42232 2.77526 2.73092 3.46361 2.40520 3.72501 3.29361 2.67748 2.69362 4.24622 2.90354 2.73746 3.18153 2.89808 2.37894 2.77506 2.98525 4.58484 3.61510\n- 0.46161 1.69909 1.67727 0.67123 0.71556 0.00000 *\n- 1 2.65546 4.47261 3.36307 2.80110 3.57458 3.56603 3.76370 2.98295 2.36424 2.64477 2.13827 3.23259 3.94769 2.71252 2.94449 2.82209 2.88186 2.75405 4.98605 3.07607 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11549 4.83784 0.61958 0.77255 0.36569 1.18324\n- 2 2.64292 4.67732 3.15233 2.24711 3.87827 3.51035 3.73329 2.94020 2.58555 2.92043 2.48710 2.78095 3.27655 2.92708 3.02282 2.51929 2.61582 2.98725 5.21504 3.91756 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 3 2.74100 5.22541 2.20191 2.00218 4.55200 3.41113 3.68617 4.03324 2.48041 3.52934 4.29224 2.57191 2.79646 2.80102 2.98824 2.22514 2.65532 3.61040 5.67917 4.26038 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 4 2.67190 5.07047 2.95369 2.24163 4.38100 3.45218 3.13375 3.83440 2.05883 3.35521 4.12360 2.36175 3.84528 2.74747 2.57942 2.65457 2.47601 3.03043 5.51906 4.14367 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 5 2.66228 4.98512 2.65882 2.42476 4.26834 3.45279 3.65629 3.70727 2.24919 2.67263 4.05163 2.95683 3.32822 2.78279 2.62575 1.94251 2.89471 3.34387 5.46294 4.10040 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 6 2.45858 5.13089 2.59706 1.97584 4.45310 3.42374 3.63438 3.92553 2.39015 3.42722 4.18150 2.64678 3.26531 2.36658 2.88275 2.43136 2.90323 3.10283 5.57819 4.17656 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08789 4.31442 2.64843 0.61958 0.77255 0.48576 0.95510\n- 7 2.16025 4.66059 3.14481 2.58530 3.86538 3.08652 3.71315 2.90244 2.35741 2.65588 3.75066 3.07836 '..b'.68604 4.42230 2.77524 2.73128 3.46359 2.40517 3.72499 3.29359 2.67745 2.69360 4.24694 2.90305 2.73744 3.18151 2.89805 2.37891 2.77507 2.98523 4.58482 3.61508\n- 0.58477 1.34253 1.70604 0.18854 1.76125 0.55818 0.84922\n- 196 2.63133 4.70681 3.11728 2.55788 3.96334 3.45680 3.66297 3.35097 2.18664 2.67104 3.81907 3.04219 3.85729 2.83786 2.48724 2.40626 2.20692 3.05339 5.23634 3.94635 211 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06806 4.79041 0.61958 0.77255 0.63011 0.76042\n- 197 2.75269 5.14538 1.99084 2.28548 4.54422 3.30887 3.74159 4.02281 2.61911 3.55272 4.35234 2.41957 2.16092 2.88525 3.13940 2.37003 3.03224 3.60469 5.72823 4.30861 212 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13972 4.86207 0.61958 0.77255 0.69091 0.69539\n- 198 2.42204 4.78970 3.01498 2.25837 4.02776 3.44108 3.64330 3.43339 2.23770 2.73142 3.86498 2.97851 3.83305 2.44332 2.87131 2.65450 2.57134 2.78718 5.29390 3.96839 213 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13972 4.86207 0.61958 0.77255 0.69091 0.69539\n- 199 2.37313 4.87582 2.91217 2.21974 4.18543 3.39221 3.64682 3.61494 2.25322 3.19256 3.99240 2.93488 3.17241 2.78580 2.89095 2.30098 2.33098 3.25987 5.40827 4.05790 214 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13972 4.86207 0.61958 0.77255 0.69091 0.69539\n- 200 2.56086 4.66152 3.03352 2.58315 4.13089 3.32404 3.77730 3.54312 2.58790 3.16265 3.98847 3.04944 2.58740 2.56318 3.00958 2.33750 1.95448 3.18224 5.40816 4.09995 215 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13972 4.86207 0.61958 0.77255 0.57793 0.82338\n- 201 2.49572 4.47725 3.27973 2.80274 4.02490 3.29509 3.91434 3.39592 2.79792 3.08016 3.92525 2.65091 3.84990 3.13142 3.19849 1.89128 1.90672 2.57956 5.36887 4.09626 216 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09491 4.19958 2.58309 0.61958 0.77255 0.62910 0.76158\n- 202 2.82516 5.32413 2.13559 1.47423 4.64623 2.69294 3.72786 4.13749 2.62157 3.64059 4.43963 2.78911 2.98139 2.86771 3.16326 2.75461 3.08969 3.71596 5.80302 4.35282 217 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02421 4.12888 4.85123 0.61958 0.77255 0.70133 0.68503\n- 203 2.73562 5.19276 2.61776 1.88518 4.50156 2.85348 3.01790 3.97491 2.43902 3.47976 4.26070 2.20169 3.83015 2.46546 2.92460 2.68869 2.97756 3.56903 5.63484 4.22616 218 e - - -\n- 2.68628 4.42235 2.77510 2.73076 3.46364 2.40523 3.72504 3.29364 2.67714 2.69346 4.24700 2.90356 2.73749 3.18156 2.89811 2.37883 2.77529 2.98528 4.58487 3.61513\n- 0.36860 1.17668 * 0.67622 0.71036 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,566 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_5\n-LENG 181\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 6\n-EFFN 1.010742\n-CKSUM 434242118\n-GA 69.4 64.5;\n-STATS LOCAL MSV -10.2371 0.70661\n-STATS LOCAL VITERBI -11.1659 0.70661\n-STATS LOCAL FORWARD -4.5877 0.70661\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30111 4.44368 2.84938 2.70290 3.62244 2.91311 3.68956 2.93195 2.71571 2.38623 3.62796 3.18823 3.24424 3.09603 2.66887 2.67228 2.88825 2.78973 4.31182 3.69742\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11843 4.19571 2.33694 0.61958 0.77255 0.00000 *\n- 1 3.16572 4.68137 4.30463 3.92154 3.33005 4.01035 4.60367 2.52961 3.67535 1.89515 0.99712 4.16882 4.47742 4.04500 3.85244 3.53601 3.47830 2.56124 5.19792 3.97725 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02487 4.10216 4.82450 0.61958 0.77255 0.59253 0.80504\n- 2 2.39872 4.36687 3.24529 3.00974 4.34166 3.07839 4.17961 3.80957 3.10658 3.47679 4.32965 3.28069 1.35320 3.43528 3.43925 1.87791 2.86177 3.30149 5.66727 4.40710 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02487 4.10216 4.82450 0.61958 0.77255 0.59253 0.80504\n- 3 2.91441 5.24929 1.15494 2.30513 4.69362 3.28813 3.89049 4.21164 2.88498 3.76133 4.62373 2.86513 2.45156 3.07073 3.43090 2.86554 3.23255 3.79067 5.88638 4.47545 3 d - - -\n- 2.68625 4.42232 2.77527 2.73130 3.46361 2.40520 3.72502 3.29361 2.67718 2.69362 4.24580 2.90354 2.73721 3.18154 2.89808 2.37872 2.77527 2.98526 4.58484 3.61510\n- 0.42808 1.43642 2.20309 0.67205 0.71469 0.59253 0.80504\n- 4 2.71318 5.01650 2.54365 1.91347 4.37360 3.29423 3.69174 3.80485 2.51939 3.38069 4.20487 2.00798 3.81501 2.84646 2.98423 2.69741 2.39514 3.43229 5.58010 4.19963 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02775 3.99409 4.71644 0.61958 0.77255 0.69307 0.69323\n- 5 2.78232 5.21870 1.78930 2.19089 4.55582 2.41584 3.70187 4.04561 2.60022 3.56761 4.38323 2.75619 3.81243 2.19450 3.12565 2.72277 3.05634 3.63632 5.73553 4.29941 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02775 3.99409 4.71644 0.61958 0.77255 0.69307 0.69323\n- 6 2.65569 4.74204 2.76307 1.99649 4.17351 3.29723 3.79836 3.46826 2.62048 3.17698 4.06482 2.98596 3.84655 2.98984 3.02346 2.71683 1.68868 3.14791 5.46843 4.15197 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02775 3.99409 4.71644 0.61958 0.77255 0.51803 0.90557\n- 7 2.70219 5.16389 2.27335 1.83039 4.48180 3.35492 3.63167 3.95470 2.41391 3.45775 4.23181 2.82867 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 174 2.69412 4.99126 2.85691 1.76885 4.26217 3.43072 3.66286 3.69330 2.42040 2.65088 4.06415 2.93716 3.02650 2.42340 2.86867 2.69313 2.92895 3.34401 5.46556 4.10885 186 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 175 2.87141 5.04778 3.30364 2.66789 4.37714 3.61638 3.65963 2.86665 1.83249 3.28218 4.11749 3.13248 3.98262 2.36562 1.69038 2.88501 3.06788 3.43431 5.43140 4.17954 187 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27120 4.19571 1.50294 0.61958 0.77255 0.48576 0.95510\n- 176 2.85037 5.21825 2.43142 1.44831 4.50554 3.30821 3.68956 3.97635 2.46115 3.49645 4.35375 2.80420 3.84821 2.24705 2.88206 2.79408 3.10802 3.61001 5.65682 4.26831 188 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02892 3.95343 4.67578 0.61958 0.77255 0.52168 0.90023\n- 177 2.77913 5.01766 2.59121 1.32175 4.42554 3.32577 3.79671 3.77061 2.62902 3.41697 4.28726 2.91542 3.88065 2.96457 3.07341 2.77901 2.37601 3.42009 5.65723 4.28998 189 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02531 4.08515 4.80750 0.61958 0.77255 0.41535 1.07912\n- 178 2.88605 5.05287 3.30742 2.69663 4.44140 3.60514 3.68199 3.81255 1.81621 3.33537 4.17247 3.15098 3.99393 2.81962 1.68232 2.90194 2.09909 3.48076 5.47001 4.22690 190 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 179 1.88917 5.07533 2.31372 2.34355 4.36622 3.39319 2.91591 3.82634 2.46945 3.36920 4.16083 2.88920 3.84350 2.40959 2.95385 2.68568 2.94963 3.44781 5.55267 4.16489 191 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 180 2.89344 5.41886 1.77820 2.24307 4.73117 3.35102 3.76185 4.23240 2.14273 3.72079 4.52411 1.75132 3.89575 2.90227 3.16015 2.81188 3.15584 3.80621 5.86632 4.41115 192 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19571 4.91806 0.61958 0.77255 0.48576 0.95510\n- 181 0.96547 4.24189 3.75884 3.45502 4.30889 3.09178 4.42886 3.45952 3.43586 3.33358 4.24011 3.52892 3.84550 3.73582 3.70409 2.55183 2.07216 3.02997 5.72211 4.53054 193 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01529 4.18837 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,620 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_6\n-LENG 199\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:48 2020\n-NSEQ 35\n-EFFN 2.055054\n-CKSUM 3293370782\n-GA 90.8 90.5;\n-STATS LOCAL MSV -10.3514 0.70541\n-STATS LOCAL VITERBI -11.1180 0.70541\n-STATS LOCAL FORWARD -4.9530 0.70541\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45730 4.71822 2.99026 2.59844 3.44730 3.15866 3.77301 2.91009 2.55053 2.35350 3.63995 3.00580 3.74822 2.83811 2.81509 2.62932 2.85242 2.80741 4.49242 3.30333\n- 2.68627 4.42253 2.77518 2.73100 3.46382 2.40541 3.72496 3.29335 2.67742 2.69374 4.24267 2.90301 2.73758 3.18144 2.89829 2.37900 2.77517 2.98522 4.58505 3.61531\n- 1.04317 1.14202 1.11325 1.08575 0.41196 0.00000 *\n- 1 2.64012 4.92324 2.77355 2.32697 4.18698 3.44013 3.64737 3.61821 2.33395 3.19323 3.06887 2.76696 3.83791 2.65621 2.89793 1.94178 2.87235 3.09683 5.40914 4.05432 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25277 4.97512 0.61958 0.77255 0.50673 0.92246\n- 2 2.73349 5.07653 3.04390 2.22952 4.37004 3.52249 3.70383 3.81026 1.92909 3.35282 2.33543 2.85232 3.21633 2.82510 2.60566 2.61074 2.96173 3.44000 5.53543 4.17550 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01666 4.49881 5.22116 0.61958 0.77255 0.41807 1.07387\n- 3 2.36847 4.91363 3.01029 2.49936 4.14558 3.57181 3.77711 3.09817 2.16470 3.16916 2.81408 2.94716 3.96127 2.93228 2.67573 2.46745 2.59373 2.74074 5.42068 4.09081 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01475 4.61938 5.34173 0.61958 0.77255 0.53280 0.88422\n- 4 2.55297 5.21812 2.73564 2.13389 3.74818 3.35222 3.45273 3.72574 2.07685 3.51852 4.26179 2.50561 3.34572 2.68934 2.67675 2.46568 2.96603 3.16093 5.65766 4.25368 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01475 4.61938 5.34173 0.61958 0.77255 0.53280 0.88422\n- 5 2.73692 5.23086 2.85818 2.02340 4.56952 3.51242 3.49326 4.05040 2.07457 3.12935 3.83475 2.58156 3.90585 2.54444 2.58321 2.22162 2.83580 3.61809 5.66698 4.26076 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01475 4.61938 5.34173 0.61958 0.77255 0.53280 0.88422\n- 6 3.40463 4.64831 5.39220 4.87688 3.92345 4.88803 5.44905 1.16649 4.77904 2.34329 3.22088 5.01452 5.14511 4.99096 4.90972 4.27174 3.27715 1.00233 5.85791 4.66602 10 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01475 4.61938 5.34173 0.61958 0.77255 0.53280 0.88422\n- 7 2.65168 5.14853 2.77417 2.21279 3.96720 3.52449 3.71599 3.91487 2.13128 3.24533 3.73908 2.91238 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62364 5.34599 0.61958 0.77255 0.52492 0.89551\n- 192 2.64433 5.21739 2.86113 2.17441 4.54997 3.30054 3.70365 4.02706 1.85218 3.26083 4.26144 2.47845 3.90856 2.59894 2.78154 2.44646 2.87644 3.09614 5.65746 3.83905 200 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62364 5.34599 0.61958 0.77255 0.52492 0.89551\n- 193 2.73656 5.21200 2.76851 2.17287 4.04104 3.30359 3.70427 4.01839 2.06883 2.92322 4.25653 2.76522 3.90884 2.40544 2.67137 2.36817 2.63629 3.30992 5.65339 4.25145 201 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03850 4.62364 3.57718 0.61958 0.77255 0.52492 0.89551\n- 194 2.60628 5.23213 2.62331 1.87248 4.56962 3.28698 3.69924 4.05084 1.90251 3.32643 4.27545 2.67414 3.90344 2.66219 2.93071 2.70210 2.58269 3.40630 5.66879 4.26136 202 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 4.60018 3.80411 0.61958 0.77255 0.56717 0.83731\n- 195 2.63233 5.19462 2.85080 1.93567 4.52333 3.50335 3.69237 3.67194 2.20927 3.26902 4.23971 2.67036 3.89669 2.49576 2.81051 2.40979 2.39204 3.33972 5.63709 4.23639 203 e - - -\n- 2.68625 4.42233 2.77527 2.73087 3.46361 2.40520 3.72502 3.29362 2.67748 2.69362 4.24697 2.90354 2.73747 3.18142 2.89795 2.37894 2.77499 2.98489 4.58484 3.61511\n- 0.72610 1.22663 1.50091 0.13451 2.07260 0.59704 0.79948\n- 196 2.70291 5.18206 2.66712 1.94690 4.51002 3.00605 3.65605 3.98756 1.96557 3.48111 4.23553 2.71299 3.84848 2.76394 2.91207 2.34311 2.55997 3.56515 5.62609 4.21764 205 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01962 4.33678 5.05912 0.61958 0.77255 0.60896 0.78508\n- 197 2.82869 5.36460 2.31784 1.68947 4.69357 2.72710 3.75161 4.18861 2.31299 3.66308 4.41979 2.28247 3.92640 2.72246 3.06714 2.48232 3.07133 3.74853 5.79729 4.36202 206 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04102 4.47356 3.54794 0.61958 0.77255 0.69128 0.69502\n- 198 2.74068 5.24807 2.37456 2.01532 4.58353 2.79849 3.68958 4.06886 2.05338 3.24681 4.29476 2.33079 3.88494 2.68389 2.94441 2.57308 2.97555 3.63422 5.68293 4.26737 207 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01707 4.47482 5.19717 0.61958 0.77255 0.75392 0.63586\n- 199 2.80157 5.32337 2.44629 1.71386 4.65831 3.47304 3.72831 4.14744 1.80899 3.62157 4.37482 2.57313 3.91576 2.58144 2.99602 2.74926 2.85668 3.71014 5.75245 4.32943 208 e - - -\n- 2.68615 4.42241 2.77536 2.73091 3.46370 2.40507 3.72480 3.29354 2.67696 2.69371 4.24706 2.90284 2.73756 3.18163 2.89817 2.37903 2.77536 2.98535 4.58493 3.61519\n- 0.43180 1.04794 * 0.68184 0.70458 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,575 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_7\n-LENG 184\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 19\n-EFFN 1.618896\n-CKSUM 381027532\n-GA 69.6 69.5;\n-STATS LOCAL MSV -10.3578 0.70639\n-STATS LOCAL VITERBI -11.2140 0.70639\n-STATS LOCAL FORWARD -5.0357 0.70639\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.28531 4.63685 2.95390 2.62063 3.51688 3.01389 3.67305 2.96593 2.69181 2.33612 3.60242 3.10031 3.46786 2.97759 2.67344 2.70331 2.91043 2.84710 4.05015 3.76199\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24272 4.48048 1.58875 0.61958 0.77255 0.00000 *\n- 1 3.32529 4.82114 4.49554 4.13639 3.44547 4.14222 4.78220 2.66343 3.87951 1.99557 0.79082 4.36070 4.61965 4.24328 4.03556 3.70650 3.64610 2.71167 5.32682 4.11633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02123 4.25898 4.98133 0.61958 0.77255 0.77337 0.61889\n- 2 2.57475 4.54826 3.24761 2.74764 3.93270 3.40248 3.85728 2.82897 2.73417 2.98411 3.83886 2.60583 3.89389 3.07467 3.14159 2.11445 1.81913 2.98671 5.28721 4.00839 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02123 4.25898 4.98133 0.61958 0.77255 0.53176 0.88570\n- 3 2.56914 4.70362 3.16691 2.30645 3.57623 3.52708 3.29239 3.13049 2.59189 2.81189 2.89065 3.10422 3.91433 2.33336 3.03279 2.45816 2.72415 2.85046 5.23523 3.93507 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01884 4.37686 5.09921 0.61958 0.77255 0.63856 0.75089\n- 4 2.65801 4.62536 3.23396 2.67406 3.80800 3.54857 3.09500 2.75621 2.65130 2.46009 3.71478 2.81689 2.64756 2.83230 3.07605 2.53804 2.74204 2.71264 5.17092 3.88780 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01884 4.37686 5.09921 0.61958 0.77255 0.63856 0.75089\n- 5 2.43930 5.36238 1.83256 1.76248 4.68278 3.42758 3.74546 4.17720 2.57009 3.65857 4.42584 2.70730 3.13687 2.55450 3.09352 2.76820 3.07811 3.74280 5.80046 4.36012 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01884 4.37686 5.09921 0.61958 0.77255 0.63856 0.75089\n- 6 2.31123 4.97975 2.76678 2.44330 4.28254 3.08462 3.67661 3.72390 2.44911 3.28242 4.06618 2.97369 3.11364 2.35438 2.92645 2.39776 2.42743 2.98661 5.48181 4.11687 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01884 4.37686 5.09921 0.61958 0.77255 0.63856 0.75089\n- 7 2.48954 4.93351 2.64584 2.36942 4.19918 3.47308 3.68351 3.20335 2.46893 3.20854 4.00633 2.71773 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01697 4.48048 5.20282 0.61958 0.77255 0.48576 0.95510\n- 177 1.54902 4.92189 3.01902 2.33007 4.33820 3.46140 3.84082 3.76570 2.65787 3.35758 4.16421 2.50618 3.94078 2.99256 3.12161 2.57568 2.28815 3.39375 5.58163 4.23875 186 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01697 4.48048 5.20282 0.61958 0.77255 0.48576 0.95510\n- 178 2.59274 4.81560 3.16493 2.27590 4.03482 3.14763 3.75973 3.43424 2.23345 1.89601 3.89567 3.11231 3.94442 2.93168 2.77466 2.77051 2.78900 2.95790 5.33208 4.02242 187 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01697 4.48048 5.20282 0.61958 0.77255 0.48576 0.95510\n- 179 1.98763 5.11463 2.72031 2.13299 4.42198 3.48068 3.19177 3.88268 2.29606 3.10465 4.16585 2.71079 3.87600 2.78637 2.91453 2.47277 2.92886 3.48497 5.57009 3.44933 188 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06218 4.48048 3.01685 0.61958 0.77255 0.48576 0.95510\n- 180 2.47664 5.18181 2.71547 2.39996 4.51866 3.47108 3.65976 3.99198 1.83211 3.47949 4.22883 2.68955 3.86938 2.58560 2.39679 2.23294 2.93901 3.56893 5.61611 4.21944 189 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07449 4.43605 2.81438 0.61958 0.77255 0.55611 0.85199\n- 181 2.49024 5.00432 3.00651 2.45341 4.29179 3.47856 3.24606 3.72941 1.86181 3.28398 4.07029 2.98294 3.87264 2.54074 2.87482 2.17135 2.74462 2.95408 5.47849 4.11971 190 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07566 4.38034 2.80767 0.61958 0.77255 0.63403 0.75598\n- 182 2.84853 5.39722 1.93455 1.66404 4.71558 3.40512 3.74715 4.21536 2.30797 3.69120 4.46353 2.51825 2.81437 2.86992 3.11607 2.77717 3.09868 3.77697 5.83056 4.38081 191 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10033 4.32454 2.49828 0.61958 0.77255 0.70262 0.68377\n- 183 2.74034 5.15518 2.98686 2.22742 4.50818 3.48272 3.62609 3.95483 1.73825 3.43598 4.20716 2.96032 3.17376 2.45066 2.26866 2.54529 2.96025 3.55305 5.55793 4.20576 192 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09324 4.24572 2.59429 0.61958 0.77255 0.78656 0.60772\n- 184 2.42621 5.07926 2.54876 2.33831 4.39547 3.40089 3.17542 3.85744 1.97080 3.36886 4.13406 2.88106 3.80942 2.31720 2.81995 2.62518 2.63038 3.45573 5.52618 4.13826 193 k - - -\n- 2.68597 4.42231 2.77504 2.73113 3.46360 2.40519 3.72500 3.29360 2.67747 2.69361 4.24696 2.90353 2.73746 3.18152 2.89807 2.37872 2.77526 2.98524 4.58483 3.61509\n- 0.44466 1.02455 * 0.15909 1.91679 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cse2gr11_I-E_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,455 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cse2gr11_I-E_8\n-LENG 144\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 104\n-EFFN 6.268311\n-CKSUM 2221970799\n-GA 22 21.6;\n-STATS LOCAL MSV -9.7977 0.71010\n-STATS LOCAL VITERBI -11.2216 0.71010\n-STATS LOCAL FORWARD -4.0719 0.71010\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30392 4.62189 2.92814 2.67416 3.42287 3.00845 3.69247 3.14188 2.80385 2.28109 3.80183 3.25312 3.38820 2.95698 2.51202 2.66836 2.95566 2.85748 4.07420 3.46322\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49712 6.21946 0.61958 0.77255 0.00000 *\n- 1 2.09900 5.57052 2.18452 2.12535 4.89349 3.10886 3.29820 4.36417 2.70818 2.82731 4.00522 3.14507 4.06472 2.93476 3.11550 2.92704 2.54858 2.82799 4.11816 3.47596 1 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49712 6.21946 0.61958 0.77255 0.48576 0.95510\n- 2 2.88855 4.93650 4.09383 3.50960 4.07848 4.17990 4.40609 3.08358 2.51309 1.32991 3.14028 3.90860 3.94147 3.72625 1.50426 3.33532 3.44082 3.21222 5.50814 4.27995 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49712 6.21946 0.61958 0.77255 0.48576 0.95510\n- 3 0.17211 5.20473 5.61447 5.59670 6.02278 4.01180 6.17498 5.39517 5.51712 5.19334 5.96838 4.91489 4.89160 5.61938 5.50235 3.31634 3.51894 4.18663 7.39033 6.36662 3 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49712 6.21946 0.61958 0.77255 0.48576 0.95510\n- 4 1.84952 5.62091 2.94244 2.11986 4.45854 3.62958 3.88014 3.52413 2.39231 3.46683 4.66177 2.92128 4.27958 2.23765 2.20024 2.51752 3.12480 3.72187 6.05405 4.64355 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00611 5.49712 6.21946 0.61958 0.77255 0.48576 0.95510\n- 5 4.01161 5.58973 6.26327 5.65990 3.53712 5.63267 5.91410 2.69885 5.49202 0.32087 3.01224 5.79259 5.74255 5.40211 4.13367 4.99246 4.53741 3.26661 6.02738 5.04107 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00608 5.50123 6.22358 0.61958 0.77255 0.48576 0.95510\n- 6 3.15895 4.25287 4.77292 3.91877 5.76083 4.65961 4.57151 5.04883 1.77700 4.44101 5.31073 4.25126 5.02770 3.70018 0.50838 3.79143 4.21671 4.70763 6.43840 5.33550 6 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00608 5.50123 6.22358 0.61958 0.77255 0.48576 0.95510\n- 7 3.12461 5.04767 3.78612 3.17884 5.16221 3.93889 3.91912 4.58129 2.23252 4.05962 4.84992 3.54540 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.54331 6.26565 0.61958 0.77255 0.48576 0.95510\n- 137 2.69243 4.90729 3.85736 3.19339 3.18856 4.15877 3.86498 2.97962 2.71005 1.81871 3.33810 3.78375 4.53827 2.97939 1.90846 3.27098 2.88450 2.13544 4.50943 4.25316 373 l - - -\n- 2.68606 4.42236 2.77531 2.73134 3.46365 2.40524 3.72505 3.29365 2.67752 2.69342 4.24701 2.90329 2.73751 3.18119 2.89783 2.37881 2.77531 2.98498 4.58488 3.61514\n- 0.02861 3.63794 6.26565 1.49550 0.25378 0.48576 0.95510\n- 138 2.79706 4.67240 3.05040 2.53034 4.97797 3.51811 3.55234 4.15375 2.47359 3.47582 4.67944 3.38308 4.30710 2.31685 1.13503 3.00122 3.05203 3.85587 6.07286 4.66499 381 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.54331 6.26565 0.61958 0.77255 0.48576 0.95510\n- 139 4.39428 5.64447 6.21951 5.67835 3.51936 5.63447 5.57541 2.85673 5.49752 2.32356 3.43345 5.70054 5.78993 5.43384 5.45834 4.99724 4.60607 3.10203 0.41547 4.32686 382 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.54331 6.26565 0.61958 0.77255 0.48576 0.95510\n- 140 1.17142 5.02809 3.92776 2.84963 4.22140 2.00284 4.39217 3.58999 3.34163 2.52811 3.99415 3.80961 4.51060 3.66062 3.73442 2.52249 3.33358 2.69004 5.62913 4.37345 383 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.54331 6.26565 0.61958 0.77255 0.48576 0.95510\n- 141 2.94269 5.28945 3.41878 2.91482 3.36953 3.33315 4.20965 3.58846 3.02937 2.57219 2.91514 3.12025 4.38985 2.03362 1.57748 2.93935 3.07967 3.41904 5.80490 3.34555 384 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.54331 6.26565 0.61958 0.77255 0.48576 0.95510\n- 142 2.51032 5.83130 1.03500 2.20398 5.16922 3.69005 4.23482 4.66297 3.01003 4.13397 4.88059 3.25906 4.42106 2.51672 3.15747 2.34982 3.53686 4.21940 6.26297 4.83493 385 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.54331 6.26565 0.61958 0.77255 0.48576 0.95510\n- 143 5.75392 6.55076 6.45427 6.49136 1.11574 6.10546 4.62182 5.20469 6.24715 3.13191 5.69016 5.58112 6.33425 5.78135 5.96567 5.52785 5.92980 5.20675 4.68371 0.56990 386 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00583 5.54331 6.26565 0.61958 0.77255 0.48576 0.95510\n- 144 2.88693 5.21275 5.46605 4.96141 1.77200 4.91456 2.76829 3.68672 4.78040 3.01993 4.34450 4.87212 5.25821 4.50472 4.33542 4.23350 4.09193 3.31591 2.65706 0.87331 387 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00393 5.54141 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,629 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf1gr8_IV-A_2\n-LENG 202\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 4\n-EFFN 0.777344\n-CKSUM 2497463706\n-GA 60 60;\n-STATS LOCAL MSV -10.6566 0.70521\n-STATS LOCAL VITERBI -11.2640 0.70521\n-STATS LOCAL FORWARD -4.8392 0.70521\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39574 3.92889 2.97552 2.79964 3.36227 2.88641 3.73285 2.83235 2.73004 2.38372 3.58236 3.20257 3.23611 3.16248 2.88278 2.65888 2.88326 2.58188 4.30739 3.66680\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.00000 *\n- 1 2.81875 0.62743 4.37605 4.16141 4.11412 3.39853 4.76757 3.29309 3.99085 3.19819 4.32698 4.09873 4.11987 4.32943 4.08049 3.09019 3.30164 3.02396 5.48598 4.39941 1 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 2 1.64050 4.22762 3.40721 3.20805 4.42063 1.26254 4.32881 3.79242 3.34139 3.52738 4.37693 3.36022 3.74699 3.61604 3.63842 2.47094 2.79443 3.24075 5.75229 4.55830 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 3 2.04884 4.70888 2.96455 2.56373 4.25644 2.32695 3.76748 3.65675 1.86285 3.26469 4.09131 3.02605 3.82439 2.93432 2.88566 2.64856 2.89726 3.27404 5.47810 4.17522 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 4 2.77298 5.09931 2.71988 2.36997 4.29964 3.40162 2.51865 3.85889 2.35523 3.38081 4.19886 2.11036 3.86303 2.21515 2.75498 2.74750 3.01004 3.49295 5.48062 4.09241 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 5 2.90982 4.33854 4.31550 3.75996 2.95590 4.02990 4.17403 1.75463 3.61075 1.61333 3.14990 3.96794 4.35136 3.82925 3.78748 3.33791 3.14064 2.24776 4.67180 2.31672 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 6 2.10986 4.49392 3.29064 2.77094 3.54549 3.49977 3.75445 3.06868 2.62372 2.72395 3.63051 3.19965 3.92123 2.38917 2.96791 2.78231 2.88289 2.82294 2.70406 3.64245 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 7 2.60269 4.30367 3.78508 3.38481 3.69587 3.47206 4.27573 2.51798 3.30401 2.57421 3.65226 3.62512 2.658'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 195 3.66682 4.97117 4.39078 4.14613 2.88400 3.95108 4.15101 3.70263 3.86647 3.06330 4.32705 4.25824 4.48528 4.24427 3.96040 3.86857 3.97761 3.59804 0.57850 2.87690 213 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 196 1.15014 4.20480 3.46950 3.23447 4.37045 1.87882 4.31785 3.73088 3.33055 3.47099 4.31855 3.37072 3.74087 3.60689 3.62635 2.45807 2.77317 3.19480 5.71338 4.52023 214 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 197 3.34256 4.70547 4.77650 4.23157 3.07344 4.52631 4.81320 2.23390 4.03068 0.86602 2.23138 4.51462 4.73053 4.21133 4.17285 3.88851 3.56960 2.37591 5.15906 4.05982 215 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 198 2.51766 2.75405 3.47226 2.91987 3.76382 3.36998 3.86795 3.08118 2.68825 2.80540 3.69469 3.27477 3.87736 3.13158 2.12257 2.69494 2.14739 2.79928 5.14484 3.90978 216 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 199 2.14601 4.41432 3.47608 2.97712 2.17914 3.58620 2.55063 2.93910 2.91708 2.59677 3.54937 3.34802 4.00569 3.23483 3.25011 2.87704 2.93571 2.72168 4.60972 3.13897 217 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 200 3.30680 4.62609 4.87570 4.34785 3.18866 4.57653 4.92659 1.58619 4.17624 1.01203 3.00448 4.60190 4.78980 4.35307 4.31512 3.95199 3.54288 2.06212 5.26254 4.13247 218 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 201 2.89871 4.61499 3.72540 3.15506 3.51242 3.75093 3.94933 2.85107 2.61736 1.38479 3.50060 3.51649 4.14732 3.23830 2.12785 3.10761 3.13530 2.75101 5.06618 3.81020 219 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06053 4.78288 0.61958 0.77255 0.48576 0.95510\n- 202 2.72610 4.65201 3.19723 2.72545 3.17418 3.53938 2.60484 3.27507 2.67380 2.88615 3.79340 3.16840 3.95935 3.04016 3.05276 2.07377 2.97098 3.01242 4.68621 2.33157 220 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01754 4.05212 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,815 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf1gr8_IV-A_3\n-LENG 264\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 5\n-EFFN 0.493164\n-CKSUM 973967990\n-GA 27.2 22.0;\n-STATS LOCAL MSV -10.6741 0.70246\n-STATS LOCAL VITERBI -11.7151 0.70246\n-STATS LOCAL FORWARD -5.1849 0.70246\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54770 4.00209 3.04924 2.77917 3.17046 2.93642 3.69460 2.76586 2.69147 2.37160 3.62573 3.10521 3.22558 3.16380 3.02147 2.66842 2.84824 2.53267 4.84965 3.40259\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20904 3.86667 1.78554 0.61958 0.77255 0.00000 *\n- 1 2.21595 4.26866 3.61545 3.16828 3.38678 3.45918 4.06860 2.38829 3.01937 2.10973 2.33136 3.47417 3.97542 3.39717 3.29907 2.84111 2.89420 2.25818 5.05994 3.82551 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03760 3.69523 4.41758 0.61958 0.77255 0.50364 0.92717\n- 2 2.61435 4.35015 3.42219 2.90666 3.35513 3.53667 3.82635 2.63066 2.75745 2.10860 2.53436 2.80135 3.94943 3.14876 3.07544 2.83405 2.86659 2.46352 4.89413 3.60406 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78942 4.51177 0.61958 0.77255 0.55107 0.85880\n- 3 2.60830 4.76306 2.64273 2.35927 3.99260 3.24045 2.91559 3.59316 2.45127 3.18024 4.02863 2.23746 3.76464 2.83854 2.85563 2.28579 2.89391 3.24156 5.29329 3.90259 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78942 4.51177 0.61958 0.77255 0.55107 0.85880\n- 4 2.91093 4.73948 3.05113 2.80489 3.23139 3.38147 1.33063 3.60066 2.65049 3.10426 4.14249 3.21672 3.93061 3.17069 2.92009 2.98302 3.21240 3.33759 4.69723 3.18506 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78942 4.51177 0.61958 0.77255 0.55107 0.85880\n- 5 2.64865 4.41729 3.24728 3.07618 4.07436 3.10961 4.15876 3.60038 3.12672 3.23554 4.28347 3.39014 0.99766 3.51816 3.37982 2.81408 3.08422 3.25506 5.28178 4.19466 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78942 4.51177 0.61958 0.77255 0.55107 0.85880\n- 6 2.74297 4.31095 4.00819 3.67105 3.49183 3.63533 4.48786 2.06278 3.53743 2.19510 3.47207 3.87351 4.20211 3.90428 3.75747 3.13547 3.10761 1.13710 5.26139 3.98677 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78942 4.51177 0.61958 0.77255 0.55107 0.85880\n- 7 2.82425 5.27001 1.84982 1.47835 4.55935 3.15454 3.67866 4.03764 2.65461 3.59201 4.45717 2.64461 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 257 3.13367 4.50558 4.55775 4.03876 3.14735 4.34200 4.69068 1.59541 3.85987 1.21668 3.00051 4.31964 4.60866 4.11087 4.04695 3.70881 3.37806 1.95334 5.15358 3.96720 257 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 258 3.14876 4.61275 4.18018 3.82000 3.13350 3.97477 4.47756 2.33723 3.58781 0.88237 3.15827 4.09604 4.41113 3.95753 3.76482 3.54496 3.44328 2.37306 5.01068 3.73266 258 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 259 2.76631 4.93821 3.00432 2.51337 4.16675 3.44977 2.95114 3.68486 2.10555 3.21388 4.05789 2.55520 3.86640 2.73616 1.82721 2.77687 2.98351 3.35604 5.30260 3.99108 259 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 260 3.14876 4.61275 4.18018 3.82000 3.13350 3.97477 4.47756 2.33723 3.58781 0.88237 3.15827 4.09604 4.41113 3.95753 3.76482 3.54496 3.44328 2.37306 5.01068 3.73266 260 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 261 3.14876 4.61275 4.18018 3.82000 3.13350 3.97477 4.47756 2.33723 3.58781 0.88237 3.15827 4.09604 4.41113 3.95753 3.76482 3.54496 3.44328 2.37306 5.01068 3.73266 261 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 262 2.96461 5.04815 3.35847 2.73409 4.46668 3.58564 3.57483 3.82741 1.54170 3.30248 4.18135 3.13955 3.96999 2.71832 1.53553 2.97363 3.14409 3.51809 5.37031 4.19021 262 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 263 2.96682 4.93037 3.14242 2.76497 4.31547 3.45690 3.75599 3.74438 1.04624 3.31073 4.27248 3.18969 3.95765 2.94779 2.43054 3.00918 3.22051 3.45249 5.37251 4.18444 263 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86667 4.58901 0.61958 0.77255 0.48576 0.95510\n- 264 2.80350 4.34771 4.11729 3.78024 3.54584 3.71788 4.58296 2.05056 3.64793 2.23387 3.51186 3.97100 4.27871 4.00815 3.86099 3.22105 3.16519 1.03224 5.32930 4.06056 264 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 3.85645 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,731 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf1gr8_IV-A_5\n-LENG 236\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 5\n-EFFN 0.756836\n-CKSUM 4002507740\n-GA 27.1 25.8;\n-STATS LOCAL MSV -10.6077 0.70346\n-STATS LOCAL VITERBI -11.5319 0.70346\n-STATS LOCAL FORWARD -5.2568 0.70346\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51748 3.87312 3.02121 2.68430 3.26287 3.03966 3.76625 2.76593 2.62846 2.45661 3.76123 3.08903 3.25395 3.11821 2.92971 2.60888 2.84393 2.64499 4.51099 3.42486\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67722 2.69358 4.24589 2.90349 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.37498 1.58573 2.22658 0.25742 1.48298 0.00000 *\n- 1 2.77626 4.29501 4.03760 3.48576 3.29426 3.86207 4.23721 1.91765 3.36082 1.98390 2.16526 3.78837 4.23180 3.64825 3.61346 3.17193 2.46390 2.09021 5.00764 3.82501 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02923 3.94302 4.66537 0.61958 0.77255 0.42651 1.05781\n- 2 2.60171 4.45206 3.27634 2.72583 3.55071 3.51283 2.60299 2.56803 2.64492 2.65186 2.89489 2.70967 3.90151 3.00611 3.02031 2.75751 2.83441 2.72698 4.96895 3.67932 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 3 2.88126 4.31056 4.38086 3.85341 3.55025 4.07086 4.58712 1.48029 3.75007 2.24159 3.41048 4.09953 4.45467 4.02825 3.98548 3.41573 2.38191 1.43144 5.30024 4.09545 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 4 2.48150 4.46579 3.06218 2.78815 4.16308 3.17016 3.98443 3.52841 2.84947 3.25365 4.12926 2.41307 3.81548 3.21759 3.20485 2.61160 1.38443 3.13646 5.50075 4.20864 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 5 1.35607 4.23973 3.38334 3.03459 4.23231 3.02146 4.12643 3.62660 3.07440 3.31427 4.14534 3.26656 2.58796 3.37651 3.42032 1.99213 2.73871 3.13683 5.57306 4.34120 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 6 2.36280 4.34013 3.20659 2.94241 4.29376 3.05295 4.11144 3.75304 3.02988 3.41549 4.26109 3.22790 1.68014 3.35678 3.37543 1.64228 2.81628 3.25291 5.61579 4.35235 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 7 2.60514 4.66729 3.03572 2.53156 3.87244 3.42217 3.67574 3.31168 2.48618 2.94661 3.79351 3.02166 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 229 2.07801 2.15886 3.47018 2.98677 3.73861 3.30120 3.94675 3.04627 2.86636 2.78840 3.69266 3.30667 3.85817 2.42587 3.18566 2.65770 2.80587 2.75915 5.15684 3.92070 235 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 230 2.78837 5.06999 3.06593 2.51087 4.43221 3.50060 3.60134 3.83939 1.87720 3.33702 4.14814 3.00262 3.89237 2.06104 2.13057 2.37888 2.99752 3.48079 5.46012 4.17163 236 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 231 2.90807 5.34704 1.79092 2.19006 4.67851 3.24666 3.80956 4.23720 2.80616 3.76846 4.62279 1.42042 3.86733 2.98497 3.36659 2.82927 3.21299 3.81317 5.89245 4.41590 237 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 232 2.20921 5.26604 2.00473 1.54207 4.58776 3.28015 3.72126 4.04973 2.63453 3.58924 4.40695 2.76540 3.83348 2.87074 3.17440 2.74644 3.08235 3.64760 5.77211 4.32848 238 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 233 2.63843 4.39894 3.41810 2.87104 2.65773 2.73773 3.73496 2.92355 2.79114 2.60109 3.51091 3.27491 3.95724 3.12539 2.63918 2.82496 2.87360 2.69503 4.70529 2.47341 239 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 234 2.72099 4.32114 3.92427 3.39925 3.48414 3.73446 4.23324 2.28074 3.28608 1.88131 3.38929 3.70398 4.17933 3.60396 3.56960 3.06604 1.91366 1.84677 5.13411 3.91968 240 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 235 2.66249 4.48933 3.33823 2.81236 3.66153 3.53601 3.78603 1.93128 2.57475 2.70075 3.61912 2.67187 3.94901 3.04724 2.45358 2.82825 2.90438 2.71360 5.05967 3.79806 241 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16076 4.04773 2.03222 0.61958 0.77255 0.48576 0.95510\n- 236 2.50872 4.59868 2.68907 2.50559 4.24845 3.10574 3.85305 3.78409 2.73434 3.40895 4.25898 1.65788 3.75223 3.06353 3.13801 2.04201 2.89534 3.33804 5.54523 4.18252 242 n - - -\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24693 2.90350 2.73742 3.18149 2.89777 2.37890 2.77497 2.98521 4.58480 3.61506\n- 0.27605 1.42202 * 0.25364 1.49597 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-A_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,728 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf1gr8_IV-A_6\n-LENG 235\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 5\n-EFFN 1.030273\n-CKSUM 1227633427\n-GA 360 360;\n-STATS LOCAL MSV -10.6604 0.70356\n-STATS LOCAL VITERBI -11.4304 0.70356\n-STATS LOCAL FORWARD -5.3679 0.70356\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52768 3.81978 2.96567 2.67914 3.29685 2.89867 3.78282 2.80948 2.69912 2.49294 3.66285 3.02640 3.36114 3.13424 2.96022 2.64461 2.82956 2.64096 4.31398 3.37776\n- 2.68624 4.42231 2.77526 2.73130 3.46360 2.40495 3.72501 3.29360 2.67716 2.69361 4.24545 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58483 3.61509\n- 0.29605 2.03455 2.07538 0.92540 0.50480 0.00000 *\n- 1 2.69276 4.41341 3.65267 3.19599 3.50688 3.56007 4.09324 2.77365 3.06236 2.32944 1.63007 3.52535 2.56074 3.43314 3.34918 2.93422 3.00131 2.63410 5.10013 3.86822 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02543 4.08036 4.80271 0.61958 0.77255 0.62621 0.76489\n- 2 3.23841 4.68647 4.21896 3.78480 2.37723 4.11961 3.74915 2.91133 3.57914 1.78724 3.59278 3.90409 4.47523 3.83046 3.75793 3.47604 3.47673 2.84044 4.05554 1.23738 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02543 4.08036 4.80271 0.61958 0.77255 0.40700 1.09555\n- 3 2.55102 4.40581 3.53072 3.08942 3.80806 3.36212 4.07248 3.13878 3.00705 2.83623 2.53824 3.40194 3.94681 3.36818 3.33187 1.29685 2.91521 2.86747 5.27501 3.99988 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 4 1.40219 4.50788 3.10996 2.82530 4.41602 2.15655 4.07481 3.84720 2.98794 3.48599 4.30323 2.25265 3.83158 3.28199 3.39497 2.59233 2.89223 3.35688 5.70777 4.42332 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 5 2.40346 4.37676 3.40845 3.01745 4.26870 3.15182 4.12232 3.66876 3.03326 3.34090 4.17113 3.30374 2.35559 3.35438 3.39804 1.99139 1.49585 3.20856 5.59865 4.35140 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 6 2.79161 4.75606 3.24530 2.81532 3.93560 3.54664 3.90171 3.20444 2.62177 2.87623 3.89947 3.25904 4.02586 1.43881 2.94956 2.90098 3.07028 2.27119 5.34745 4.03735 9 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 7 3.23963 4.50833 5.08956 4.60578 3.72690 4.67518 5.30905 1.10119 4.50528 2.19890 3.50816 4.79559 4.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02543 4.08036 4.80271 0.61958 0.77255 0.62621 0.76489\n- 228 3.01934 4.42665 4.54526 4.02635 3.40078 4.20551 4.69718 1.99099 3.87775 1.95024 2.32905 4.25879 4.55945 4.14130 4.07483 3.56845 3.28641 1.16565 5.28069 4.09927 244 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02543 4.08036 4.80271 0.61958 0.77255 0.62621 0.76489\n- 229 2.50676 4.41922 3.28003 2.82631 3.82008 3.31613 3.88919 3.19050 2.78561 2.25601 3.78246 3.21188 2.25271 3.14259 3.15137 2.03814 2.83687 2.89216 5.21926 3.94228 245 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16197 4.08036 2.02019 0.61958 0.77255 0.62621 0.76489\n- 230 2.77914 4.73429 2.98522 2.66286 3.12069 3.46771 3.65638 3.39861 2.69750 2.99017 3.93840 1.84927 3.95148 3.06754 3.06699 2.84645 3.04842 3.13022 4.65405 2.21861 246 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02910 3.94749 4.66984 0.61958 0.77255 0.74092 0.64756\n- 231 2.76536 4.78180 2.87963 1.70209 3.86836 3.45449 3.77864 3.13433 2.57788 2.12676 3.82477 3.05639 3.92594 2.98632 2.95791 2.83815 3.01868 2.92603 5.28517 3.95852 247 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02910 3.94749 4.66984 0.61958 0.77255 0.74092 0.64756\n- 232 2.83537 5.16755 2.51642 1.82344 4.46034 3.33393 3.67283 3.92122 2.39149 3.44235 4.29819 2.83705 3.85279 1.78012 2.78331 2.79111 3.08543 3.56318 5.59964 4.23369 248 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02910 3.94749 4.66984 0.61958 0.77255 0.74092 0.64756\n- 233 1.52734 4.16824 3.31915 3.09798 4.29711 1.57788 4.21649 3.65326 3.21383 3.39476 4.24983 3.27345 3.68155 3.49834 3.51977 2.41020 2.72440 3.13178 5.63620 4.43221 249 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02910 3.94749 4.66984 0.61958 0.77255 0.74092 0.64756\n- 234 2.71719 5.00948 1.50787 2.23905 4.49933 3.17051 3.78594 3.99777 2.76211 3.58129 4.42892 2.78154 3.79213 2.96581 3.29146 1.98740 3.05005 3.57161 5.74695 4.31720 250 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02910 3.94749 4.66984 0.61958 0.77255 0.74092 0.64756\n- 235 2.49819 4.58567 2.73591 2.53458 4.26870 3.11167 3.86919 3.79175 2.75042 3.41351 4.25610 1.78204 3.75699 3.07620 3.15706 1.83143 2.88691 3.33884 5.56091 4.20722 251 n - - -\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40517 3.72499 3.29358 2.67713 2.69359 4.24694 2.90351 2.73744 3.18150 2.89805 2.37868 2.77524 2.98522 4.58481 3.61507\n- 0.18747 1.76639 * 0.66306 0.72416 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,680 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf1gr8_IV-A_4\n-LENG 219\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 22\n-EFFN 1.318604\n-CKSUM 3933013343\n-GA 26.1 25.4;\n-STATS LOCAL MSV -10.9384 0.70430\n-STATS LOCAL VITERBI -11.6756 0.70430\n-STATS LOCAL FORWARD -5.3005 0.70430\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30537 3.79092 3.03348 2.76472 3.58079 3.03376 3.73863 3.02568 2.78395 2.47318 3.71216 3.26138 3.18259 3.08517 2.76189 2.67423 2.70394 2.62752 3.60559 3.74275\n- 2.68600 4.42201 2.77540 2.73112 3.46387 2.40529 3.72528 3.29330 2.67754 2.69347 4.24439 2.90366 2.73756 3.18163 2.89819 2.37879 2.77497 2.98492 4.58510 3.61537\n- 0.67094 1.27638 1.56194 1.61539 0.22166 0.00000 *\n- 1 1.89781 4.28370 3.49400 2.99847 3.69883 2.96737 3.95898 3.03770 2.95431 2.76494 2.19517 3.32442 3.87260 3.26764 3.29533 2.26741 2.80089 2.75179 5.12478 3.89365 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02437 4.12248 4.84482 0.61958 0.77255 0.62342 0.76810\n- 2 2.43496 3.69386 3.31004 2.99827 3.38957 3.59852 3.86122 2.57004 2.94211 2.13588 2.86159 3.37639 3.12614 3.23289 3.02570 2.74086 2.82718 2.52857 4.85041 3.29459 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02277 4.18963 4.91197 0.61958 0.77255 0.54522 0.86683\n- 3 2.62120 4.36548 3.46180 2.70019 3.50730 3.59004 3.84107 2.75228 2.84888 2.42232 2.61817 3.31144 3.97084 2.94358 3.21064 2.39489 2.46692 2.32655 4.94660 3.70810 10 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02121 4.25961 4.98196 0.61958 0.77255 0.52963 0.88873\n- 4 2.80749 5.23459 1.42115 2.19991 4.53413 3.40551 3.74511 4.00135 2.59002 3.53206 3.62214 2.70054 3.89610 2.88016 3.10345 2.45662 3.05908 3.60723 5.71083 4.29593 11 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02047 4.29501 5.01736 0.61958 0.77255 0.56151 0.84478\n- 5 2.69399 4.42027 3.89951 3.51368 3.87126 3.53839 4.41203 2.72958 3.44204 2.76747 3.83291 3.73484 1.73583 3.77342 3.71218 2.96636 3.07667 1.33897 5.43193 4.20217 12 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02047 4.29501 5.01736 0.61958 0.77255 0.56151 0.84478\n- 6 2.04531 3.54905 3.96946 3.08486 3.40431 3.75290 4.11602 2.45080 3.31332 2.18368 3.37609 3.68687 4.14919 3.57947 3.56728 3.04557 2.93755 1.57992 4.92981 3.72398 13 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02047 4.29501 5.01736 0.61958 0.77255 0.56151 0.84478\n- 7 1.98864 4.45699 3.37102 2.65293 3.61334 3.57192 3.81537 2.98237 2.76077 2.45075 3.55901 3.25224 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07339 4.34995 2.84985 0.61958 0.77255 0.48576 0.95510\n- 212 2.62857 4.77049 3.08786 2.55712 4.09422 2.98274 3.73512 3.50641 2.53532 3.11952 3.64505 3.05330 2.09119 2.78042 2.84397 2.25597 2.72015 3.17466 5.36863 4.04969 224 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02043 4.29699 5.01934 0.61958 0.77255 0.55895 0.84818\n- 213 1.86857 4.57438 3.26063 2.74760 4.02165 3.38236 3.87017 3.40475 2.73274 3.06811 3.60362 2.86947 2.22731 3.07252 3.14925 2.67802 2.32694 3.07149 5.35466 4.07130 225 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06646 4.29699 2.98206 0.61958 0.77255 0.55895 0.84818\n- 214 2.19796 4.85685 2.88932 2.46828 4.20672 3.13485 3.68507 3.63821 2.46866 3.21720 4.01336 2.98188 2.92547 2.82352 2.41954 2.50186 2.35836 3.27442 5.43298 4.08609 226 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02138 4.25191 4.97426 0.61958 0.77255 0.61457 0.77843\n- 215 2.33932 5.07814 2.69846 2.16480 4.39665 2.78106 3.62786 3.86082 2.10417 3.37766 4.14083 2.89446 3.39584 2.74000 2.87826 2.35602 2.72214 3.45754 5.54118 4.14825 227 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02138 4.25191 4.97426 0.61958 0.77255 0.61457 0.77843\n- 216 2.32718 5.09447 2.61923 2.11498 4.41514 3.41114 3.61088 3.88441 2.17770 3.38912 4.14394 2.88823 3.16715 2.63366 2.69903 2.50252 2.55550 3.47240 5.54188 4.14513 228 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04178 4.25191 3.62362 0.61958 0.77255 0.61457 0.77843\n- 217 2.07055 4.55202 3.23083 2.70464 3.97603 3.04970 3.82704 3.37333 2.69462 3.02538 3.86344 3.14439 2.50862 2.89171 3.11826 2.32492 2.48992 2.66053 5.30934 4.02405 229 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18663 4.23194 1.85966 0.61958 0.77255 0.63750 0.75207\n- 218 2.26796 4.84146 2.92867 2.23886 4.11722 3.39440 3.28233 3.54223 2.39652 3.12674 3.93097 2.92561 3.45412 2.76021 2.67811 2.33895 2.52158 3.20032 5.35041 4.00638 230 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06436 4.07098 3.09511 0.61958 0.77255 0.79203 0.60317\n- 219 2.29073 4.62699 3.09737 2.54009 3.85884 3.43312 3.66291 3.24158 2.23600 2.78860 3.73491 3.02861 3.15173 2.84977 2.69920 2.66144 2.64421 2.64330 5.17595 3.88114 231 k - - -\n- 2.68615 4.42237 2.77512 2.73117 3.46366 2.40524 3.72506 3.29366 2.67752 2.69367 4.24701 2.90358 2.73720 3.18141 2.89776 2.37898 2.77500 2.98493 4.58489 3.61515\n- 0.34047 1.24283 * 0.94088 0.49476 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf1gr8_IV_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,860 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf1gr8_IV_1\n-LENG 279\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:49 2020\n-NSEQ 2\n-EFFN 0.394531\n-CKSUM 3299759165\n-GA 34.8 34.5;\n-STATS LOCAL MSV -10.7612 0.70186\n-STATS LOCAL VITERBI -11.6177 0.70186\n-STATS LOCAL FORWARD -5.4356 0.70186\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38117 4.09093 2.85607 2.78092 3.40075 2.73533 3.87704 2.74901 2.78548 2.42771 3.68009 3.14673 3.11531 3.25193 2.89028 2.70444 2.84760 2.58836 4.95451 3.70617\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.92522 2.99738 1.11342 3.00509 3.18856 3.35571 5.20785 4.03738 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 2.64876 4.41739 3.24740 3.07631 4.07449 3.10971 4.15889 3.60053 3.12685 3.23568 4.28361 3.39026 0.99745 3.51829 3.37996 2.81419 3.08434 3.25520 5.28189 4.19480 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.90401 5.01295 1.04487 2.29127 4.37980 3.15095 3.86380 3.94988 2.93321 3.57417 4.55270 2.84246 3.79820 3.10451 3.43620 2.87744 3.24166 3.59874 5.56440 4.26936 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 2.49899 1.12576 3.99560 3.71804 3.73059 3.13746 4.38364 2.86255 3.54506 2.78084 3.90038 3.72720 3.83783 3.89486 3.68342 2.77010 2.95910 2.61229 5.16202 4.01826 6 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 272 1.14050 4.15466 3.38133 3.17137 3.97240 2.98086 4.20281 3.08585 3.18551 2.97092 4.01400 3.34102 3.71247 3.53493 3.44037 2.50673 2.77844 2.75485 5.40802 4.19948 272 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 273 2.56812 4.34916 3.22461 3.11481 4.25372 0.86950 4.23808 3.83505 3.28449 3.49924 4.47611 3.38949 3.73762 3.61564 3.52760 2.73807 3.04301 3.37964 5.36871 4.35359 273 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 274 2.96657 4.41143 4.21298 3.82754 3.32069 3.97284 4.57258 1.18727 3.65384 1.92656 3.27184 4.08459 4.41414 4.01212 3.86003 3.46203 3.26815 1.85079 5.19261 3.92210 274 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 275 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 275 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 276 2.81942 4.79824 2.85295 2.60896 3.95500 3.31358 3.76565 3.57528 2.43623 3.08569 4.11844 3.06699 3.86747 1.38964 2.72100 2.87188 3.11766 3.31092 5.24313 3.93206 276 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 277 2.37217 4.21627 3.35826 3.10915 3.89921 3.05757 4.13230 3.01640 3.05044 2.88271 3.94056 3.33034 3.75563 3.45006 3.31175 2.57276 1.32098 2.72031 5.34452 4.11652 277 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 278 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 278 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 279 2.81942 4.79824 2.85295 2.60896 3.95500 3.31358 3.76565 3.57528 2.43623 3.08569 4.11844 3.06699 3.86747 1.38964 2.72100 2.87188 3.11766 3.31092 5.24313 3.93206 279 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf2gr7_IV-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf2gr7_IV-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1007 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf2gr7_IV-A_1\n-LENG 328\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:50 2020\n-NSEQ 4\n-EFFN 0.925781\n-CKSUM 3439096074\n-GA 21.2 20.6;\n-STATS LOCAL MSV -11.0233 0.70061\n-STATS LOCAL VITERBI -11.8657 0.70061\n-STATS LOCAL FORWARD -5.3881 0.70061\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43091 4.50300 2.89410 2.73447 3.36756 2.61484 3.75231 2.85220 2.71868 2.41980 3.61738 3.08510 3.47493 3.06635 2.87904 2.71045 2.80816 2.66250 4.93623 3.61725\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.00000 *\n- 1 3.22266 4.54628 4.84809 4.33947 2.27790 4.45662 4.67140 1.12413 4.20905 1.81795 3.17614 4.49643 4.72898 4.35184 4.32855 3.82409 3.46584 2.04622 4.99701 3.64290 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 2 2.75968 4.99877 3.05426 2.53859 4.37167 3.47969 3.66611 3.79647 2.24740 3.32582 4.14146 3.02961 3.90252 2.13628 2.03740 1.99553 2.99353 3.43687 5.47545 4.17175 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 3 1.71825 4.27839 3.48766 3.30805 4.52204 1.08051 4.42758 3.90453 3.45488 3.63675 4.48308 3.43792 3.80478 3.72133 3.74193 2.52539 2.85570 3.32906 5.84850 4.66451 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 4 3.07615 4.40697 4.80346 4.25141 2.02843 4.34427 4.66907 1.58844 4.12511 1.88920 3.17755 4.40631 4.62753 4.27682 4.24200 3.68474 3.31465 1.54742 5.08303 3.84698 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 5 3.21903 4.54503 4.83926 4.32866 2.06053 4.43849 4.61247 1.21130 4.19530 1.80751 3.16349 4.47299 4.71100 4.32768 4.30706 3.80199 3.46015 2.09365 4.92753 3.55315 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 6 2.88045 5.06034 3.29211 2.67649 4.45285 3.59433 3.65834 3.82393 1.68321 3.33680 4.17219 3.13152 3.97928 2.79315 1.75021 2.89085 2.24642 3.48934 5.46214 4.22033 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 7 2.88855 4.47195 4.09432 3.63563 3.40292 3.85238 4.40762 2.42649 3.45314 1.11008 3.30948 3.90089 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 321 2.55740 4.30743 3.87619 3.45917 3.84413 3.41246 4.35629 2.61260 3.35906 2.69813 3.76839 3.65077 4.04204 3.69497 3.63312 2.82788 1.32835 1.87897 5.41965 4.19471 348 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 322 1.79572 4.86902 1.92505 2.43362 4.49331 2.19872 3.86109 3.93672 2.77704 3.52733 4.34293 2.94119 3.84021 3.02881 3.27479 2.68058 2.99364 3.49776 5.73102 4.35779 349 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 323 2.02379 4.43618 3.35538 2.85755 3.65987 3.46382 2.36285 2.99749 2.78572 2.74660 3.65513 3.26304 3.93160 3.14679 3.14323 2.76795 2.87620 2.12569 5.08897 3.80629 350 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 324 2.00644 4.73506 2.90908 1.98037 4.18116 3.33748 3.79301 3.52701 2.62800 3.19688 4.03696 3.02190 3.85169 2.96724 3.06666 2.67666 2.02236 3.18207 5.46482 4.14299 351 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19774 4.14859 1.81015 0.61958 0.77255 0.48576 0.95510\n- 325 2.61007 4.38237 3.46495 3.09511 3.61429 2.00373 4.05285 2.90926 3.02242 1.59890 3.67468 3.41826 3.95638 3.39596 3.31608 2.82253 2.95657 2.69893 5.12593 3.85185 352 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02818 3.97903 4.70138 0.61958 0.77255 0.39151 1.12712\n- 326 2.42229 4.38853 3.28437 3.05663 4.38617 3.09978 4.22566 3.85870 3.15776 3.52540 4.37739 3.31848 1.26400 3.48416 3.48663 1.89245 2.89044 3.34096 5.71090 4.45376 353 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 327 1.96855 4.26768 3.73289 3.18467 3.26335 3.65202 3.94464 2.65915 3.08772 2.35486 2.41361 3.51136 4.05119 3.38472 3.37286 2.93840 2.89867 2.47699 4.79851 2.50444 354 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02373 4.14859 4.87094 0.61958 0.77255 0.48576 0.95510\n- 328 2.97332 4.37073 4.51666 3.94617 2.96484 4.11280 4.27408 1.83987 3.76617 1.47313 3.08614 4.10691 4.41853 3.95112 3.89399 3.42778 3.20114 2.35080 2.33342 3.38989 355 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 4.14089 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf2gr7_IV-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf2gr7_IV-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,887 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf2gr7_IV-A_2\n-LENG 288\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:50 2020\n-NSEQ 20\n-EFFN 1.850586\n-CKSUM 3006535439\n-GA 57.8 30;\n-STATS LOCAL MSV -10.9291 0.70163\n-STATS LOCAL VITERBI -11.7214 0.70163\n-STATS LOCAL FORWARD -5.5164 0.70163\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45809 4.61084 3.02670 2.65986 3.49981 2.60977 3.62840 2.89536 2.79086 2.37682 3.64824 3.20620 3.36376 3.09821 2.81322 2.62211 2.70551 2.67489 4.73064 3.78520\n- 2.68625 4.42233 2.77527 2.73131 3.46361 2.40520 3.72502 3.29362 2.67748 2.69362 4.24421 2.90354 2.73747 3.18154 2.89808 2.37894 2.77467 2.98526 4.58484 3.61511\n- 0.81317 1.21392 1.34892 0.13443 2.07319 0.00000 *\n- 1 2.43182 4.42750 3.41781 2.88654 3.75694 3.44131 3.90496 3.11653 2.84982 2.81693 2.32216 3.28311 2.55315 3.17325 3.22866 2.19263 2.48437 2.83889 5.15995 3.91044 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02084 4.27700 4.99935 0.61958 0.77255 0.57043 0.83306\n- 2 2.77298 4.33133 3.97441 3.39532 3.37063 3.82191 4.10903 2.66005 3.24378 1.56007 2.42765 3.70069 4.19036 3.54858 3.07660 3.10274 2.11764 2.51238 4.93083 3.73871 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42238 5.14472 0.61958 0.77255 0.71132 0.67530\n- 3 2.66964 4.58705 3.30721 2.74624 3.77227 3.24282 3.81466 2.87512 2.71317 2.60748 3.69163 3.21279 3.17890 3.04870 2.57156 1.98654 2.90566 2.40512 5.15253 3.88082 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42238 5.14472 0.61958 0.77255 0.36684 1.18065\n- 4 2.72624 4.63871 3.39986 2.86336 3.88526 3.60204 3.92515 3.25690 2.81042 2.93448 2.56279 3.30937 4.03361 2.71003 3.20272 2.28871 1.60337 2.98856 5.26470 3.99845 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 5 2.38581 4.24480 4.35085 3.76655 3.37290 3.93999 4.26764 1.87865 3.63523 2.02724 3.36243 3.95100 4.30415 3.85272 3.28213 3.23645 2.44536 1.63261 4.91672 3.72615 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 6 2.77354 5.16162 3.07310 2.50790 4.47889 3.55249 2.79021 3.92702 2.17587 3.44342 4.21521 2.63212 3.94151 2.72432 2.09821 2.75690 2.12180 3.17738 5.60075 4.23620 7 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 7 2.39743 4.16536 4.57088 3.97298 2.35890 3.91935 4.19312 2.08197 3.79056 2.31249 3.26588 4.02021 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 281 2.78560 4.27611 4.16667 2.89298 3.36028 3.88372 4.18503 1.75015 3.47252 1.60507 2.84433 3.83135 4.24818 3.71231 3.67900 2.74477 3.01811 2.42578 4.90074 3.70938 298 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 282 2.03120 5.20480 2.63925 1.86089 4.53325 3.50037 3.30597 4.00859 2.33576 3.50289 4.25085 2.97362 3.89885 2.48706 2.93241 2.59820 2.77803 3.28922 5.64699 4.24448 299 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 283 1.64991 4.34369 3.83292 3.26039 3.46450 3.77303 4.05127 2.46677 3.18949 2.26777 3.08555 3.60267 4.14824 2.85680 3.48518 3.03589 2.56183 2.29497 4.95210 3.73890 300 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 284 3.95680 5.20387 5.61851 5.08798 3.30533 5.23451 5.51340 2.52733 4.85315 0.44520 2.73198 5.34445 5.29723 4.86836 4.87472 4.66511 4.17162 2.78892 5.55110 4.53272 301 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 285 2.50106 4.31623 3.08584 2.31455 4.23206 3.20473 3.50899 3.65864 2.52579 2.61154 4.04373 2.70280 3.92964 2.70604 2.99581 2.04901 2.41435 3.31836 5.46888 4.12066 302 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 286 2.42692 5.18359 2.80708 2.17538 4.50704 2.77136 3.69489 3.97830 2.43996 3.47959 4.23062 2.48364 3.89749 2.28426 2.80005 2.42352 2.95651 3.56269 3.42533 4.23116 303 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01550 4.57069 5.29304 0.61958 0.77255 0.48576 0.95510\n- 287 2.60777 4.57661 4.65152 4.09683 3.24112 4.23206 4.50609 2.65468 3.88437 0.78300 3.27693 4.26715 4.57609 4.11054 4.01966 3.56563 3.38381 2.64682 3.73373 3.73616 304 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10777 4.57069 2.38802 0.61958 0.77255 0.48576 0.95510\n- 288 2.32043 5.05356 2.61093 2.45365 4.36755 2.96269 3.69700 3.81769 2.21482 3.35960 4.13346 2.98834 3.40899 2.81567 2.94200 2.43972 2.12175 3.16088 5.54384 4.16873 305 t - - -\n- 2.68616 4.42238 2.77503 2.73111 3.46367 2.40509 3.72507 3.29267 2.67732 2.69368 4.24703 2.90326 2.73752 3.18159 2.89814 2.37900 2.77532 2.98531 4.58490 3.61516\n- 0.40430 1.10094 * 0.52947 0.88896 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf2gr7_IV_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf2gr7_IV_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,890 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf2gr7_IV-A_3\n-LENG 289\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:50 2020\n-NSEQ 11\n-EFFN 1.517334\n-CKSUM 1867630602\n-GA 83 49;\n-STATS LOCAL MSV -10.7714 0.70160\n-STATS LOCAL VITERBI -11.6628 0.70160\n-STATS LOCAL FORWARD -5.6404 0.70160\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47083 4.32362 2.95576 2.69573 3.50131 2.70127 3.55572 2.87046 2.76901 2.38904 3.59003 3.08886 3.47613 3.05614 2.93078 2.61226 2.72447 2.70824 4.71838 3.62269\n- 2.68624 4.42231 2.77526 2.73129 3.46360 2.40519 3.72501 3.29360 2.67747 2.69361 4.24256 2.90353 2.73746 3.18152 2.89807 2.37893 2.77526 2.98524 4.58483 3.61509\n- 0.70239 1.27407 1.49205 0.15657 1.93152 0.00000 *\n- 1 2.53832 4.32458 3.56725 3.06109 3.67166 3.41993 3.99606 2.94784 2.98159 2.70045 2.39259 3.39030 3.94122 3.31378 3.30892 2.34538 1.72266 2.69381 5.12428 3.89269 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02274 4.19081 4.91316 0.61958 0.77255 0.46709 0.98571\n- 2 2.68957 4.73601 3.17213 2.63657 3.96864 3.52927 3.76507 3.35047 2.30737 2.99883 2.62300 2.42741 3.93477 2.95295 2.97565 2.76992 1.98517 3.06280 5.28389 3.98919 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01915 4.36071 5.08306 0.61958 0.77255 0.59900 0.79708\n- 3 2.65758 4.66980 3.19075 2.63812 3.87247 3.52880 3.75894 2.66377 2.61424 2.65392 3.76590 2.63621 3.92240 2.61915 3.04389 2.16865 2.34613 2.98000 5.21650 3.92430 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01915 4.36071 5.08306 0.61958 0.77255 0.59900 0.79708\n- 4 2.40478 4.47883 3.45635 2.89503 3.65498 3.62106 3.88412 2.55777 2.40406 2.39965 3.59112 3.32515 4.01364 3.16390 3.18413 2.86994 1.82232 2.68321 5.08283 3.83550 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01915 4.36071 5.08306 0.61958 0.77255 0.59900 0.79708\n- 5 2.73512 5.15315 2.50764 2.39230 4.47939 2.89938 3.69264 3.94210 2.45080 3.45749 4.22985 2.93669 2.05345 2.49109 2.47333 2.70755 2.97411 3.54058 5.61878 4.22819 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01915 4.36071 5.08306 0.61958 0.77255 0.42095 1.06834\n- 6 2.67385 4.42017 3.51098 2.62461 2.87847 3.64256 3.89183 2.59219 2.90172 2.38946 2.91790 2.89571 4.02268 2.87877 3.26543 2.88407 2.14377 2.69406 4.99849 3.75932 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43821 5.16056 0.61958 0.77255 0.48576 0.95510\n- 7 2.67960 3.34069 3.72761 3.15639 2.91385 3.69925 3.32310 2.78354 3.09000 2.50866 3.41394 3.50886 3.00'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43821 5.16056 0.61958 0.77255 0.48576 0.95510\n- 282 3.28395 4.63413 4.93235 4.36106 3.06369 4.45382 4.58370 2.18698 4.16483 0.96550 3.12379 4.48615 4.71064 4.28315 4.23898 3.78360 3.50564 2.59177 2.22093 3.61015 295 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43821 5.16056 0.61958 0.77255 0.48576 0.95510\n- 283 3.71064 4.95698 5.46433 4.93069 3.31407 5.05918 5.39775 1.73737 4.76037 0.66724 3.08599 5.16155 5.16500 4.79319 4.80637 4.46445 3.93357 2.38656 5.51077 4.46819 296 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43821 5.16056 0.61958 0.77255 0.48576 0.95510\n- 284 2.49756 5.16607 2.61471 2.23885 4.48976 2.91520 3.66546 3.96315 2.16294 3.46244 4.21460 2.34173 3.86431 2.77098 2.90960 2.23347 2.93355 3.54562 5.61119 3.38141 297 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43821 5.16056 0.61958 0.77255 0.48576 0.95510\n- 285 2.82178 5.29755 2.79505 1.42271 4.62825 3.48405 3.73385 4.10123 2.22273 3.58826 4.35700 2.57681 3.92901 2.51716 2.94530 2.77511 2.64933 3.68345 5.72634 4.32381 298 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43821 5.16056 0.61958 0.77255 0.48576 0.95510\n- 286 1.92953 4.34227 4.18308 3.63871 3.51234 3.83837 4.33040 2.48603 3.53483 1.41475 3.44936 3.87559 4.27717 3.79421 3.76854 3.16490 2.59644 2.07417 5.10813 3.91755 299 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43821 5.16056 0.61958 0.77255 0.48576 0.95510\n- 287 2.06330 4.58409 3.30153 2.38771 2.42621 2.77622 3.85566 3.17718 2.77189 2.86055 3.72692 3.23411 3.97473 3.09587 3.18245 2.80873 2.38929 2.91240 5.18694 3.91591 300 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06944 4.43821 2.89563 0.61958 0.77255 0.48576 0.95510\n- 288 2.44155 5.16328 2.92665 1.94620 4.49810 2.99094 3.64649 3.96958 2.02418 3.45943 4.21054 2.93214 3.18936 2.48218 2.55893 2.66365 2.92595 3.54923 5.59782 4.20318 301 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30204 4.38742 1.39329 0.61958 0.77255 0.56238 0.84362\n- 289 2.82336 5.04614 3.16175 2.59722 4.44653 3.53015 3.64502 3.84463 1.62333 3.35110 4.17389 3.06927 3.93355 2.77734 2.02705 2.08943 3.04025 3.49118 5.47322 4.20540 302 k - - -\n- 2.68620 4.42249 2.77544 2.73079 3.46378 2.40537 3.72519 3.29378 2.67657 2.69305 4.24714 2.90371 2.73718 3.18170 2.89825 2.37911 2.77520 2.98513 4.58501 3.61527\n- 0.51046 0.91684 * 1.22189 0.34909 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3-csf1_IV-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3-csf1_IV-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1459 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME csf3-csf1_IV-E_1\n-LENG 479\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:37 2019\n-NSEQ 2\n-EFFN 0.574219\n-CKSUM 2633221514\n-STATS LOCAL MSV -11.7549 0.69824\n-STATS LOCAL VITERBI -12.6039 0.69824\n-STATS LOCAL FORWARD -6.1242 0.69824\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62759 4.28841 2.91680 2.70138 3.12811 2.97047 3.80860 2.68616 2.53285 2.45409 3.73513 2.99599 3.51604 3.21077 3.06131 2.61192 2.88561 2.62600 4.60913 3.22493\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.00000 *\n- 1 3.01138 4.55179 4.10677 3.70428 3.23139 3.87393 4.42706 2.41233 3.46943 1.81806 1.27922 3.97517 4.33486 3.84782 3.66848 3.36606 3.31775 2.42463 5.07932 3.84578 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 2 2.99825 5.12033 2.51021 0.95178 4.47324 3.30850 3.89983 3.93774 2.78707 3.54625 4.51783 2.96329 3.91559 3.11431 3.20151 2.97517 3.30286 3.61604 5.63475 4.35692 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 3 2.76776 4.76618 2.73804 2.62886 4.13807 3.21982 3.96420 3.85988 2.87232 3.50067 4.45556 1.06687 3.87427 3.23700 3.22884 2.83287 3.15135 3.47669 5.43786 4.08252 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 4 3.21516 4.66155 4.27524 3.91527 3.15612 4.04997 4.55423 2.36302 3.68249 0.81214 3.16228 4.18556 4.47610 4.03804 3.84985 3.62696 3.50696 2.41424 5.05486 3.79054 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 5 3.02085 4.98686 3.20041 2.81181 4.38549 3.50463 3.78878 3.81809 0.96752 3.37149 4.33003 3.23395 4.00116 2.97720 2.44185 3.05930 3.27012 3.52284 5.41817 4.23860 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 6 3.07268 4.47653 4.41152 4.02930 3.41023 4.12411 4.74749 1.01414 3.85847 1.98532 3.33725 4.26715 4.55017 4.20124 4.04893 3.62454 3.37089 1.84803 5.31213 4.05505 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 7 2.37499 4.19013 3.55384 3.16818 3.76085 3.18431 4.11510 2.81174 3.11134 2.77324 3.75486 3.38967 3.83033 3.4445'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 472 2.69678 4.56363 3.30967 2.81884 3.81979 3.50616 3.81553 2.86469 1.84398 2.74320 3.73394 3.23508 3.95806 3.03942 2.77517 2.84999 2.96070 1.92739 5.21087 3.94971 488 k - - -\n- 2.68584 4.42233 2.77528 2.73132 3.46362 2.40489 3.72503 3.29362 2.67749 2.69363 4.24698 2.90355 2.73748 3.18155 2.89809 2.37895 2.77528 2.98527 4.58485 3.61405\n- 0.26477 1.50040 4.64824 0.95513 0.48575 0.48576 0.95510\n- 473 3.07308 4.46100 4.53246 3.99239 3.18420 4.27358 4.64101 1.52719 3.83237 1.64663 2.01139 4.26153 4.55446 4.06559 4.01755 3.62062 3.31562 1.99756 5.14482 3.99975 492 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 474 3.21516 4.66155 4.27524 3.91527 3.15612 4.04997 4.55423 2.36302 3.68249 0.81214 3.16228 4.18556 4.47610 4.03804 3.84985 3.62696 3.50696 2.41424 5.05486 3.79054 493 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 475 2.24563 4.18238 3.32813 3.01672 4.13339 2.97490 4.09251 3.47054 3.02538 3.21788 4.08340 3.23445 3.68857 3.35900 3.34231 1.62318 1.74421 3.01709 5.49803 4.25869 494 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 476 3.07268 4.47653 4.41152 4.02930 3.41023 4.12411 4.74749 1.01414 3.85847 1.98532 3.33725 4.26715 4.55017 4.20124 4.04893 3.62454 3.37089 1.84803 5.31213 4.05505 495 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 477 2.38733 4.20730 3.50679 3.16282 3.82716 1.91486 4.14172 2.87898 3.14264 2.83393 3.81430 3.38854 3.82663 3.46909 3.43565 2.60821 2.80332 1.71278 5.30167 4.06273 496 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 478 1.85952 4.78404 2.62273 1.74316 4.24053 3.24192 3.77189 3.54614 2.62499 3.24393 4.12601 2.90810 3.80917 2.95678 3.05582 2.68732 2.95984 3.20861 5.52060 4.18215 497 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 479 2.79656 4.73816 3.19358 2.71473 3.41996 3.54060 3.63986 3.32911 1.77187 2.92460 3.85707 3.14992 3.95594 2.93705 2.65861 2.87492 3.02363 3.07761 4.85217 2.20394 498 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02012 3.91627 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,728 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf3gr5_IV-A_1\n-LENG 235\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:50 2020\n-NSEQ 5\n-EFFN 0.600586\n-CKSUM 4258371497\n-GA 66.5 65.5;\n-STATS LOCAL MSV -10.4759 0.70353\n-STATS LOCAL VITERBI -11.4191 0.70353\n-STATS LOCAL FORWARD -5.1930 0.70353\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54755 4.36872 3.03157 2.81133 3.20333 2.78771 3.83538 2.69975 2.77680 2.37433 3.66734 3.11922 3.10973 3.27360 2.98664 2.59609 2.87870 2.49549 5.05405 3.43925\n- 2.68619 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29356 2.67742 2.69356 4.24572 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.15931 1.98149 4.66678 0.34305 1.23651 0.00000 *\n- 1 2.59644 4.33372 3.45811 2.94292 3.46655 3.52602 3.88290 2.65880 2.84684 2.43352 2.30383 2.62735 3.95781 3.20072 3.17834 2.82352 2.86040 2.21076 4.97395 3.71709 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 2 3.21063 4.56628 4.67240 4.15006 3.14157 4.43104 4.77131 1.68232 3.96960 1.06699 2.98084 4.42372 4.67581 4.19231 4.13802 3.80128 3.45112 2.03337 5.17988 4.01683 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 3 2.78370 4.78234 2.74930 2.64211 4.15719 3.23271 3.98008 3.88323 2.88988 3.52199 4.47694 1.03674 3.88817 3.25310 3.24686 2.84824 3.16803 3.49816 5.45488 4.10046 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 4 2.41793 4.33967 4.09495 3.57360 1.99298 3.88019 4.12445 2.35756 3.46436 1.64444 3.14940 3.82426 4.25390 3.70287 3.68688 3.20394 3.08857 2.29063 4.69844 3.32805 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 5 2.90917 5.05955 3.07194 2.60427 4.27043 3.52278 2.82071 3.82761 1.32765 3.32203 4.19044 3.06249 3.94542 2.77807 2.31923 2.90761 3.11487 3.50504 5.35226 4.05651 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 6 2.84840 4.59366 3.46337 3.31287 4.30168 3.27711 4.38433 3.86568 3.37634 3.48470 4.53770 3.61228 0.70409 3.76294 3.61364 3.01817 3.29566 3.50284 5.46843 4.42337 7 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 7 2.69488 4.42159 3.48305 3.06478 2.97703 3.52837 3.78581 2.92561 2.95553 2.60812 3.62645 3.38856 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 228 2.75333 4.38340 3.85669 3.40256 3.38206 3.68740 4.23644 2.37772 3.22570 1.36530 3.31106 3.69680 4.16682 3.59948 3.48059 3.06962 2.32644 2.27849 5.11109 3.88003 231 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 229 2.73890 4.39945 3.56569 3.09055 3.18046 3.65171 2.73800 1.70389 2.89175 2.38436 3.44890 3.44581 4.06655 3.30633 3.16791 2.98456 2.98954 2.48285 4.75093 3.35391 232 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 230 1.77252 4.14635 3.43925 3.08104 4.11021 2.97565 4.11568 3.41584 3.07946 3.17757 4.03206 3.27024 3.68707 3.38860 3.39862 2.02758 1.69922 2.96900 5.48091 4.26406 233 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 231 2.63340 4.93022 2.23582 2.27805 4.35385 3.23758 3.68464 3.80652 2.55339 3.37342 4.18377 2.09972 3.77047 2.83767 3.05029 2.30249 2.51042 3.40914 5.57273 4.18495 234 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 232 3.07778 4.49946 4.48005 3.98048 3.21541 4.21823 4.65837 2.04002 3.80629 1.14971 3.07882 4.24409 4.55225 4.07555 4.00270 3.59643 3.34379 1.67936 5.18357 3.98971 235 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 233 2.75333 4.38340 3.85669 3.40256 3.38206 3.68740 4.23644 2.37772 3.22570 1.36530 3.31106 3.69680 4.16682 3.59948 3.48059 3.06962 2.32644 2.27849 5.11109 3.88003 236 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20771 3.94443 1.78263 0.61958 0.77255 0.48576 0.95510\n- 234 2.89668 4.73677 3.37756 2.91427 4.06574 3.39992 3.76071 3.60306 2.21106 3.13771 4.14368 3.28019 3.91024 2.98883 1.14518 2.98755 3.17142 3.33218 5.19170 4.01815 237 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77152 4.49386 0.61958 0.77255 0.63057 0.75990\n- 235 2.65876 4.73058 2.82289 2.50888 4.22788 2.50310 3.68448 3.64352 1.62798 3.24051 4.11229 2.96786 3.79132 2.86746 2.61450 2.70861 2.95590 3.28894 5.38032 4.12032 238 k - - -\n- 2.68619 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29356 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98486 4.58478 3.61505\n- 0.18121 1.79734 * 0.34305 1.23651 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,665 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf3gr5_IV-A_2\n-LENG 214\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:50 2020\n-NSEQ 4\n-EFFN 0.753906\n-CKSUM 3934387624\n-GA 74 72;\n-STATS LOCAL MSV -10.4482 0.70457\n-STATS LOCAL VITERBI -11.3518 0.70457\n-STATS LOCAL FORWARD -4.8190 0.70457\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44602 4.50565 2.84670 2.64608 3.42942 2.82331 3.64805 2.87317 2.67895 2.48988 3.70628 3.13619 3.19020 3.13811 2.85067 2.72272 2.87536 2.76178 3.99733 3.39821\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.00000 *\n- 1 2.99752 4.72252 3.62399 3.49041 4.46540 3.40037 4.55097 4.05877 3.56322 3.66543 4.72479 3.77815 0.56020 3.94666 3.78639 3.17114 3.45335 3.68378 5.60118 4.58945 1 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 2 3.35474 4.76746 4.46725 4.11113 3.21012 4.20066 4.71272 2.42697 3.87719 0.68775 3.18470 4.36973 4.60828 4.20377 4.02357 3.79666 3.64226 2.50872 5.14895 3.91122 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 3 2.85494 5.16714 2.99960 1.87927 4.55007 3.50999 3.60880 3.95330 1.75870 3.42293 4.23852 2.99707 3.91476 2.73282 1.95951 2.82613 3.05888 3.58712 5.51910 4.23592 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 4 3.16789 4.54291 4.57528 4.20033 3.49641 4.24847 4.89921 0.88576 4.03181 2.05059 3.40850 4.42181 4.66606 4.36432 4.20898 3.76342 3.46523 1.86621 5.42078 4.17185 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 5 2.71678 4.95062 2.94302 2.04278 4.28654 3.43401 3.63856 3.68644 2.27081 3.24717 4.06973 2.97141 3.86066 2.77969 1.99821 2.72605 2.33802 3.34241 5.43110 4.11911 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 6 3.48682 4.83874 4.47683 4.22717 0.76553 4.12995 3.96560 2.99248 4.13063 2.32390 3.69882 4.21856 4.58686 4.25149 4.20735 3.74581 3.78916 2.99542 4.16871 2.51622 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 7 2.95811 5.14818 3.33439 2.69087 4.52520 3.62846 2.51798 3.92252 1.63386 3.38171 4.22380 3.13142 3.992'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 3.89568 4.61802 0.61958 0.77255 0.40670 1.09615\n- 207 1.64201 4.22071 3.39251 3.19200 4.40592 1.28492 4.31409 3.77608 3.32455 3.51175 4.36230 3.34811 3.73850 3.60058 3.62282 2.46348 2.78609 3.22805 5.73810 4.54269 228 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 208 2.55078 4.65008 3.07542 2.62707 4.24841 2.38583 3.77425 3.67499 2.47446 3.26584 4.08814 3.06280 3.81460 2.94267 1.98647 2.05925 2.87395 3.27603 5.46011 4.17020 229 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 209 2.79609 4.41220 3.94090 3.47978 3.40377 3.74222 4.29258 2.41343 3.30664 1.28768 3.32480 3.76409 4.21659 3.66646 3.55525 3.12165 2.22818 2.31955 5.13863 3.91941 230 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 210 2.97744 5.05772 3.34995 2.76859 4.18087 3.62543 2.42948 3.83135 2.05553 3.31759 4.19854 3.19095 4.02185 2.82834 1.38286 2.99426 3.17393 3.52287 5.29602 3.99277 231 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 211 2.60606 4.78837 2.85143 2.46960 4.24880 3.30373 3.72275 3.69164 2.49060 3.27228 4.09253 2.96152 2.63904 2.06244 2.90625 2.11040 2.89913 3.31113 5.47357 4.13898 232 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 212 2.99752 4.72252 3.62399 3.49041 4.46540 3.40037 4.55097 4.05877 3.56322 3.66543 4.72479 3.77815 0.56020 3.94666 3.78639 3.17114 3.45335 3.68378 5.60118 4.58945 233 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 213 3.50650 4.92489 4.09848 3.86327 2.32025 4.03546 3.71299 3.49254 3.71599 2.90090 4.15010 3.94318 4.50662 3.97983 3.86283 3.62471 3.79479 3.37168 3.96964 0.71982 234 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04589 4.76824 0.61958 0.77255 0.48576 0.95510\n- 214 3.63944 4.94959 4.36645 4.11769 2.86489 3.93300 4.12975 3.67383 3.83792 3.03735 4.29907 4.23256 4.46586 4.21651 3.93467 3.84135 3.94934 3.56887 0.59791 2.85845 235 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01780 4.03736 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,731 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf3gr5_IV-A_3\n-LENG 236\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:50 2020\n-NSEQ 22\n-EFFN 1.243408\n-CKSUM 2119808704\n-GA 75.9 75.4;\n-STATS LOCAL MSV -10.7225 0.70349\n-STATS LOCAL VITERBI -11.5637 0.70349\n-STATS LOCAL FORWARD -5.2806 0.70349\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42243 4.25891 3.01802 2.72538 3.66813 2.78392 3.51015 2.96162 2.73232 2.47064 3.68133 3.25333 2.96518 3.11452 2.79299 2.67767 2.82308 2.67191 3.88437 3.67534\n- 2.68579 4.42251 2.77528 2.73133 3.46380 2.40494 3.72500 3.29371 2.67767 2.69347 4.24447 2.90350 2.73738 3.18173 2.89804 2.37907 2.77483 2.98545 4.58503 3.61529\n- 0.42182 1.17436 3.34872 1.33818 0.30425 0.00000 *\n- 1 2.67936 4.19206 3.99144 3.41295 2.95174 3.75014 3.58917 2.50421 3.29240 2.31103 1.73110 3.66505 4.11654 3.18341 3.51160 3.03021 2.91028 2.44276 3.50148 3.40262 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02067 4.28537 5.00771 0.61958 0.77255 0.46161 0.99497\n- 2 2.43566 4.32690 3.55976 2.84494 3.46028 3.10482 3.88342 2.36882 2.79581 2.27963 3.19196 3.38280 4.00446 3.23507 2.84556 2.87479 2.71770 2.17851 4.91352 3.68458 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 3 1.91146 4.37078 3.68940 3.33068 4.25612 3.22507 4.34789 3.46844 3.31068 3.27410 4.18822 3.51778 1.19957 3.62943 3.62045 2.65865 2.92084 2.69124 5.66824 4.44637 9 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 4 3.39739 4.68669 5.18630 4.61171 2.47923 4.69326 4.99014 1.93008 4.47829 0.90835 3.00827 4.78300 4.87039 4.50735 4.52347 4.04293 3.61664 2.04441 5.23351 4.14534 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 5 2.67408 4.57350 3.31209 2.61145 3.74667 3.57417 3.78656 3.10919 2.63603 2.05840 3.66288 3.20635 3.95756 2.44888 2.64213 2.80930 2.76593 2.30764 5.12169 3.85889 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 6 3.31798 4.56554 5.23702 4.76070 3.82827 4.80168 5.47142 1.07859 4.66972 2.28682 3.59624 4.93871 5.07245 4.92262 4.84336 4.21775 3.58311 1.06850 5.87456 4.66547 12 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 7 2.81610 5.05250 3.19856 2.61664 4.42085 3.56578 3.70361 3.82448 1.94038 3.35451 4.16676 3.10293 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 229 2.47370 3.47164 2.99581 2.61462 3.84906 3.51580 3.25193 3.23946 2.59628 2.62646 3.74192 2.93464 3.90368 2.93568 2.63781 2.62495 2.26406 2.78261 5.19355 3.90014 239 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 230 2.31022 5.09766 2.62473 2.00701 4.41114 3.42869 3.63475 3.54315 2.39097 3.39006 4.15013 2.81801 2.94289 2.39631 2.87993 2.63812 2.73058 3.47178 5.55082 4.15696 240 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 231 1.85681 4.36138 4.50196 3.94498 3.50316 4.16025 4.56967 1.84753 3.83955 1.80633 3.39274 4.17006 4.50673 4.07453 4.03906 3.48126 3.20248 1.55250 5.21214 4.02497 241 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 232 2.21766 3.88883 3.37283 2.80917 3.61057 3.57599 3.28456 2.98629 2.76896 2.47998 3.55992 3.04838 3.30093 3.09241 2.98798 2.81049 2.87044 2.74562 5.02484 2.40180 242 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 233 2.55712 4.20085 3.81987 3.24301 3.31197 3.68484 3.46511 2.36616 3.15712 1.74823 3.07806 3.55278 4.05814 2.95695 3.42321 2.76380 2.86558 2.25850 4.80068 3.38334 243 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 234 3.44875 5.10663 4.10587 4.02355 4.94487 3.77045 5.04280 4.63294 4.12451 4.19805 5.28102 4.27603 0.30510 4.49765 4.29886 3.63477 3.92781 4.22192 5.98323 5.07824 244 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02007 4.31442 5.03676 0.61958 0.77255 0.48576 0.95510\n- 235 1.88340 3.34470 3.46224 2.89644 3.26891 3.26462 3.53798 2.89865 2.85392 2.60604 3.49344 3.31498 3.62315 3.16288 2.89006 2.56981 2.86572 2.66805 4.13649 3.72800 245 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15894 4.31442 2.01309 0.61958 0.77255 0.48576 0.95510\n- 236 2.62817 4.96550 2.63324 2.27291 4.25287 3.41411 3.61697 3.69412 2.37429 2.91281 4.02993 2.91441 3.48857 2.74112 2.17989 2.51223 2.51092 3.32595 5.43908 4.07319 246 r - - -\n- 2.68612 4.42237 2.77522 2.73126 3.46366 2.40505 3.72480 3.29366 2.67752 2.69351 4.24701 2.90358 2.73713 3.18158 2.89801 2.37881 2.77511 2.98530 4.58489 3.61515\n- 0.28153 1.40497 * 0.94778 0.49037 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-C_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf3gr5_IV-C_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,911 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf3gr5_IV-C_4\n-LENG 296\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:50 2020\n-NSEQ 5\n-EFFN 0.756836\n-CKSUM 1602034620\n-GA 270 270;\n-STATS LOCAL MSV -10.8458 0.70141\n-STATS LOCAL VITERBI -11.9927 0.70141\n-STATS LOCAL FORWARD -5.5818 0.70141\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69345 4.56375 2.92053 2.70771 3.26579 3.00124 3.83279 2.70285 2.57698 2.28994 3.63294 3.09144 3.30189 3.19230 2.85756 2.63804 2.91844 2.66765 4.42146 3.39985\n- 2.68625 4.42266 2.77524 2.73094 3.46322 2.40528 3.72441 3.29333 2.67748 2.69295 4.24572 2.90346 2.73745 3.18187 2.89800 2.37903 2.77524 2.98559 4.58518 3.61544\n- 0.40469 1.83050 1.75745 2.43848 0.09134 0.00000 *\n- 1 2.59506 4.51774 3.08752 2.67916 3.66083 3.37472 3.76777 3.04304 2.60944 2.73300 2.65757 2.05813 3.86345 3.01979 2.96402 2.72337 2.88088 2.80353 5.09793 3.76337 19 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03152 3.86860 4.59095 0.61958 0.77255 0.39528 1.11930\n- 2 3.23864 4.57557 4.81318 4.24429 3.12081 4.49225 4.80202 1.77655 4.10477 1.24902 1.86518 4.49863 4.69431 4.23434 4.23575 3.83041 3.46136 2.18689 5.16092 4.08654 20 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 3 3.30608 4.89005 3.80184 3.42485 2.22473 4.00947 2.18946 3.51296 3.25360 2.93305 4.05251 3.63605 4.39428 3.57827 3.49654 3.37002 3.53758 3.33592 3.86969 1.18152 21 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 4 3.35694 4.76916 4.47020 4.11417 3.21103 4.20297 4.71519 2.42807 3.88022 0.68600 3.18518 4.37259 4.61032 4.20635 4.02626 3.79931 3.64441 2.51028 5.15044 3.91311 22 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 5 3.10822 4.42654 4.81501 4.32470 3.60267 4.44941 5.04550 1.42488 4.21144 2.11115 3.41031 4.53995 4.77200 4.48255 4.41206 3.84182 3.37819 1.04309 5.56760 4.35569 23 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 6 2.50068 4.26399 3.56535 3.07324 3.63678 3.39032 4.00310 2.13400 3.00329 2.64480 3.58799 3.38909 3.92044 3.32900 3.32541 2.23642 1.93854 2.50677 5.10961 3.87711 24 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 7 3.35694 4.76916 4.47020 4.11417 3.21103 4.20297 4.71519 2.42807 3.88022 0.68600 3.18518 4.37259 4.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03152 3.86860 4.59095 0.61958 0.77255 0.39528 1.11930\n- 289 2.80091 4.70116 3.31849 2.81449 2.42367 3.59101 3.74728 3.18241 1.54564 2.77810 3.77656 3.24511 4.00736 3.04418 2.83414 2.91075 3.03957 2.96958 4.93020 3.50123 357 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 290 2.40961 4.33053 3.36791 3.19529 4.25553 3.05761 4.29855 3.80357 3.28101 3.51141 4.42494 3.38940 3.81160 3.61712 3.55921 0.85440 2.90350 3.29984 5.61457 4.34095 358 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 291 1.51266 4.75261 2.74202 1.92490 4.25390 3.27709 3.84798 3.55808 2.70828 3.26533 4.14572 2.99508 3.85339 3.04020 3.13087 2.71560 2.98165 3.21578 5.54743 4.22372 359 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 292 3.33974 4.68388 4.69316 4.22466 1.44160 4.39927 4.21501 2.44831 4.07339 1.31061 3.10227 4.32681 4.66538 4.17311 4.17911 3.77008 3.57289 2.53798 4.44564 2.90714 360 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02628 4.04773 4.77008 0.61958 0.77255 0.48576 0.95510\n- 293 2.78283 4.38300 3.75006 3.24728 1.95885 3.74662 3.84017 2.71837 3.16197 1.89034 3.40399 2.65280 4.13456 3.44493 3.44101 3.04549 3.02626 2.56628 4.48567 2.99579 361 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14614 4.04773 2.13284 0.61958 0.77255 0.48576 0.95510\n- 294 2.85859 4.57913 3.50311 3.06101 3.33998 3.70254 3.96205 2.71819 2.78167 1.38200 3.35889 3.45679 4.11708 2.59361 3.04925 3.06994 3.10790 2.66161 4.99249 3.69561 362 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02958 3.93118 4.65352 0.61958 0.77255 0.59883 0.79729\n- 295 2.10365 4.51367 3.22447 2.70735 3.77802 3.45191 3.75679 2.52840 2.05485 2.75124 3.67529 3.14883 3.88739 2.97768 2.87396 2.74334 2.86283 2.70155 5.15523 3.89120 363 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02958 3.93118 4.65352 0.61958 0.77255 0.59883 0.79729\n- 296 2.61401 4.43305 3.24102 2.40270 3.64929 3.50004 3.83154 2.16718 2.72597 2.60549 3.56498 3.21189 3.93058 3.09045 3.09322 2.79722 2.27308 2.48912 5.10087 3.84169 364 i - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67745 2.69359 4.24694 2.90351 2.73744 3.18096 2.89805 2.37867 2.77524 2.98523 4.58481 3.61507\n- 0.20075 1.70437 * 0.66397 0.72320 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-A1_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-A1_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1600 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME csf4_IV-A1_1\n-LENG 526\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:31 2019\n-NSEQ 5\n-EFFN 1.010742\n-CKSUM 3116423242\n-STATS LOCAL MSV -11.6154 0.69778\n-STATS LOCAL VITERBI -12.6649 0.69778\n-STATS LOCAL FORWARD -6.1228 0.69778\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.28358 4.40929 2.96082 2.73855 3.57157 2.83233 3.73410 2.88236 2.80336 2.38950 3.65148 3.22525 3.29006 3.08084 2.83086 2.67760 2.81368 2.56126 4.29963 3.77290\n- 2.68589 4.42240 2.77534 2.73138 3.46369 2.40527 3.72509 3.29369 2.67755 2.69370 4.24289 2.90361 2.73708 3.18161 2.89815 2.37901 2.77534 2.98533 4.58200 3.61518\n- 0.44865 1.73627 1.68558 1.36689 0.29424 0.00000 *\n- 1 2.76199 4.62920 3.37436 2.83128 3.74595 3.58405 3.78204 3.02475 1.83821 2.63625 2.14427 3.25360 3.98979 3.00712 2.70471 2.90047 2.99543 2.83436 5.14769 3.89993 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02760 3.99967 4.72201 0.61958 0.77255 0.68837 0.69795\n- 2 3.12549 4.48038 4.64669 4.13593 1.95029 4.30082 4.44067 1.45342 4.00625 1.74543 3.09517 4.30183 4.58740 4.15674 4.14125 3.65579 3.36679 2.10452 4.78333 3.38463 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02760 3.99967 4.72201 0.61958 0.77255 0.68837 0.69795\n- 3 0.84493 4.25947 3.59520 3.39412 4.18235 3.08026 4.40066 3.32716 3.41373 3.20274 4.22189 3.51047 3.83167 3.74353 3.65446 2.60933 2.89558 2.95949 5.59678 4.41165 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02760 3.99967 4.72201 0.61958 0.77255 0.68837 0.69795\n- 4 1.40894 4.25291 3.34507 3.04694 4.18870 3.03674 4.14438 3.50466 3.08732 3.24484 4.13172 3.28236 1.99135 3.40978 3.41140 2.49145 2.77568 3.06714 5.54918 4.32320 9 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02760 3.99967 4.72201 0.61958 0.77255 0.68837 0.69795\n- 5 2.62134 4.39014 3.48329 3.11313 3.61950 1.98642 4.06710 2.91423 3.04051 1.57189 3.67811 3.43431 3.96905 3.41244 3.33288 2.83570 2.96771 2.70577 5.13371 3.86144 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02760 3.99967 4.72201 0.61958 0.77255 0.68837 0.69795\n- 6 1.68463 4.34013 3.75771 3.32288 3.52793 3.52775 4.20715 2.51232 3.20665 1.67116 3.47506 3.60038 4.06943 3.55738 3.48358 2.91946 2.98231 2.35955 5.17704 3.93622 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02760 3.99967 4.72201 0.61958 0.77255 0.68837 0.69795\n- 7 2.56201 4.31031 3.55475 3.16686 3.66719 1.86348 4.11582 1.82346 3.11792 2.63555 3.66409 3.46270 3.96741 3.45989 3'..b'.68498 4.41800 2.77536 2.73093 3.46475 2.40561 3.72344 3.29475 2.67862 2.69282 4.24582 2.90348 2.73709 3.18189 2.89803 2.37973 2.77483 2.98380 4.58598 3.61624\n- 0.29190 1.41093 4.68435 3.24774 0.03964 0.71919 0.66776\n- 519 1.75613 4.28457 3.78026 3.34576 2.01992 3.50470 4.04410 2.63345 3.28875 2.33874 3.45598 3.58097 4.03713 3.56366 3.55332 2.88765 2.94968 2.46695 4.78202 3.37179 710 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02867 3.96200 4.68435 0.61958 0.77255 0.71919 0.66776\n- 520 3.05548 4.46248 4.50603 4.00346 3.28764 4.22731 4.68720 1.97515 3.84163 1.32664 3.14893 4.25898 4.56507 4.11317 4.04190 3.60250 3.32170 1.43736 5.23148 4.03137 711 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02867 3.96200 4.68435 0.61958 0.77255 0.71919 0.66776\n- 521 3.10784 4.93985 3.60776 3.10077 4.31716 3.57809 3.89140 3.86543 2.27667 3.36513 4.36337 3.45347 4.07667 3.10762 0.84999 3.18793 3.36793 3.58562 5.36414 4.22549 712 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02867 3.96200 4.68435 0.61958 0.77255 0.71919 0.66776\n- 522 2.36047 4.28180 3.28570 3.10608 4.16611 3.01009 4.21324 3.70104 3.18588 3.41453 4.33346 3.31622 3.75638 3.52829 3.46884 0.96368 2.84739 3.21652 5.53154 4.25022 713 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02867 3.96200 4.68435 0.61958 0.77255 0.71919 0.66776\n- 523 2.69681 4.44361 3.52656 3.10514 3.48897 3.51793 4.04225 2.76357 2.98055 1.59697 3.50655 3.45806 2.16654 3.37212 3.27609 2.91782 3.00843 2.62416 5.08071 3.80683 714 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02867 3.96200 4.68435 0.61958 0.77255 0.71919 0.66776\n- 524 2.56445 4.42639 3.20242 2.85045 3.75920 3.34582 3.94209 2.86959 2.84842 2.81258 3.78629 2.08574 3.90258 3.21892 3.19526 2.73953 2.89966 1.79124 5.22205 3.90607 715 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02867 3.96200 4.68435 0.61958 0.77255 0.71919 0.66776\n- 525 2.78450 5.04799 2.59313 2.35591 4.34077 3.32138 3.69319 3.88245 2.41648 3.41871 4.27146 1.96544 3.85053 1.89768 2.79806 2.76714 3.05475 3.51367 5.53099 4.15296 716 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02867 3.96200 4.68435 0.61958 0.77255 0.71919 0.66776\n- 526 2.79568 5.06452 1.49884 2.26973 4.60996 1.85320 3.85013 4.12481 2.86189 3.69013 4.54895 2.81678 3.82426 3.03934 3.40035 2.77045 3.13627 3.68632 5.80744 4.42006 717 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01939 3.95272 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-A1_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-A1_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2428 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME csf4_IV-A1_2\n-LENG 802\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:30 2019\n-NSEQ 8\n-EFFN 1.441406\n-CKSUM 132168256\n-STATS LOCAL MSV -12.4687 0.69619\n-STATS LOCAL VITERBI -13.4523 0.69619\n-STATS LOCAL FORWARD -6.6621 0.69619\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39940 4.46351 2.96747 2.67052 3.58895 2.88433 3.70429 2.84602 2.72132 2.37295 3.59767 3.17750 3.32508 3.05478 2.81491 2.66260 2.82972 2.60897 4.38886 3.69133\n- 2.68578 4.42257 2.77551 2.73155 3.46386 2.40545 3.72526 3.29318 2.67703 2.69350 4.24204 2.90333 2.73772 3.18178 2.89833 2.37892 2.77511 2.98503 4.58509 3.61535\n- 0.26655 1.47819 5.12775 1.68819 0.20439 0.00000 *\n- 1 3.30851 4.61751 5.07271 4.51795 3.43781 4.62134 5.02919 1.73683 4.38477 1.89134 1.35000 4.70224 4.86745 4.52661 4.49646 3.97463 3.54600 1.68851 5.40931 4.29964 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01831 4.40541 5.12775 0.61958 0.77255 0.48576 0.95510\n- 2 2.94890 5.28585 2.82844 2.12329 4.64379 3.53676 3.81914 4.07869 1.96359 3.59592 4.41398 3.04432 1.53555 2.95862 2.88112 2.91759 3.19166 3.70206 5.74364 4.39617 10 p - - -\n- 2.68623 4.42230 2.77524 2.73089 3.46359 2.40517 3.72499 3.29359 2.67746 2.69360 4.24694 2.90351 2.73744 3.18093 2.89805 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.79864 1.47819 1.13318 0.18721 1.76766 0.48576 0.95510\n- 3 2.66203 4.88004 2.78168 2.41609 4.25223 3.34007 3.68537 3.68395 2.43560 3.26400 4.08887 2.26051 3.82599 2.19499 2.84819 2.68054 2.22007 3.32412 5.46396 4.12246 12 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02688 4.02549 4.74784 0.61958 0.77255 0.88574 0.53172\n- 4 2.83330 4.28528 4.24091 3.67634 2.95859 3.92979 4.11424 2.38258 3.50742 1.59831 3.12621 3.88364 4.26955 3.74374 3.68498 3.23768 3.06809 1.86119 2.65712 3.30533 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02688 4.02549 4.74784 0.61958 0.77255 0.88574 0.53172\n- 5 1.90850 4.27901 3.46356 3.00332 3.71226 3.29422 3.97870 2.95352 2.94596 2.04398 3.67305 3.31927 3.86102 3.28092 3.27710 2.04146 2.80374 2.68143 5.16277 3.91793 14 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02688 4.02549 4.74784 0.61958 0.77255 0.29831 1.35508\n- 6 2.69169 4.41496 3.57914 3.02717 3.58260 3.65677 3.95645 2.26915 2.96134 2.62161 3.53993 3.42447 4.05741 2.58802 3.30663 2.02802 2.93643 1.97231 5.04065 3.80493 15 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01831 4.40541 5.12775 0.61958 0.77255 0.48576 0.95510\n- 7 1.91553 4.34049 3.70431 3.14404 3.51205 3.66458 4.00357 2.37133 3.08194 2.14561 3.47882 3.50228 2.92382 3.37498 3.'..b'.68623 4.42230 2.77524 2.73090 3.46359 2.40490 3.72499 3.29359 2.67746 2.69360 4.24694 2.90351 2.73744 3.18151 2.89805 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.23517 2.11734 2.41675 0.66535 0.72174 0.48576 0.95510\n- 795 2.90910 4.99968 3.01390 2.75698 4.46813 3.48535 4.01066 3.98268 2.73478 3.53359 4.42862 3.22577 1.20958 2.09590 3.07827 2.95802 3.23163 3.61458 5.68878 4.38426 907 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01999 4.31845 5.04080 0.61958 0.77255 0.41648 1.07695\n- 796 3.31805 5.36765 3.74191 3.08694 4.54381 3.90478 2.51829 4.20024 2.13449 3.62565 4.51992 3.46877 4.28470 3.01325 0.89484 3.32109 3.48783 3.89158 5.53886 4.28281 908 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01831 4.40541 5.12775 0.61958 0.77255 0.48576 0.95510\n- 797 2.66958 2.99301 3.60885 3.03818 3.51801 3.64863 2.87236 2.86810 2.94333 2.59172 3.48882 3.42254 4.03836 3.27021 2.62576 2.90691 2.48949 1.90112 4.96636 3.73821 909 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01831 4.40541 5.12775 0.61958 0.77255 0.48576 0.95510\n- 798 2.37828 5.12873 2.44650 2.05194 4.44547 3.45710 3.65711 3.91121 2.40543 3.42113 4.17934 2.93595 3.85774 2.37496 2.44246 2.66296 2.92075 2.77752 5.57799 4.18451 910 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13500 4.40541 2.17094 0.61958 0.77255 0.48576 0.95510\n- 799 2.17351 4.32985 3.75506 3.21562 3.54703 3.63207 4.07707 2.65278 3.14504 2.05211 3.49569 3.54744 2.31562 3.44417 3.45639 2.93640 2.93801 1.96482 5.06037 3.84190 911 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02055 4.29096 5.01331 0.61958 0.77255 0.64128 0.74786\n- 800 2.65950 4.17424 3.99517 3.41957 2.57412 2.64769 4.04928 2.12941 3.31859 2.03592 3.26905 3.67702 4.11480 3.56175 3.54262 3.02331 2.33540 2.35293 4.79430 3.59054 912 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12072 4.29096 2.30230 0.61958 0.77255 0.64128 0.74786\n- 801 2.09444 4.32557 3.51928 2.97698 3.43549 3.55796 3.87235 2.83915 2.91666 2.14359 3.47008 3.35730 3.97398 3.22828 3.25400 2.27914 2.85814 2.61295 4.90204 2.68467 913 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16626 4.19293 1.97996 0.61958 0.77255 0.74646 0.64253\n- 802 2.79688 5.23744 1.78954 2.20890 4.59857 3.26888 3.73305 4.09523 2.64860 3.61641 4.42918 2.05937 2.50636 2.88368 3.18735 2.73789 3.07798 3.67491 5.78125 4.33638 914 d - - -\n- 2.68626 4.42267 2.77485 2.73127 3.46323 2.40530 3.72537 3.29205 2.67750 2.69363 4.24732 2.90389 2.73708 3.18128 2.89801 2.37929 2.77488 2.98561 4.58294 3.61545\n- 0.38680 1.13703 * 1.96453 0.15108 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2020 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME csf4_IV-A_1\n-LENG 666\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:27 2019\n-NSEQ 22\n-EFFN 1.834229\n-CKSUM 3057209743\n-STATS LOCAL MSV -11.9962 0.69681\n-STATS LOCAL VITERBI -13.3747 0.69681\n-STATS LOCAL FORWARD -6.2356 0.69681\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42170 4.49648 2.95382 2.67818 3.45221 2.90430 3.68724 2.84800 2.75594 2.36561 3.63558 3.17874 3.30289 2.95643 2.83547 2.62425 2.81641 2.66446 4.68157 3.66311\n- 2.68615 4.42286 2.77403 2.73150 3.46414 2.40573 3.72555 3.29414 2.67801 2.69415 4.24216 2.90368 2.73591 3.18207 2.89817 2.37880 2.77510 2.98445 4.58537 3.61564\n- 0.74029 1.21260 1.48898 1.93095 0.15667 0.00000 *\n- 1 3.50568 4.78440 5.25612 4.67955 3.19762 4.81595 5.12270 1.79470 4.53724 1.03590 1.73708 4.89437 4.95011 4.55735 4.58579 4.17360 3.71996 2.39616 5.32032 4.30282 18 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31542 5.03777 0.61958 0.77255 0.82392 0.57752\n- 2 2.28875 5.05321 2.84094 1.97338 4.37611 2.65014 2.61446 3.82741 2.48329 3.37261 4.15784 2.94037 3.86580 2.82483 2.96512 2.35334 2.94688 3.44460 5.56019 4.18140 19 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31542 5.03777 0.61958 0.77255 0.82392 0.57752\n- 3 2.34257 4.50008 3.35179 2.79315 2.78562 3.57360 3.81563 3.02180 2.20687 2.31588 3.59715 3.24159 2.74203 3.07893 3.12673 2.81179 2.88597 2.78076 5.06366 3.80175 20 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31542 5.03777 0.61958 0.77255 0.69967 0.68667\n- 4 2.67380 4.72769 3.18132 2.61803 3.94048 2.76667 3.74394 3.32932 2.01052 2.97409 3.25494 3.11176 3.92277 2.92941 2.69735 2.75238 2.54156 2.40342 5.25818 3.96077 21 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01895 4.37108 5.09343 0.61958 0.77255 0.71602 0.67078\n- 5 2.66870 4.27383 3.19298 3.18898 3.39562 3.70171 3.97905 2.31892 3.12052 1.76425 3.20171 3.53106 3.35071 3.39649 3.41624 2.66520 2.90152 2.16576 4.87939 3.66554 22 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01857 4.39105 5.11339 0.61958 0.77255 0.74091 0.64756\n- 6 2.76340 5.09360 2.16306 2.23018 4.34857 3.47071 2.49975 3.80198 2.54105 2.14333 4.16359 2.83845 3.91048 2.87178 3.02465 2.75211 3.00185 3.44298 5.56254 4.18403 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01857 4.39105 5.11339 0.61958 0.77255 0.35400 1.21025\n- 7 2.71948 4.94654 2.63294 2.54394 4.19181 2.83591 3.26413 3.61348 2.54047 3.20837 2.58012 3.06697 3.93423 2.54311 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02272 4.19184 4.91419 0.61958 0.77255 0.93536 0.49831\n- 659 2.59028 2.99491 3.66301 3.09505 3.37021 3.09430 3.90632 2.70396 2.73800 2.00885 3.35318 3.43931 3.35930 3.30699 3.31831 2.86880 2.83238 2.17486 4.84190 3.62570 861 l - - -\n- 2.68537 4.42253 2.77514 2.73151 3.46382 2.40540 3.72522 3.29382 2.67743 2.69383 4.24717 2.90374 2.73699 3.18147 2.89737 2.37893 2.77481 2.98546 4.58505 3.61531\n- 0.33288 1.28807 4.91419 1.57594 0.23170 0.30094 1.34754\n- 660 2.71194 3.31249 3.46120 2.89667 3.50889 3.65606 2.79808 2.48531 2.86179 2.74031 3.62030 2.48543 3.43569 3.17893 2.87119 2.89010 2.71937 2.80414 5.09068 2.81122 868 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01579 4.55210 5.27445 0.61958 0.77255 0.50814 0.92033\n- 661 2.39443 5.03655 3.05646 2.20634 4.31416 3.52708 3.72295 3.75045 2.32112 3.31232 3.65618 3.03243 3.18885 2.85017 2.67508 2.72834 1.83635 3.39109 5.51480 4.15539 869 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01579 4.55210 5.27445 0.61958 0.77255 0.50814 0.92033\n- 662 2.54051 5.19557 2.93334 1.70234 4.51161 3.50853 2.87921 3.97607 2.48313 3.48938 4.25402 2.98987 2.44289 2.64171 2.96638 2.73756 2.72327 3.57271 5.64955 4.25661 870 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01579 4.55210 5.27445 0.61958 0.77255 0.50814 0.92033\n- 663 2.95900 5.47466 1.52826 1.62217 4.78684 3.50533 3.86578 4.27790 2.72265 3.19810 4.55680 2.97063 4.01295 2.99495 3.25444 2.24532 3.21305 3.85297 5.92642 4.48112 871 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01579 4.55210 5.27445 0.61958 0.77255 0.50814 0.92033\n- 664 2.32178 4.34225 2.96418 3.42316 3.48364 3.86602 4.16841 1.77094 3.34869 1.82643 3.45277 3.73749 4.23734 3.61438 3.62134 3.14107 2.75483 2.19194 5.00626 3.79749 872 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11364 4.55210 2.33436 0.61958 0.77255 0.50814 0.92033\n- 665 2.35787 4.64571 3.26793 2.47145 3.83269 3.57953 3.81062 2.51678 2.69068 2.87927 3.74048 3.19395 3.96949 2.13943 3.11091 2.56835 2.92345 2.35250 5.20022 3.91950 873 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26945 4.45586 1.49348 0.61958 0.77255 0.65799 0.72959\n- 666 2.20192 2.41074 3.38171 2.21308 3.66956 3.51009 3.87140 2.93167 2.81202 2.46975 3.60795 3.27588 3.94931 3.14785 3.18354 2.78971 2.87273 2.68824 5.09372 3.84259 874 a - - -\n- 2.68622 4.42245 2.77522 2.73143 3.46281 2.40533 3.72514 3.29295 2.67745 2.69257 4.24710 2.90335 2.73759 3.18166 2.89821 2.37907 2.77539 2.98515 4.58497 3.61523\n- 0.41143 1.08680 * 1.11144 0.39911 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4_IV-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1966 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME csf4_IV-E_1\n-LENG 648\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:38 2019\n-NSEQ 2\n-EFFN 0.628906\n-CKSUM 326178312\n-STATS LOCAL MSV -12.1350 0.69691\n-STATS LOCAL VITERBI -13.0827 0.69691\n-STATS LOCAL FORWARD -6.1520 0.69691\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62919 4.47185 2.85151 2.69550 3.13609 3.02590 3.88507 2.62605 2.56433 2.36288 3.65709 3.01251 3.67133 3.20877 3.02518 2.65441 2.90798 2.59276 4.83059 3.26805\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24479 2.90350 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.27055 1.47920 4.68631 0.25372 1.49570 0.00000 *\n- 1 2.70413 4.64785 3.03849 1.94605 3.75653 3.48454 3.78535 3.01590 2.60439 2.65224 2.29518 3.11705 3.92664 3.00511 2.97795 2.81515 2.95293 2.81743 5.19766 3.91070 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 2 3.25866 4.69412 4.33615 3.97695 3.17207 4.09790 4.60401 2.38171 3.74379 0.77028 3.16742 4.24353 4.51787 4.09022 3.90468 3.68020 3.54895 2.44269 5.08400 3.82827 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 3 3.11017 4.94196 3.61030 3.10295 4.31977 3.57999 3.89299 3.86821 2.27769 3.36755 4.36578 3.45548 4.07850 3.10915 0.84735 3.19018 3.37014 3.58832 5.36598 4.22771 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 4 2.32570 4.30406 3.14887 2.87711 4.22497 3.01846 4.04627 3.67834 2.95940 3.34287 4.19100 3.17297 1.92946 3.28964 3.30802 1.61573 2.77256 3.19180 5.54945 4.28252 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 5 2.85967 5.17947 2.65170 1.72794 4.52770 3.39143 3.65193 3.94373 1.64809 3.45718 4.29922 2.89126 3.87803 2.79604 2.60917 2.81843 3.09293 3.58300 5.58426 4.25877 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 6 2.95527 4.94263 2.96530 2.72193 4.12319 3.42758 3.88088 3.76841 2.53652 3.26164 4.28739 3.18229 3.98265 1.07983 2.81871 2.99937 3.25239 3.49254 5.37924 4.07921 7 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 3.96396 4.68631 0.61958 0.77255 0.48576 0.95510\n- 7 2.84223 4.64613 3.56571 2.98109 3.62465 3.65108 3.81631 2.98235 2.40666 1.75935 3.61837 3.36419 4.05230 3.06595 1.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 641 2.99927 4.50746 3.95555 3.60145 3.09124 3.79311 4.30208 2.29618 3.37032 1.07485 3.17103 3.88974 4.25770 3.77342 3.56717 3.35651 3.30275 2.29504 4.91213 3.60057 658 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 642 2.84460 4.93249 1.14773 2.26812 4.29287 3.10988 3.82052 3.85050 2.88024 3.48777 4.46893 2.81438 3.75353 3.06426 3.37139 2.82797 3.18252 3.50730 5.48912 4.19755 659 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 643 2.25521 4.17025 3.09142 2.90653 3.93528 2.90317 4.01741 3.44117 2.96997 3.17507 4.11807 3.15084 3.63139 3.33238 3.25639 1.32971 2.72566 3.00848 5.32092 4.01932 660 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 644 2.99927 4.50746 3.95555 3.60145 3.09124 3.79311 4.30208 2.29618 3.37032 1.07485 3.17103 3.88974 4.25770 3.77342 3.56717 3.35651 3.30275 2.29504 4.91213 3.60057 661 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 645 2.99927 4.50746 3.95555 3.60145 3.09124 3.79311 4.30208 2.29618 3.37032 1.07485 3.17103 3.88974 4.25770 3.77342 3.56717 3.35651 3.30275 2.29504 4.91213 3.60057 662 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 646 2.84460 4.93249 1.14773 2.26812 4.29287 3.10988 3.82052 3.85050 2.88024 3.48777 4.46893 2.81438 3.75353 3.06426 3.37139 2.82797 3.18252 3.50730 5.48912 4.19755 663 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 647 2.50454 4.28690 3.14807 3.03297 4.16432 0.98842 4.15639 3.73406 3.19373 3.40546 4.38505 3.31400 3.67347 3.53055 3.44003 2.67350 2.97496 3.29093 5.29179 4.26344 664 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03631 3.72972 4.45207 0.61958 0.77255 0.67553 0.71108\n- 648 2.99927 4.50746 3.95555 3.60145 3.09124 3.79311 4.30208 2.29618 3.37032 1.07485 3.17103 3.88974 4.25770 3.77342 3.56717 3.35651 3.30275 2.29504 4.91213 3.60057 665 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02458 3.71800 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4gr11_IV-B_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4gr11_IV-B_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,443 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf4gr11_IV-A_2\n-LENG 140\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 16\n-EFFN 0.855469\n-CKSUM 84642589\n-GA 148 145;\n-STATS LOCAL MSV -10.3386 0.71054\n-STATS LOCAL VITERBI -10.8159 0.71054\n-STATS LOCAL FORWARD -4.6779 0.71054\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39474 4.62994 2.97736 2.63144 3.69815 3.23823 3.69104 2.94443 2.76334 2.29678 3.76317 3.20451 3.33817 3.08334 2.67049 2.69616 2.78166 2.66650 3.59363 3.50013\n- 2.68624 4.42231 2.77525 2.73129 3.46360 2.40519 3.72500 3.29360 2.67737 2.69361 4.24604 2.90352 2.73745 3.18152 2.89780 2.37893 2.77484 2.98524 4.58483 3.61509\n- 0.51160 1.53710 1.68490 0.58883 0.80963 0.00000 *\n- 1 2.53106 4.31872 3.36402 2.83512 3.50682 3.08489 3.80435 2.82154 2.75519 2.35192 2.57808 3.23473 2.80818 3.10174 3.10439 2.72893 2.79683 2.59809 4.96164 3.71457 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03015 3.91246 4.63481 0.61958 0.77255 0.62814 0.76268\n- 2 2.28759 4.63844 3.00311 2.35112 3.89507 3.37983 3.63872 3.29040 2.36046 2.92714 3.50675 2.97392 3.49084 2.81662 2.89366 2.41142 2.46130 2.98737 5.20061 3.89336 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02928 3.94128 4.66362 0.61958 0.77255 0.64898 0.73936\n- 3 2.62236 5.02615 2.30727 2.18162 4.32823 3.08685 3.57976 3.78645 2.36276 3.31518 4.09550 2.80792 3.35531 2.41594 2.69276 2.59564 2.64663 3.39686 5.49055 4.09918 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02928 3.94128 4.66362 0.61958 0.77255 0.43110 1.04923\n- 4 2.31852 4.53784 2.75881 2.60976 3.75278 2.95980 3.71661 3.11532 2.60085 2.64085 2.73195 3.08514 3.85629 2.93375 3.02437 2.68741 2.56374 2.84535 5.11878 3.83632 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02534 4.08374 4.80608 0.61958 0.77255 0.51291 0.91317\n- 5 2.35653 4.34119 3.38333 2.82063 3.50247 3.51975 3.78868 2.85176 2.77531 2.32942 3.16153 3.24172 3.43348 2.93545 3.14504 2.61256 2.40060 2.37648 4.93351 3.69062 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02534 4.08374 4.80608 0.61958 0.77255 0.51291 0.91317\n- 6 2.36888 4.31220 3.38502 2.92395 4.01780 2.77893 3.98651 3.40087 2.91217 3.08585 3.92919 3.23804 3.14059 3.22958 3.28484 2.20544 1.62841 2.70259 5.37622 4.13022 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02534 4.08374 4.80608 0.61958 0.77255 0.51291 0.91317\n- 7 2.54375 4.55037 3.08989 2.68717 4.02464 3.29666 3.83920 3.42103 2.66106 3.07621 3.94006 3.11419 1.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02473 4.10784 4.83019 0.61958 0.77255 0.48576 0.95510\n- 133 2.78237 5.06436 2.65527 2.46208 4.40854 3.45299 3.65808 3.84009 2.26983 3.36367 4.17972 2.97193 3.89110 2.61269 1.54216 2.60578 3.01348 3.47848 5.51009 4.18859 139 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02473 4.10784 4.83019 0.61958 0.77255 0.48576 0.95510\n- 134 2.16653 4.84015 2.98018 2.44745 4.15810 3.22158 3.64108 3.58008 2.10197 3.16023 3.96570 2.81905 3.81892 2.78305 2.57426 2.51985 2.46295 3.23180 5.37558 4.04187 140 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06953 4.10784 2.98138 0.61958 0.77255 0.48576 0.95510\n- 135 2.12559 4.67675 3.00893 2.36960 3.94497 3.39697 3.35391 3.34765 2.49908 2.97872 3.81100 2.86976 3.81940 2.84721 2.94180 2.39828 2.42390 2.86961 5.24803 3.93617 141 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02585 4.06417 4.78651 0.61958 0.77255 0.53397 0.88256\n- 136 2.32565 4.87553 2.78781 2.31294 4.14827 3.21282 3.60096 3.58066 2.37944 3.15378 3.94868 2.80057 3.78886 2.59281 2.62740 2.41494 2.57878 2.99795 5.36761 4.01213 142 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02585 4.06417 4.78651 0.61958 0.77255 0.53397 0.88256\n- 137 2.48456 4.96433 2.69172 2.35550 4.27946 3.10920 3.59599 3.72371 2.11096 3.26391 4.04584 2.88729 3.79136 2.71851 2.28791 2.38797 2.71696 3.34545 5.44455 4.07885 143 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02585 4.06417 4.78651 0.61958 0.77255 0.53397 0.88256\n- 138 2.36483 4.78010 3.00626 2.36127 4.02245 3.42558 3.62143 3.43318 2.32093 2.84568 3.85549 2.96189 3.53427 2.61852 2.41504 2.51028 2.83011 2.82531 5.27987 3.95578 144 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15795 4.06417 2.04848 0.61958 0.77255 0.53397 0.88256\n- 139 2.11826 4.83462 2.86480 2.29281 4.11967 3.11956 3.60624 3.53559 2.26148 3.11924 3.93667 2.91027 3.79699 2.60015 2.56235 2.52828 2.85615 3.20135 5.33852 4.01022 145 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09711 3.93566 2.61710 0.61958 0.77255 0.65362 0.73430\n- 140 2.24123 4.34690 3.18977 2.69948 3.88608 2.84820 3.78857 3.26678 2.65486 2.93900 3.78511 3.08834 3.73229 3.00907 2.77377 2.08656 2.40760 2.69781 5.22758 3.96355 146 s - - -\n- 2.68606 4.42232 2.77518 2.73109 3.46361 2.40520 3.72502 3.29361 2.67748 2.69362 4.24697 2.90331 2.73738 3.18154 2.89808 2.37874 2.77527 2.98515 4.58484 3.61510\n- 0.39339 1.12320 * 0.62334 0.76819 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4gr11_IV-B_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf4gr11_IV-B_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,473 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf4gr11_IV-A_4\n-LENG 150\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 3\n-EFFN 0.618164\n-CKSUM 2584205938\n-GA 75 75;\n-STATS LOCAL MSV -9.9601 0.70945\n-STATS LOCAL VITERBI -10.8555 0.70945\n-STATS LOCAL FORWARD -4.3985 0.70945\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46315 4.13846 2.70547 2.62783 3.18449 3.03344 3.68206 2.76705 2.71913 2.40235 3.59644 3.09988 3.71329 3.15786 2.82657 2.72712 2.94688 2.64892 4.52944 3.58352\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20911 3.95660 1.77449 0.61958 0.77255 0.00000 *\n- 1 2.90126 4.46553 3.95319 3.54204 3.17364 3.76630 4.29830 2.34044 3.31417 1.78425 1.56362 3.83004 4.22844 3.70334 3.52969 3.23986 3.20586 2.33541 5.00101 3.75341 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 3.78191 4.50426 0.61958 0.77255 0.63350 0.75658\n- 2 2.27501 4.19274 3.13195 2.94616 3.98712 2.92449 4.05724 3.49866 3.01362 3.22697 4.16265 3.18386 3.65638 3.37075 3.30067 1.23648 2.74883 3.05382 5.36754 4.07077 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 3.78191 4.50426 0.61958 0.77255 0.63350 0.75658\n- 3 2.36874 4.21269 3.35208 3.10308 3.89302 3.05411 4.12673 3.00932 3.04421 2.87587 3.93456 3.32525 3.75171 3.44433 3.30566 2.56929 1.33557 2.71406 5.33905 4.11045 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 3.78191 4.50426 0.61958 0.77255 0.63350 0.75658\n- 4 2.81406 4.79192 2.84869 2.60501 3.94753 3.30888 3.76148 3.56700 2.43293 3.07815 4.11154 3.06280 3.86294 1.40481 2.71769 2.86705 3.11252 3.30326 5.23726 3.92578 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 3.78191 4.50426 0.61958 0.77255 0.40336 1.10283\n- 5 2.64843 4.32124 3.75924 3.27327 3.43474 3.57406 4.12776 2.49860 3.11787 2.18876 1.92687 3.57358 4.06354 3.47807 3.39143 2.93326 2.20567 2.36527 5.07932 3.86572 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 3.95660 4.67895 0.61958 0.77255 0.48576 0.95510\n- 6 3.17967 4.51655 4.71119 4.19376 3.23414 4.44377 4.82445 1.33275 4.02360 1.35585 3.07242 4.45275 4.69931 4.25809 4.19572 3.81762 3.42457 1.88526 5.25166 4.07401 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 3.95660 4.67895 0.61958 0.77255 0.48576 0.95510\n- 7 3.08113 5.22088 0.80452 2.39000 4.60946 3.27543 4.00686 4.21703 3.10716 3.81055 4.79088 2.95045 3.93'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 3.95660 4.67895 0.61958 0.77255 0.48576 0.95510\n- 143 3.08203 4.56936 4.06149 3.60307 2.44151 3.99194 3.74793 2.76025 3.40808 1.67846 3.45047 3.78549 4.35123 3.68813 3.61219 3.33671 3.32072 2.68847 4.11968 1.55137 145 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 3.95660 4.67895 0.61958 0.77255 0.48576 0.95510\n- 144 3.04979 5.01604 3.23133 2.83758 4.42170 3.52976 3.80726 3.85633 0.92880 3.40328 4.36060 3.25820 4.02450 2.99426 2.44970 3.08650 3.29701 3.55951 5.44211 4.26715 146 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 3.95660 4.67895 0.61958 0.77255 0.48576 0.95510\n- 145 2.75730 4.94179 2.49180 1.75426 4.45797 1.66501 3.82774 3.91252 2.72764 3.50883 4.37391 2.88470 3.83341 3.01834 3.17890 2.76350 3.08405 3.51893 5.66396 4.32715 147 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 3.95660 4.67895 0.61958 0.77255 0.48576 0.95510\n- 146 1.57124 4.17491 3.32023 3.10402 4.31050 1.51113 4.22591 3.66877 3.22431 3.40943 4.26450 3.27913 3.68713 3.50810 3.52958 2.41618 2.73183 3.14400 5.64808 4.44471 148 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 3.95660 4.67895 0.61958 0.77255 0.48576 0.95510\n- 147 3.04979 5.01604 3.23133 2.83758 4.42170 3.52976 3.80726 3.85633 0.92880 3.40328 4.36060 3.25820 4.02450 2.99426 2.44970 3.08650 3.29701 3.55951 5.44211 4.26715 149 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20911 3.95660 1.77449 0.61958 0.77255 0.48576 0.95510\n- 148 2.96061 4.40811 4.20131 3.81591 3.31595 3.96386 4.56260 1.19805 3.64201 1.92390 3.26880 4.07403 4.40626 4.00133 3.84909 3.45266 3.26250 1.85185 5.18599 3.91453 150 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 3.78191 4.50426 0.61958 0.77255 0.63350 0.75658\n- 149 2.87914 4.96418 2.45793 1.16196 4.29985 3.21897 3.80154 3.73579 2.67092 3.36889 4.34980 2.88960 3.82011 3.02099 3.06811 2.87267 3.18367 3.43012 5.48885 4.21418 151 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 3.78191 4.50426 0.61958 0.77255 0.63350 0.75658\n- 150 3.05587 4.54653 4.04246 3.68471 3.10571 3.86431 4.36892 2.30830 3.45322 0.99569 3.16207 3.96859 4.31718 3.84340 3.64300 3.42855 3.35536 2.32155 4.94934 3.65088 152 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 3.77079 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf5gr6_IV-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csf5gr6_IV-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,719 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csf5gr6_IV-A_1\n-LENG 232\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 7\n-EFFN 1.445801\n-CKSUM 2378463653\n-GA 36.3 36.1;\n-STATS LOCAL MSV -10.5395 0.70366\n-STATS LOCAL VITERBI -11.3467 0.70366\n-STATS LOCAL FORWARD -5.0446 0.70366\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41204 4.44795 3.10443 2.71335 3.37188 2.72759 3.66110 2.88239 2.73762 2.38968 3.62373 3.19768 3.14826 3.03925 2.80171 2.73900 2.82811 2.67077 4.48005 3.63532\n- 2.68627 4.42234 2.77529 2.73132 3.46363 2.40495 3.72504 3.29363 2.67750 2.69364 4.24541 2.90312 2.73749 3.18101 2.89810 2.37896 2.77529 2.98528 4.58486 3.61512\n- 0.68410 1.52290 1.28238 0.67538 0.71123 0.00000 *\n- 1 2.67034 4.78913 2.99924 2.51598 4.00298 3.44919 3.67781 3.42513 2.42341 3.02873 2.74935 2.37132 3.86868 2.11407 2.81769 2.71960 2.90762 3.12797 5.28721 3.96751 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02517 4.09062 4.81297 0.61958 0.77255 0.83866 0.56614\n- 2 2.68393 4.45049 3.43353 2.92172 2.38302 3.58380 2.35566 2.97754 2.85131 2.63396 3.57583 3.31398 3.99586 3.18539 3.19631 2.86368 2.26671 2.75480 4.67694 3.22150 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02517 4.09062 4.81297 0.61958 0.77255 0.83866 0.56614\n- 3 2.82045 4.23187 4.39442 3.81335 3.08382 3.97489 4.24744 2.05830 3.66486 1.61456 3.08237 3.98880 4.30128 3.85408 3.80482 3.28114 3.05130 1.81218 2.77745 3.55452 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02517 4.09062 4.81297 0.61958 0.77255 0.83866 0.56614\n- 4 2.49728 4.32894 3.45838 2.97650 3.72344 3.34778 3.95907 2.98536 2.90554 2.14112 3.67954 3.31699 3.88931 3.25108 3.24427 2.07527 1.93845 2.71656 5.16260 3.91513 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02517 4.09062 4.81297 0.61958 0.77255 0.83866 0.56614\n- 5 2.73508 4.80236 3.20279 2.63593 4.05479 3.52284 3.67985 3.42134 2.28642 3.02796 3.90254 3.10269 3.92040 2.05146 2.13051 2.79576 2.95985 2.39137 5.28752 4.01315 7 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02517 4.09062 4.81297 0.61958 0.77255 0.61510 0.77781\n- 6 2.76321 4.21413 4.26344 3.68566 2.47464 3.89105 4.21922 2.36126 3.56416 2.07579 2.21806 3.89216 4.24576 3.77361 3.73806 3.19154 2.33173 1.87391 4.84854 3.66322 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21788 4.94022 0.61958 0.77255 0.36125 1.19337\n- 7 2.26596 4.16068 4.18987 3.60547 2.55849 3.80041 4.11915 2.14723 3.48094 2.29333 2.11937 3.80090 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01827 4.40733 5.12968 0.61958 0.77255 0.48576 0.95510\n- 225 2.82756 4.84420 3.40750 2.82916 4.15244 2.63907 3.83711 3.53201 2.44500 3.14172 2.80499 3.27059 4.04269 3.01921 1.39584 2.91101 3.07195 3.24081 5.39587 4.13721 243 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01827 4.40733 5.12968 0.61958 0.77255 0.48576 0.95510\n- 226 1.40744 4.64473 3.32424 2.84358 4.33880 2.57007 3.99285 3.76084 2.80624 3.37867 4.19062 3.24717 3.91833 3.17232 2.42977 2.15181 2.93752 3.33808 5.60918 4.32099 244 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01827 4.40733 5.12968 0.61958 0.77255 0.48576 0.95510\n- 227 2.26515 4.73671 3.17764 2.63743 4.03303 3.49265 3.79003 3.41809 2.61749 3.06449 3.90054 3.12415 2.88046 2.05678 3.05454 2.73418 2.42955 2.52255 5.34330 4.03803 245 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01827 4.40733 5.12968 0.61958 0.77255 0.48576 0.95510\n- 228 2.05755 5.15091 2.44246 2.39884 4.49542 2.72864 3.70225 3.96349 2.47283 3.47628 4.24144 2.24974 3.88013 2.81718 2.43511 2.69795 2.96740 3.55183 5.63597 4.23873 246 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12440 4.40733 2.25583 0.61958 0.77255 0.48576 0.95510\n- 229 2.28508 5.16646 3.41528 2.78657 4.60044 3.68479 3.72974 3.96250 1.75559 3.45415 4.29368 3.22783 4.07082 2.86244 1.37250 3.00026 3.19386 3.62350 5.55517 4.33222 247 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02030 4.30323 5.02558 0.61958 0.77255 0.62911 0.76157\n- 230 2.75001 4.86037 3.19254 2.62080 4.02646 3.56356 3.70963 3.48969 1.86735 2.47417 3.93236 3.10992 3.94667 2.16805 2.76203 2.79977 2.97043 3.19407 5.29436 2.89388 248 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02030 4.30323 5.02558 0.61958 0.77255 0.62911 0.76157\n- 231 2.21685 4.80555 3.00737 1.75569 4.15959 3.42680 3.76994 3.53243 2.59207 3.17879 4.00444 3.04641 3.88582 2.93224 3.04630 2.23095 2.91976 2.59723 5.43651 4.10763 249 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13966 4.30323 2.14710 0.61958 0.77255 0.62911 0.76157\n- 232 1.69363 4.71152 2.95358 2.06143 4.18259 3.34072 3.82724 3.52508 2.66950 3.20210 4.04464 3.05605 3.86538 3.00699 3.10337 2.68523 2.24105 3.17844 5.47516 4.16013 250 a - - -\n- 2.68566 4.42231 2.77526 2.73129 3.46360 2.40519 3.72501 3.29360 2.67747 2.69361 4.24696 2.90353 2.73746 3.18153 2.89807 2.37867 2.77526 2.98525 4.58483 3.61509\n- 0.45577 1.00502 * 0.15538 1.93857 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,311 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_1\n-LENG 96\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 13\n-EFFN 2.650146\n-CKSUM 1326715253\n-GA 22 22;\n-STATS LOCAL MSV -9.5461 0.71834\n-STATS LOCAL VITERBI -10.3219 0.71834\n-STATS LOCAL FORWARD -3.3630 0.71834\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51000 4.78604 3.05164 2.53882 3.05738 3.25154 3.77814 2.90023 2.48485 2.35425 3.62907 3.05988 3.81913 2.97860 2.68071 2.80679 2.87165 2.75832 5.01762 3.20743\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.00000 *\n- 1 2.97126 4.39359 4.58899 4.00704 3.49888 4.12494 4.46670 2.26145 3.86490 1.17693 3.47385 3.10301 4.48505 4.07045 4.00575 3.42957 2.66032 1.79971 5.07637 3.89212 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 2 2.88135 5.15156 3.26499 2.74658 4.62140 3.63734 3.95077 4.06010 1.50038 3.60411 4.38988 3.24652 3.18349 3.07994 3.08048 2.35739 1.64604 3.65635 5.77721 4.43572 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 3 2.48910 5.08813 3.20965 2.72034 4.54833 3.59778 3.96197 3.99111 2.74844 3.55666 4.34423 2.54087 4.06790 2.61454 3.21322 1.91313 1.49750 3.59180 5.75515 4.40264 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 4 2.82690 4.90266 3.50643 3.16289 4.84807 3.53137 4.40000 4.30230 3.27021 3.90815 4.70306 1.84009 4.18463 3.58323 3.68812 1.49517 1.39966 3.77932 6.10197 4.80349 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 5 3.59704 5.78294 3.60182 3.16889 5.25563 4.08605 4.13719 4.66212 1.82234 4.05207 4.93296 3.60998 4.51898 0.72515 2.66648 3.55726 3.78078 4.31713 6.04858 4.85473 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 6 3.79185 5.04466 5.75568 5.16332 2.56725 5.11961 5.43202 1.69840 5.00662 0.82330 2.61754 5.28397 5.24821 4.93775 4.96301 4.48230 4.00338 2.25334 5.56698 4.56030 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 7 4.45854 6.03601 5.05744 4.47590 5.66698 4.62718 5.00314 5.37959 3.25180 4.71440 5.75553 4.73168 5.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 89 2.68835 4.73766 5.47512 4.94814 3.96657 4.91685 5.44376 1.62325 4.83385 1.63315 3.78332 5.05822 5.18897 5.02344 4.93834 4.29109 3.72846 0.96110 5.85352 4.67128 104 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 90 0.54803 4.61027 4.52512 4.23553 4.81204 2.55219 5.05813 4.04307 4.20233 3.89336 4.75880 4.10194 4.27902 4.42779 4.40311 2.95479 3.25420 2.53407 6.23083 5.08000 105 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 91 4.94775 5.84338 5.71099 5.68018 1.54475 5.37460 3.99515 4.48776 5.45662 3.60501 5.00356 4.90359 5.63027 5.08647 5.24055 4.79997 5.14177 4.45889 4.06601 0.45858 106 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 92 2.48746 4.75404 3.45637 2.89848 3.01685 3.73623 1.56279 3.30988 2.48989 2.58700 3.85001 3.36598 4.12390 3.19802 3.25547 2.57393 3.06906 3.05239 5.29015 4.00665 107 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 93 3.55503 5.69028 4.07843 3.28617 5.10850 4.17456 4.01979 4.50746 0.85962 3.89646 4.76068 3.66966 4.50386 3.14847 1.57561 3.53370 3.69294 4.18508 5.87462 2.94456 108 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 94 2.15581 4.33199 4.20587 3.62195 1.81065 3.91726 4.20826 2.46921 2.87860 2.22501 3.44418 3.86251 4.28765 3.74669 3.10221 3.19814 3.06248 2.58622 4.93121 2.56650 109 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 95 2.44169 4.28419 4.42449 3.83345 2.76332 3.95998 3.04040 2.38351 3.69220 1.71302 3.39934 3.98648 4.32733 3.88995 3.83022 2.72566 3.07219 2.53572 4.86652 2.02404 110 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83129 5.55363 0.61958 0.77255 0.48576 0.95510\n- 96 2.24441 5.31738 2.64138 2.52005 4.65588 1.99486 3.79798 4.13482 2.54339 3.62315 4.36905 2.69227 3.99742 2.55073 2.35980 2.40944 3.06803 3.70648 5.76233 4.35643 111 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00804 4.82741 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,446 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_11\n-LENG 141\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 3\n-EFFN 0.536133\n-CKSUM 1992710885\n-GA 200 200;\n-STATS LOCAL MSV -10.0071 0.71047\n-STATS LOCAL VITERBI -10.7975 0.71047\n-STATS LOCAL FORWARD -4.1715 0.71047\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38102 4.49675 2.93311 2.66940 3.21684 2.79943 3.95076 2.82856 2.69023 2.47101 3.71690 3.17148 3.68160 2.99388 2.69746 2.72783 2.97877 2.54818 4.32188 3.66408\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.00000 *\n- 1 2.98948 4.53410 4.07724 3.67253 3.21885 3.85345 4.40164 2.39703 3.43923 1.80949 1.32894 3.94685 4.31408 3.81933 3.64152 3.34137 3.29524 2.40620 5.06321 3.82735 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 2 2.66072 4.77168 2.92048 2.54451 4.25135 3.31385 3.69132 3.66583 1.63421 3.25559 4.11062 3.00048 3.82990 2.86089 2.60681 2.07118 2.95060 3.30588 5.41826 4.12871 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 3 2.62715 4.31676 3.63864 3.24107 1.73428 3.46950 3.83062 2.85937 3.19544 2.50670 3.56652 3.47830 4.00109 3.47398 3.46347 2.17945 2.95802 2.65929 4.46532 2.92682 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 4 2.54660 4.22535 3.84865 3.42294 3.66102 3.45616 4.30483 2.26504 3.31568 2.45040 3.56714 3.63950 4.04106 3.65597 3.58474 2.86322 2.11903 1.46553 5.29690 4.06894 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 5 2.78468 4.73214 3.09618 2.67880 3.20612 3.51745 3.62593 3.31597 2.50555 2.86266 3.83336 3.12455 3.94954 1.96126 2.83283 2.85636 3.02342 3.07757 4.70886 2.32141 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 6 2.86785 4.99824 3.13460 2.62090 4.32278 3.50798 3.60523 3.76385 2.02748 3.25584 4.13478 3.06795 3.92506 1.84846 1.82283 2.87881 3.07698 3.44857 5.36647 4.11717 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 7 1.73095 4.56578 2.93153 2.60652 4.04956 3.23289 3.79562 3.41293 2.56670 3.06747 3.97570 3.04035 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 134 2.98938 4.41723 4.39986 3.90594 3.31167 4.14020 4.62285 1.93643 3.74341 1.51303 3.19026 4.16761 4.50385 4.04196 3.96014 3.51804 3.26314 1.35144 5.22333 3.99766 134 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19977 3.89850 1.82755 0.61958 0.77255 0.48576 0.95510\n- 135 3.00484 4.51125 3.96420 3.60965 3.09258 3.80026 4.30866 2.29714 3.37848 1.06669 3.16989 3.89752 4.26364 3.78030 3.57468 3.36364 3.30789 2.29744 4.91578 3.60553 135 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03612 3.73485 4.45720 0.61958 0.77255 0.61809 0.77429\n- 136 2.84314 4.90970 2.44799 1.24035 4.24034 3.19160 3.77440 3.66680 2.63804 3.30923 4.29561 2.87202 3.79150 2.99711 3.02758 2.84387 3.14851 3.36734 5.43881 4.16762 136 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03612 3.73485 4.45720 0.61958 0.77255 0.41110 1.08743\n- 137 2.66192 4.67767 3.13166 2.71093 4.23353 2.17236 3.76739 3.68116 2.35203 3.26252 4.13062 3.12259 3.84634 2.95605 1.63523 2.74234 2.97421 3.31415 5.38244 4.15360 137 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 138 2.69698 4.47008 3.37611 3.27869 4.42097 0.69005 4.39758 4.02673 3.46353 3.67765 4.65344 3.54035 3.86205 3.78559 3.69691 2.86960 3.18023 3.55001 5.50946 4.52368 138 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 139 2.81467 5.21823 1.55221 2.17895 4.52749 3.24063 3.69066 4.00599 2.03915 3.54892 4.39400 2.74229 3.80583 2.85145 3.04823 2.75050 3.08765 3.61887 5.69920 4.28079 139 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 140 2.55239 1.98706 3.25363 2.16555 3.75578 3.32038 3.91652 2.97753 2.81498 2.79591 3.73917 3.24910 3.86722 3.20298 3.13972 2.73229 2.87907 2.71705 5.16080 3.91849 140 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89850 4.62085 0.61958 0.77255 0.48576 0.95510\n- 141 2.61050 4.64690 3.14988 2.68722 4.15261 3.30950 3.71846 3.59513 2.28711 3.18756 4.05238 3.09252 3.83219 2.90171 1.74213 2.04368 2.91776 3.23635 5.34540 4.07596 141 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 3.88861 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,452 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_12\n-LENG 143\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 5\n-EFFN 0.678711\n-CKSUM 3493430847\n-GA 32 32;\n-STATS LOCAL MSV -10.1366 0.71012\n-STATS LOCAL VITERBI -10.8563 0.71012\n-STATS LOCAL FORWARD -4.4117 0.71012\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41927 4.64701 2.82738 2.62180 3.31113 3.02778 3.92882 2.76314 2.70175 2.40031 3.76333 3.06068 3.72650 3.09884 2.70809 2.74342 2.97582 2.63504 4.94957 3.12165\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23901 3.99742 1.63873 0.61958 0.77255 0.00000 *\n- 1 2.57164 4.32890 3.45340 2.99330 3.43723 3.42824 3.93300 2.68677 2.86282 2.28003 2.17874 3.34801 2.80143 3.24691 3.16717 2.79251 2.87662 2.53362 5.00963 3.76096 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03406 3.79247 4.51482 0.61958 0.77255 0.51426 0.91115\n- 2 2.64332 4.41121 3.38293 2.84155 3.29103 3.56278 3.74465 2.84174 2.69076 2.42726 2.50382 3.25558 3.94555 2.53372 3.02082 2.82969 2.87430 2.65744 4.79926 2.82759 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03048 3.90177 4.62412 0.61958 0.77255 0.57595 0.82593\n- 3 2.34441 4.25271 3.28028 2.87722 3.88588 2.45528 3.94080 3.18692 2.87461 2.94044 3.82665 3.19374 2.31699 3.20434 3.22663 2.51545 2.73285 2.21502 5.27634 4.02793 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03048 3.90177 4.62412 0.61958 0.77255 0.57595 0.82593\n- 4 2.65793 4.68794 3.18996 2.71420 4.17847 3.34423 3.70943 3.62178 2.22909 3.20430 4.07715 3.11322 3.85714 2.89076 1.57342 2.24270 2.95563 3.27014 5.34552 4.08502 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03048 3.90177 4.62412 0.61958 0.77255 0.57595 0.82593\n- 5 2.32916 4.25005 3.23160 3.04851 4.10534 2.97938 4.15766 3.63181 3.12425 3.34970 4.27320 3.26875 3.72055 3.47124 3.40953 1.04774 2.81144 3.16051 5.47545 4.18896 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03048 3.90177 4.62412 0.61958 0.77255 0.57595 0.82593\n- 6 2.85062 4.62415 3.45332 2.96151 2.90777 3.62828 3.63153 3.18992 2.59063 2.76007 3.75950 3.32081 4.04257 3.12712 2.30412 2.97769 3.08831 2.97626 4.45558 1.70275 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03048 3.90177 4.62412 0.61958 0.77255 0.57595 0.82593\n- 7 3.29539 4.68849 4.27890 3.99880 0.96498 3.97863 3.88987 2.81529 3.90505 2.17851 3.54101 4.05208 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 136 2.63766 4.61900 3.14305 2.81278 4.28611 1.36889 3.93067 3.75996 2.62615 3.36471 4.23662 3.20206 3.86833 3.14545 2.19694 2.74260 3.00155 3.35891 5.48102 4.25725 143 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 137 3.06405 5.19633 2.54637 0.85999 4.55888 3.35770 3.95722 4.03779 2.85379 3.63549 4.60552 3.00982 3.96867 3.17123 3.27446 3.03465 3.36974 3.70931 5.70694 4.43101 144 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 138 3.06405 5.19633 2.54637 0.85999 4.55888 3.35770 3.95722 4.03779 2.85379 3.63549 4.60552 3.00982 3.96867 3.17123 3.27446 3.03465 3.36974 3.70931 5.70694 4.43101 145 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 139 3.06405 5.19633 2.54637 0.85999 4.55888 3.35770 3.95722 4.03779 2.85379 3.63549 4.60552 3.00982 3.96867 3.17123 3.27446 3.03465 3.36974 3.70931 5.70694 4.43101 146 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23270 3.99742 1.66473 0.61958 0.77255 0.48576 0.95510\n- 140 2.89216 4.98286 2.46240 1.13556 4.32039 3.22881 3.81174 3.75964 2.68316 3.38962 4.36894 2.89666 3.83049 3.03026 3.08276 2.88340 3.19652 3.45191 5.50612 4.23053 147 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03385 3.79857 4.52092 0.61958 0.77255 0.65683 0.73083\n- 141 2.89216 4.98286 2.46240 1.13556 4.32039 3.22881 3.81174 3.75964 2.68316 3.38962 4.36894 2.89666 3.83049 3.03026 3.08276 2.88340 3.19652 3.45191 5.50612 4.23053 148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03385 3.79857 4.52092 0.61958 0.77255 0.51719 0.90682\n- 142 3.33176 4.66378 4.42368 4.02674 1.61730 4.16040 3.52887 3.02854 3.84791 2.37934 3.62711 3.94607 4.49632 3.93796 3.94254 3.53723 3.56445 2.96564 1.70051 2.02618 149 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03048 3.90177 4.62412 0.61958 0.77255 0.43323 1.04528\n- 143 3.29748 4.72352 4.38965 4.03150 3.18699 4.13988 4.64812 2.39938 3.79800 0.73540 3.17348 4.29480 4.55468 4.13637 3.95306 3.72743 3.58656 2.46888 5.11014 3.86183 150 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01870 3.98846 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,383 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_13\n-LENG 120\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 4\n-EFFN 0.832031\n-CKSUM 763841026\n-GA 43 43;\n-STATS LOCAL MSV -9.4785 0.71353\n-STATS LOCAL VITERBI -10.5852 0.71353\n-STATS LOCAL FORWARD -4.3857 0.71353\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59201 4.30106 2.84156 2.60565 3.37331 2.99956 3.84177 2.82941 2.49435 2.40259 3.60810 2.94794 3.57629 3.08002 2.85165 2.72109 2.92829 2.69729 5.11387 3.27452\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16365 4.09388 2.00775 0.61958 0.77255 0.00000 *\n- 1 3.03853 4.57400 4.14280 3.74329 3.24752 3.89885 4.45844 2.43184 3.50648 1.82966 1.22149 4.00995 4.36039 3.88295 3.70154 3.39643 3.34578 2.44786 5.09958 3.86869 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02876 3.95899 4.68133 0.61958 0.77255 0.62011 0.77194\n- 2 2.76281 5.06920 1.85881 2.33511 4.39223 3.33149 3.67727 3.87410 2.42512 3.41305 4.24577 2.87003 3.83354 2.82903 1.91129 2.73832 3.02006 3.50152 5.54654 4.18581 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02876 3.95899 4.68133 0.61958 0.77255 0.62011 0.77194\n- 3 2.79887 4.98271 1.57390 2.36391 3.68285 3.35255 3.69531 3.64422 2.69084 3.22816 4.13791 2.89744 3.87567 2.95620 3.17107 2.79291 3.06544 3.33799 5.12547 2.56094 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02876 3.95899 4.68133 0.61958 0.77255 0.62011 0.77194\n- 4 2.80513 5.03626 2.66329 2.40507 4.39725 3.34637 3.69350 3.87077 1.92760 3.41939 4.27285 1.68672 3.86762 2.85712 2.69305 2.79458 3.07061 3.50725 5.53719 4.19892 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02876 3.95899 4.68133 0.61958 0.77255 0.62011 0.77194\n- 5 2.88762 5.02842 3.13290 2.63136 4.35285 3.52318 3.63083 3.80081 2.06193 3.29020 4.16791 3.08262 3.94446 1.67259 1.92019 2.89595 3.09913 3.48202 5.39816 4.14371 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02876 3.95899 4.68133 0.61958 0.77255 0.62011 0.77194\n- 6 2.60277 4.68365 2.92118 2.58148 4.22243 3.26596 3.76702 3.64737 1.99937 3.26157 4.11542 3.02660 3.82097 2.95062 2.79203 1.61236 2.92557 3.27197 5.44638 4.14779 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02876 3.95899 4.68133 0.61958 0.77255 0.62011 0.77194\n- 7 2.25443 4.22356 3.18065 2.97185 4.34529 1.73132 4.15541 3.81548 3.12977 3.48217 4.30900 3.20500 3.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 113 1.67709 4.22128 3.22686 2.94246 4.10641 2.99641 4.05839 3.40929 2.98663 3.15420 4.05722 3.20321 1.92341 3.32134 3.31201 2.45535 2.73564 2.99288 5.47030 4.23639 155 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 114 2.73717 4.49059 3.32751 2.96503 1.86360 3.52449 3.70261 3.01318 2.97487 2.64174 3.67728 2.26753 4.00697 3.28499 3.29885 2.89817 3.02477 2.80682 4.41818 2.84104 156 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 115 2.97468 5.05292 3.37384 2.74680 4.47304 3.59350 3.58086 3.83353 1.58037 3.30801 4.18848 3.14968 3.97793 2.72483 1.47594 2.98450 3.15369 3.52517 5.37434 4.19658 157 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 116 3.38701 4.70853 4.37555 4.00805 1.31646 4.19408 3.45169 3.09518 3.87119 2.46661 3.71243 3.91221 4.52012 3.92733 3.97053 3.55155 3.61562 3.01779 3.63165 1.44492 158 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 117 3.16222 4.62255 4.19966 3.83942 3.13791 3.99024 4.49317 2.34216 3.60711 0.86746 3.15867 4.11430 4.42443 3.97393 3.78220 3.56166 3.45614 2.38116 5.01961 3.74443 159 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 118 2.74837 5.00493 1.51173 2.23341 4.53575 2.05133 3.80428 4.04458 2.81146 3.61920 4.48087 2.77889 3.78057 2.99518 3.34373 2.72666 3.08723 3.61527 5.73971 4.35741 160 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 119 2.59314 0.92773 4.11376 3.85474 3.84451 3.21488 4.50042 2.98936 3.68168 2.90461 4.02605 3.84004 3.92234 4.02750 3.80498 2.86481 3.06041 2.73354 5.25943 4.13218 161 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03120 3.87878 4.60113 0.61958 0.77255 0.68505 0.70131\n- 120 2.66067 4.68737 2.83509 2.56455 3.84757 2.28242 1.90300 3.62000 2.59216 3.21092 4.09642 3.02395 3.82828 3.01176 2.94935 2.72744 2.97790 3.27129 5.19295 3.79838 162 h - - -\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40517 3.72499 3.29301 2.67714 2.69359 4.24694 2.90351 2.73744 3.18150 2.89805 2.37891 2.77524 2.98522 4.58481 3.61507\n- 0.19717 1.72064 * 0.66259 0.72467 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,443 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_14\n-LENG 140\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 5\n-EFFN 0.932617\n-CKSUM 1186248461\n-GA 47 47;\n-STATS LOCAL MSV -9.8646 0.71060\n-STATS LOCAL VITERBI -10.7201 0.71060\n-STATS LOCAL FORWARD -4.4996 0.71060\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63184 4.62047 2.84918 2.49151 3.18253 3.25559 3.85960 2.83572 2.34481 2.35268 3.70971 2.93789 3.69121 3.03399 2.90714 2.76527 3.04302 2.71607 5.08144 3.25440\n- 2.68642 4.42249 2.77544 2.73147 3.46378 2.40537 3.72518 3.29378 2.67765 2.69379 4.24545 2.90238 2.73726 3.18054 2.89737 2.37885 2.77544 2.98542 4.58501 3.61527\n- 0.45489 1.88145 1.54592 1.91934 0.15865 0.00000 *\n- 1 2.72924 4.56613 3.32449 2.83551 3.53645 3.56759 3.82329 2.89522 2.59481 2.37420 2.19672 3.26440 3.98419 2.24863 2.90244 2.88677 2.97514 2.76051 5.06193 3.78957 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02985 3.92245 4.64480 0.61958 0.77255 0.70751 0.67899\n- 2 2.62563 4.72603 2.91299 2.55121 4.22898 3.28782 3.72119 3.64864 1.82020 3.25014 4.10239 3.00504 3.82013 2.89632 2.69969 1.82222 2.93012 3.28163 5.42655 4.13045 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02985 3.92245 4.64480 0.61958 0.77255 0.70751 0.67899\n- 3 2.76482 4.76319 2.73599 2.62645 4.13453 3.21745 3.96130 3.85556 2.86911 3.49674 4.45162 1.07256 3.87171 3.23406 3.22554 2.83005 3.14828 3.47273 5.43470 4.07921 13 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02985 3.92245 4.64480 0.61958 0.77255 0.70751 0.67899\n- 4 2.55320 4.64572 2.64309 2.49263 4.35210 2.14489 3.88575 3.87767 2.79463 3.48821 4.33898 1.61797 3.76468 3.09629 3.21178 2.62015 2.94341 3.41799 5.61126 4.27539 14 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02985 3.92245 4.64480 0.61958 0.77255 0.70751 0.67899\n- 5 2.84057 5.27880 1.49835 2.15040 4.54675 3.22742 3.71156 4.07669 2.64018 3.59922 4.45381 2.72106 3.81192 2.16018 3.16283 2.76462 3.12100 3.68257 5.74920 4.29744 15 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02985 3.92245 4.64480 0.61958 0.77255 0.70751 0.67899\n- 6 2.79470 5.02535 2.70348 2.41110 4.38739 3.35514 3.66167 3.84783 1.76218 3.38881 4.23879 1.90887 3.85871 2.82006 2.61147 2.78457 3.05041 3.48780 5.50505 4.17928 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02985 3.92245 4.64480 0.61958 0.77255 0.70751 0.67899\n- 7 2.81052 5.05721 2.75707 1.63160 4.39135 3.39512 3.64136 3.81693 2.24299 3.34729 4.19842 2.92688 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 133 3.03599 4.51173 4.50645 4.18712 3.77211 4.00630 4.94616 2.08079 4.05967 2.41570 3.70277 4.32982 4.55775 4.40331 4.24412 3.53461 3.39478 0.73231 5.60095 4.34641 143 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 134 0.67503 4.35683 3.77114 3.58669 4.35503 3.17185 4.57210 3.52432 3.61088 3.39208 4.40034 3.65773 3.93848 3.92747 3.83513 2.70849 3.00582 3.12880 5.75322 4.58849 144 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 135 3.67689 5.05122 4.26439 4.05438 2.36238 4.16635 3.78714 3.65039 3.90470 3.02959 4.29737 4.08595 4.63733 4.14123 4.02704 3.78199 3.96701 3.53520 4.01401 0.60273 145 Y - - -\n- 2.68632 4.42239 2.77534 2.73138 3.46308 2.40527 3.72352 3.29368 2.67730 2.69369 4.24704 2.90329 2.73754 3.18119 2.89815 2.37901 2.77504 2.98533 4.58491 3.61453\n- 0.45489 1.50867 1.93600 1.21168 0.35339 0.48576 0.95510\n- 136 2.70460 4.30785 3.68381 2.54117 2.55906 3.72354 3.98372 1.86855 3.09606 2.22513 3.29784 3.52387 4.09623 3.39215 3.39947 3.00764 2.94110 2.30241 4.85756 3.58069 150 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02743 4.00554 4.72788 0.61958 0.77255 0.40085 1.10790\n- 137 2.41945 4.38834 3.28846 3.05311 4.38962 3.10007 4.22148 3.86052 3.15266 3.52508 4.37351 3.31626 1.31154 3.47706 3.48500 1.81542 2.88641 3.34108 5.71262 4.45569 151 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 138 3.17270 5.28118 3.59163 2.90415 4.76842 3.76418 3.68433 4.10707 1.04019 3.52366 4.39866 3.29434 4.12843 2.81692 1.75963 3.16123 3.33000 3.78696 5.53995 4.39051 152 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 4.15246 4.87481 0.61958 0.77255 0.48576 0.95510\n- 139 2.85795 5.31225 2.56894 1.53147 4.64374 3.39191 3.70411 4.10975 1.95367 3.59707 4.40035 2.33675 3.89058 2.83734 2.87417 2.79581 3.10146 3.70548 5.73000 4.33407 153 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25993 4.15246 1.54566 0.61958 0.77255 0.48576 0.95510\n- 140 1.67667 4.13943 3.34591 3.07797 4.20951 2.91792 4.16171 3.55821 3.13248 3.30771 4.16533 3.25067 3.66215 3.43777 3.44006 1.40052 2.68444 3.05899 5.57323 4.34281 154 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02019 3.91272 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,353 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_15\n-LENG 110\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 29\n-EFFN 2.375366\n-CKSUM 2379697775\n-GA 23 23;\n-STATS LOCAL MSV -9.6274 0.71534\n-STATS LOCAL VITERBI -10.5178 0.71534\n-STATS LOCAL FORWARD -3.3090 0.71534\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46340 4.70831 3.05155 2.54323 3.13460 3.29067 3.66247 2.82274 2.43490 2.40540 3.63108 3.05476 3.74609 2.99485 2.78503 2.73733 2.95070 2.74775 5.10209 3.21790\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.00000 *\n- 1 2.68525 5.27750 2.18486 2.26713 4.61325 3.55769 3.75091 4.09332 2.16943 3.57901 4.32154 2.41795 3.21167 2.85095 2.98433 2.32176 2.68501 2.88698 5.71593 4.30941 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 2 2.34516 4.57468 3.56020 2.58854 3.72268 2.90953 3.97983 2.39433 2.69610 2.37791 3.42283 3.42870 2.92565 3.27264 3.33921 2.74992 3.01628 2.61988 5.14702 2.84912 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 3 2.62552 5.28600 2.91271 1.63158 4.62736 3.14158 3.74507 4.11063 2.20867 3.36963 4.32799 2.65055 3.95080 2.71324 2.53155 2.51108 2.76172 3.67472 5.72046 4.31178 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 4 2.69734 5.25166 2.37312 2.24433 4.57866 3.56220 3.75290 3.43813 2.22539 2.45364 4.29747 2.12475 3.95685 2.63961 2.80679 2.75566 3.01645 3.63262 5.69470 4.29511 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 5 3.01023 4.38765 4.82328 4.22458 2.93707 4.18238 4.48101 2.33510 4.04684 1.10298 3.29490 4.28991 4.51581 4.17851 4.10025 3.49417 2.91800 2.29601 4.95264 2.26230 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 6 2.59092 3.89027 3.09377 3.35398 3.01035 3.38074 4.10837 2.31579 3.27991 2.57753 3.48579 3.18926 3.45244 3.54800 3.56091 2.95913 3.02004 1.51012 4.97506 3.76485 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 7 2.67016 5.29200 2.41540 1.96463 4.63603 2.98921 3.74307 4.12155 1.99088 3.59677 4.33316 2.75911 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 103 3.65178 4.86491 5.68144 5.17680 3.90525 5.18610 5.75972 1.76136 5.08549 1.44052 3.65948 5.33298 5.37509 5.22970 5.18579 4.59475 3.89862 0.85098 6.00871 4.87686 173 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 104 0.59229 4.90768 2.72091 3.20008 4.97657 2.91340 4.58154 4.41200 3.61010 4.06611 4.89180 3.56787 4.22408 3.81099 4.03834 2.99847 3.33738 3.86229 6.27354 4.98933 174 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 105 4.81274 5.74592 5.59821 5.53884 1.71397 5.27111 3.93266 4.36771 5.32244 3.50582 4.89390 4.81827 5.53452 4.99113 5.13368 4.69526 5.01219 4.33512 4.00752 0.43187 175 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 106 3.40315 5.57821 3.35716 2.64860 4.79267 3.93770 0.83916 4.36595 2.49658 3.83675 4.70904 3.45765 4.38661 3.21839 2.34797 3.38068 3.60714 4.03702 5.84136 4.54420 176 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 107 3.32509 5.55422 3.75354 3.05824 5.05469 3.98271 3.93832 4.40532 1.01695 3.81549 4.64786 3.48778 4.34242 3.05694 1.54943 2.81473 3.05923 4.04676 5.84610 4.65091 177 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 108 2.06320 4.34658 4.00501 3.42893 2.26999 3.25543 4.13124 2.66417 3.34421 2.54961 3.46108 3.72728 4.21905 3.60247 3.35431 2.77053 2.72377 2.60858 4.94860 2.06344 178 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 109 2.94190 4.82035 4.16847 3.10949 1.90955 4.18370 2.53592 3.33651 3.59589 2.95675 3.94396 3.92257 4.54870 3.83489 3.86552 3.46805 3.47990 3.14068 4.46962 1.16310 179 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01295 4.74917 5.47151 0.61958 0.77255 0.48576 0.95510\n- 110 2.56757 5.25980 3.02568 2.36569 4.58524 1.80281 3.28450 4.05476 2.14876 3.55860 4.31419 2.60349 3.97508 2.88343 3.01030 2.47924 2.77052 3.64166 5.71046 4.31372 180 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 4.74495 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,599 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_2\n-LENG 192\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 2\n-EFFN 0.394531\n-CKSUM 3300653535\n-GA 300 300;\n-STATS LOCAL MSV -10.5575 0.70586\n-STATS LOCAL VITERBI -11.3593 0.70586\n-STATS LOCAL FORWARD -4.6049 0.70586\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57664 4.42748 2.80874 2.62345 3.13740 2.87953 3.95045 2.77386 2.48377 2.46300 3.80040 2.82072 3.77067 3.09555 2.89827 2.69183 3.02181 2.75637 5.01543 3.28593\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 2 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.74304 4.31099 4.00832 3.67118 3.49189 3.63543 4.48797 2.06276 3.53756 2.19514 3.47211 3.87363 4.20220 3.90440 3.75760 3.13557 3.10768 1.13696 5.26148 3.98686 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 2.64876 4.41739 3.24740 3.07631 4.07449 3.10971 4.15889 3.60053 3.12685 3.23568 4.28361 3.39026 0.99745 3.51829 3.37996 2.81419 3.08434 3.25520 5.28189 4.19480 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 185 3.13146 4.65406 3.71740 3.43325 2.30367 3.73473 3.58651 3.15261 3.29315 2.62748 3.83698 3.62422 4.21158 3.61918 3.49304 3.27572 3.41836 3.01955 3.94353 1.11591 185 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 186 2.81942 4.79824 2.85295 2.60896 3.95500 3.31358 3.76565 3.57528 2.43623 3.08569 4.11844 3.06699 3.86747 1.38964 2.72100 2.87188 3.11766 3.31092 5.24313 3.93206 186 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 187 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 187 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 188 2.27811 4.19614 3.13798 2.95218 3.99460 2.92773 4.06323 3.50701 3.02019 3.23457 4.16932 3.18887 3.66017 3.37661 3.30725 1.22353 2.75243 3.06046 5.37431 4.07821 188 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 189 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 189 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 190 2.90401 5.01295 1.04487 2.29127 4.37980 3.15095 3.86380 3.94988 2.93321 3.57417 4.55270 2.84246 3.79820 3.10451 3.43620 2.87744 3.24166 3.59874 5.56440 4.26936 190 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 191 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 191 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 192 2.90401 5.01295 1.04487 2.29127 4.37980 3.15095 3.86380 3.94988 2.93321 3.57417 4.55270 2.84246 3.79820 3.10451 3.43620 2.87744 3.24166 3.59874 5.56440 4.26936 192 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,437 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-A_3\n-LENG 138\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 7\n-EFFN 2.074707\n-CKSUM 2397377732\n-GA 48 48;\n-STATS LOCAL MSV -9.9159 0.71082\n-STATS LOCAL VITERBI -10.6222 0.71082\n-STATS LOCAL FORWARD -4.1500 0.71082\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52725 4.79346 2.82480 2.44392 3.15686 3.20722 3.74402 2.84213 2.43576 2.49596 3.62962 2.97849 3.78424 3.05804 2.70599 2.75818 2.97819 2.78783 5.01000 3.37154\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23929 4.65084 1.59327 0.61958 0.77255 0.00000 *\n- 1 2.70558 4.53428 3.41206 2.86023 3.62068 3.62706 3.85417 3.06355 2.79450 2.74522 2.41086 3.30063 4.01566 2.41594 3.17011 2.26987 2.93904 2.82436 5.04720 2.43468 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01787 4.42942 5.15177 0.61958 0.77255 0.32272 1.28800\n- 2 2.82685 5.11115 3.12278 2.15004 4.39672 3.60408 3.79313 3.82127 1.70403 3.38214 2.19017 3.11427 4.00382 2.92561 2.93203 2.33810 3.05566 3.47065 5.58022 4.23827 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 3 2.29159 4.74137 3.31335 2.75291 3.93123 3.63723 2.79976 2.58339 2.12263 2.97736 3.83102 3.23749 2.62402 3.06613 3.14432 2.85741 2.98610 2.49352 5.28441 3.99797 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 4 2.97431 4.37339 4.65652 4.08361 3.50834 2.42352 4.54315 1.31489 3.94347 2.40076 2.47948 4.22847 4.51863 4.14633 4.07795 3.47760 3.21756 1.80790 5.12937 3.94493 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 5 2.86054 5.30473 1.76312 2.49323 4.68933 2.64225 3.83769 4.16846 2.62120 3.66789 4.43262 3.04046 3.99711 2.95476 2.21366 1.92997 3.11429 3.73806 5.81600 4.40751 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 6 2.76151 4.45569 3.68264 3.11120 3.58112 3.75006 4.00146 2.93902 2.25284 2.04919 2.72323 3.50349 4.12722 2.59305 3.37187 2.99969 2.99244 2.22711 5.03651 2.75391 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 7 2.74977 2.77557 2.32928 2.64023 4.15624 2.71699 3.82571 2.68660 2.64642 3.18512 4.00759 2.48471 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 131 3.06695 5.07902 3.33599 3.12432 4.12905 3.66006 0.82197 4.24294 3.11996 3.79786 4.70286 3.52875 4.28792 3.57292 3.43848 2.13442 3.44299 3.83374 5.55810 4.06115 156 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 132 3.69861 5.73771 4.31895 3.40793 5.36911 4.21493 3.97011 4.62225 0.86270 3.93955 4.83488 3.72310 4.53088 3.09504 1.28917 3.66697 3.79440 4.31537 5.87342 4.81492 157 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 133 3.05927 4.55487 4.31449 3.76377 1.19438 4.10839 4.25235 2.17526 2.46972 2.41231 3.51774 4.00362 4.46724 3.86090 3.74579 3.41498 3.29308 2.63475 4.86108 3.47100 158 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 134 3.07773 4.56368 4.30699 3.76798 2.15295 4.09444 2.61293 3.04387 3.66304 1.91848 3.68340 3.94853 4.45371 3.86442 3.86828 2.39091 3.30718 2.85537 4.45554 1.68502 159 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 135 2.24052 5.02555 3.14178 2.64651 4.53702 1.79397 3.88655 3.98821 2.65293 3.53662 4.31467 2.46367 3.98660 3.01645 2.38776 2.23164 3.04104 3.56649 5.71680 4.36083 160 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 136 2.83516 5.27392 2.92837 2.08301 4.62294 1.86923 3.80021 4.09319 2.15127 3.59826 4.36321 3.03517 2.85720 2.91481 3.04761 2.26345 3.07812 3.67729 5.75130 4.35237 161 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 137 2.86551 5.35989 2.29574 2.03939 4.69580 3.54636 3.79921 4.17780 2.56305 3.66210 4.42043 3.01624 3.98686 2.91009 1.90802 1.81507 3.10424 3.74938 5.79961 4.38564 162 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01429 4.65084 5.37319 0.61958 0.77255 0.48576 0.95510\n- 138 2.85601 5.31288 2.99694 1.68270 4.65835 3.57664 3.77594 4.12477 2.47282 3.60848 4.37035 3.05170 3.99101 2.35805 2.33438 1.84749 3.08635 3.70775 5.73914 4.35393 163 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00964 4.64619 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,476 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-D_10\n-LENG 151\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 3\n-EFFN 0.547852\n-CKSUM 1827100497\n-GA 200 200;\n-STATS LOCAL MSV -10.0031 0.70937\n-STATS LOCAL VITERBI -11.1601 0.70937\n-STATS LOCAL FORWARD -4.5497 0.70937\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49682 4.61336 2.82781 2.57929 3.53759 2.99641 3.62188 2.86375 2.58815 2.46842 3.74770 3.09962 3.58110 2.96744 2.70074 2.70796 2.92853 2.62563 4.09724 3.65676\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19748 3.90701 1.83820 0.61958 0.77255 0.00000 *\n- 1 2.87481 4.44603 3.91411 3.50216 3.16219 3.73819 4.26704 2.32556 3.27545 1.78056 1.64681 3.79407 4.20199 3.66830 3.49490 3.20863 3.17967 2.31564 4.98338 3.73121 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 2 2.86929 4.70802 3.34771 2.89249 4.03025 3.37537 3.74654 3.56712 2.20810 3.10677 4.11517 3.25961 3.88853 2.97751 1.19333 2.96241 3.14688 3.29781 5.16800 3.99003 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 3 2.86146 4.81021 3.02870 2.68065 4.16725 3.35949 3.70099 3.58963 1.22856 3.18537 4.15858 3.10901 3.87293 2.90343 2.42579 2.91473 3.12695 3.30627 5.27845 4.07445 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 4 3.10262 4.54409 4.06140 3.75598 1.24640 3.81380 3.83292 2.64698 3.66709 2.04940 3.39967 3.87786 4.27891 3.87190 3.81826 3.37646 3.40559 2.62731 4.12815 2.51457 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 5 2.35291 4.19591 3.32272 3.07477 3.86349 3.03779 4.10077 2.97555 3.01512 2.84318 3.90639 3.30150 3.73332 3.41780 3.27700 2.55330 1.40843 2.68441 5.31308 4.08160 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 6 2.85992 4.95396 1.11991 2.27338 4.31596 3.12046 3.83135 3.87678 2.89351 3.51052 4.49078 2.82105 3.76500 3.07410 3.38797 2.84051 3.19768 3.53142 5.50916 4.21641 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 7 2.62495 4.60908 2.65314 2.52823 3.95313 3.10380 3.83147 3.64058 2.72703 3.30380 4.26368 1.40600 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19748 3.90701 1.83820 0.61958 0.77255 0.48576 0.95510\n- 144 2.35291 4.19591 3.32272 3.07477 3.86349 3.03779 4.10077 2.97555 3.01512 2.84318 3.90639 3.30150 3.73332 3.41780 3.27700 2.55330 1.40843 2.68441 5.31308 4.08160 144 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 145 2.35291 4.19591 3.32272 3.07477 3.86349 3.03779 4.10077 2.97555 3.01512 2.84318 3.90639 3.30150 3.73332 3.41780 3.27700 2.55330 1.40843 2.68441 5.31308 4.08160 145 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.61781 0.77462\n- 146 2.78873 4.76113 2.82886 2.58711 3.91093 3.28632 3.74235 3.52690 2.41845 3.04156 4.07857 3.04358 3.84148 1.48040 2.70295 2.84450 3.08846 3.26627 5.20874 3.89537 146 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74527 4.46761 0.61958 0.77255 0.41125 1.08715\n- 147 3.04411 4.88122 3.53825 3.04187 4.24454 3.52575 3.84884 3.78847 2.25069 3.29811 4.29720 3.39907 4.02648 3.06729 0.92692 3.12650 3.30760 3.51088 5.31348 4.16420 147 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 148 2.98167 5.10026 2.50173 0.97727 4.45075 3.29610 3.88563 3.91149 2.77047 3.52297 4.49527 2.95207 3.90225 3.10043 3.18305 2.96044 3.28610 3.59169 5.61581 4.33783 148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 149 2.83526 4.36811 4.17322 3.83723 3.57515 3.75973 4.63293 2.04819 3.70554 2.25606 3.53488 4.02157 4.31818 4.06277 3.91475 3.26529 3.19588 0.98246 5.36548 4.09932 149 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 150 2.67865 4.74104 3.05028 2.61433 4.18526 3.36973 3.69836 3.49066 1.61967 3.14268 4.02636 3.05758 3.85977 2.87031 2.56920 2.74365 2.21075 3.17351 5.37337 4.10934 150 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 151 2.87134 5.00363 3.13717 2.62311 4.32926 3.51125 3.60797 3.77032 2.02994 3.26146 4.13983 3.07048 3.92811 1.82990 1.82679 2.88172 3.08030 3.45441 5.37117 4.12183 151 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02051 3.89720 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,566 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-D_4\n-LENG 181\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 4\n-EFFN 0.574219\n-CKSUM 3201308308\n-GA 200 200;\n-STATS LOCAL MSV -10.0428 0.70661\n-STATS LOCAL VITERBI -11.1420 0.70661\n-STATS LOCAL FORWARD -4.9174 0.70661\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60028 4.57486 2.81990 2.56945 3.38345 2.99846 3.82191 2.77243 2.54974 2.42506 3.57028 3.06431 3.32549 3.12306 2.83719 2.67175 2.98689 2.66789 4.55408 3.45504\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24590 2.90349 2.73742 3.18149 2.89803 2.37890 2.77499 2.98521 4.58480 3.61506\n- 0.14329 2.08811 4.64824 0.65604 0.73169 0.00000 *\n- 1 2.94152 4.42590 4.28309 3.76671 3.22907 4.02607 4.48351 2.13208 3.60058 1.75240 1.76173 4.03884 4.39848 3.88567 3.81838 3.38431 3.21298 1.79193 5.11840 3.94166 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 2 2.83516 5.19374 2.43596 1.51530 4.48040 3.30190 3.67578 3.94803 2.43916 3.47035 4.32777 2.79944 3.83789 2.19578 2.85507 2.78190 3.09144 3.58452 5.63236 4.24829 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 3 3.08835 4.50518 4.42055 3.90700 1.67395 4.16231 4.21264 2.35451 3.76970 1.64682 2.24379 4.10375 4.46259 3.93857 3.93160 3.50395 3.32674 2.40971 4.57619 3.13759 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 4 2.51993 4.61194 2.68232 2.50465 4.25532 3.11120 3.85740 3.79628 2.73925 3.42092 4.27264 1.60448 3.75873 3.06854 3.14274 2.09427 2.90650 3.35032 5.55252 4.18661 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 5 2.22988 4.86341 3.15373 2.59961 4.24358 3.46751 3.61664 3.61054 1.86754 3.17439 4.02278 3.05298 3.88368 2.76816 1.88581 2.78209 2.97281 3.28873 5.34636 4.09586 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 6 2.93335 5.46431 1.29931 1.74575 4.75101 3.19063 3.75431 4.26068 2.78580 3.78472 4.65462 2.66496 3.82122 2.92836 3.37870 2.81959 3.22742 3.84737 5.93828 4.44486 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 7 2.99825 5.12033 2.51021 0.95178 4.47324 3.30850 3.89983 3.93774 2.78707 3.54625 4.51783 2.96329 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03326 3.81586 4.53821 0.61958 0.77255 0.43029 1.05075\n- 174 2.59284 4.76914 2.57171 2.00319 4.31857 2.08379 3.76184 3.75748 2.64376 3.35658 4.19004 2.86705 3.76852 2.94087 3.09986 2.16420 2.92272 3.35436 5.56978 4.21701 195 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 175 2.86347 4.67027 3.20546 2.88378 2.73379 3.57396 3.61906 3.30154 2.86594 2.87905 3.88102 2.45173 4.04716 3.22782 3.18761 2.96261 3.13356 3.06666 4.32408 1.57456 196 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 176 2.66038 4.88779 2.69175 2.37538 4.30219 3.29157 3.66780 3.74577 2.07151 3.31052 4.13585 2.12854 3.80113 2.82465 2.79577 2.16891 2.93669 3.37076 5.48753 4.14550 197 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 177 2.66863 4.75370 2.82072 2.52851 4.15268 3.28811 3.76325 3.63373 2.50123 3.20772 4.10324 3.00088 1.90659 2.20506 2.85527 2.72284 2.97584 3.29246 5.40942 4.09683 198 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 178 2.83173 4.75849 3.35866 2.79768 3.48008 3.57646 3.63971 3.37544 2.26787 2.93581 3.88142 3.20593 3.97888 2.92136 1.59698 2.91298 3.05294 3.12792 4.88148 2.63429 199 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 179 2.73179 4.50206 3.41652 3.32264 4.46420 0.65123 4.43976 4.07671 3.51119 3.72417 4.70027 3.58077 3.89492 3.83110 3.74148 2.90522 3.21718 3.59471 5.54536 4.56787 200 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 180 3.06571 4.90129 3.56181 3.06164 4.26940 3.54358 3.86303 3.81473 2.25902 3.32095 4.31964 3.41735 4.04349 3.08062 0.89984 3.14725 3.32797 3.53635 5.33074 4.18506 201 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14329 3.92590 2.17353 0.61958 0.77255 0.48576 0.95510\n- 181 2.78431 4.59044 3.36884 2.86980 3.00071 3.56409 3.60968 3.15476 2.50012 2.73390 3.72053 3.24765 3.97918 3.04508 2.24052 2.90720 3.02136 2.93543 4.52532 1.97307 202 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02251 3.80511 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,470 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-D_5\n-LENG 149\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 27\n-EFFN 1.493042\n-CKSUM 1002425785\n-GA 47 47;\n-STATS LOCAL MSV -9.9949 0.70954\n-STATS LOCAL VITERBI -10.9054 0.70954\n-STATS LOCAL FORWARD -4.5883 0.70954\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51518 4.73758 2.93269 2.55872 3.49281 3.05454 3.79240 2.74582 2.53740 2.47130 3.76575 2.98810 3.84250 2.84972 2.75850 2.68048 2.90249 2.66278 4.49264 3.46385\n- 2.68619 4.42232 2.77527 2.73103 3.46361 2.40520 3.72502 3.29361 2.67748 2.69356 4.24442 2.90354 2.73747 3.18142 2.89808 2.37894 2.77519 2.98525 4.58484 3.61510\n- 0.78565 1.13305 1.50450 0.14128 2.02681 0.00000 *\n- 1 2.61745 4.91295 2.61089 2.25750 3.82970 3.41894 3.62426 3.61279 2.40421 3.18405 2.94829 2.65805 3.81527 2.54787 2.87907 2.31794 2.75308 3.26056 5.39656 4.03817 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02290 4.18407 4.90641 0.61958 0.77255 0.57553 0.82647\n- 2 2.55665 4.70370 3.13444 2.58674 3.92173 3.49936 3.72493 3.31587 2.46739 2.95821 2.67002 2.91839 3.89569 2.47634 2.98039 2.51884 2.16038 3.02682 5.24190 3.94198 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02055 4.29103 5.01338 0.61958 0.77255 0.63090 0.75952\n- 3 2.64349 5.01497 2.84728 2.16971 3.97938 3.43929 3.63379 3.59169 2.39380 3.19612 3.82422 2.61134 3.37326 2.30905 2.87532 2.48166 2.41510 3.37660 5.48120 4.10514 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02018 4.30898 5.03133 0.61958 0.77255 0.64984 0.73841\n- 4 2.66523 5.07308 2.36950 2.24228 4.37699 3.15685 3.64216 3.58811 2.40529 3.09924 4.12967 2.91610 3.66009 2.47893 2.89238 1.98038 2.89880 3.44233 5.53348 4.14587 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12547 4.30898 2.25889 0.61958 0.77255 0.64984 0.73841\n- 5 2.61331 4.75649 3.05061 2.31976 3.34839 3.45745 3.66459 3.21464 2.41176 3.00770 3.26049 2.89657 3.35864 2.55881 2.69041 2.36623 2.84452 2.97703 5.26980 3.94828 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02240 4.20591 4.92826 0.61958 0.77255 0.55801 0.84945\n- 6 2.57276 4.89086 2.81821 2.11011 4.14292 3.04446 3.66844 3.10996 2.45996 2.51012 3.96024 2.74790 3.66958 2.80987 2.92954 2.44548 2.74439 3.23078 5.38651 4.04043 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02018 4.30898 5.03133 0.61958 0.77255 0.64984 0.73841\n- 7 2.27603 5.09913 2.35700 1.90961 4.40796 3.42694 3.64698 3.53457 2.41326 3.39052 4.15637 2.90934 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04389 4.41440 3.47894 0.61958 0.77255 0.50678 0.92240\n- 142 2.69900 5.19121 2.61564 2.07146 4.52374 2.75056 3.65521 4.00475 2.13436 3.49152 4.23878 2.73436 3.13541 2.69065 2.90463 2.24314 2.77112 3.57582 5.63049 4.22020 148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07596 4.38912 2.80127 0.61958 0.77255 0.54443 0.86790\n- 143 2.64438 4.58703 3.24022 2.59316 2.86358 3.36484 3.76967 3.14696 2.66236 2.51981 3.67880 2.60863 3.59242 2.81043 3.08291 2.25962 2.87656 2.56668 5.13735 3.85903 149 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15182 4.33286 2.05785 0.61958 0.77255 0.62044 0.77156\n- 144 2.56657 5.02211 2.39739 2.16024 4.31769 3.40788 3.61649 3.22217 2.16614 3.30578 4.07920 2.89652 3.81161 2.63871 2.86246 2.53950 2.41180 3.38596 5.48535 4.10434 150 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04288 4.20349 3.61084 0.61958 0.77255 0.76322 0.62766\n- 145 2.64950 4.89889 3.01943 2.45398 4.14583 3.45647 3.03554 3.58649 2.18628 3.16044 3.96524 2.36543 3.84397 2.77040 2.34414 2.58370 2.87603 3.24779 3.96253 3.62507 151 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11596 4.18352 2.36187 0.61958 0.77255 0.78209 0.61147\n- 146 2.62633 4.75700 2.94020 2.35722 3.99971 2.95494 3.66942 3.40517 2.37313 2.33468 3.85921 2.64351 3.83829 2.84026 2.91814 2.30104 2.86561 3.09720 5.28722 3.96874 152 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02511 4.09267 4.81502 0.61958 0.77255 0.85949 0.55057\n- 147 2.67804 5.10410 2.41279 2.29371 4.42558 2.89207 3.62554 3.89038 2.00879 3.40563 4.18251 2.84255 3.80524 2.46066 2.88298 2.18872 2.91960 3.48875 5.56847 4.17149 153 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07770 4.09267 2.84624 0.61958 0.77255 0.85949 0.55057\n- 148 2.36180 4.60793 3.10477 2.15431 3.82036 3.45094 3.67741 2.79443 2.50931 2.84781 3.70388 3.04379 3.84526 2.87182 2.63808 2.67801 2.68245 2.65882 5.15821 3.86535 154 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02645 4.04143 4.76377 0.61958 0.77255 0.89787 0.52330\n- 149 2.38175 4.25975 3.51387 2.98869 3.53544 2.88486 3.91139 2.76222 2.93287 2.29083 3.49157 3.34125 3.11212 3.24384 3.26779 2.74819 2.80587 1.90477 4.99472 3.76505 155 v - - -\n- 2.68589 4.42247 2.77522 2.73138 3.46375 2.40521 3.72435 3.29312 2.67756 2.69358 4.24711 2.90352 2.73747 3.18109 2.89806 2.37892 2.77541 2.98482 4.58498 3.61525\n- 0.54102 0.87264 * 1.14273 0.38411 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,458 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-D_6\n-LENG 145\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 7\n-EFFN 0.857910\n-CKSUM 1844183553\n-GA 200 200;\n-STATS LOCAL MSV -10.0376 0.70998\n-STATS LOCAL VITERBI -10.8200 0.70998\n-STATS LOCAL FORWARD -4.2604 0.70998\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70266 4.64081 2.80454 2.56699 3.13498 2.98940 3.82650 2.78888 2.42740 2.42282 3.69816 2.89832 3.78425 3.03697 2.88900 2.68243 3.03997 2.71636 4.53687 3.41996\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20444 4.10929 1.78097 0.61958 0.77255 0.00000 *\n- 1 3.01823 4.55736 4.11592 3.71416 3.23540 3.88026 4.43499 2.41720 3.47882 1.82089 1.26426 3.98398 4.34132 3.85670 3.67686 3.37374 3.32481 2.43046 5.08440 3.85155 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.51991 0.90282\n- 2 2.70932 4.30642 3.78489 3.22304 2.66833 3.73648 3.99681 2.54105 3.14001 1.90417 2.68520 3.56745 2.43609 3.41635 3.42992 3.01168 2.94561 2.43546 4.81871 3.56751 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02696 4.02273 4.74507 0.61958 0.77255 0.43246 1.04672\n- 3 2.82335 4.87161 3.33774 2.71303 4.13396 3.59864 3.67257 3.49356 1.54749 3.06755 2.56020 3.15985 3.97177 2.83679 2.22022 2.87956 3.02768 3.21687 5.30520 4.06362 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 4 2.74125 5.11582 1.63537 2.28015 4.52717 3.29169 3.74229 3.99754 2.62911 3.53827 4.34280 2.47624 3.83498 2.88962 3.14974 2.37549 2.44888 3.58223 5.72044 4.30356 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 5 3.20507 5.16337 3.39582 2.98122 4.60455 3.66119 3.91393 4.05058 0.75412 3.56711 4.52208 3.39276 4.14997 3.09648 2.50711 3.23527 3.44376 3.74732 5.56629 4.41648 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 6 2.92195 5.24357 2.92838 2.22618 4.62802 3.52376 3.65139 4.03393 1.36709 3.49578 4.32001 3.00659 3.95153 2.30442 2.44234 2.88323 3.12835 3.66704 5.58639 4.29993 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.10929 4.83163 0.61958 0.77255 0.48576 0.95510\n- 7 2.64896 4.92222 2.92324 1.91489 4.19521 3.42407 3.62222 3.02235 2.14439 3.18638 3.99106 2.93391 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.65612 0.73160\n- 138 2.70650 4.82404 2.75334 2.49819 4.27562 2.60011 3.77030 3.77614 2.49612 3.34580 4.21964 2.97983 3.84015 1.53010 2.84913 2.74385 3.01733 3.40537 5.48228 4.16867 174 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.65612 0.73160\n- 139 2.33798 4.43676 3.37446 2.88073 3.59634 3.52645 3.84410 2.77425 2.34790 1.79494 3.53024 3.28361 3.96120 3.11717 2.94914 2.84710 2.91101 2.58002 5.06367 3.81920 175 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.65612 0.73160\n- 140 3.01451 5.11450 3.42033 2.76893 4.55499 3.63077 3.59173 3.90726 1.41676 3.36186 4.23630 3.17138 4.00515 2.72993 1.55563 3.01510 3.18548 3.59297 5.41296 4.24173 176 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.65612 0.73160\n- 141 2.67367 4.87511 2.75224 2.41049 4.27232 3.32172 3.66667 3.68223 2.06128 3.26777 4.10195 1.97628 3.81747 2.82483 2.74600 2.69134 2.53856 3.32545 5.45799 4.13128 177 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.65612 0.73160\n- 142 2.86507 4.28849 4.29495 3.73552 2.36656 3.95855 4.00223 2.45702 3.59809 1.63358 2.56999 3.89919 4.27518 3.76534 3.74787 3.26114 3.09083 2.42222 2.62389 2.99878 178 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.65612 0.73160\n- 143 2.79529 5.18833 2.43160 1.98350 4.48906 3.29335 3.65662 3.95906 2.44123 3.47998 4.30686 1.93298 3.81868 2.27516 2.88249 2.74102 3.04929 3.57808 5.63696 4.24045 179 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93434 4.65668 0.61958 0.77255 0.65612 0.73160\n- 144 2.80773 5.24093 1.97670 1.79965 4.58188 2.01266 3.71555 4.06410 2.67219 3.59975 4.43386 2.71303 3.80036 2.87819 3.22206 2.73879 3.09317 3.65892 5.77965 4.33305 180 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10989 3.93434 2.47087 0.61958 0.77255 0.65612 0.73160\n- 145 2.57411 4.64426 2.87906 2.54580 4.16108 3.23402 3.72650 3.58064 1.97693 3.20278 4.06338 2.99047 3.78745 2.91386 2.74127 1.78427 2.89418 3.21508 5.39172 4.09449 181 s - - -\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69337 4.24693 2.90349 2.73742 3.18110 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.28765 1.38640 * 0.25781 1.48167 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,413 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-D_7\n-LENG 130\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:51 2020\n-NSEQ 9\n-EFFN 1.006348\n-CKSUM 1575955160\n-GA 31 31;\n-STATS LOCAL MSV -9.9627 0.71191\n-STATS LOCAL VITERBI -10.7127 0.71191\n-STATS LOCAL FORWARD -4.5552 0.71191\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65866 4.49583 2.86393 2.49816 3.33735 2.85292 3.85318 2.81904 2.43390 2.48585 3.67651 2.84794 3.80722 3.05357 2.97363 2.70226 2.94392 2.82856 4.14384 3.32350\n- 2.68624 4.42255 2.77522 2.73103 3.46384 2.40543 3.72525 3.29301 2.67678 2.69359 4.24390 2.90353 2.73770 3.18177 2.89769 2.37903 2.77550 2.98514 4.58507 3.61533\n- 0.53212 1.30173 1.96198 1.67011 0.20853 0.00000 *\n- 1 2.73206 4.78057 2.94663 1.63010 3.92415 3.47082 3.77011 3.20736 2.56884 2.83515 2.61364 3.06291 3.92118 2.96174 2.96723 2.80182 2.98096 2.98132 5.31283 4.00131 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02622 4.05032 4.77267 0.61958 0.77255 0.39975 1.11014\n- 2 2.62947 4.56342 2.80473 2.20138 3.72776 3.52564 3.75603 2.62458 2.64634 2.47262 2.63106 3.14155 3.91256 2.98004 3.06519 2.75420 2.86154 2.79998 5.12061 3.84354 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02268 4.19333 4.91567 0.61958 0.77255 0.48576 0.95510\n- 3 2.68987 4.63371 3.28689 2.74141 3.88342 3.54027 3.79429 2.58683 1.93269 2.86685 3.76948 3.19548 3.95537 3.00232 2.89565 2.81046 1.95791 2.85006 5.23292 3.96563 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02268 4.19333 4.91567 0.61958 0.77255 0.48576 0.95510\n- 4 2.80685 5.27542 2.47052 2.03924 4.61095 3.41483 3.67507 4.07770 1.53224 3.55656 4.33983 2.88132 3.87781 2.44207 2.82723 2.75226 3.04234 3.66548 5.68512 4.29271 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02268 4.19333 4.91567 0.61958 0.77255 0.48576 0.95510\n- 5 2.62811 4.68266 3.12249 2.56422 3.88970 3.48537 3.69204 3.28078 2.29216 2.56356 3.04930 2.61865 3.87375 2.65473 2.92526 2.70557 2.31870 2.99548 5.20739 3.90968 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02268 4.19333 4.91567 0.61958 0.77255 0.48576 0.95510\n- 6 3.43852 4.72971 5.08409 4.55311 3.22457 4.73919 5.08743 1.61929 4.38253 0.87985 3.02231 4.79411 4.91654 4.50960 4.48829 4.12356 3.66991 2.16330 5.34273 4.24539 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02268 4.19333 4.91567 0.61958 0.77255 0.48576 0.95510\n- 7 3.31226 4.59553 5.07068 4.52595 3.34826 4.67288 5.08443 1.56340 4.40382 1.10759 3.13144 4.74056 4.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09321 4.81555 0.61958 0.77255 0.59901 0.79708\n- 123 2.83719 5.25732 2.58336 1.96529 4.58939 3.38223 3.68128 4.04587 1.91283 3.54177 4.35087 1.87959 3.87535 2.81674 2.81085 2.78230 3.07861 3.65243 5.67796 4.29713 144 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09321 4.81555 0.61958 0.77255 0.59901 0.79708\n- 124 2.85987 5.23982 2.70650 2.03405 4.59430 3.43064 3.66666 4.03156 1.48820 3.51686 4.33074 2.46620 3.89944 2.79910 2.65185 2.81266 3.08926 3.64778 5.63484 4.29118 145 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09321 4.81555 0.61958 0.77255 0.59901 0.79708\n- 125 2.74524 5.05127 2.86838 2.42902 4.40024 3.43022 3.64395 3.83177 2.04870 3.35558 4.16182 1.83588 3.25721 2.77643 2.45644 2.73321 2.97860 3.46221 5.50867 4.17652 146 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09321 4.81555 0.61958 0.77255 0.59901 0.79708\n- 126 2.59976 4.75873 2.96914 2.18767 4.04758 2.88711 3.66502 3.45639 2.46184 3.06937 3.89160 2.97441 3.82261 2.82578 2.66983 2.15988 2.84773 2.61754 5.31725 3.99329 147 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09321 4.81555 0.61958 0.77255 0.59901 0.79708\n- 127 2.74328 5.14420 2.69495 2.03740 4.47695 3.38431 3.64404 3.92989 1.80139 3.43850 4.23037 2.48313 3.84115 2.77112 2.79376 2.28246 2.98150 3.53732 5.58931 4.21349 148 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14030 4.09321 2.16969 0.61958 0.77255 0.59901 0.79708\n- 128 2.70188 4.98958 2.85045 2.13667 4.32064 3.40110 3.60666 3.74190 2.25354 3.27997 4.08984 2.51471 3.83004 2.74156 2.01528 2.69533 2.64534 3.38307 5.44682 4.11851 149 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98103 4.70338 0.61958 0.77255 0.70146 0.68490\n- 129 2.71782 5.11059 2.65227 2.14358 4.42891 2.77498 3.61008 3.87819 2.07571 3.39106 4.18737 2.56582 3.81040 2.19715 2.75704 2.68168 2.95366 3.49315 5.54692 4.17432 150 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08378 3.98103 2.78540 0.61958 0.77255 0.70146 0.68490\n- 130 2.48879 4.60898 2.75767 2.48116 4.25593 3.14432 3.79207 3.71584 2.64844 3.32069 4.14490 2.01725 2.63625 2.97522 3.07696 2.14984 2.84462 3.28669 5.51942 4.18537 151 n - - -\n- 2.68651 4.42258 2.77552 2.73136 3.46387 2.40516 3.72527 3.29387 2.67696 2.69388 4.24723 2.90271 2.73747 3.18060 2.89785 2.37870 2.77552 2.98551 4.58510 3.61389\n- 0.39764 1.11446 * 1.81557 0.17763 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,413 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-D_8\n-LENG 130\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 9\n-EFFN 0.892090\n-CKSUM 2240735933\n-GA 47 47;\n-STATS LOCAL MSV -9.7432 0.71196\n-STATS LOCAL VITERBI -10.6075 0.71196\n-STATS LOCAL FORWARD -4.4794 0.71196\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59442 4.60304 2.87742 2.67169 3.43063 3.05647 3.93321 2.68418 2.61463 2.25341 3.61982 2.96995 3.66746 3.05302 2.95626 2.66656 2.86037 2.57349 4.57851 3.56774\n- 2.68632 4.42239 2.77534 2.73137 3.46368 2.40507 3.72463 3.29344 2.67755 2.69353 4.24453 2.90332 2.73729 3.18161 2.89795 2.37884 2.77534 2.98533 4.58491 3.61517\n- 0.62534 1.49417 1.42509 1.21042 0.35392 0.00000 *\n- 1 2.82966 4.34287 4.02613 3.47993 2.85226 3.83834 3.97315 2.50292 3.26180 1.89989 1.87544 3.73463 4.19490 3.57279 3.47314 3.16296 3.06855 2.45936 3.15444 3.14128 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03166 3.86443 4.58678 0.61958 0.77255 0.72845 0.65905\n- 2 2.54109 4.29844 3.38407 2.83506 2.89118 3.47887 3.76030 2.53583 2.74592 2.48996 3.41763 3.23576 3.88696 3.08831 2.80298 2.25425 2.78917 2.55799 4.84522 3.55823 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03166 3.86443 4.58678 0.61958 0.77255 0.72845 0.65905\n- 3 2.31727 4.17355 3.44983 3.07977 3.80040 3.09990 4.06278 2.94695 3.03100 2.84169 3.80701 3.30821 3.76259 3.37257 3.33387 1.63904 2.73766 2.03766 5.27061 4.00129 7 s - - -\n- 2.68635 4.42242 2.77536 2.73140 3.46370 2.40529 3.72442 3.29266 2.67704 2.69339 4.24706 2.90363 2.73756 3.18144 2.89783 2.37894 2.77536 2.98535 4.58493 3.61457\n- 0.27609 1.46503 4.58678 1.50814 0.25016 0.55942 0.84756\n- 4 2.56248 4.61726 2.77617 2.35951 3.83740 3.41170 3.65341 3.21049 2.50032 2.87311 3.28461 2.99780 3.81425 2.84138 2.94109 2.47447 2.36236 2.64151 5.16688 3.86386 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02809 3.98228 4.70463 0.61958 0.77255 0.54222 0.87098\n- 5 2.59546 4.24611 3.65620 3.10135 2.98767 3.58921 3.93485 2.59123 3.03236 2.35696 2.95043 3.44747 4.00033 3.32338 3.34384 1.99969 2.85142 2.09002 4.87163 3.62799 15 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03954 4.76189 0.61958 0.77255 0.58226 0.81788\n- 6 2.62503 4.78663 2.88904 2.45762 4.08898 3.36812 3.67695 3.52727 2.45447 2.81232 3.96008 2.47026 3.82528 2.52529 2.87480 1.93464 2.88391 3.19314 5.35081 4.01708 16 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03954 4.76189 0.61958 0.77255 0.42983 1.05160\n- 7 2.58513 4.29405 3.48239 2.91310 3.42823 3.56788 3.82071 2.78637 2.85056 2.30916 2.73969 3.31247 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02420 4.12927 4.85162 0.61958 0.77255 0.48576 0.95510\n- 123 3.40855 4.74154 4.90475 4.38992 3.15102 4.62435 4.94887 1.96361 4.18566 0.78014 2.97980 4.65198 4.83444 4.36725 4.31645 4.01524 3.64576 2.25656 5.25173 4.11416 141 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02420 4.12927 4.85162 0.61958 0.77255 0.48576 0.95510\n- 124 3.01629 4.49668 4.47523 4.15375 3.75207 3.98325 4.91576 2.07466 4.02579 2.39890 3.68501 4.30048 4.53493 4.37046 4.21262 3.50892 3.37499 0.75280 5.57746 4.32202 142 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02420 4.12927 4.85162 0.61958 0.77255 0.48576 0.95510\n- 125 2.69571 5.10617 2.48741 2.30977 4.43572 3.36421 3.64923 3.89776 2.02136 3.41909 4.20081 2.05070 3.82122 2.77434 2.91193 2.45559 2.67566 3.49850 5.58611 4.19119 143 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02420 4.12927 4.85162 0.61958 0.77255 0.48576 0.95510\n- 126 2.58914 4.32066 3.44588 2.61126 2.90464 3.56212 3.05695 2.36317 2.61651 2.37410 3.42011 3.28947 3.94147 3.13599 3.17789 2.80677 2.82052 2.43058 4.89490 3.65456 144 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02420 4.12927 4.85162 0.61958 0.77255 0.48576 0.95510\n- 127 3.21140 4.53525 4.89288 4.32363 2.48352 4.47319 4.76749 1.97282 4.19969 1.08717 2.97644 4.51967 4.69293 4.29202 4.29731 3.81043 3.43587 1.85757 5.10467 3.97057 145 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02420 4.12927 4.85162 0.61958 0.77255 0.48576 0.95510\n- 128 1.87193 4.48708 3.24973 2.73960 3.86032 3.37928 3.82142 3.18773 2.32473 2.90204 3.76634 3.16609 3.86501 3.04646 3.07149 2.28172 2.83680 2.35325 5.22112 3.95321 146 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02420 4.12927 4.85162 0.61958 0.77255 0.48576 0.95510\n- 129 2.70739 5.03082 2.76897 2.21901 4.39165 2.49588 3.67328 3.83322 1.86903 3.37250 4.17171 2.91143 3.84510 2.80833 2.84421 2.18466 2.95808 3.45153 5.54854 4.18777 147 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12770 4.12927 2.26541 0.61958 0.77255 0.48576 0.95510\n- 130 2.58234 4.75071 2.52416 2.44167 4.05614 3.36345 3.65828 3.46085 2.46473 3.08061 3.90369 2.94970 3.80300 2.81848 2.60571 2.07828 2.83725 2.61498 5.32637 3.99509 148 s - - -\n- 2.68655 4.42283 2.77578 2.73136 3.46412 2.40450 3.72553 3.29389 2.67743 2.69413 4.24670 2.90405 2.73628 3.18128 2.89664 2.37895 2.77552 2.98547 4.58535 3.61392\n- 0.42417 1.06221 * 2.22614 0.11423 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm2gr11_III-D_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,386 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm2gr11_III-D_9\n-LENG 121\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 4\n-EFFN 0.636719\n-CKSUM 2112367024\n-GA 50 50;\n-STATS LOCAL MSV -9.9057 0.71336\n-STATS LOCAL VITERBI -10.4346 0.71336\n-STATS LOCAL FORWARD -4.3305 0.71336\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58946 4.26364 2.93417 2.68413 2.96062 3.01227 3.91761 2.81143 2.46968 2.34690 3.49840 2.88879 3.71063 3.26330 3.00557 2.69924 2.99539 2.65590 4.75476 3.38381\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.00000 *\n- 1 3.04714 4.58111 4.15411 3.75559 3.25276 3.90665 4.46836 2.43814 3.51814 1.83355 1.20401 4.02092 4.36844 3.89405 3.71195 3.40602 3.35469 2.45531 5.10607 3.87598 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 2 3.06195 5.02811 3.24429 2.84852 4.43667 3.54025 3.81518 3.87217 0.91318 3.41649 4.37340 3.26848 4.03431 3.00166 2.45332 3.09798 3.30836 3.57473 5.45208 4.27906 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 3 3.09543 5.23628 0.78855 2.39923 4.62673 3.28565 4.01899 4.23732 3.12184 3.82871 4.80957 2.96020 3.94536 3.25876 3.65070 3.04733 3.43630 3.86643 5.77637 4.48449 3 d - - -\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40517 3.72499 3.29358 2.67682 2.69359 4.24694 2.90351 2.73744 3.18150 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.19286 1.79439 4.69163 0.66313 0.72409 0.48576 0.95510\n- 4 2.76491 4.95149 2.49561 1.75146 4.46938 1.64237 3.83470 3.92512 2.73567 3.52014 4.38486 2.89002 3.83994 3.02504 3.18800 2.77034 3.09190 3.53031 5.67421 4.33669 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 5 3.26480 4.69874 4.34466 3.98561 3.17438 4.10458 4.61100 2.38444 3.75239 0.76462 3.16829 4.25166 4.52372 4.09754 3.91236 3.68769 3.55489 2.44678 5.08813 3.83358 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 6 3.10479 4.58801 4.07575 3.62264 2.41866 4.00592 3.73597 2.79079 3.42587 1.72285 3.48054 3.79536 4.36596 3.70297 3.62707 3.35305 3.34375 2.71666 4.09555 1.48053 8 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 7 2.95344 5.51263 1.34318 1.62449 4.79752 3.20986 3.76792 4.31414 2.79805 3.82443 4.68778 2.67720 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 114 3.11648 4.94767 3.61719 3.10888 4.32685 3.58513 3.89732 3.87576 2.28049 3.37413 4.37232 3.46095 4.08348 3.11331 0.84023 3.19630 3.37615 3.59566 5.37095 4.23374 116 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 115 2.86422 4.41436 3.92006 3.45186 2.71892 3.80827 3.85530 2.59949 3.30946 2.32869 3.45961 3.68458 4.22047 3.60322 3.54528 3.15049 3.12801 1.89681 4.36572 1.68715 117 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 116 3.03901 4.39456 4.65362 4.16538 3.54080 4.31662 4.90495 1.53690 4.04303 2.06914 3.36640 4.39508 4.66671 4.32908 4.25717 3.70551 3.31487 1.06927 5.47898 4.25899 118 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 117 3.06195 5.02811 3.24429 2.84852 4.43667 3.54025 3.81518 3.87217 0.91318 3.41649 4.37340 3.26848 4.03431 3.00166 2.45332 3.09798 3.30836 3.57473 5.45208 4.27906 119 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 118 2.20135 2.60998 3.76741 3.39112 3.99591 2.96664 4.25321 3.33206 3.30025 3.11978 4.00408 3.42569 3.70645 3.60031 3.55114 1.25864 2.68215 2.90051 5.41801 4.20270 120 s - - -\n- 2.68626 4.42233 2.77527 2.73106 3.46310 2.40521 3.72435 3.29362 2.67725 2.69363 4.24698 2.90355 2.73747 3.18154 2.89809 2.37877 2.77527 2.98526 4.58485 3.61511\n- 0.33549 2.05182 1.85461 1.24129 0.34110 0.48576 0.95510\n- 119 2.69883 4.81823 2.86070 2.49663 4.16243 3.32379 3.63856 3.66529 2.23245 3.23009 4.09518 2.02665 3.82225 2.81455 2.04646 2.73104 2.96790 3.32059 5.33849 4.02733 126 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03346 3.80989 4.53224 0.61958 0.77255 0.40812 1.09331\n- 120 2.48028 4.35067 3.35880 2.97476 3.70070 3.25459 3.97648 3.07058 2.89522 2.25263 3.80226 3.29189 3.85748 3.28063 3.21207 1.49321 2.85547 2.79568 5.17907 3.84908 127 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 121 2.55761 4.60935 3.15938 2.65710 4.12464 3.31136 3.73107 3.51266 2.38433 3.13097 3.97435 3.08060 3.81844 2.90824 1.90546 2.19901 2.37923 3.15746 5.35112 4.08167 128 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 3.96007 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,668 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_3\n-LENG 215\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 11\n-EFFN 1.071533\n-CKSUM 2355557965\n-GA 46 46;\n-STATS LOCAL MSV -10.9080 0.70449\n-STATS LOCAL VITERBI -11.4423 0.70449\n-STATS LOCAL FORWARD -4.8024 0.70449\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63731 4.55715 2.93275 2.53803 3.49880 2.57411 3.82173 2.75212 2.57123 2.48168 3.73956 3.10974 3.39537 3.11896 2.77957 2.67736 2.84326 2.70623 5.15073 3.65879\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.00000 *\n- 1 2.38049 4.75070 3.05608 2.52881 4.02908 2.33008 3.70490 3.43702 2.17353 3.05759 3.88347 3.02991 3.85984 2.87186 2.95393 2.49320 2.62775 3.11954 5.31511 3.30424 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 2 2.70196 4.92144 3.08719 2.51539 4.19753 3.49885 3.65788 3.14447 1.71451 3.18075 3.99546 2.47252 3.88582 2.79865 2.47774 2.72349 2.92520 2.91175 5.38827 4.07150 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 3 2.71382 4.21620 4.01958 3.45385 3.07946 3.78251 3.29038 1.58737 3.31943 2.31877 3.29770 3.69549 4.14936 3.57782 3.53318 3.07030 2.94656 2.21472 4.63874 2.63316 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 4 2.64981 4.51295 3.33046 2.48872 3.68201 3.56473 3.77912 2.13419 2.29862 2.54290 3.60544 3.21176 3.94562 3.02770 2.73222 2.80152 2.87826 2.52197 5.07099 3.81434 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 5 3.05259 4.42860 4.61464 4.05793 3.14567 4.24263 4.46844 1.25705 3.89697 1.63112 3.18788 4.24034 4.54142 4.09460 4.03956 3.56655 3.28493 2.15276 4.92855 2.90811 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 6 2.68695 5.02330 2.94269 2.26850 4.33029 3.44901 3.64091 3.76777 2.22423 3.30608 4.09369 2.64867 3.85270 2.76487 2.34454 2.49439 2.06941 3.39726 5.48290 4.12866 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 7 2.16221 4.37182 3.45988 3.01631 4.02711 1.49033 4.06401 3.39024 3.00242 3.09412 3.00800 3.3263'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 208 2.41996 4.91396 3.00889 2.28985 4.18194 3.45606 3.64018 3.60608 1.95799 3.17981 3.98004 2.96959 3.84553 2.77523 2.39556 2.66338 2.65184 2.97360 5.39121 3.52711 253 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 209 2.62903 4.89815 2.48645 2.42807 4.19949 2.98546 3.66287 3.63100 2.45098 3.20841 4.00568 2.95299 2.64186 2.80002 2.64688 2.48790 2.87245 2.65551 5.42467 4.07085 254 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 210 2.47150 4.54409 3.24349 2.68020 3.71981 2.68634 3.74784 2.77176 2.45568 2.36618 3.63656 3.14994 3.90935 2.71797 2.80989 2.75037 2.85334 2.60100 5.09535 3.82347 255 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 211 2.42902 5.09828 2.31191 1.58464 4.39359 3.40045 3.67744 3.83164 2.48138 3.38410 3.43120 2.89060 3.84874 2.80585 2.97588 2.68796 2.95430 3.45299 5.57640 4.18396 256 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 212 2.64454 4.65606 3.12901 2.41427 3.84241 3.08220 3.72253 3.24206 2.35419 2.59526 3.74619 3.08882 3.89608 2.92491 2.98096 2.49923 2.87647 2.96575 5.18345 2.33718 257 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 213 2.66138 4.70433 2.53765 2.58082 3.71876 3.03908 3.70366 3.30323 2.58649 2.93889 3.79226 3.07590 3.90110 2.67099 3.02339 2.73713 2.89434 3.02096 3.80780 2.23675 258 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 214 2.62652 4.92005 2.96617 2.08001 3.54821 3.00235 3.63251 3.62190 2.28834 3.19208 3.98451 2.94290 3.32654 2.76358 2.44498 2.47765 2.85789 3.00659 5.40293 4.04695 259 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22811 4.95046 0.61958 0.77255 0.48576 0.95510\n- 215 2.62734 4.76200 3.04459 2.31596 3.98387 2.54885 3.23301 3.39327 2.49663 2.75280 3.84280 3.01401 3.85803 2.84613 2.94811 2.31609 2.65839 3.08747 5.27795 3.34173 260 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01479 4.22101 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,707 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_11\n-LENG 228\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:54 2020\n-NSEQ 6\n-EFFN 0.741211\n-CKSUM 2699998597\n-GA 80 80;\n-STATS LOCAL MSV -10.7518 0.70385\n-STATS LOCAL VITERBI -11.7030 0.70385\n-STATS LOCAL FORWARD -5.1522 0.70385\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65915 3.71310 3.11918 2.69668 3.18324 2.92012 3.91387 2.60835 2.60128 2.41964 3.60471 3.13365 3.48353 3.24304 2.83587 2.64823 2.91349 2.53259 5.09883 3.44030\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.00000 *\n- 1 3.10656 4.63084 4.23065 3.83951 3.29039 3.95940 4.53647 2.48296 3.59765 1.86269 1.09313 4.09569 4.42346 3.97012 3.78296 3.47158 3.41646 2.50766 5.15156 3.92650 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 2 2.31755 4.35487 4.26051 3.82425 3.58419 3.92381 4.61542 1.17480 3.70615 2.23187 3.45586 4.04743 4.39936 4.02416 3.93702 3.32496 3.17026 1.84852 5.37288 4.15325 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 3 3.09328 5.20291 3.51924 2.83432 4.67215 3.69958 3.62764 4.01334 1.27917 3.44332 4.31587 3.22930 4.06355 2.76116 1.55242 3.08563 3.25400 3.69507 5.47340 4.31583 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 4 3.23846 4.56038 4.85913 4.30035 2.39202 4.48671 4.70929 1.71046 4.17319 1.11778 2.92416 4.50632 4.69118 4.26190 4.27623 3.82813 3.46094 2.20537 5.01119 3.80972 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 5 2.67546 4.84067 2.85780 1.94435 4.02540 3.41112 2.47412 3.48034 2.44077 3.09421 3.94107 2.95484 3.84795 2.83423 2.85886 2.70616 2.91491 2.65241 5.30947 3.95877 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 6 3.02641 4.37470 4.67869 4.12809 2.13127 4.27215 4.58477 1.63248 4.00837 1.83288 3.12626 4.30890 4.56028 4.17278 4.14702 3.60850 3.26537 1.59291 5.02166 3.77669 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 7 2.82172 4.88960 3.31567 2.68924 4.17437 3.58141 3.64363 2.77197 1.52250 3.09950 3.97361 3.1351'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 221 1.48830 4.23054 3.89852 3.49557 3.80247 3.36583 4.37634 2.47115 3.42306 2.63737 3.71585 3.65316 4.00715 3.73103 3.68856 2.78865 2.90664 1.62108 5.40062 4.18251 228 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 222 2.89951 5.25949 2.52854 1.32972 4.59107 3.36998 3.71504 4.02664 2.03973 3.54979 4.39727 2.86678 3.89545 2.86652 2.81310 2.84452 3.14901 3.65694 5.68867 4.32630 229 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 223 2.93482 4.38487 4.20628 3.70247 2.89421 4.00043 4.09478 1.43419 3.53852 2.10825 3.30128 3.91422 4.35537 3.80529 3.73423 3.33334 3.17794 2.22213 4.58518 2.26332 230 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 224 2.70984 4.92739 2.80086 1.66771 4.20725 3.40457 3.66881 3.54900 2.18259 3.18691 4.03293 2.93507 3.85398 2.82250 2.81260 2.72304 2.95048 2.66230 5.43112 4.09549 231 e - - -\n- 2.68676 4.42283 2.77484 2.73025 3.46412 2.40539 3.72493 3.29334 2.67651 2.69240 4.24748 2.90352 2.73797 3.18168 2.89805 2.37945 2.77554 2.98520 4.58396 3.61561\n- 0.23582 1.60191 4.76022 2.61567 0.07593 0.48576 0.95510\n- 225 2.38288 2.06683 3.99894 3.52592 3.60805 3.26711 4.22876 2.68675 3.40862 2.63884 3.59035 3.60411 3.89878 3.67408 3.62711 2.18243 2.77815 1.87636 5.12004 3.91859 252 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03787 4.76022 0.61958 0.77255 0.48576 0.95510\n- 226 3.26517 4.58682 4.87153 4.30424 3.12387 4.54055 4.85654 1.67769 4.16771 1.10031 2.33188 4.55628 4.72883 4.28372 4.29020 3.88406 3.48744 2.15383 5.18658 4.12043 253 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10149 4.03787 2.53992 0.61958 0.77255 0.48576 0.95510\n- 227 2.56531 4.69519 2.75847 2.08971 4.19653 3.23634 3.75340 3.59127 2.59086 3.22518 4.06247 2.93974 3.78549 2.93174 3.02120 1.78454 2.47715 3.22090 5.46557 4.13789 254 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10845 3.96497 2.47919 0.61958 0.77255 0.55878 0.84841\n- 228 2.55881 4.48648 3.07712 2.27196 3.80224 3.37320 3.78177 2.92741 2.63811 2.77934 3.70224 3.09924 3.85069 3.00540 3.02514 2.69480 2.19762 2.27708 5.19839 3.92066 255 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02092 3.87743 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_III-D_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_III-D_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,791 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_10\n-LENG 256\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:54 2020\n-NSEQ 18\n-EFFN 4.047363\n-CKSUM 953537402\n-GA 47.6 46.5;\n-STATS LOCAL MSV -10.7528 0.70268\n-STATS LOCAL VITERBI -11.7247 0.70268\n-STATS LOCAL FORWARD -5.1984 0.70268\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66943 4.39798 2.94402 2.52453 3.41625 2.68949 3.82384 2.75969 2.57345 2.53892 3.81239 3.04361 3.32718 3.18796 2.78403 2.59654 2.84245 2.72667 4.85194 3.51438\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06896 5.11807 2.80266 0.61958 0.77255 0.00000 *\n- 1 2.95795 4.95456 2.28701 2.68955 4.15235 3.80859 4.06401 3.52312 2.94713 3.19652 1.55968 3.40851 4.21634 3.27291 3.38235 2.21315 3.19563 2.35856 5.50913 4.21702 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00949 5.05860 5.78094 0.61958 0.77255 0.65400 0.73388\n- 2 2.90104 5.37621 2.81667 2.46466 3.44493 2.59493 2.71151 4.18236 2.23563 2.63481 4.42077 2.40687 4.07344 2.97020 2.82856 2.36130 2.71122 3.75895 5.81776 4.41582 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00949 5.05860 5.78094 0.61958 0.77255 0.65400 0.73388\n- 3 2.90354 5.26700 2.84437 2.37342 3.70045 3.70195 3.89591 2.68425 2.15195 2.91906 4.32298 3.19568 4.09386 3.01437 2.19481 1.96676 2.70876 3.62700 5.73486 4.36090 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00949 5.05860 5.78094 0.61958 0.77255 0.65400 0.73388\n- 4 2.90446 5.20893 3.24608 2.26580 4.47802 2.59405 3.91153 3.14054 2.31354 2.67257 4.27052 3.22024 3.57441 2.22100 3.16109 2.55560 2.54353 2.60173 5.69001 4.33033 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17062 5.05860 1.89375 0.61958 0.77255 0.65400 0.73388\n- 5 2.99417 4.37750 4.79750 4.21037 1.52794 4.13285 4.31362 2.02442 4.01903 2.03482 3.47436 4.22347 4.49069 4.15505 2.64516 3.44210 3.22514 2.62746 3.39016 2.71977 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07610 4.89911 2.72074 0.61958 0.77255 0.70998 0.67660\n- 6 2.86008 4.38701 4.15693 3.57635 3.49643 3.93334 4.22339 2.60250 2.04409 1.99370 2.76587 3.84737 4.30516 3.72660 3.71294 2.68852 2.69561 2.05762 4.99324 2.71665 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01103 4.90873 5.63107 0.61958 0.77255 0.27520 1.42470\n- 7 2.57984 5.31444 3.23550 2.67972 4.61081 1.67743 3.91994 4.06264 2.49152 3.59850 4.36929 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00882 5.13124 5.85358 0.61958 0.77255 0.60061 0.79513\n- 249 2.37961 4.46875 4.34502 3.29942 3.57514 2.62689 4.35181 2.30982 3.25648 1.89186 3.58259 4.00236 4.42606 3.88820 3.86279 2.73284 2.34387 2.03569 3.42483 3.88150 409 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00882 5.13124 5.85358 0.61958 0.77255 0.60061 0.79513\n- 250 2.58581 5.42541 2.90351 2.06892 4.76299 2.76047 3.89701 4.24367 2.14796 2.68660 4.46807 2.75314 4.10248 2.99581 2.29976 2.70397 2.90938 3.81203 5.86256 2.82322 410 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00882 5.13124 5.85358 0.61958 0.77255 0.60061 0.79513\n- 251 1.99939 4.54128 4.13494 3.17137 3.65772 4.01476 4.29524 2.72925 3.48131 1.66289 3.02079 2.46837 4.38889 3.74595 3.75415 3.28152 2.20105 2.44989 5.14333 3.93510 411 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05986 5.13124 2.95287 0.61958 0.77255 0.60061 0.79513\n- 252 2.09964 5.24060 3.24373 2.38810 2.82941 3.71910 3.91538 3.48909 2.10406 3.16948 4.30024 2.63105 2.91423 3.04025 3.16221 2.06408 3.14515 3.59382 5.71691 4.35183 412 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06165 5.08066 2.92667 0.61958 0.77255 0.73284 0.65497\n- 253 2.88826 5.37597 2.24950 2.20180 4.71144 3.13194 3.85359 4.19071 2.43413 2.75906 2.84495 2.69871 2.88127 2.95309 2.62413 2.51703 2.84069 3.76145 5.81441 4.40928 413 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05381 5.02878 3.08263 0.61958 0.77255 0.84680 0.55999\n- 254 2.84780 5.23689 2.38842 2.06099 3.41565 3.22456 3.83426 3.98827 2.35651 2.49621 4.29044 2.68539 4.03345 2.94864 3.07468 2.83501 2.31673 3.60173 5.69905 3.18148 414 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01085 4.92443 5.64678 0.61958 0.77255 0.92956 0.50208\n- 255 2.59866 2.80433 4.46846 2.49264 2.40679 3.37179 4.30465 1.92902 3.73237 2.16437 2.84036 4.02621 4.35994 3.92950 3.86721 2.71711 3.10062 2.56084 4.92615 3.73972 415 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01085 4.92443 5.64678 0.61958 0.77255 0.92956 0.50208\n- 256 2.20100 5.26109 3.13957 2.12518 4.56827 3.63868 3.82907 4.02720 1.97928 3.54957 4.31249 3.12318 4.03103 2.93965 2.44099 2.44068 2.22614 3.25456 4.11276 4.33182 416 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00732 4.92090 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_III-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-A_III-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,671 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_2\n-LENG 216\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 5\n-EFFN 1.030273\n-CKSUM 4064182045\n-GA 49 49;\n-STATS LOCAL MSV -10.6026 0.70443\n-STATS LOCAL VITERBI -11.2565 0.70443\n-STATS LOCAL FORWARD -5.0324 0.70443\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58463 4.24541 3.01266 2.68220 3.27164 2.68176 3.90919 2.68269 2.64899 2.43229 3.70936 3.11250 3.36875 3.15878 2.86574 2.64355 2.84338 2.62548 4.63519 3.68839\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.00000 *\n- 1 2.28141 5.10732 3.29062 2.68746 4.52175 3.60815 3.68126 3.89586 1.39596 3.39668 4.22804 3.14519 3.99914 2.81266 1.96497 2.90967 3.11236 3.55099 5.51017 4.26519 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 2 2.68500 4.89696 2.97622 2.53977 4.36156 3.39407 3.74846 3.80872 2.44422 3.36595 4.17523 2.32619 3.88007 2.89545 2.25641 1.69155 2.96480 3.41955 5.53576 4.20695 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 3 2.79523 4.86492 3.26387 2.68085 4.09016 3.58561 3.71091 2.60841 2.29972 3.05004 3.93549 3.14818 3.97023 1.80919 2.13297 2.85234 3.01132 3.18573 5.32069 4.04815 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 4 2.87791 4.37948 4.18121 3.63463 3.43422 3.98095 4.37714 1.84661 3.51365 1.77549 3.32894 3.92556 4.35604 3.80021 3.76293 3.29689 1.77160 2.09682 5.13923 3.94439 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 5 2.75382 5.03823 3.07081 2.10033 4.35502 3.51121 3.64262 3.76423 1.79529 3.29987 4.10473 3.01360 3.89896 2.77003 2.19498 2.75202 2.97057 2.64510 5.46324 4.14850 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 6 3.30153 4.64495 4.78579 4.42489 3.62292 4.40970 5.10391 0.73916 4.26032 2.15390 3.52005 4.62600 4.82079 4.58227 4.42085 3.94921 3.59949 1.91462 5.57372 4.33287 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 7 2.66091 4.83833 2.96293 2.12773 4.08413 3.45011 3.68383 2.68627 2.47457 3.10095 3.92716 2.99135'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 209 3.31477 5.26099 3.51101 3.08627 4.72562 3.75179 3.99448 4.18014 0.65675 3.67818 4.63417 3.49083 4.23880 3.17596 2.55863 3.34235 3.54907 3.87375 5.65120 4.51943 235 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 210 3.51914 4.82303 5.02347 4.52143 2.10418 4.67803 4.66570 2.40873 4.37088 0.78724 2.99678 4.67617 4.86592 4.41318 4.43920 4.05843 3.74130 2.58201 4.85155 3.46650 236 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 211 2.66586 4.35867 3.58801 3.03193 3.51621 3.65081 3.94713 2.18357 2.95142 2.49744 3.45877 3.42391 4.04277 2.57869 3.28789 2.91686 2.15801 2.07551 5.00517 3.77506 237 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 212 2.66073 4.83445 2.91993 2.11317 4.09419 3.43245 3.70162 2.66643 2.51813 3.11846 3.94499 2.44262 3.86308 2.86388 2.97242 2.07928 2.90461 3.17635 5.36966 4.03601 238 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 213 2.64801 4.51666 3.25916 2.27079 3.68844 2.45211 3.80732 2.44129 2.71723 2.27740 3.61575 3.20237 3.94622 3.05781 3.11062 2.80012 2.88661 2.73482 5.10017 3.83408 239 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 214 2.74098 5.22678 2.23160 1.83628 4.56242 3.40525 3.64712 4.03726 2.03355 3.51696 4.28273 2.87193 3.84697 2.76017 2.33360 2.69240 2.97599 3.61496 5.64821 4.24574 240 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 215 3.18863 4.51527 4.91511 4.34345 2.31047 4.43779 4.72563 1.36628 4.20367 1.66243 2.21579 4.50452 4.67665 4.29768 4.28394 3.77368 3.41440 2.21662 5.07097 3.91250 241 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 216 2.74094 5.07162 2.94604 1.92033 4.37864 3.47411 3.64571 3.80777 1.96075 2.61202 4.13330 2.96661 3.87951 2.30293 2.69684 2.72802 2.96419 3.44360 5.50071 4.16021 242 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01512 4.19897 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,836 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_1\n-LENG 271\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 4\n-EFFN 0.582031\n-CKSUM 2723070557\n-GA 90 65.6;\n-STATS LOCAL MSV -10.7236 0.70211\n-STATS LOCAL VITERBI -11.7754 0.70211\n-STATS LOCAL FORWARD -4.8587 0.70211\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61097 4.59300 2.90987 2.61531 3.26155 2.80637 3.92268 2.75726 2.71173 2.41038 3.67328 3.12382 3.44718 3.22619 2.85828 2.66365 2.89740 2.45905 4.37773 3.52831\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.00000 *\n- 1 3.01586 4.55543 4.11276 3.71075 3.23401 3.87808 4.43225 2.41551 3.47558 1.81991 1.26940 3.98094 4.33909 3.85363 3.67396 3.37109 3.32237 2.42844 5.08264 3.84955 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 2 2.63723 4.66042 3.10127 2.58338 3.88134 3.43773 3.66220 2.67975 2.36657 2.91806 3.79288 2.29037 3.85665 2.85488 2.28412 2.71885 2.87737 2.97732 5.18273 3.88685 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 3 2.85459 4.38087 4.20681 3.87176 3.59328 3.78476 4.66332 2.04795 3.74043 2.27008 3.54948 4.05212 4.34198 4.09598 3.94725 3.29199 3.21470 0.95377 5.38768 4.12295 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 4 3.14522 4.66305 3.90063 3.50692 1.29505 3.93790 2.47459 3.15979 3.38573 2.60776 3.75348 3.66876 4.32590 3.62952 3.60533 3.29762 3.38975 3.02021 3.86257 2.17715 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 5 3.05312 5.19026 0.83707 2.37237 4.57523 3.25550 3.98330 4.17686 3.07862 3.77470 4.75409 2.93171 3.91246 3.22255 3.60285 3.00884 3.39295 3.80977 5.73237 4.43840 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 6 3.22144 4.66622 4.28409 3.92420 3.15837 4.05694 4.56143 2.36564 3.69137 0.80591 3.16290 4.19396 4.48216 4.04560 3.85780 3.63466 3.51300 2.41828 5.05906 3.79599 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 7 3.02286 4.38059 4.62316 4.13110 3.51237 4.29808 4.87179 1.48832 4.00983 2.03890 3.33773 4.366'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 264 2.71601 4.91333 2.93718 2.48178 4.28246 2.68843 3.62178 3.70562 2.20748 3.24741 4.07889 2.96916 3.84657 2.03781 2.16254 2.73054 2.95570 3.35747 5.40454 4.10942 279 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 265 2.79200 5.28993 1.99084 1.69361 4.58992 3.25816 3.65332 4.07127 2.06660 3.57314 4.38316 2.72202 3.79609 2.79558 3.01638 2.71505 3.04965 3.66185 5.72899 4.28953 280 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 266 3.36954 4.69100 4.46419 4.07430 1.60256 4.19229 3.53809 3.05957 3.89343 2.40478 3.65618 3.97517 4.52622 3.97248 3.97952 3.57146 3.60165 2.99830 1.63650 2.02576 281 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 267 3.22144 4.66622 4.28409 3.92420 3.15837 4.05694 4.56143 2.36564 3.69137 0.80591 3.16290 4.19396 4.48216 4.04560 3.85780 3.63466 3.51300 2.41828 5.05906 3.79599 282 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93142 4.65377 0.61958 0.77255 0.48576 0.95510\n- 268 2.13421 4.75127 3.02555 2.61740 4.23501 3.35438 3.72246 3.54095 1.52577 3.19313 4.07649 3.06014 3.86241 2.89405 2.60236 2.74442 2.96886 3.21265 5.41586 4.14940 283 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16404 3.93142 2.02740 0.61958 0.77255 0.48576 0.95510\n- 269 1.69335 4.12006 3.16983 2.96052 4.18072 1.72086 4.10107 3.51907 3.08175 3.27426 4.14646 3.17110 3.61500 3.38120 3.39122 2.35982 2.66856 3.02955 5.52283 4.30841 284 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03376 3.80114 4.52349 0.61958 0.77255 0.59759 0.79881\n- 270 2.59750 4.57514 3.21150 2.71986 4.02794 3.31911 3.70334 3.35850 2.26249 3.00594 3.91841 3.11166 3.82679 2.89686 1.82893 2.70097 2.27736 3.05281 5.26343 4.01809 285 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03376 3.80114 4.52349 0.61958 0.77255 0.59759 0.79881\n- 271 2.35370 4.29511 3.02172 2.80463 4.19592 2.02409 4.00439 3.66033 2.94001 3.31788 4.19003 3.12873 1.80674 3.26673 3.27825 2.49741 2.79564 3.19150 5.45187 4.25647 286 p - - -\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40499 3.72497 3.29357 2.67722 2.69358 4.24693 2.90350 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.15695 1.92930 * 0.65654 0.73114 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1952 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_6\n-LENG 643\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:53 2020\n-NSEQ 25\n-EFFN 4.916382\n-CKSUM 209025969\n-GA 128 62;\n-STATS LOCAL MSV -12.0683 0.69694\n-STATS LOCAL VITERBI -13.0753 0.69694\n-STATS LOCAL FORWARD -5.8936 0.69694\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63808 4.55618 2.92655 2.55473 3.29653 2.81108 3.63227 2.98735 2.47848 2.58296 3.84682 2.97531 3.16919 3.03683 2.80129 2.63003 2.87436 2.86561 4.71714 3.33254\n- 2.68562 4.42212 2.77668 2.73175 3.46528 2.40554 3.72601 3.29430 2.67677 2.69475 4.24059 2.90249 2.73624 3.18027 2.89874 2.37857 2.77564 2.98485 4.58354 3.61451\n- 1.67462 0.94221 0.86072 2.01445 0.14317 0.00000 *\n- 1 2.54091 3.38214 3.16033 2.36119 3.25162 3.61353 3.81311 3.74035 2.16899 3.32327 3.24832 2.13963 4.00415 2.95027 2.49969 2.54270 3.02659 3.39884 5.54693 4.19771 11 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01247 4.78659 5.50894 0.61958 0.77255 1.25893 0.33402\n- 2 2.56797 3.32396 3.55055 2.98649 3.80522 2.95450 3.99964 2.45567 2.35727 2.55328 2.86275 2.88313 3.37079 3.27335 2.55448 2.99326 3.05489 2.93453 5.21761 3.26329 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84545 5.56779 0.61958 0.77255 1.40798 0.28056\n- 3 2.81736 5.19618 3.12219 2.56554 4.49090 2.34532 3.14103 3.18832 2.16219 3.47948 3.42429 2.50356 4.00470 2.92119 2.73680 2.21394 2.65771 3.55953 5.66016 4.28276 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84545 5.56779 0.61958 0.77255 1.02032 0.44704\n- 4 2.59477 5.27172 2.79033 2.19433 4.57755 2.62997 3.84183 3.28095 2.34775 2.96346 2.85993 3.13466 3.26238 2.68189 3.07923 2.47789 2.54051 3.64109 5.72864 4.34268 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01048 4.95930 5.68164 0.61958 0.77255 1.28486 0.32392\n- 5 2.86195 3.54228 3.17709 2.41463 4.50836 2.46846 3.85597 3.95524 2.61775 3.50129 3.35506 3.15649 2.82630 2.68741 2.21126 2.14015 2.70206 3.58012 5.69000 4.31742 15 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01048 4.95930 5.68164 0.61958 0.77255 1.28486 0.32392\n- 6 2.38573 5.36670 3.10926 2.08799 4.71002 3.05524 2.81744 4.19453 2.32928 3.67104 4.40795 2.35834 3.23922 2.64840 2.62340 2.82375 2.36948 3.75643 5.80022 4.39062 16 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01048 4.95930 5.68164 0.61958 0.77255 1.02812 0.44267\n- 7 2.88872 5.21871 3.21743 2.45513 4.49607 3.69353 3.88938 3.24171 1.97846 3.49458 3.20398 2.791'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01016 4.99005 5.71240 0.61958 0.77255 1.24609 0.33915\n- 636 2.87369 5.35253 2.21086 2.31356 3.49755 2.73760 3.84060 4.16100 2.58116 2.69579 4.39682 2.75539 2.52264 2.66801 2.70831 2.54208 3.10495 3.73597 5.79323 4.39022 725 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05145 4.99005 3.13860 0.61958 0.77255 1.24609 0.33915\n- 637 2.54842 5.33356 2.68455 2.56172 4.66512 3.07290 3.82307 3.14522 1.81984 2.85139 4.37786 2.68795 2.81339 2.58850 2.65354 2.82473 3.08716 3.71693 5.77429 4.37192 726 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01059 4.94919 5.67153 0.61958 0.77255 1.29703 0.31930\n- 638 2.54733 5.27193 2.46735 2.58872 4.57901 2.69318 3.83813 4.03899 2.14855 2.70308 4.32310 2.13986 4.03886 2.94843 3.07553 2.50136 3.08863 3.15780 5.72830 3.33891 727 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01059 4.94919 5.67153 0.61958 0.77255 1.29703 0.31930\n- 639 2.51570 5.25936 3.15004 2.32060 4.56210 2.80148 3.16376 4.01925 2.34739 2.70845 4.31140 2.75538 2.82685 2.46514 3.07784 2.84055 2.79932 3.62705 3.48570 3.33676 728 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06546 4.94919 2.87748 0.61958 0.77255 1.29703 0.31930\n- 640 2.49684 5.33165 2.66459 2.26358 4.66979 3.03138 3.80005 4.15118 2.35929 2.73445 4.37435 2.27959 4.00505 2.55215 3.03041 2.20530 2.59926 3.71860 5.76840 4.36116 729 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01118 4.89491 5.61725 0.61958 0.77255 1.35804 0.29728\n- 641 2.52228 5.10326 3.19941 2.07458 4.36049 3.65441 3.85377 3.20680 2.12561 2.47996 4.16827 3.16911 3.08036 2.27801 3.10715 2.85382 3.06834 2.99429 5.59229 3.34644 730 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01118 4.89491 5.61725 0.61958 0.77255 1.35804 0.29728\n- 642 2.83541 5.20667 3.14337 2.33676 3.35043 3.63229 3.82602 3.29889 2.22830 3.48874 4.26192 2.42350 3.15457 2.18366 3.06731 2.27639 3.06662 2.70707 5.67283 4.29690 731 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01118 4.89491 5.61725 0.61958 0.77255 1.35804 0.29728\n- 643 2.53844 5.28546 2.78432 1.78774 4.60346 3.62018 3.81449 3.17226 2.56300 3.00879 4.33431 2.16080 2.84919 2.92084 3.05159 2.47690 3.07272 3.66159 5.73519 4.34037 732 e - - -\n- 2.68911 4.42472 2.77647 2.73208 3.46527 2.40464 3.72759 3.29513 2.67216 2.69569 4.24806 2.89692 2.73623 3.18094 2.89421 2.38135 2.77650 2.98647 4.58509 3.61468\n- 1.00279 0.45705 * 2.88947 0.05721 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,671 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_12\n-LENG 216\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:54 2020\n-NSEQ 15\n-EFFN 1.475830\n-CKSUM 1862518367\n-GA 29 29;\n-STATS LOCAL MSV -10.4719 0.70444\n-STATS LOCAL VITERBI -11.0735 0.70444\n-STATS LOCAL FORWARD -5.1738 0.70444\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46931 4.42980 2.91761 2.65889 3.55586 2.70103 3.75173 2.85081 2.69160 2.32805 3.70479 3.20261 3.42111 3.13520 2.69978 2.71526 2.78382 2.62694 5.05389 3.82566\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31963 4.42041 1.34112 0.61958 0.77255 0.00000 *\n- 1 3.18767 4.70032 4.33160 3.95163 3.34525 4.02893 4.62846 2.54737 3.70387 1.90794 0.96458 4.19566 4.49726 4.07258 3.87797 3.55973 3.50131 2.58145 5.21535 3.99620 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02430 4.12509 4.84743 0.61958 0.77255 0.49571 0.93940\n- 2 2.56508 4.40270 3.58744 3.10804 3.83946 3.40644 4.08115 3.13674 3.03635 2.86266 2.28636 3.42636 3.96995 3.37615 3.36989 1.39604 2.67152 2.85785 5.28034 4.04050 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02014 4.31082 5.03316 0.61958 0.77255 0.63758 0.75198\n- 3 2.31494 4.66884 2.96502 2.46073 3.86549 2.78041 3.73056 2.67446 2.58615 2.59424 3.75429 3.09521 3.27008 2.92563 2.82966 2.72697 2.87093 2.78013 5.20483 3.90814 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02014 4.31082 5.03316 0.61958 0.77255 0.63758 0.75198\n- 4 2.65036 4.57051 3.28640 2.73945 3.78527 3.53401 3.80478 3.13752 2.38745 2.49127 3.70136 3.19784 2.20421 3.03598 3.06698 2.50055 2.89545 2.39863 5.15973 3.88988 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02014 4.31082 5.03316 0.61958 0.77255 0.40134 1.10692\n- 5 2.42882 4.68435 2.12116 2.69093 3.79932 3.56885 3.80898 3.23867 2.70800 2.90391 2.84428 3.17558 3.97299 3.03599 3.13581 2.81469 2.94717 2.97567 5.18740 2.28078 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42041 5.14276 0.61958 0.77255 0.48576 0.95510\n- 6 3.07070 5.27903 3.50835 2.82598 4.67804 3.77301 3.74893 3.06478 1.55283 3.50970 4.34366 3.27220 4.12668 2.49998 1.42821 3.06288 3.24957 3.70677 5.59630 4.37492 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42041 5.14276 0.61958 0.77255 0.48576 0.95510\n- 7 3.43338 4.66903 5.37085 4.85248 3.64981 4.91187 5.43215 1.02926 4.74998 1.54872 3.41668 5.028'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42041 5.14276 0.61958 0.77255 0.48576 0.95510\n- 209 2.72230 4.24091 4.03760 3.46196 2.63643 3.80094 4.10679 2.16987 3.36323 2.13942 3.31308 3.72858 3.24544 3.60869 3.59344 3.08378 1.77086 2.40406 4.85836 3.65548 215 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42041 5.14276 0.61958 0.77255 0.48576 0.95510\n- 210 2.70116 4.33605 3.05428 3.15192 2.96163 3.71980 3.98612 2.52020 3.09115 1.74998 3.40323 3.51710 4.09265 2.65699 3.40561 2.97739 2.93289 2.14796 4.92742 3.70846 216 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42041 5.14276 0.61958 0.77255 0.48576 0.95510\n- 211 1.87587 4.81698 2.79655 2.55269 3.27371 3.01199 3.73122 3.45016 2.55222 3.07193 3.89733 3.06467 3.90884 2.47058 3.00850 2.58491 2.90979 3.14283 5.33364 3.38190 217 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42041 5.14276 0.61958 0.77255 0.48576 0.95510\n- 212 2.70083 4.39918 3.58908 2.49864 3.45300 3.67910 3.31822 2.88216 2.96163 1.67911 3.49479 3.42449 4.05833 3.27581 3.29758 2.93293 2.93200 2.42073 4.92238 2.72247 218 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42041 5.14276 0.61958 0.77255 0.48576 0.95510\n- 213 1.87086 4.49653 3.40013 2.84854 2.57579 3.02023 3.86371 3.04197 2.56246 2.73971 3.61760 2.90678 3.99049 3.13813 3.20486 2.83628 2.90696 2.48719 5.08495 3.82994 219 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24854 4.42041 1.57005 0.61958 0.77255 0.48576 0.95510\n- 214 1.95443 4.70032 3.09882 2.56235 3.98753 2.98873 3.71284 2.96750 2.51513 3.01757 3.85101 2.63179 3.86040 2.88845 2.44367 2.68031 2.86168 3.07343 5.28411 3.97889 220 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08488 4.19452 2.71363 0.61958 0.77255 0.76290 0.62794\n- 215 2.67910 4.81803 3.02438 2.58292 4.27181 3.39589 3.74775 3.65997 1.88510 3.25784 4.09362 3.05560 2.01978 2.90749 2.77599 2.72765 2.56381 3.30517 5.46787 4.17074 221 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02409 4.13374 4.85609 0.61958 0.77255 0.73210 0.65566\n- 216 2.14062 4.35731 3.45035 2.92314 3.66230 3.04103 3.90594 2.97034 2.87984 2.13622 3.60732 3.30276 2.41727 3.19868 3.24185 2.73673 2.83642 2.51131 5.09086 3.84971 222 l - - -\n- 2.68626 4.42307 2.77549 2.73075 3.46435 2.40363 3.72576 3.29436 2.67799 2.69402 4.24681 2.90400 2.73681 3.18172 2.89704 2.37929 2.77511 2.98495 4.58479 3.61555\n- 0.63481 0.75510 * 2.16219 0.12225 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,569 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_5\n-LENG 182\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:53 2020\n-NSEQ 4\n-EFFN 0.730469\n-CKSUM 2320793608\n-GA 22.8 22.8;\n-STATS LOCAL MSV -10.3997 0.70651\n-STATS LOCAL VITERBI -11.0386 0.70651\n-STATS LOCAL FORWARD -4.7392 0.70651\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34531 4.50047 2.93203 2.72018 3.37148 2.59686 3.78607 2.93101 2.80848 2.51247 3.72932 3.24025 3.28227 3.14974 2.83038 2.59022 2.86192 2.58987 4.11592 3.83391\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40517 3.72499 3.29358 2.67745 2.69359 4.24547 2.90351 2.73744 3.18150 2.89767 2.37891 2.77524 2.98522 4.58481 3.61507\n- 0.17547 1.88180 4.75338 0.66261 0.72464 0.00000 *\n- 1 2.55453 4.30728 3.58330 3.13603 3.53431 3.41463 4.02849 2.81513 3.01236 2.50040 1.78139 3.43470 3.95568 3.37831 3.30029 2.13594 2.88821 2.61071 5.06791 3.80679 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 2 2.73051 5.04082 2.73355 1.79800 4.36775 3.38314 3.64508 3.78038 1.98488 3.33451 4.14989 2.89346 3.84112 2.78407 2.75297 2.71507 2.38010 3.41979 5.51482 4.16622 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 3 2.07683 4.65385 2.89027 2.08009 4.10683 3.29411 3.77620 3.42841 2.61748 3.12283 3.97499 3.00564 3.81861 2.96099 3.04358 2.64613 2.02723 3.09369 5.40799 4.09690 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 4 3.11899 4.43557 4.82062 4.33082 3.55936 4.45766 5.04243 1.12588 4.21252 2.04791 3.36517 4.54766 4.77249 4.47648 4.40694 3.85150 3.38750 1.35138 5.54263 4.34004 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 5 2.60170 4.55551 3.09555 2.17197 3.85677 3.42036 3.79598 3.01196 2.65261 2.84359 3.75074 3.11443 3.88380 3.01064 3.05406 2.72530 2.09289 2.26583 5.23910 3.95521 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 6 3.46638 4.82248 4.45631 4.20328 0.78402 4.11417 3.95685 2.97322 4.10695 2.30784 3.68143 4.20102 4.57099 4.23179 4.18738 3.72653 3.76850 2.97516 4.16333 2.51228 8 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 7 2.57113 4.75928 2.16484 2.42232 4.30944 3.22585 3.77295 3.73455 2.64837 3.34324 4.16080 2.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 175 1.12249 4.18961 3.44852 3.21295 4.33773 2.02486 4.29480 3.68967 3.30520 3.43636 4.28840 3.35294 3.72621 3.58504 3.60016 2.44582 2.75852 3.16388 5.68361 4.48929 194 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 176 2.73040 5.04034 2.74090 1.81792 4.36783 3.38542 3.64347 3.78034 1.96150 3.33341 4.14843 2.89555 3.84157 2.78201 2.74497 2.71518 2.38092 3.41973 5.51261 4.16522 195 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 177 2.67329 4.67021 3.17014 2.81079 4.31671 1.43221 3.91383 3.78356 2.57421 3.37769 4.24462 3.20810 3.89254 3.11780 2.02774 2.76992 3.02318 3.38766 5.49361 4.26799 196 g - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24691 2.90348 2.73711 3.18148 2.89802 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.16350 1.95042 4.75338 0.32232 1.28904 0.48576 0.95510\n- 178 2.87362 4.63068 3.57965 3.50053 4.63489 0.52158 4.60870 4.27543 3.70321 3.90892 4.88778 3.74432 4.02677 4.01503 3.91951 3.05049 3.36721 3.77315 5.68570 4.74301 198 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 179 2.79772 4.96659 2.61639 1.87064 4.40013 3.31051 3.83483 3.83467 2.67907 3.43470 4.31167 2.95329 1.61201 3.02108 3.10368 2.80971 3.10281 3.47482 5.61675 4.29054 199 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 180 2.72382 5.04544 2.65856 1.78936 4.35903 3.35675 3.65760 3.78806 2.41405 3.34173 4.15956 2.86707 3.83137 2.24440 2.84935 2.70522 2.37445 3.42518 5.53409 4.16852 200 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17547 4.03103 1.94363 0.61958 0.77255 0.48576 0.95510\n- 181 2.03200 4.33465 3.75414 3.32608 3.42806 3.56606 4.19882 2.39583 3.19104 1.52049 3.37135 3.61321 4.08575 3.55355 3.45879 2.96093 2.99516 2.26985 5.12528 3.88128 201 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03095 3.88651 4.60886 0.61958 0.77255 0.62028 0.77174\n- 182 2.74243 4.54863 3.48987 2.91659 3.64660 3.58393 3.79908 2.19923 2.43430 2.55025 3.60360 3.30793 3.99531 3.04456 1.86760 2.91442 2.98482 2.65278 5.08667 3.82646 202 r - - -\n- 2.68624 4.42231 2.77525 2.73129 3.46360 2.40497 3.72500 3.29360 2.67746 2.69361 4.24695 2.90352 2.73745 3.18152 2.89771 2.37871 2.77525 2.98524 4.58483 3.61509\n- 0.18150 1.79589 * 0.91387 0.51245 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,464 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_9\n-LENG 147\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:54 2020\n-NSEQ 2\n-EFFN 0.378906\n-CKSUM 1882492310\n-GA 340 340;\n-STATS LOCAL MSV -9.7074 0.70975\n-STATS LOCAL VITERBI -10.8367 0.70975\n-STATS LOCAL FORWARD -4.5884 0.70975\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38501 4.16827 2.97482 2.85202 3.42540 2.61740 3.66809 2.84927 2.79481 2.54639 3.74688 3.22562 3.22756 3.15117 2.70763 2.65298 2.87559 2.58612 4.10419 3.72527\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.63387 4.40391 3.23126 3.05887 4.05692 3.09698 4.14202 3.58020 3.10839 3.21656 4.26443 3.37378 1.02669 3.50027 3.36243 2.79906 3.06862 3.23630 5.26731 4.17728 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.33193 3.70624 3.52388 3.42842 2.50191 2.77276 2.74326 5.39725 4.18738 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 2.27294 4.19044 3.12785 2.94209 3.98201 2.92230 4.05319 3.49296 3.00917 3.22179 4.15813 3.18047 3.65381 3.36680 3.29620 1.24540 2.74641 3.04931 5.36292 4.06569 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.331'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 140 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 140 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 141 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 141 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 142 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 142 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 143 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 143 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 144 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 144 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 145 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 145 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 146 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 146 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 147 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 147 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1667 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_8\n-LENG 548\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:53 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 3404014534\n-GA 80 80;\n-STATS LOCAL MSV -11.8227 0.69763\n-STATS LOCAL VITERBI -12.8165 0.69763\n-STATS LOCAL FORWARD -6.2517 0.69763\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34135 4.01684 2.87627 2.82762 3.31241 2.64936 3.79876 2.86097 2.85905 2.38442 3.75175 3.27442 3.13633 3.22078 2.93589 2.68694 2.83964 2.58912 4.71378 3.65990\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.9198'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 541 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 541 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 542 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 542 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 543 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 543 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 544 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 544 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 545 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 545 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 546 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 546 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 547 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 547 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 548 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 548 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III-D_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1883 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_7\n-LENG 620\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:53 2020\n-NSEQ 2\n-EFFN 0.378906\n-CKSUM 2720750471\n-GA 130 130;\n-STATS LOCAL MSV -11.8201 0.69709\n-STATS LOCAL VITERBI -12.9925 0.69709\n-STATS LOCAL FORWARD -6.4187 0.69709\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36981 4.19316 2.88708 2.76151 3.24570 2.64975 3.79606 2.94664 2.82985 2.44364 3.77887 3.23066 3.05791 3.16952 2.85722 2.71447 2.89617 2.68071 4.35300 3.49524\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.33193 3.70624 3.52388 3.42842 2.50191 2.77276 2.74326 5.39725 4.18738 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 2.81043 4.78761 2.84581 2.60235 3.94242 3.30568 3.75867 3.56135 2.43074 3.07300 4.10684 3.05998 3.85986 1.41525 2.71548 2.86378 3.10904 3.29803 5.23325 3.92150 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 2.89895 4.72874 3.04051 2.79363 3.22377 3.37182 1.36189 3.58658 2.63965 3.09158 4.12932 3.20571 3.92061 3.15945 2.90971 2.97135 3.20025 3.32383 4.68970 3.17794 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 613 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 613 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 614 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 614 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 615 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 615 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 616 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 616 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 617 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 617 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 618 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 618 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 619 2.89895 4.72874 3.04051 2.79363 3.22377 3.37182 1.36189 3.58658 2.63965 3.09158 4.12932 3.20571 3.92061 3.15945 2.90971 2.97135 3.20025 3.32383 4.68970 3.17794 619 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 620 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.33193 3.70624 3.52388 3.42842 2.50191 2.77276 2.74326 5.39725 4.18738 620 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,560 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_4\n-LENG 179\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:52 2020\n-NSEQ 110\n-EFFN 51.156311\n-CKSUM 2907733306\n-GA 63.6 63.6;\n-STATS LOCAL MSV -10.1163 0.70678\n-STATS LOCAL VITERBI -11.3411 0.70678\n-STATS LOCAL FORWARD -4.1013 0.70678\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72103 4.54328 2.86792 2.63195 3.11115 2.51559 3.96495 2.83837 2.62823 2.44944 4.26046 3.01837 3.06730 3.41692 2.78631 2.59450 2.91188 2.83444 4.61813 3.45111\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.00000 *\n- 1 1.91692 3.46971 3.35495 5.70735 2.82227 4.61746 6.21181 3.31288 4.28603 1.77545 4.65130 3.75018 3.82069 4.62835 2.99922 2.78615 1.75667 2.05372 6.87838 4.23276 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 2 3.69891 4.41180 3.02928 2.76769 3.90312 3.79212 4.08090 2.62989 2.64824 1.56826 3.24060 3.58817 3.76553 4.04944 2.73586 2.60485 2.86149 2.22046 7.44465 3.55388 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 3 3.14605 7.13726 2.44148 2.39241 6.47786 3.50438 5.60004 4.11025 4.33665 5.44066 6.17916 3.05195 4.77284 4.19772 4.82877 1.38066 1.16653 3.58690 7.57266 3.30377 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 4 3.29181 7.14831 2.96407 2.87609 4.76967 3.19229 3.20255 4.37192 2.14551 5.45415 6.18863 3.81269 0.92020 3.59136 3.19013 2.67677 4.24011 4.68059 7.58021 3.08677 4 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 5 3.94083 6.19430 6.79945 3.65258 2.36933 5.99235 6.32662 2.47393 5.96469 0.89184 3.13841 4.54989 6.35592 4.01065 5.96778 3.95117 2.86965 2.07034 3.56949 2.98907 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 6 2.81984 4.91549 6.46761 4.81428 2.36065 5.93989 1.24756 2.57919 3.51947 2.52824 5.35371 3.20722 4.53416 5.90431 2.16895 3.13699 3.25027 2.67694 4.24626 4.15331 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 7 2.96269 4.89928 6.79991 3.57431 3.02218 3.21373 6.32682 1.44064 5.96506 2.15687 2.97640 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 172 1.61922 6.93588 5.01740 2.85839 2.67427 1.71102 3.92164 2.81960 2.33062 3.41135 4.86233 3.11404 3.76450 4.80931 3.07682 2.90185 3.29585 3.44515 7.42317 3.74497 355 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 173 2.95847 7.14840 2.81581 2.28437 3.43988 2.11241 4.01561 3.40190 1.63218 5.45426 4.75447 2.48003 3.91683 2.89269 2.10086 2.79254 4.86573 4.67007 7.58028 4.37457 356 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 174 2.49896 7.14179 3.17121 2.96934 4.07859 3.74573 4.77191 3.63390 2.15739 3.73711 3.91450 2.60164 3.98322 4.10555 1.76013 2.46450 2.15004 2.40988 7.57553 4.14947 357 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 175 2.96121 4.74710 3.97960 2.38857 3.64884 3.19778 5.59766 4.48855 2.15829 3.08196 5.03469 2.70131 4.77224 3.71131 1.96036 1.82077 2.09762 3.44801 7.57396 3.83541 358 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 176 2.92077 7.13975 4.20804 2.65962 6.48211 5.41028 4.11026 3.14610 1.96621 2.39932 3.91769 3.47923 4.81079 3.21751 1.71337 2.54083 2.38787 3.16334 7.57405 2.63556 359 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 177 3.27114 3.69854 4.39880 3.40314 3.40300 0.41342 3.86900 5.42677 4.56354 3.01322 5.88148 4.08719 5.91893 4.14955 5.01725 3.63968 3.74153 5.12455 7.32218 4.51210 360 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 178 2.65948 4.76639 4.72372 3.02929 1.67469 2.97269 3.83932 3.42480 4.18421 2.38814 3.75157 3.37158 6.13687 2.92034 3.81305 3.93755 3.31037 2.85821 3.27363 1.72919 361 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00079 7.53380 8.25615 0.61958 0.77255 0.48576 0.95510\n- 179 2.61233 6.88623 3.19025 3.59828 3.92016 0.47730 5.70515 5.54665 4.50326 3.88288 5.95636 3.69512 5.89145 4.85279 3.86354 2.85980 4.90492 3.33182 7.38685 4.02506 362 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00053 7.53354 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III_IV.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm3gr7_III_IV.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,620 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm3gr7_III-A_III-D_13\n-LENG 199\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:54 2020\n-NSEQ 153\n-EFFN 22.099274\n-CKSUM 3808994632\n-GA 68.7 68.7;\n-STATS LOCAL MSV -10.3681 0.70541\n-STATS LOCAL VITERBI -11.3728 0.70541\n-STATS LOCAL FORWARD -4.2494 0.70541\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71625 4.51847 2.87811 2.65635 3.24310 2.47944 3.81623 2.95298 2.60158 2.50525 4.19669 3.01352 3.01699 3.26714 2.78726 2.57653 2.86652 2.87168 4.39869 3.53910\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00180 6.71536 7.43771 0.61958 0.77255 0.00000 *\n- 1 3.22596 5.34266 2.76457 2.45303 2.68913 4.33087 4.22025 4.12852 1.89515 3.29543 4.60691 2.58904 4.78072 3.11257 2.75598 3.03926 1.90171 2.66514 4.07373 3.81974 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00180 6.71536 7.43771 0.61958 0.77255 0.48576 0.95510\n- 2 2.65868 3.41586 6.09758 5.48176 2.40218 4.91631 5.62606 1.43101 5.26385 0.97102 3.33610 5.45854 5.65252 5.39097 5.26638 4.60345 4.34945 2.64250 6.11239 4.07944 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00180 6.71536 7.43771 0.61958 0.77255 0.48576 0.95510\n- 3 3.70926 6.44937 3.37093 1.54881 5.79542 4.70984 3.70174 4.41580 1.83919 3.52326 4.71810 3.70625 3.90239 3.04243 2.49765 2.50422 1.83083 3.42080 6.88147 3.49408 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01306 6.71536 4.44244 0.61958 0.77255 0.48576 0.95510\n- 4 1.51074 3.36663 5.95541 4.47514 3.32983 4.27689 5.56822 3.02327 4.29825 2.35087 4.36735 4.82483 4.28970 4.90275 4.75830 3.51615 1.19429 2.06318 6.08888 4.91082 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01331 6.70412 4.42303 0.61958 0.77255 0.56273 0.84316\n- 5 3.65528 4.55681 2.85878 2.83338 4.76430 4.51253 3.83196 2.27323 2.50317 1.16276 4.34791 4.32255 4.70158 4.08283 3.55418 3.74322 2.99654 1.91540 6.44634 5.17564 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00184 6.69618 7.41853 0.61958 0.77255 0.56684 0.83774\n- 6 3.41807 4.13865 3.65840 3.36718 5.69181 3.18603 4.37813 5.15518 3.68214 4.67161 5.43105 3.56629 5.12940 3.88430 4.16943 1.46780 0.79553 4.75256 6.83423 3.59712 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00182 6.70402 7.42637 0.61958 0.77255 0.64850 0.73988\n- 7 3.38868 6.41880 3.17110 3.48824 5.02664 4.12464 3.80140 4.68810 3.47166 4.46172 5.46241 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00213 6.54681 7.26916 0.61958 0.77255 1.71868 0.19760\n- 192 2.87768 5.29204 4.07271 3.51674 5.60617 3.63369 4.77680 4.69059 3.42294 3.97733 4.96647 2.60251 1.98458 2.38329 2.06341 1.68198 1.95371 3.84830 6.72064 5.32000 883 s - - -\n- 2.68659 4.41995 2.77518 2.73164 3.46311 2.40554 3.72536 3.29395 2.67744 2.69252 4.24731 2.90388 2.73740 3.18061 2.89842 2.37864 2.77561 2.98495 4.58518 3.61423\n- 0.08418 3.44818 3.01739 1.77960 0.18477 0.25154 1.50327\n- 193 2.75675 5.44844 5.08658 5.11994 3.06548 3.90280 5.02094 2.68438 2.98085 1.50381 4.11545 3.76396 5.52927 5.14164 1.53208 3.27692 3.43323 2.43987 3.27940 3.09950 891 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00193 6.64827 7.37062 0.61958 0.77255 1.04187 0.43509\n- 194 4.65367 6.57385 5.86110 5.69090 4.64090 0.11540 6.50641 6.47609 5.11183 5.28952 6.89124 5.71585 6.08242 5.03028 3.64683 3.99741 5.17250 5.79801 7.86876 6.54263 892 G - - -\n- 2.68626 4.42233 2.77527 2.73131 3.46362 2.40521 3.72444 3.29362 2.67739 2.69315 4.24697 2.90354 2.73747 3.18091 2.89808 2.37895 2.77527 2.98526 4.58485 3.61511\n- 0.03937 3.27081 7.37717 0.13150 2.09380 0.23925 1.54748\n- 195 3.18017 3.64936 5.78847 5.18922 1.47049 2.89594 3.88220 3.59955 2.92579 1.89140 3.75649 4.06359 4.15176 3.89575 3.77346 3.54619 3.12471 2.94589 3.83755 1.96744 894 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00181 6.71383 7.43618 0.61958 0.77255 0.50940 0.91843\n- 196 4.79498 6.73826 5.76309 5.84280 7.47952 0.06039 7.16082 7.14946 6.38868 6.75293 7.53620 5.91503 6.24757 4.35505 6.60111 4.47415 5.37451 6.18318 8.69788 7.60632 895 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00181 6.71383 7.43618 0.61958 0.77255 0.50940 0.91843\n- 197 2.14564 5.35099 4.60889 3.66089 2.40646 4.49671 4.63852 3.05617 2.84002 2.32431 5.01729 3.09951 4.23653 3.27387 2.32877 1.70574 3.15192 3.14054 3.66108 3.39629 896 s - - -\n- 2.68638 4.42156 2.77525 2.73151 3.46313 2.40540 3.72304 3.29352 2.67768 2.69373 4.24678 2.90336 2.73767 3.18161 2.89782 2.37887 2.77513 2.98474 4.58365 3.61531\n- 0.06420 2.78721 7.43618 0.68597 0.70038 0.47126 0.97874\n- 198 3.24643 4.06042 6.06946 4.03201 2.10551 4.81494 5.59755 1.73133 4.19725 1.58225 2.96605 4.72793 5.03142 5.36371 3.27304 4.57517 3.97196 1.51820 4.88349 3.59995 899 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00180 6.71536 7.43771 0.61958 0.77255 0.48576 0.95510\n- 199 2.89217 5.60497 3.01484 1.77061 4.13679 4.22153 3.91236 4.41992 1.90447 4.48266 5.48902 2.92128 5.10353 3.41405 2.02125 1.93930 3.16061 2.80594 4.80056 4.24403 900 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00121 6.71477 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,926 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm4gr5_III-A_1\n-LENG 301\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:54 2020\n-NSEQ 8\n-EFFN 2.160156\n-CKSUM 424761144\n-GA 16 16;\n-STATS LOCAL MSV -10.8880 0.70126\n-STATS LOCAL VITERBI -11.8209 0.70126\n-STATS LOCAL FORWARD -5.3645 0.70126\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66926 4.66798 2.95040 2.58496 3.13731 2.78781 3.82406 2.79033 2.47506 2.44310 3.83084 3.04151 3.32638 3.18755 2.98470 2.57095 2.90892 2.75772 4.94275 3.33625\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.00000 *\n- 1 3.66422 4.91051 5.61193 5.04296 3.48629 5.04336 5.41396 1.82665 4.90786 0.89336 2.45158 5.18834 5.18932 4.90137 4.91358 4.41414 3.88580 1.72151 5.58704 4.55782 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 2 3.45891 4.75008 5.32981 4.77579 1.94940 4.75354 5.03117 2.34931 4.62560 1.53311 3.36541 4.86629 4.99716 4.70135 4.66844 4.10719 3.69141 1.08644 5.32329 4.08401 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 3 3.34346 5.49560 3.81250 3.09210 4.82048 4.00141 3.91188 4.27812 0.87377 3.71300 4.56922 3.50429 4.34661 3.04745 1.95862 3.33300 3.50391 3.95510 5.72066 2.79754 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 4 3.12832 4.49823 4.90527 4.30617 2.46115 4.31161 4.62157 2.10186 4.14076 1.19383 2.44489 4.40966 2.49246 4.25107 4.19871 3.62628 3.35386 2.57647 5.06170 3.93242 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 5 2.98251 5.46825 1.85272 2.50154 4.82926 3.57626 3.90142 4.31592 1.44458 3.80029 4.57587 3.05834 4.06396 3.02419 3.17885 1.96334 3.23467 3.88365 5.93632 4.51488 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 6 3.10565 4.54214 4.62082 4.08754 1.31110 4.19563 4.42086 1.92897 3.95233 2.29836 3.45927 4.22786 2.29634 4.13573 4.09255 3.52410 3.35475 2.58007 4.89759 3.52639 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 7 2.78902 5.29468 2.47317 2.14439 4.63767 3.54065 3.73918 4.12137 1.83673 3.59685 4.33827 2.30506 3.944'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 294 3.01683 4.58261 4.08953 3.53720 2.34921 4.01087 2.41566 3.07132 3.43228 2.74558 3.69766 3.80971 4.37606 3.69403 2.75246 3.28399 3.24614 2.28804 4.58688 1.54640 376 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 295 1.65086 4.72502 3.53996 3.23036 4.84875 1.24031 4.45247 4.30999 3.37577 3.92296 4.71001 2.39927 4.09403 3.65406 3.78011 2.18992 3.14161 3.72388 6.11727 4.84755 377 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 296 2.80561 4.63925 3.52680 2.95190 2.25680 3.72869 3.94061 3.16457 2.16064 2.00274 3.72982 3.39218 2.94969 3.20601 2.54197 2.96893 3.03368 2.92588 5.18392 3.92739 378 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 297 1.85092 4.51519 3.72483 3.18919 3.82851 2.68268 4.13471 3.15218 3.14647 2.38738 3.78294 3.54487 1.92019 3.45012 3.49733 2.93919 3.02863 2.31824 5.26424 4.03165 379 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 298 2.82881 4.24264 4.52201 3.92957 3.31816 2.85728 4.29502 1.62427 3.77062 2.01049 3.34074 4.04388 4.33893 3.95465 3.87705 3.27965 3.06238 2.06616 4.86726 2.20654 380 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 299 2.75823 4.97373 2.60195 2.59122 3.04442 3.58533 3.78818 3.63568 2.23873 2.42151 4.04357 3.11248 3.97570 2.93501 2.59601 2.31544 2.33422 3.30823 5.47312 4.13478 381 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 300 2.36579 4.28553 4.10153 3.52076 2.66666 2.85973 4.14456 2.21984 2.66334 1.62689 3.39350 3.77900 4.22147 3.66040 3.63833 3.12874 3.00289 2.52713 4.89476 3.69641 382 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.67978 5.40213 0.61958 0.77255 0.48576 0.95510\n- 301 2.31350 4.70117 3.37652 2.81836 3.90160 3.65008 3.90146 3.27807 2.35156 2.95331 2.88995 3.28867 2.06514 3.12590 3.20427 2.46116 2.99770 2.48048 5.27239 3.99586 383 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00937 4.67527 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,974 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm4gr5_III-A_III-D_4\n-LENG 317\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:55 2020\n-NSEQ 33\n-EFFN 2.694946\n-CKSUM 2802086442\n-GA 25 24;\n-STATS LOCAL MSV -11.1101 0.70084\n-STATS LOCAL VITERBI -11.8172 0.70084\n-STATS LOCAL FORWARD -5.4379 0.70084\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53980 4.36819 3.10275 2.69644 3.15455 2.77835 3.71367 2.93828 2.60090 2.42752 3.65659 3.15329 3.14935 3.04717 2.96800 2.63522 2.76595 2.75821 4.55364 3.42332\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09609 4.84406 2.48004 0.61958 0.77255 0.00000 *\n- 1 3.12502 4.54399 4.60957 4.05473 2.95604 4.19448 3.61226 2.96066 3.86825 2.35592 0.98244 4.14583 4.54453 4.05967 3.99350 3.49806 3.35336 2.80482 3.77157 2.64144 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01280 4.76077 5.48311 0.61958 0.77255 0.46091 0.99618\n- 2 2.60059 5.30356 3.06709 1.81174 4.64267 3.27103 3.77284 4.12224 1.82919 3.60488 3.35682 2.83199 3.98050 2.44423 2.65887 2.77821 2.75389 3.69113 5.73850 4.33434 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01205 4.82069 5.54304 0.61958 0.77255 0.53998 0.87409\n- 3 2.21540 4.22789 4.59584 3.99275 2.59650 3.96885 4.29192 2.34634 3.81759 1.61629 3.34542 4.06671 3.81556 3.98396 3.89243 2.82844 2.36360 2.36112 4.04810 3.08007 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01205 4.82069 5.54304 0.61958 0.77255 0.53998 0.87409\n- 4 2.82218 3.83342 4.41156 3.81844 2.64150 3.94401 3.09466 2.25465 3.26715 1.93322 3.38288 3.97366 4.31177 3.87583 3.35763 3.23714 2.80701 2.51823 4.87803 1.88667 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01205 4.82069 5.54304 0.61958 0.77255 0.53998 0.87409\n- 5 2.39475 3.75449 3.14578 2.17656 4.54226 3.62840 3.80533 3.99236 1.88232 3.18373 4.28583 3.11643 4.01866 2.91865 1.78273 2.67819 3.07122 3.60429 5.68039 4.30990 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01205 4.82069 5.54304 0.61958 0.77255 0.53998 0.87409\n- 6 2.44624 4.22357 4.65047 4.04472 2.49206 3.61128 4.30609 1.81836 3.85964 2.02122 3.33931 4.09581 4.34543 3.47170 3.91725 3.28601 3.05886 2.07296 4.84234 2.31786 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01205 4.82069 5.54304 0.61958 0.77255 0.53998 0.87409\n- 7 2.82501 5.15367 3.15517 2.44099 4.43611 3.62584 2.89445 3.09695 2.07123 3.42853 4.21291 3.1258'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01177 4.84406 5.56640 0.61958 0.77255 0.48576 0.95510\n- 310 2.49404 3.17121 4.79082 4.17922 2.58370 4.02561 4.36088 1.88031 3.97219 1.72815 3.05607 4.17859 4.38787 4.10965 3.99180 3.04635 2.87474 1.89544 4.86159 3.68484 320 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01177 4.84406 5.56640 0.61958 0.77255 0.48576 0.95510\n- 311 2.50999 3.63602 3.02330 2.43275 3.38903 3.03004 3.04534 2.91693 2.53551 3.06280 4.08218 3.18273 4.03976 2.79373 2.53121 2.54480 2.55492 3.34157 5.51500 3.38345 321 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03445 4.84406 3.65004 0.61958 0.77255 0.48576 0.95510\n- 312 2.69149 3.79496 3.79428 3.51499 2.85004 3.23291 4.30379 1.95033 3.86300 1.83950 2.94056 4.09618 4.34210 4.01835 3.91670 3.28268 3.05444 1.86152 3.26216 3.65854 322 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06077 4.82164 2.97782 0.61958 0.77255 0.53786 0.87706\n- 313 2.48371 5.29408 2.68508 1.83624 4.63604 3.13143 3.25452 4.11995 2.36920 3.31991 4.33572 2.89601 2.93844 2.84940 2.37776 2.48107 3.02161 3.68308 5.72845 4.31913 323 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03743 4.77351 3.56525 0.61958 0.77255 0.63792 0.75160\n- 314 2.49185 4.98352 3.18020 2.22523 3.48988 3.07936 3.49055 3.27784 2.29524 2.76777 3.56856 2.88475 3.43090 2.80052 3.07976 2.49234 2.84309 2.68083 5.48582 4.15018 324 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09562 4.74903 2.49454 0.61958 0.77255 0.68356 0.70282\n- 315 2.48837 5.12666 2.88339 2.03335 4.41954 3.26780 3.74089 3.50771 2.40140 3.18583 4.18146 2.85895 3.93944 2.51916 2.98223 2.14778 2.73588 2.93301 4.16353 4.21487 325 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17777 4.66746 1.87424 0.61958 0.77255 0.81547 0.58417\n- 316 2.23027 5.18820 2.73153 1.96145 4.51974 3.26815 3.37553 3.99707 2.22879 3.21777 4.23315 2.48462 3.30525 2.77393 2.90676 2.67484 2.73290 3.57169 5.62868 4.22455 326 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14359 4.50622 2.09790 0.61958 0.77255 1.01148 0.45206\n- 317 2.27445 3.69378 2.99921 2.55159 3.33939 3.55292 3.77699 3.17527 2.52920 2.34318 3.29719 3.16404 3.93836 2.81482 2.81530 2.57255 2.74483 2.91084 5.15990 3.87908 327 a - - -\n- 2.68648 4.42187 2.77533 2.73100 3.46384 2.40503 3.72485 3.29384 2.67718 2.69343 4.24720 2.90323 2.73728 3.18117 2.89805 2.37911 2.77520 2.98529 4.58414 3.61533\n- 0.80410 0.59329 * 0.90539 0.51816 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,968 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm4gr5_III-A_3\n-LENG 315\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:55 2020\n-NSEQ 9\n-EFFN 2.254395\n-CKSUM 760962138\n-GA 35.1 29.7;\n-STATS LOCAL MSV -11.0159 0.70090\n-STATS LOCAL VITERBI -12.0031 0.70090\n-STATS LOCAL FORWARD -5.4398 0.70090\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65416 4.66579 2.94474 2.55636 3.13092 2.82024 3.84231 2.80640 2.48732 2.43614 3.80932 3.02214 3.33041 3.20038 2.98713 2.55155 2.90965 2.78462 4.91707 3.35481\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32645 4.71076 1.31110 0.61958 0.77255 0.00000 *\n- 1 2.79851 4.90678 3.23355 2.69220 4.20577 2.61640 3.78933 3.58738 1.44499 3.19175 2.63205 3.17054 3.99591 2.95280 2.79156 2.85147 3.03642 3.27970 5.43199 4.14456 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01836 4.40266 5.12501 0.61958 0.77255 0.93038 0.50154\n- 2 2.68023 4.42699 3.55232 3.00352 3.61100 3.63180 3.95211 2.86947 2.94908 2.64757 2.36260 2.29155 4.04318 3.26716 3.30341 2.89842 2.25037 2.18671 5.06366 3.82555 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01836 4.40266 5.12501 0.61958 0.77255 0.93038 0.50154\n- 3 2.68832 4.49463 3.59720 3.06698 3.81118 3.56411 4.00856 3.06999 2.86813 2.85297 3.75780 3.43200 4.04660 3.29350 2.39010 2.15320 2.98096 1.49334 5.22195 3.98386 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01836 4.40266 5.12501 0.61958 0.77255 0.93038 0.50154\n- 4 2.82356 4.75350 3.45365 2.84219 3.95815 3.67986 3.81523 3.27565 1.96648 2.34102 3.83532 3.28685 4.05261 3.02010 2.00724 2.93626 3.03944 2.13627 5.26161 4.01604 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01836 4.40266 5.12501 0.61958 0.77255 0.93038 0.50154\n- 5 3.65902 4.91021 5.41081 4.87692 3.30767 5.00753 5.35341 1.65326 4.70957 0.72294 3.08213 5.10508 5.12632 4.75695 4.76437 4.40844 3.88367 2.32957 5.49016 4.43934 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01836 4.40266 5.12501 0.61958 0.77255 0.93038 0.50154\n- 6 2.79839 4.39924 3.86326 3.30567 2.43316 3.81691 4.07882 2.63333 2.15497 2.46432 3.46918 3.64412 4.19735 3.49498 3.43018 3.10102 3.03694 1.56204 4.96399 3.69265 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01836 4.40266 5.12501 0.61958 0.77255 0.93038 0.50154\n- 7 3.05263 5.30012 3.40930 2.78326 4.74005 3.73083 3.75203 4.11921 1.34038 3.56850 4.39359 3.23929 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 308 1.91834 4.99261 3.23033 2.66619 4.25074 3.63248 3.82750 3.66002 2.17524 3.25933 2.95027 3.17487 2.19387 2.97904 2.52457 2.84909 3.04260 3.33866 5.49605 4.17560 383 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 309 2.45833 4.44246 5.00204 4.41446 1.80014 4.34071 4.70153 1.61726 4.24266 1.83585 3.38903 4.47294 4.66126 4.37838 4.29163 3.66642 3.33594 1.84514 5.15901 3.99442 384 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12220 4.71076 2.24403 0.61958 0.77255 0.48576 0.95510\n- 310 2.73732 4.84602 3.20382 2.75981 4.31542 1.95653 3.97024 3.74031 2.80907 2.46486 4.18215 2.20794 4.01131 3.14506 3.25008 1.85574 3.04359 3.37388 5.60171 4.28357 385 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13019 4.60355 2.18880 0.61958 0.77255 0.38093 1.14957\n- 311 2.76488 4.46629 3.75947 3.22796 3.66153 2.20330 4.11725 2.24385 3.16409 2.24225 3.62851 3.58394 1.89853 3.47199 3.48718 3.01299 3.03433 2.70563 5.14143 3.91357 386 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01490 4.60951 5.33186 0.61958 0.77255 0.67085 0.71595\n- 312 2.80000 5.31191 2.40011 1.92840 4.64873 2.70052 3.74654 4.13593 1.99106 3.61461 4.36140 2.98014 2.96833 2.85104 3.01075 2.23235 3.03635 3.69945 5.74822 4.32951 387 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12285 4.60951 2.24761 0.61958 0.77255 0.67085 0.71595\n- 313 2.79908 5.16014 2.95344 2.12529 4.53762 1.96166 3.77494 3.98966 2.50073 3.51161 4.29319 3.03506 3.95409 2.89831 2.13659 2.19765 3.04707 3.59015 5.67271 4.30380 388 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01659 4.50324 5.22559 0.61958 0.77255 0.81916 0.58125\n- 314 2.07212 5.32739 2.05637 2.04777 4.65412 2.50263 3.75994 4.13951 2.13513 3.62821 4.38992 2.94800 3.93539 2.87436 3.06430 2.77501 3.06769 3.71141 5.77249 4.34831 389 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12838 4.50324 2.21265 0.61958 0.77255 0.81916 0.58125\n- 315 1.64792 5.19147 2.69018 1.87095 4.58609 3.43308 3.84441 4.03745 2.68997 3.59056 4.39754 2.00564 3.95590 2.99034 3.18156 2.82403 3.12199 3.63858 5.77742 4.38060 390 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01251 4.38737 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-A_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,746 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm4gr5_III-A_5\n-LENG 241\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:55 2020\n-NSEQ 7\n-EFFN 0.789551\n-CKSUM 346982341\n-GA 121 121;\n-STATS LOCAL MSV -10.6472 0.70327\n-STATS LOCAL VITERBI -11.5293 0.70327\n-STATS LOCAL FORWARD -4.3069 0.70327\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69657 4.33899 2.97905 2.73946 3.15366 2.97160 3.82433 2.70641 2.59969 2.38629 3.62241 2.94228 3.56422 3.20664 2.97890 2.76000 2.90489 2.51317 4.98221 2.99103\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.00000 *\n- 1 3.13392 4.65410 4.26512 3.87763 3.30849 3.98314 4.56762 2.50431 3.63375 1.87732 1.04712 4.12967 4.44851 4.00485 3.81523 3.50148 3.44502 2.53228 5.17288 3.94992 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 2 3.10850 5.22016 3.52383 2.84598 4.69156 3.71116 3.64316 4.03448 1.16512 3.46288 4.33577 3.24190 4.07733 2.77669 1.68409 3.09998 3.27010 3.71508 5.49088 4.33282 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 3 2.85791 4.33955 4.12353 3.58291 2.90412 3.92043 4.02550 2.43327 3.44209 1.85361 3.27766 3.81487 4.27389 3.69511 3.65571 3.22528 3.09566 1.83835 4.56431 1.98175 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 4 3.36667 4.70229 4.79527 4.29667 1.96451 4.49068 4.46109 2.36029 4.14996 0.95938 2.98444 4.45746 4.71823 4.23902 4.25203 3.85959 3.59396 2.49168 4.69766 3.26853 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 5 3.13111 5.22392 3.57861 2.87680 4.70166 3.72969 3.64355 4.03728 1.45494 3.46258 4.33963 3.26224 4.09066 2.77777 1.30140 3.12459 3.28726 3.72271 5.48665 4.33929 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 6 2.38974 4.32406 4.50061 3.95697 3.50478 4.19349 4.64069 1.53775 3.85738 1.97119 3.35892 4.19914 4.52815 4.11006 4.07354 3.52707 3.19403 1.39208 5.28256 4.08868 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 7 2.70052 4.79880 3.17611 2.59522 4.09011 3.49617 3.65658 3.44409 1.72025 3.06407 3.91079 3.06894 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 234 2.96513 4.45846 4.39269 4.06603 3.70063 3.92234 4.83639 2.06134 3.93688 2.35626 3.63998 4.22334 4.47500 4.28448 4.12996 3.44149 3.32383 0.80968 5.51676 4.25878 234 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 235 3.12846 4.43582 4.86363 4.37290 3.61924 4.48951 5.08797 1.36275 4.26253 2.12097 3.42140 4.58371 4.80306 4.52875 4.45863 3.88322 3.39665 1.06089 5.59320 4.38399 235 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 236 2.14503 4.25016 3.63439 3.12305 3.61488 2.22401 4.03292 2.37462 3.06838 2.61064 3.55780 3.43300 3.94815 3.37136 3.39210 2.76535 2.83496 1.99641 5.10068 3.87530 236 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 237 3.03190 4.75204 3.66092 3.53130 4.50268 3.42869 4.58912 4.10295 3.60625 3.70668 4.76766 3.81632 0.53281 3.98897 3.82599 3.20644 3.48965 3.72521 5.63124 4.62735 237 P - - -\n- 2.68624 4.42231 2.77525 2.73082 3.46360 2.40519 3.72500 3.29360 2.67702 2.69361 4.24696 2.90353 2.73745 3.18152 2.89807 2.37893 2.77525 2.98524 4.58483 3.61509\n- 0.23985 1.58501 4.79042 0.66896 0.71794 0.48576 0.95510\n- 238 2.82905 0.61732 4.38753 4.17487 4.12632 3.40690 4.77942 3.30695 4.00452 3.21151 4.34066 4.11025 4.12878 4.34279 4.09268 3.10045 3.31259 3.03720 5.49611 4.41145 240 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06807 4.79042 0.61958 0.77255 0.48576 0.95510\n- 239 2.75183 4.34071 2.90218 3.23190 3.45638 3.81444 4.11811 1.93000 3.18221 1.90368 3.36724 3.61007 4.17779 3.47528 3.50713 3.08961 2.99043 1.82163 5.06113 3.83702 241 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10690 4.06807 2.47372 0.61958 0.77255 0.48576 0.95510\n- 240 2.68700 4.95834 2.82130 2.40095 4.32247 2.69844 3.62918 3.75030 1.84059 3.29255 4.10351 2.91462 3.82498 2.41770 2.68626 2.39780 2.93169 3.38405 5.46437 4.13311 242 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02789 3.98907 4.71142 0.61958 0.77255 0.56674 0.83787\n- 241 2.63614 4.27103 3.61207 2.69590 3.25526 3.64202 3.87591 2.32184 2.96020 1.87417 3.29864 3.42417 4.01280 3.27477 3.26622 2.90922 2.86746 2.42535 4.79011 2.82448 243 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01886 3.98004 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm4gr5_III-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1979 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm4gr5_III-D_2\n-LENG 652\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:54 2020\n-NSEQ 2\n-EFFN 0.386719\n-CKSUM 3095316057\n-GA 136 90;\n-STATS LOCAL MSV -11.9005 0.69688\n-STATS LOCAL VITERBI -12.9922 0.69688\n-STATS LOCAL FORWARD -6.6082 0.69688\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38774 4.22878 2.82234 2.77706 3.39698 2.69625 3.69899 2.89639 2.86513 2.43299 3.78017 3.24182 3.14419 3.20041 2.84386 2.67520 2.79856 2.62442 4.25232 3.65780\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.81492 4.79295 2.84938 2.60564 3.94874 3.30964 3.76215 3.56834 2.43346 3.07937 4.11265 3.06347 3.86367 1.40234 2.71822 2.86783 3.11335 3.30450 5.23821 3.92680 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 645 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 645 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 646 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 646 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 647 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 647 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 648 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 648 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 649 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 649 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 650 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 650 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 651 2.81492 4.79295 2.84938 2.60564 3.94874 3.30964 3.76215 3.56834 2.43346 3.07937 4.11265 3.06347 3.86367 1.40234 2.71822 2.86783 3.11335 3.30450 5.23821 3.92680 651 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 652 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 652 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,797 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm5gr7_III-A_III-D_1\n-LENG 258\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:55 2020\n-NSEQ 24\n-EFFN 1.333008\n-CKSUM 3451137001\n-GA 61 61;\n-STATS LOCAL MSV -10.8529 0.70262\n-STATS LOCAL VITERBI -11.6908 0.70262\n-STATS LOCAL FORWARD -5.2566 0.70262\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68321 4.62721 2.96943 2.58746 3.25389 3.04090 3.81561 2.69902 2.47402 2.39578 3.63769 3.01333 3.50144 3.00984 3.02156 2.62238 2.92893 2.73868 5.06085 3.13331\n- 2.68638 4.42245 2.77539 2.73130 3.46373 2.40532 3.72484 3.29354 2.67709 2.69342 4.24233 2.90366 2.73749 3.18166 2.89805 2.37906 2.77518 2.98525 4.58497 3.61468\n- 0.97590 1.00560 1.35744 0.90004 0.52181 0.00000 *\n- 1 2.68600 5.00563 2.92567 2.09319 4.30418 3.43298 3.60028 3.74004 1.84179 3.27259 4.06890 2.71882 3.83356 2.72712 2.50914 2.67735 2.90909 3.37764 5.43714 3.17643 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06645 4.06748 3.05408 0.61958 0.77255 0.68127 0.70516\n- 2 2.70671 4.99570 3.02579 2.35495 4.30950 3.46904 3.60737 3.72685 1.62201 3.26107 3.64279 2.72668 3.85743 2.73457 2.44648 2.70525 2.73120 3.37212 5.42619 4.10663 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02495 4.09931 4.82165 0.61958 0.77255 0.43666 1.03900\n- 3 2.66260 4.08345 4.33594 3.74091 2.75000 3.41148 4.11185 2.01232 3.58569 2.19291 2.23677 3.86161 4.16312 3.76696 3.69505 3.10127 2.89462 2.08646 4.68817 2.72920 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02046 4.29541 5.01776 0.61958 0.77255 0.57009 0.83350\n- 4 2.53528 4.13485 2.61983 2.26290 4.37335 3.42993 3.63257 3.83136 1.78301 3.35507 4.12098 2.62717 3.83068 2.74535 2.86583 2.63685 2.56860 3.43621 5.52341 4.13826 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02046 4.29541 5.01776 0.61958 0.77255 0.57009 0.83350\n- 5 2.80515 3.55871 4.42430 3.84160 3.10459 3.94592 4.20517 2.14133 3.68695 1.45682 3.18607 3.98009 4.29169 3.87027 3.80958 3.25091 3.03763 2.29873 4.73348 2.20376 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02046 4.29541 5.01776 0.61958 0.77255 0.57009 0.83350\n- 6 2.67442 4.95800 3.03000 2.30728 4.23329 3.47739 3.65328 3.66127 1.76091 3.22478 4.02094 2.98554 3.86497 2.64431 2.47521 2.68342 2.64789 3.13231 4.30010 3.62671 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02046 4.29541 5.01776 0.61958 0.77255 0.57009 0.83350\n- 7 3.32515 4.63452 5.10046 4.51484 1.69177 4.57335 4.82954 1.94422 4.36742 1.29228 2.27752 4.6623'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01971 4.33246 5.05481 0.61958 0.77255 0.52052 0.90192\n- 251 3.59831 4.86534 5.29612 4.76408 3.26260 4.91940 5.25769 1.74308 4.59003 0.72527 3.04595 5.00024 5.05591 4.66481 4.66195 4.31603 3.82463 2.30842 5.42894 4.36311 298 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01971 4.33246 5.05481 0.61958 0.77255 0.52052 0.90192\n- 252 3.31849 4.57460 5.18624 4.68474 3.75813 4.78266 5.36380 1.59129 4.58257 2.05378 3.53967 4.87992 5.03845 4.82202 4.75480 4.17821 3.57517 0.81261 5.77882 4.58171 299 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01971 4.33246 5.05481 0.61958 0.77255 0.52052 0.90192\n- 253 2.73826 4.25387 2.99177 1.74335 4.47846 3.49215 3.65213 3.92665 1.84379 3.42495 4.19677 2.97380 3.88616 2.38404 2.61903 2.71395 2.96190 3.53061 5.56398 4.20408 300 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01971 4.33246 5.05481 0.61958 0.77255 0.52052 0.90192\n- 254 3.32142 4.58774 5.20380 4.65501 3.46143 4.71509 5.14717 1.40303 4.53811 1.38273 2.90196 4.81926 4.92992 4.65400 4.62732 4.07974 3.55689 1.45575 5.46924 4.36481 301 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01971 4.33246 5.05481 0.61958 0.77255 0.52052 0.90192\n- 255 2.65470 3.88706 2.97787 2.23816 4.27531 3.29810 3.64846 3.42202 1.91857 3.26976 4.05157 2.76289 3.84717 2.66980 2.72914 2.46506 2.52678 3.34949 5.46400 4.09807 302 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09496 4.33246 2.55807 0.61958 0.77255 0.52052 0.90192\n- 256 2.61908 4.31502 3.53751 2.83387 3.26694 3.60810 3.86227 2.44306 2.90974 1.97247 3.41902 3.05823 3.98635 2.75450 2.89450 2.85644 2.85056 2.58625 4.05633 3.38143 303 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07731 4.25874 2.80909 0.61958 0.77255 0.61519 0.77770\n- 257 2.61814 4.84326 2.98768 1.91011 3.76440 2.98028 3.64574 3.28629 2.35426 3.10784 3.91578 2.76455 3.83171 2.79101 2.90471 2.51345 2.75876 2.89195 5.34371 4.00270 304 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16274 4.20386 2.00064 0.61958 0.77255 0.67632 0.71027\n- 258 2.59706 4.78309 2.99645 2.23771 3.50608 3.25659 3.32215 3.05763 2.33321 3.03863 3.85544 2.78767 3.81297 2.77249 2.33302 2.63357 2.82671 3.11591 5.28055 3.95267 305 e - - -\n- 2.68624 4.42241 2.77507 2.73116 3.46349 2.40529 3.72489 3.29334 2.67729 2.69371 4.24706 2.90351 2.73756 3.18153 2.89804 2.37879 2.77525 2.98498 4.58493 3.61469\n- 0.54006 0.87398 * 0.86774 0.54455 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1118 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm5gr7_III-A_III-D_2\n-LENG 365\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:55 2020\n-NSEQ 8\n-EFFN 2.621094\n-CKSUM 2894866462\n-GA 18.3 18.3;\n-STATS LOCAL MSV -11.2527 0.69983\n-STATS LOCAL VITERBI -12.0645 0.69983\n-STATS LOCAL FORWARD -5.4474 0.69983\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70116 4.54770 2.91026 2.56895 3.32560 2.84322 3.77234 2.79051 2.47280 2.49318 3.81610 2.96407 3.31167 3.15073 2.82103 2.71563 2.86540 2.65789 4.71051 3.47476\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.00000 *\n- 1 2.29113 2.69819 5.01355 4.45913 3.73150 4.33290 4.84876 2.31390 4.30547 2.00687 3.66323 4.51704 4.72450 4.49173 4.39811 3.68282 3.38868 0.98326 5.38323 4.19565 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 2 2.94122 5.27039 3.28084 2.69473 4.59140 3.71489 3.84751 4.01882 1.75685 3.53920 2.85747 3.20925 4.09680 2.31757 2.29157 2.93288 1.88321 3.65039 5.69458 4.36337 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 3 3.38714 2.66023 5.31876 4.72308 2.37402 4.62718 4.94298 1.99897 4.54185 0.89056 3.29705 4.77743 4.89018 4.59471 4.54346 3.96125 3.61234 2.58632 5.27522 4.14858 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 4 3.25637 5.62139 3.40342 1.19076 5.06011 3.89387 3.95315 4.46248 1.56547 3.87593 4.68191 3.36648 4.28850 3.06717 2.05519 3.21050 3.45064 4.07202 5.92422 4.65210 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 5 3.07649 2.67002 4.94732 4.37582 3.62243 4.28232 4.72559 2.36883 4.21121 1.66111 3.57178 4.43719 4.65480 4.38735 4.29200 3.61768 2.39166 1.20065 5.25166 4.06949 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 6 3.23297 4.65328 4.85183 4.30388 3.53598 4.36869 4.77828 2.01404 4.13878 0.83661 3.44109 4.46058 4.72631 4.33499 4.26614 2.43682 3.48594 2.54545 5.30430 4.14326 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 7 2.71770 4.66851 4.20831 3.92154 5.06225 2.14808 4.94063 4.51722 3.96995 4.18251 4.96895 3.'..b'.68587 4.42246 2.77540 2.73144 3.46375 2.40496 3.72515 3.29280 2.67762 2.69376 4.24711 2.90239 2.73760 3.18167 2.89822 2.37870 2.77540 2.98539 4.58498 3.61524\n- 0.31301 1.33246 5.31215 1.03411 0.43935 0.88532 0.53202\n- 358 2.22461 5.30884 3.00441 2.03454 4.65962 3.57670 3.76060 4.11806 1.54671 3.59735 4.36463 3.05089 3.98858 2.23285 2.84743 2.82618 3.08974 3.70579 5.72165 4.34885 454 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01520 4.58981 5.31215 0.61958 0.77255 0.29845 1.35466\n- 359 2.94036 5.22177 3.14255 2.14027 4.52305 3.68066 3.90860 3.93501 2.11174 3.50809 4.31494 3.19901 1.50585 3.04533 3.06356 2.94385 3.17648 2.60946 5.70999 4.36455 455 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 360 3.20558 4.56388 5.05088 4.44752 2.36043 4.39717 4.71087 2.06327 4.26912 1.41088 1.73288 4.52003 2.73902 4.36361 4.30194 3.71516 3.43097 2.64809 5.12811 4.00139 456 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 361 4.19440 5.78235 5.03143 5.06669 6.02445 0.10281 6.02042 5.94616 5.35346 5.42129 6.46718 5.19977 5.17920 5.60673 5.39950 4.40410 4.73320 5.30271 6.78605 6.18585 457 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 362 3.01149 4.51708 4.31861 3.73934 3.37971 4.07534 4.28834 2.85241 3.53764 1.99068 3.50788 3.98710 4.43474 2.58328 3.74347 3.36671 3.24223 2.11026 1.44901 3.67096 458 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 363 3.41076 1.82866 5.43534 4.89757 3.90637 4.81829 5.31917 1.41444 4.76578 1.94502 3.75044 4.97448 5.10493 4.94388 4.84615 4.18466 3.65811 1.34474 5.73557 4.55057 459 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 364 2.33202 5.43408 3.23910 1.78703 4.81352 3.73168 3.85834 4.25762 1.39651 3.71617 4.48718 3.20612 4.12330 2.96500 2.24015 2.97111 3.22295 3.84752 5.81584 4.47350 460 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82292 5.54526 0.61958 0.77255 0.48576 0.95510\n- 365 3.73010 4.97210 5.71592 5.15112 3.60654 5.12370 5.51280 1.85404 5.01512 0.99986 2.29770 5.27998 5.27941 5.01688 5.01804 4.49711 3.95454 1.49361 5.69351 4.65284 461 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 4.81900 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1130 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm5gr7_III-A_III-D_3\n-LENG 369\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:55 2020\n-NSEQ 9\n-EFFN 2.597168\n-CKSUM 1084834898\n-GA 30.1 30.1;\n-STATS LOCAL MSV -11.2790 0.69975\n-STATS LOCAL VITERBI -12.1945 0.69975\n-STATS LOCAL FORWARD -5.0339 0.69975\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71737 4.52707 2.91589 2.54524 3.30222 2.85770 3.77232 2.74945 2.46125 2.54047 3.74939 2.92336 3.36026 3.13718 2.87513 2.67066 2.86735 2.72351 4.76023 3.40765\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.00000 *\n- 1 3.22154 4.67972 4.69630 4.16172 2.28047 4.29036 4.57429 2.83813 4.01915 2.21897 1.02357 4.33058 2.74299 4.20945 4.16697 3.62375 3.47366 2.80645 5.07395 3.76894 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 2 2.95359 5.37486 3.17269 1.44672 4.71596 3.68983 3.84352 4.17342 1.74137 3.65547 4.42648 3.16620 4.08656 2.38202 2.88407 2.92264 3.17519 3.77040 3.11853 4.41632 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 3 2.33144 2.11589 4.97634 4.41900 3.69501 4.28725 4.79762 2.34297 4.26170 1.97194 3.63494 4.47320 4.68352 4.44497 4.35126 3.63527 3.35772 1.15918 5.33474 4.14906 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 4 2.91532 5.14324 3.29453 2.72529 4.42392 3.70962 3.87268 3.83317 1.78054 3.40273 2.89982 3.23295 4.09850 2.31512 2.93873 2.93482 1.64399 3.49999 5.61183 4.29350 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 5 3.38255 2.65738 5.31406 4.71867 2.43124 4.62370 4.94148 1.97187 4.53792 0.89114 3.29541 4.77382 4.88693 4.59191 4.54042 3.95790 3.60791 2.57524 5.27490 4.14928 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 6 3.25337 5.61641 3.41062 1.22025 5.05659 3.89306 3.94800 4.45777 1.54929 3.87044 4.67652 3.36579 4.28572 3.06178 2.02066 3.20794 3.44682 4.06775 5.91779 4.64756 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01211 4.81597 5.53832 0.61958 0.77255 0.48576 0.95510\n- 7 3.06823 2.61865 4.93667 4.36457 3.61250 4.27188 4.71332 2.37130 4.19959 1.64405 3.56305 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01332 4.72127 5.44362 0.61958 0.77255 0.67799 0.70854\n- 362 3.04073 4.66233 4.04091 3.50031 3.37007 3.98775 4.14327 3.08190 3.21890 2.71833 3.73292 3.80847 4.38449 2.37947 3.46570 3.29829 3.28289 2.10748 1.32420 3.51058 433 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01332 4.72127 5.44362 0.61958 0.77255 0.67799 0.70854\n- 363 3.31105 1.77297 5.29610 4.74682 3.76490 4.67583 5.14407 1.41145 4.60583 1.83124 3.62323 4.82503 4.97077 4.77307 4.68161 4.03281 3.55626 1.58037 5.57119 4.39553 434 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01332 4.72127 5.44362 0.61958 0.77255 0.67799 0.70854\n- 364 2.27067 5.42736 3.00793 1.64052 4.79760 3.65384 3.88377 4.24670 1.35804 3.73254 4.51582 3.13922 4.09875 3.00238 2.96041 2.96161 3.23631 3.83856 5.85798 4.48894 435 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01332 4.72127 5.44362 0.61958 0.77255 0.67799 0.70854\n- 365 3.71027 4.95516 5.66136 5.08851 3.48923 5.08381 5.44317 1.86451 4.95047 0.88945 2.20806 5.23281 5.22046 4.92716 4.94526 4.45461 3.92952 1.80423 5.59949 4.57976 436 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12195 4.72127 2.24519 0.61958 0.77255 0.67799 0.70854\n- 366 2.73920 4.56491 3.46452 2.28512 3.72240 3.67281 3.91896 2.33621 2.87115 2.78812 3.66745 3.35042 4.05979 3.19391 3.25912 2.09533 2.33049 2.84872 2.96668 3.88042 437 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01483 4.61415 5.33650 0.61958 0.77255 0.84254 0.56320\n- 367 3.24119 4.57625 5.03632 4.47094 2.12140 4.40544 4.46461 1.91614 4.28917 1.21242 3.28090 4.47735 4.69608 4.34941 4.30501 3.73063 3.46512 2.64679 4.76810 2.19303 438 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16695 4.61415 1.93899 0.61958 0.77255 0.84254 0.56320\n- 368 2.81815 5.05459 3.08918 1.56601 4.34596 3.57269 3.76984 3.71558 2.45074 3.31636 4.14348 3.09875 3.98410 2.91049 2.12223 2.83228 3.04868 2.41215 5.53453 4.20842 439 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01725 4.46445 5.18680 0.61958 0.77255 1.01360 0.45085\n- 369 2.80190 5.29699 2.15939 1.92328 4.62894 3.47337 3.73348 4.11118 2.50436 3.59705 4.35741 2.94231 3.91851 2.84580 2.03581 2.12803 3.04136 3.68403 5.73650 4.32063 440 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01164 4.45884 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm5gr7_III-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1196 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm5gr7_III-A_III-D_4\n-LENG 391\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:56 2020\n-NSEQ 9\n-EFFN 1.639160\n-CKSUM 1021477102\n-GA 20 20;\n-STATS LOCAL MSV -11.5374 0.69939\n-STATS LOCAL VITERBI -12.3119 0.69939\n-STATS LOCAL FORWARD -5.7270 0.69939\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71416 4.66893 2.90583 2.46247 3.21981 3.04241 3.85021 2.65767 2.37823 2.51708 3.72146 2.87137 3.60145 3.11650 2.96414 2.68825 2.91308 2.77750 4.83385 3.33898\n- 2.68630 4.42237 2.77532 2.73098 3.46366 2.40525 3.72507 3.29366 2.67713 2.69367 4.24397 2.90359 2.73752 3.18158 2.89813 2.37869 2.77532 2.98530 4.58489 3.61515\n- 0.82733 1.20995 1.32965 0.56153 0.84475 0.00000 *\n- 1 2.77405 4.36275 3.84978 3.27441 3.41732 3.80861 4.06945 1.75126 2.35881 2.26525 2.39236 3.62189 4.16987 3.44230 3.33051 3.09131 3.00585 2.34254 4.99350 3.78991 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18879 4.91114 0.61958 0.77255 0.64705 0.74147\n- 2 2.79681 5.10167 3.12635 2.12203 4.43214 3.55153 3.66298 3.84715 1.60405 3.36146 3.00676 3.04717 3.93301 2.78542 2.23338 2.78865 3.00961 3.48693 5.50798 4.19648 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02051 4.29313 5.01547 0.61958 0.77255 0.74843 0.64076\n- 3 2.69356 4.75927 3.18821 2.61547 3.98185 3.53762 3.71875 2.63387 2.17064 2.99928 3.84323 2.58614 3.92230 2.89653 2.17332 2.76416 2.91937 2.58651 5.26949 3.97842 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02051 4.29313 5.01547 0.61958 0.77255 0.74843 0.64076\n- 4 2.74518 5.13852 2.31200 1.65208 4.44597 3.41265 3.71198 3.89476 2.52839 3.44100 4.22977 2.90624 3.87398 2.84202 3.02914 2.22377 2.99224 2.73818 5.62698 4.22909 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02051 4.29313 5.01547 0.61958 0.77255 0.52672 0.89291\n- 5 2.30453 4.18002 4.03849 3.45472 3.27032 3.76239 4.05517 2.26959 3.34025 1.96956 2.44020 3.70213 4.13074 3.58214 2.84632 3.04307 2.90783 2.41713 4.78522 2.72955 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01846 4.39731 5.11966 0.61958 0.77255 0.62352 0.76799\n- 6 2.80908 5.14733 3.06979 2.20602 4.47151 3.55397 3.69852 2.98388 1.51559 3.41279 4.20671 3.04465 3.94757 2.27313 2.69965 2.79483 3.02812 3.52640 5.56454 4.23173 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01846 4.39731 5.11966 0.61958 0.77255 0.62352 0.76799\n- 7 2.74799 5.07040 3.01917 2.50314 4.42145 3.49962 3.71388 3.85817 1.88725 3.39224 4.18074 3.0231'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01683 4.48870 5.21105 0.61958 0.77255 0.48576 0.95510\n- 384 2.76005 4.66789 3.40218 2.81914 3.83323 3.65138 3.83750 3.21381 1.82537 2.17838 3.75452 3.27532 4.02986 3.06701 2.50488 2.88865 2.98475 2.53188 5.19290 2.95412 425 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01683 4.48870 5.21105 0.61958 0.77255 0.48576 0.95510\n- 385 3.74600 4.98159 5.54272 5.00803 3.35557 5.11790 5.46654 1.61680 4.84489 0.69166 3.12156 5.23205 5.21385 4.86059 4.88017 4.52563 3.96843 2.38529 5.56030 4.52636 426 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01683 4.48870 5.21105 0.61958 0.77255 0.48576 0.95510\n- 386 2.75085 5.18555 2.98330 1.84043 4.52010 3.50813 3.69348 3.98121 2.13551 3.47957 4.24097 2.98830 3.90823 2.80165 2.39720 2.05153 2.56872 3.57300 5.62289 4.24197 427 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01683 4.48870 5.21105 0.61958 0.77255 0.48576 0.95510\n- 387 2.96685 4.33556 4.70949 4.14277 2.04816 4.11616 4.22941 2.06634 3.97085 2.25965 3.34016 4.17403 4.45515 4.09847 4.03149 3.43141 3.19802 1.75584 4.62226 1.90881 428 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01683 4.48870 5.21105 0.61958 0.77255 0.48576 0.95510\n- 388 2.75605 5.18872 2.94502 1.67292 4.50939 3.50279 3.70166 3.00714 2.13788 3.47642 4.24120 2.56477 3.90964 2.32778 2.88934 2.72796 2.98662 3.56696 5.62773 4.24229 429 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01683 4.48870 5.21105 0.61958 0.77255 0.48576 0.95510\n- 389 3.66942 5.77220 2.95971 0.39329 5.22660 3.81255 4.51312 4.82568 3.49222 4.35371 5.34955 3.49779 4.45937 3.74631 3.93476 3.61181 3.99360 4.45993 6.26649 5.05873 430 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11316 4.48870 2.34595 0.61958 0.77255 0.48576 0.95510\n- 390 2.90713 4.95511 2.99051 1.23474 4.23675 3.58700 4.00287 3.24719 2.84612 3.15669 4.12967 3.21002 4.09223 3.19368 3.26995 2.98142 3.18378 1.99850 5.61898 4.28761 431 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20867 4.39406 1.73737 0.61958 0.77255 0.62787 0.76298\n- 391 2.80061 5.26760 2.70949 1.78997 4.60800 3.42531 3.67056 4.07394 1.96419 3.54994 4.32985 2.36282 3.87943 2.27353 2.80407 2.74832 3.03405 3.66041 5.67503 4.28671 432 e - - -\n- 2.68625 4.42232 2.77527 2.73130 3.46361 2.40520 3.72502 3.29307 2.67748 2.69362 4.24697 2.90354 2.73747 3.18153 2.89763 2.37864 2.77527 2.98525 4.58484 3.61510\n- 0.51639 0.90800 * 0.14154 2.02512 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,566 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_1\n-LENG 181\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:56 2020\n-NSEQ 5\n-EFFN 1.245117\n-CKSUM 306103454\n-GA 106 106;\n-STATS LOCAL MSV -10.2088 0.70666\n-STATS LOCAL VITERBI -11.1678 0.70666\n-STATS LOCAL FORWARD -4.9676 0.70666\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39392 4.34567 3.06311 2.63093 3.40593 2.89699 3.77425 2.87344 2.75087 2.31936 3.69624 3.18122 3.19480 3.13651 2.97260 2.69946 2.84803 2.49869 4.89204 3.50158\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.00000 *\n- 1 2.59441 4.49224 3.41984 2.97603 3.91713 3.40087 4.02376 3.29052 2.93426 2.20313 3.88731 3.34177 1.71496 3.28810 3.29047 2.10009 2.93677 2.98970 5.32577 4.05371 1 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 2 2.79688 4.67057 1.84981 2.83342 3.81715 3.66113 3.98113 2.79219 2.89751 2.15443 3.72850 3.31075 4.08694 3.21367 3.31596 2.95623 3.04834 1.97580 5.31588 4.02026 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 3 1.65926 5.02295 3.27101 2.69784 4.41572 3.59009 3.74167 3.79914 1.90753 3.34585 4.17676 3.16312 4.00116 2.88362 1.93315 2.88077 3.08336 3.45973 5.50634 4.24072 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 4 2.70853 5.01007 2.25187 2.42509 4.35225 3.41477 3.73954 3.78975 2.55951 3.36338 4.16219 2.15777 3.87952 2.87948 3.04666 2.07661 2.96752 2.55409 5.56882 4.19494 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 5 3.69545 5.03899 4.90161 4.56542 3.37073 4.54122 5.08682 2.61773 4.33170 0.47397 3.29316 4.80050 4.91416 4.58898 4.42605 4.20048 3.97663 2.76582 5.38593 4.20445 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 6 2.98844 5.55076 1.86488 1.29453 4.86724 3.38434 3.85271 4.37960 2.79641 3.86499 4.67593 2.84733 3.95969 2.99950 3.36640 2.13835 3.26259 3.94092 6.01782 4.53233 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 7 3.45023 5.10788 4.10744 4.02528 4.94641 3.77166 5.04438 4.63480 4.12633 4.19977 5.28282 4.27765 0.30453 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 174 2.84590 5.37464 2.05086 1.88799 4.68969 3.40477 3.74719 4.18385 2.58587 3.66821 4.44538 2.86567 2.38273 2.09414 3.10984 2.77815 3.09622 3.75356 5.81347 4.37004 206 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 175 2.75953 5.14020 2.96289 2.05485 4.46553 3.49328 2.51912 3.91380 2.32590 3.42021 4.20203 2.97937 2.76797 2.78402 2.08381 2.73715 2.98446 3.52725 5.56337 4.20789 207 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 176 2.84684 4.35933 4.16629 3.63192 3.36761 2.59070 4.30323 2.00755 3.50509 1.30673 3.30876 3.89092 4.30445 3.77530 3.72650 3.23383 3.10347 2.31197 5.02632 3.82822 208 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 177 2.69729 4.40680 3.58683 3.02028 2.58356 3.66605 3.90122 2.86002 2.90814 1.98398 3.46628 3.41313 2.54802 3.25065 2.49910 2.92401 2.93085 2.66238 4.92596 3.65522 209 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 178 2.79648 4.98134 3.12737 2.00500 4.27259 3.55656 3.72646 3.63213 2.35728 3.23512 4.07448 3.09454 3.96019 2.87339 1.72823 2.82189 3.02188 2.49014 5.45455 4.15256 210 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 179 2.05992 4.51544 2.41125 2.81830 2.68507 3.59050 3.85295 2.97449 2.81496 2.20006 3.60004 3.26730 3.99005 3.12911 3.21076 2.84352 2.91762 2.74910 5.06544 3.78106 211 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 180 1.36107 4.84540 2.15448 2.58821 4.55081 2.27123 3.98384 3.99026 2.90351 3.59310 4.40827 3.07042 3.91260 3.15898 3.38616 2.73261 3.04242 3.53738 5.80201 4.44954 212 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02005 4.31524 5.03759 0.61958 0.77255 0.48576 0.95510\n- 181 2.19738 4.40765 4.47161 3.93875 3.48244 4.08762 4.58443 2.19207 3.81799 1.35045 3.36199 4.15253 4.48003 4.06175 4.01679 3.43170 3.22480 1.59134 5.23387 4.05797 213 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01354 4.30873 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1103 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_2\n-LENG 360\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:56 2020\n-NSEQ 4\n-EFFN 1.003906\n-CKSUM 3771622181\n-GA 113 113;\n-STATS LOCAL MSV -11.2944 0.69994\n-STATS LOCAL VITERBI -12.0485 0.69994\n-STATS LOCAL FORWARD -5.8317 0.69994\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56309 4.56190 2.80340 2.56594 3.28464 3.26531 3.72907 2.70013 2.58999 2.35347 3.71687 2.90532 3.47781 3.11858 2.91194 2.69174 2.93851 2.66902 4.94681 3.42680\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.00000 *\n- 1 3.25256 4.57570 4.90967 4.37189 3.32602 4.53696 4.93911 1.17158 4.21234 1.75745 2.02987 4.59154 4.78576 4.39680 4.34904 3.90136 3.49366 2.00505 5.33212 4.20759 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 2 2.66135 4.48666 3.35840 2.84582 2.40679 3.55312 3.83114 2.99721 2.78019 2.65073 3.59323 3.27174 3.97310 2.34934 3.14356 2.82998 2.06921 2.77351 4.98596 3.66387 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 3 2.60630 4.69131 3.20798 2.69286 4.21593 3.37209 3.80022 3.61732 2.49332 3.22594 4.05441 3.13005 3.87557 2.96907 1.95080 1.97307 2.16153 3.24847 5.44468 4.16078 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 4 3.26310 4.53817 5.06897 4.53233 3.44661 4.65628 5.10863 1.43657 4.41934 1.35924 3.23386 4.73257 4.88106 4.57829 4.54949 4.02542 3.50394 1.43478 5.46877 4.34326 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 5 1.02669 4.23729 3.65739 3.38628 4.42401 3.03203 4.41339 3.78795 3.42722 3.53081 4.37127 3.47043 3.80128 3.70679 3.71103 1.69562 2.81226 3.24144 5.78767 4.58604 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 6 3.23431 4.92492 3.87769 3.77131 4.71949 3.59499 4.81157 4.36140 3.85886 3.94718 5.01842 4.04035 0.40245 4.23716 4.05735 3.41438 3.70290 3.96752 5.80485 4.84818 6 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 7 2.98971 5.40470 2.39088 1.79987 4.73703 3.35441 3.85913 4.25183 2.75835 3.78075 4.63588 1.27391 3.9529'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 353 2.85828 5.27389 2.78525 1.76425 4.62999 3.46911 3.67551 4.07379 1.83576 3.54411 4.34204 2.94131 3.91663 2.04480 2.66792 2.80961 3.08277 3.67792 5.65582 4.30552 386 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 354 2.74809 4.65025 3.19143 2.83892 3.81614 3.50977 3.96257 2.26068 2.83798 2.89663 3.88968 1.46884 4.02375 3.22446 3.19995 2.88955 3.04844 2.79869 5.27965 3.92528 387 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 355 2.90067 4.83875 3.43268 2.87482 4.04046 3.67815 3.83261 2.35279 1.29468 2.92439 3.91983 3.30581 4.08202 3.02141 2.63813 3.00568 3.12693 2.94312 5.35078 4.09512 388 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 356 2.93060 5.24009 2.80934 1.28195 4.59276 3.49241 3.74948 4.03568 2.36433 3.53874 4.37625 3.00829 3.96949 2.89176 2.09571 2.89710 3.16616 3.66902 5.65485 4.33259 389 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 357 2.88101 4.51793 3.78712 3.24835 2.24241 3.85559 3.98787 2.73812 3.12568 1.66581 3.32349 3.61188 4.21090 2.14625 3.42318 3.13489 3.11123 2.66770 4.75833 3.36566 390 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 358 2.69565 4.50052 3.43925 2.89390 3.71154 3.60379 3.87716 2.02659 2.12474 2.68889 3.62764 3.31643 4.01154 3.13700 3.03488 2.88191 2.17011 2.61207 5.13491 3.88966 391 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 359 2.88835 5.43961 1.71550 1.75719 4.74999 3.35311 3.74697 4.24907 1.89608 3.72654 4.52309 2.80924 3.88972 2.88256 3.13115 2.80264 3.14589 3.81734 5.86730 4.41041 392 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19200 4.91435 0.61958 0.77255 0.48576 0.95510\n- 360 3.37888 4.74694 4.82849 4.28590 3.13867 4.55045 4.84779 2.30948 4.07410 1.20922 1.36613 4.55426 4.77112 4.26295 4.21150 3.91566 3.60924 2.44399 5.20354 4.09368 393 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01534 4.18463 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,575 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_3\n-LENG 184\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:56 2020\n-NSEQ 29\n-EFFN 3.784302\n-CKSUM 1331806283\n-GA 14.3 13.7;\n-STATS LOCAL MSV -10.3679 0.70641\n-STATS LOCAL VITERBI -10.8637 0.70641\n-STATS LOCAL FORWARD -5.2028 0.70641\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44076 4.40941 3.04013 2.52788 3.34623 2.87700 3.83634 2.86612 2.61925 2.34297 3.78597 3.08583 3.41931 3.11179 2.99222 2.67335 2.82346 2.68844 4.87790 3.37133\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.00000 *\n- 1 2.29764 4.85777 3.56513 2.35349 3.59543 3.28928 4.07511 3.04316 2.48452 2.17402 3.94931 3.47416 3.66115 3.30925 3.01301 2.48074 2.70572 2.85801 4.22546 2.85134 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 2 2.26708 5.43583 2.57191 2.14987 4.78080 3.23526 3.88578 3.68817 2.24304 3.74104 4.47659 2.50632 4.09206 2.79783 2.33751 2.03984 3.15644 3.82643 5.86849 4.45750 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 3 2.68788 5.42959 2.94157 2.04229 4.77203 3.33961 3.88708 4.25600 1.98635 3.05525 4.47104 1.94756 3.49658 2.98437 2.32533 2.88895 3.15664 3.30165 5.86369 4.45452 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 4 2.61726 4.41223 4.88806 4.28160 3.47991 3.44810 4.52198 2.05818 4.09065 0.97807 3.14816 4.31966 4.54970 4.23759 4.13534 3.50052 3.25858 2.45507 5.03666 3.18553 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 5 2.18864 5.36855 2.97224 2.45820 4.68670 1.99245 3.90119 4.15372 2.64763 3.26468 4.41721 3.18954 4.10354 2.74286 2.68649 2.19564 2.35654 3.42029 5.81863 4.42492 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 6 2.92788 5.26511 3.25293 2.55555 4.54491 3.00274 3.53677 3.98722 2.01812 2.25544 3.60898 2.60381 2.78035 3.04971 2.94686 2.58924 2.89808 2.65464 5.73894 4.37135 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 7 2.47751 5.43865 2.28813 1.96743 4.78453 3.00410 3.88571 4.27121 2.20668 3.74427 4.47919 2.95191 3.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 177 3.07678 4.44528 5.02719 4.41392 2.49313 4.25332 4.58330 2.32774 4.20489 1.22537 3.04972 4.41158 3.08897 4.32411 4.21373 3.56679 3.30741 1.75523 3.95982 3.89057 223 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 178 2.92935 5.43768 1.75950 2.49204 4.78254 3.70140 3.19663 4.26756 1.93201 3.26105 4.47872 3.16909 4.09543 2.38353 2.65224 2.40329 2.86728 3.82828 5.86980 4.46008 224 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 179 2.70988 5.41851 2.32888 1.95612 3.94757 3.33608 3.88822 4.23794 2.08552 3.12633 4.46097 3.17055 2.55016 2.82258 2.62340 2.88959 2.94497 3.32833 5.85529 3.82753 225 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 180 2.38019 5.43244 2.59690 1.78198 4.77612 2.91606 3.88617 4.26118 2.17247 2.94169 4.47353 2.94859 3.47130 2.98301 2.85546 2.25412 2.95548 3.82235 5.86593 4.45570 226 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 181 2.60346 4.66643 3.36839 3.26090 3.12097 3.33480 4.18164 2.68966 2.45256 2.01432 3.76970 3.66584 4.30728 2.61484 3.22492 3.17272 3.17941 2.19215 5.24855 2.45457 227 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 182 2.53923 4.59512 3.44689 3.11214 2.24377 3.96428 3.51200 2.24145 3.33415 2.21528 3.70225 3.75957 3.58391 2.82428 3.01708 2.91909 3.18275 2.67543 2.99880 3.49097 228 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 183 2.92750 5.27414 2.78458 1.95345 2.98972 3.72916 3.92415 4.00137 2.06214 2.36688 3.72905 3.22631 4.12087 2.86159 2.71007 2.68104 2.94314 2.75098 5.74591 4.37599 229 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11301 5.83535 0.61958 0.77255 0.48576 0.95510\n- 184 1.88932 3.77268 3.79547 2.77764 2.87020 3.31645 4.16919 2.61427 2.43248 2.18595 3.78811 3.64258 3.44460 3.06674 2.96326 3.16074 3.17846 2.77710 4.11721 4.02752 230 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00605 5.11008 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1169 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_4\n-LENG 382\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:56 2020\n-NSEQ 5\n-EFFN 1.254883\n-CKSUM 535366954\n-GA 136 136;\n-STATS LOCAL MSV -11.0657 0.69954\n-STATS LOCAL VITERBI -12.0849 0.69954\n-STATS LOCAL FORWARD -5.8143 0.69954\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58826 4.43203 2.83497 2.57383 3.29849 3.33517 3.73095 2.71747 2.58986 2.34080 3.68250 2.87042 3.46132 3.08165 2.89898 2.67948 2.94192 2.67760 4.94275 3.41903\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.00000 *\n- 1 2.90315 5.32901 2.53253 1.84361 4.70572 3.39766 3.83831 4.19224 2.71065 3.70995 4.51995 1.51067 3.94869 2.98569 3.21919 2.18979 3.18061 3.77345 5.87198 4.44172 1 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 2 2.84222 4.55384 3.72240 3.29886 3.11748 3.68266 3.96891 3.11693 3.19541 2.79962 3.79995 3.59289 4.18099 3.53803 3.47781 3.04913 1.71662 2.89691 4.69370 1.51803 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 3 3.19744 5.85599 1.20646 1.29823 5.13559 3.38491 3.97464 4.68992 3.05145 4.15782 5.02625 2.83740 4.03539 3.14631 3.69203 3.05160 3.49622 4.23585 6.29602 4.74759 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 4 2.61768 2.65487 4.20112 3.69631 3.60994 3.57504 4.35206 2.57132 3.57883 2.59451 3.57836 3.81857 2.42446 3.83354 3.78638 2.95417 2.96403 1.35234 5.15478 3.95824 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 5 3.00371 5.32761 2.87000 1.17075 4.69194 3.55729 3.80922 4.13862 2.41285 3.62870 4.46309 3.06945 4.03413 2.94904 2.04490 2.96518 3.23766 3.76524 5.73227 4.41149 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 6 3.44672 4.70918 5.21909 4.70915 3.45197 4.83035 5.27002 0.96437 4.55144 1.42466 3.25056 4.91908 5.03249 4.71719 4.66744 4.23108 3.68980 1.95864 5.54881 4.40940 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 7 3.32747 4.58453 5.21660 4.74325 3.79189 4.78319 5.44837 0.88019 4.64224 2.23914 3.56493 4.92408 5.06112'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 375 2.73996 4.67828 3.33736 2.75838 3.83320 3.61219 3.78848 3.19780 2.10346 2.25193 2.43154 3.22029 3.99024 2.30438 2.88923 2.85474 2.96290 2.96163 5.19407 3.93428 398 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 376 3.17770 5.14682 3.07273 3.01538 4.59102 3.55389 4.39397 4.42746 3.35276 4.02591 4.99674 0.55943 4.23692 3.68768 3.70594 3.23987 3.58609 4.00076 5.84227 4.52279 399 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 377 2.91249 5.44265 1.99312 1.90542 4.76586 3.42475 3.77528 4.25614 1.47205 3.73047 4.51970 2.88375 3.93758 2.90479 3.07709 2.83627 3.16272 3.82718 5.86340 4.42698 400 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 378 2.95645 5.16111 2.79322 1.14809 3.95034 3.53628 3.83387 3.82401 2.71904 3.38749 4.28517 3.06745 4.03462 3.06401 3.15513 2.94792 3.20941 3.51476 5.34406 2.55705 401 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 379 3.38346 4.66765 5.18014 4.62005 2.21340 4.68175 4.93080 1.27553 4.48048 1.32229 3.07300 4.76496 4.87474 4.52600 4.52852 4.03567 3.60681 2.25213 5.17650 3.98733 402 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 380 2.75726 4.47659 3.61735 3.07301 3.67782 3.70318 3.99573 1.66444 2.24422 2.64382 3.60569 3.46574 4.10858 3.29449 3.17526 2.99243 2.23835 2.51466 5.14095 3.90948 403 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 381 2.78845 5.18498 2.99992 2.05155 4.54006 3.51393 3.66568 3.98169 1.87447 3.46701 4.24580 2.99616 3.91412 2.77867 2.16139 2.05127 3.00924 3.58603 5.59102 4.24538 404 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01996 4.31992 5.04227 0.61958 0.77255 0.48576 0.95510\n- 382 2.76173 4.68344 3.38831 2.79482 3.82835 3.63476 3.79648 3.19701 2.51974 2.24278 2.57962 3.24796 4.00869 2.35190 2.09211 2.88131 2.98205 2.96916 5.19099 3.93866 405 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01348 4.31344 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1262 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_5\n-LENG 413\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:56 2020\n-NSEQ 13\n-EFFN 5.265381\n-CKSUM 2269122818\n-GA 221 221;\n-STATS LOCAL MSV -11.2456 0.69905\n-STATS LOCAL VITERBI -12.2614 0.69905\n-STATS LOCAL FORWARD -5.5469 0.69905\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58898 4.49998 3.01223 2.51163 3.37123 3.03852 3.86834 2.70036 2.51656 2.46458 3.83842 2.94304 3.39554 3.23121 2.95782 2.65876 2.93089 2.60894 4.60993 3.18882\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27599 5.24137 1.44440 0.61958 0.77255 0.00000 *\n- 1 3.94851 5.29277 5.23277 4.83843 2.99969 4.86717 4.50413 3.40463 4.55781 2.67981 0.72167 4.79026 5.20998 4.72684 4.62404 4.27140 4.19581 3.42667 4.71851 1.64629 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01031 4.97569 5.69804 0.61958 0.77255 0.48177 0.96153\n- 2 2.42081 5.33856 3.31659 2.75809 4.64485 3.78431 3.97061 4.08540 1.45009 3.62575 2.41686 3.28644 4.17853 2.45572 3.13692 2.05983 3.22639 3.71166 5.80588 4.44662 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00866 5.14869 5.87104 0.61958 0.77255 0.76167 0.62902\n- 3 2.05766 5.26670 3.35260 2.79084 2.71196 3.79289 3.98675 3.98210 1.55642 3.54920 4.34528 3.31234 4.18728 3.11912 2.51469 2.01358 3.22155 3.63025 5.75299 4.40733 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00866 5.14869 5.87104 0.61958 0.77255 0.76167 0.62902\n- 4 3.98673 5.15340 6.13955 5.68894 4.44655 5.69162 6.48808 0.97096 5.65907 1.93090 4.14970 5.86102 5.85082 5.87667 5.81290 5.15103 4.24358 0.98498 6.67210 5.48797 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00866 5.14869 5.87104 0.61958 0.77255 0.76167 0.62902\n- 5 3.49395 4.82304 5.36485 4.80211 2.32384 4.66267 4.71978 2.94384 4.60387 1.39898 3.66435 4.75690 4.97286 4.66585 4.59879 3.98969 3.72133 1.27655 5.02587 2.00975 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00866 5.14869 5.87104 0.61958 0.77255 0.76167 0.62902\n- 6 3.85875 5.06886 5.94892 5.45575 2.05142 5.40217 5.96118 0.96424 5.36783 2.72315 4.03625 5.56329 5.62012 5.53539 5.46347 4.81084 4.10947 1.16470 6.23835 5.01140 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00866 5.14869 5.87104 0.61958 0.77255 0.76167 0.62902\n- 7 0.56117 4.90876 4.98037 4.87541 5.62776 3.69871 5.67179 5.10255 4.90506 4.81317 5.57935 4.48946 4.559'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 5.23361 5.95596 0.61958 0.77255 0.76167 0.62902\n- 406 3.63172 6.14676 3.10280 0.60444 5.51481 4.03416 4.40527 5.00632 3.13749 4.44512 5.26661 2.39065 4.58159 3.54575 2.51103 3.53791 3.88483 4.57547 6.53701 5.12508 503 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 5.23361 5.95596 0.61958 0.77255 0.76167 0.62902\n- 407 3.06164 5.52696 3.31950 2.28125 4.87555 3.82440 3.98803 4.34255 1.83062 3.82011 4.57230 2.11121 2.41804 3.09001 2.50032 3.02817 3.28727 3.92091 2.26780 4.56235 504 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 5.23361 5.95596 0.61958 0.77255 0.76167 0.62902\n- 408 1.88627 2.48623 3.74240 3.17808 3.97767 3.94513 2.94603 2.54167 2.49630 3.04350 3.92214 3.62124 4.32762 2.67120 3.53249 2.48328 3.23633 2.31313 5.39245 4.13936 505 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 5.23361 5.95596 0.61958 0.77255 0.76167 0.62902\n- 409 3.17108 4.62360 4.63257 2.80876 3.76167 4.30645 4.63069 2.24089 3.95059 1.82931 3.74014 2.83374 4.66828 4.18297 4.13944 3.60221 3.40612 1.07627 5.31369 4.11838 506 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08508 5.23361 2.57401 0.61958 0.77255 0.76167 0.62902\n- 410 3.00269 5.27109 3.34292 1.97770 4.53896 2.77134 3.99418 2.59240 1.37678 2.62979 4.33688 3.31677 4.19694 3.12912 3.18339 3.01588 3.23180 3.61128 5.75037 4.40625 507 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09103 5.15712 2.51023 0.61958 0.77255 0.94320 0.49328\n- 411 2.92847 5.40381 2.12785 2.10982 4.73292 3.69540 3.89249 2.90347 1.68051 3.70184 4.44976 2.44894 4.09470 2.99530 3.12765 2.89618 3.16046 2.79728 5.84531 4.44231 508 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07542 5.79777 0.61958 0.77255 1.09491 0.40732\n- 412 2.28111 5.38217 2.32412 2.63496 4.70099 3.70245 3.90254 2.15469 2.19988 3.67590 4.43166 2.13069 4.10287 2.38353 3.13990 2.90683 3.16617 3.75871 5.83030 4.43415 509 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11498 5.07542 2.27915 0.61958 0.77255 1.09491 0.40732\n- 413 3.22581 5.39717 3.67986 3.03676 4.74242 3.97284 4.02245 2.47615 1.83108 3.64741 4.48043 3.49796 4.34187 3.15952 1.19579 2.31833 3.42531 3.79196 5.79341 4.54395 510 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00699 4.96742 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,857 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_6\n-LENG 278\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:57 2020\n-NSEQ 5\n-EFFN 1.333008\n-CKSUM 1550089189\n-GA 160 160;\n-STATS LOCAL MSV -10.9159 0.70192\n-STATS LOCAL VITERBI -11.5857 0.70192\n-STATS LOCAL FORWARD -5.5173 0.70192\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44598 4.40863 2.98136 2.57435 3.38457 2.92723 3.89270 2.83689 2.69211 2.32844 3.75076 3.14857 3.34398 3.22489 2.83009 2.69917 2.87955 2.54592 4.87757 3.41960\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.00000 *\n- 1 3.19241 4.55898 4.85679 4.33538 3.49468 4.41915 4.91818 2.10183 4.17870 2.01514 1.75702 4.52231 4.75124 4.40150 4.33154 3.79028 3.45532 1.15018 5.40656 4.24679 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 2 2.57720 4.42902 3.84719 3.57856 4.28551 0.96330 4.55156 3.40078 3.59162 3.32786 4.29101 3.70048 4.04310 3.89356 3.85287 2.79257 3.04960 1.96780 5.73149 4.51652 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 3 2.54201 4.46719 3.62342 3.31759 4.41360 3.26006 4.38564 3.74667 3.31751 3.47614 4.36201 3.53236 2.24335 3.65739 3.62594 2.71841 0.97751 3.30323 5.76882 4.55313 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 4 2.78371 4.89566 3.12037 2.76886 4.51749 3.43890 3.95355 3.95974 1.95241 3.54038 4.37841 3.21071 4.00087 3.12461 2.94615 1.15480 3.11392 3.54926 5.69413 4.39764 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 5 2.97964 4.41113 4.52249 3.98850 3.58162 4.14853 4.64367 2.11252 3.86318 1.79455 3.46535 4.20337 4.53467 4.12541 4.06755 3.49210 2.28398 1.19565 5.30999 4.11639 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 6 3.68713 4.95750 5.26346 4.76274 2.03974 4.87150 4.82384 2.49591 4.60858 0.69587 3.04811 4.89183 5.02074 4.59225 4.63545 4.26290 3.90353 2.70649 4.95322 3.57747 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 7 2.88605 5.13087 3.25590 2.65063 4.46615 3.62952 3.70537 3.86674 1.81408 2.47482 4.19933 2.35337 4.00497'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 271 2.72007 4.80729 2.96727 2.00575 4.02684 3.47510 3.76972 3.39009 2.58289 2.27272 3.91443 3.06054 2.23653 2.95431 3.00174 2.77957 2.96886 3.11118 5.35272 4.03715 298 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 272 2.01719 4.96458 2.69134 1.63721 4.46875 2.24517 3.82672 3.90198 2.68995 3.48556 4.30136 2.95497 3.87828 2.98521 3.16968 2.72885 3.02286 3.49645 5.69075 4.31977 299 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 273 2.08408 5.41501 1.59237 1.71895 4.73624 3.34394 3.79805 4.21917 2.72747 3.73495 4.54831 2.81798 3.90734 2.94553 3.28428 2.82876 3.18064 3.79987 5.90477 4.44087 300 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 274 2.57157 2.12058 3.39453 2.90284 3.99222 2.24773 3.93528 3.36014 2.02051 3.04438 3.90749 3.27748 3.91093 3.16974 3.07730 2.71815 2.90269 3.03437 5.32894 4.08298 301 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 275 2.11096 4.52996 3.29295 2.16084 3.75293 3.58654 3.92078 1.91154 2.83752 2.71542 3.66538 3.28544 4.01697 3.17676 3.22227 2.88148 2.95671 2.56998 5.20252 3.93925 302 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 276 3.44122 5.22731 3.97128 3.42672 4.67259 3.84351 4.13802 4.25140 2.46063 3.70446 4.70744 3.75356 4.34008 3.35162 0.55897 3.51633 3.69044 3.96314 5.62130 4.53835 303 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 277 2.57840 4.59491 3.08451 2.81430 4.30660 3.25549 4.04593 3.69660 2.90865 3.39347 4.25520 2.09265 3.89553 3.26472 3.28267 2.69398 1.30799 3.28774 5.62306 4.32181 304 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02213 4.21773 4.94008 0.61958 0.77255 0.66153 0.72580\n- 278 1.80625 4.38245 4.00704 3.48867 2.01681 3.83524 3.85562 2.81767 3.39847 2.47421 3.48582 3.70716 4.22460 3.62507 3.63093 3.13702 3.09401 2.64047 4.36374 2.07516 305 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01495 4.21055 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,431 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_7\n-LENG 136\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:57 2020\n-NSEQ 20\n-EFFN 2.016602\n-CKSUM 3771475626\n-GA 14 14;\n-STATS LOCAL MSV -9.7947 0.71111\n-STATS LOCAL VITERBI -10.7501 0.71111\n-STATS LOCAL FORWARD -4.4753 0.71111\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42367 4.31898 3.16335 2.59949 3.26716 2.82956 3.83820 2.77124 2.70732 2.34101 3.65381 3.11600 3.57429 3.19450 3.04063 2.69104 2.78451 2.57164 4.97297 3.28812\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.00000 *\n- 1 2.74684 5.17863 3.02758 2.14301 3.72941 3.53115 3.71796 3.95838 1.98890 3.46977 4.22766 2.79182 3.40182 2.67946 2.00180 2.72434 2.97724 3.15474 5.62713 3.72130 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 2 2.56677 5.19994 3.02156 2.20378 4.52417 2.66991 3.71568 3.99181 2.16998 2.90222 4.24727 2.65433 3.92307 2.60818 2.14659 2.72414 2.98077 3.28424 5.64303 4.25078 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 3 1.92680 2.70000 4.20927 3.62203 3.05102 3.84394 4.14794 2.66229 3.50143 2.23682 2.59133 2.98389 4.21371 3.72054 3.68020 3.13021 2.59104 2.33886 4.82835 3.18196 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 4 2.54221 2.62175 4.37369 4.05546 4.81683 1.83576 4.90377 4.25631 4.00768 3.95307 4.75623 3.91416 4.08775 4.23925 4.22832 0.82984 3.07642 3.61180 6.17960 5.03467 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 5 0.32072 4.77132 4.43881 4.33876 5.01389 3.56522 5.23509 4.28039 4.38124 4.11476 5.09737 4.23281 4.37563 4.64884 4.52610 3.13562 3.46660 3.77725 6.34116 5.26698 5 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 6 3.89405 5.96053 3.13200 0.30481 5.45146 3.98367 4.72377 5.09592 3.73400 4.60121 5.61388 3.69133 4.64147 3.96835 4.17821 3.83160 4.22601 4.72042 6.45112 5.28182 6 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 7 2.62268 4.74578 5.18200 4.63382 3.51453 4.69121 5.11193 1.65936 4.48481 0.85849 3.32609 4.79949 4.95514 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 129 2.99147 5.55276 1.94689 1.30612 4.87366 3.53973 3.88551 4.37738 2.47864 3.84733 4.61831 2.99530 4.04108 2.65695 3.25793 2.30961 3.24214 3.93388 5.98257 4.52843 165 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 130 2.78104 4.40912 4.82515 4.25336 3.55192 4.28804 4.67909 1.79903 4.10965 1.67444 3.47627 4.37585 3.54214 4.29952 4.22288 3.61272 3.29009 1.22190 5.21823 4.03724 166 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 131 3.55890 4.75811 5.62085 5.14583 4.05094 5.16624 5.86085 1.15405 5.08131 2.19928 3.78910 5.31152 5.37375 5.31155 5.23648 4.59409 3.81543 0.88813 6.16331 4.96440 167 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 132 2.40710 4.71758 3.30673 1.87881 3.38735 3.62827 3.85083 2.72326 2.72797 2.95086 3.08112 3.23075 4.01454 2.86112 3.15654 2.49912 2.42644 3.01736 5.26160 3.97603 168 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 133 3.87180 5.09223 5.75396 5.18324 2.64564 5.23798 5.47324 1.71080 5.04798 0.65975 3.11464 5.36643 5.28679 4.93606 5.01031 4.62343 4.07716 2.66943 5.50800 4.45958 169 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 134 3.46192 5.41049 3.37598 2.77312 5.15290 3.84110 4.71851 4.68873 3.62669 4.28170 5.23635 3.77519 0.44022 3.98089 3.96712 3.53429 3.86690 4.26861 6.27917 5.11852 170 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 135 2.59660 4.63429 3.39248 2.82959 3.80149 3.65579 3.88578 2.65042 2.32260 2.51561 3.28112 3.29404 2.39401 3.12956 2.70091 2.65627 2.78377 2.64862 5.19124 3.92350 171 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63067 5.35302 0.61958 0.77255 0.48576 0.95510\n- 136 2.54568 4.23750 4.16997 3.58519 2.95336 3.84541 4.14633 2.20491 3.47099 1.47725 3.34412 3.81004 3.49348 2.92360 3.66524 2.90408 2.98186 2.31642 4.84881 3.65563 172 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00984 4.62593 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csm6_III_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1133 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csm6_III_8\n-LENG 370\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:57 2020\n-NSEQ 8\n-EFFN 1.457031\n-CKSUM 2611739449\n-GA 90 90;\n-STATS LOCAL MSV -11.0504 0.69973\n-STATS LOCAL VITERBI -12.1171 0.69973\n-STATS LOCAL FORWARD -5.9027 0.69973\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58375 4.34851 2.84224 2.54767 3.34494 3.24837 3.72015 2.74937 2.59975 2.41135 3.62307 2.90544 3.46442 3.02992 2.93644 2.69920 2.87113 2.66189 4.84406 3.40933\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.00000 *\n- 1 2.70931 4.36727 3.71523 3.16620 2.75398 3.68866 3.94449 2.87580 3.10521 2.58875 3.50481 3.51158 4.09184 3.39012 3.41790 2.37759 1.80370 2.65823 4.81378 2.39547 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 2 2.76933 5.21470 2.06821 1.67664 4.51536 3.46218 3.71288 3.99084 2.22485 3.50165 4.27325 2.93705 3.89945 2.83118 2.97942 2.73316 3.00681 3.58711 3.17722 4.25414 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 3 2.69649 2.97320 4.27594 3.68903 3.25247 3.82068 4.15008 2.23821 3.55115 2.31686 3.26196 3.85220 2.90130 3.75776 3.69891 3.11858 2.93316 1.54927 4.78286 2.96741 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 4 2.78604 5.09059 3.07141 1.57260 4.39309 3.54778 3.70672 2.81217 2.12665 3.35397 4.15398 3.04741 3.94194 2.83360 2.35309 2.78264 3.00825 3.45402 5.53006 4.19652 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 5 3.05140 4.69746 2.42059 3.26521 3.86541 3.91690 4.41130 0.99071 3.46428 2.68696 3.81557 3.70153 4.39643 3.73624 3.82816 3.34818 3.33028 2.31929 5.49740 4.21042 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 6 2.98477 4.43835 4.33280 3.77718 3.63707 4.14408 4.49982 1.25254 2.55628 2.43497 3.53528 4.06234 4.49786 3.93075 3.80953 3.46001 3.22883 1.58424 5.28984 4.08120 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 7 2.69188 4.91248 3.03135 1.80710 4.16232 3.49878 2.84414 2.82254 2.50693 3.17885 3.98985 3.02716 3.89975 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 363 2.42125 5.16223 2.59806 2.09889 4.48862 3.45999 3.66155 3.95913 2.40197 3.45779 4.21236 2.93541 3.86410 2.50204 2.07689 2.67235 2.45018 3.54365 5.60489 4.20778 406 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 364 2.83415 4.37686 4.03544 3.45487 3.39544 3.89995 4.17621 2.56387 2.55154 1.94810 1.76903 3.76681 4.25500 3.60469 3.53760 3.18163 3.06533 2.02936 4.99218 3.80332 407 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 365 3.29663 5.25058 3.17986 3.13620 4.71491 3.65232 4.52187 4.58496 3.49703 4.17231 5.15031 0.47497 4.34286 3.82446 3.84631 3.36023 3.71266 4.14654 5.95199 4.64671 408 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 366 2.83269 5.37164 2.05407 2.01482 4.70246 3.44868 3.74151 4.19726 1.83239 3.66754 4.42838 2.33383 3.91722 2.46103 3.04205 2.77036 3.07564 3.75701 5.79803 4.36351 409 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 367 2.72363 4.55009 3.40742 1.82221 3.62971 3.64913 3.87921 2.98114 2.82581 2.18822 3.61641 3.31320 4.03409 3.15773 3.21122 2.89296 2.95606 2.29683 5.07888 2.88889 410 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 368 3.42411 4.70903 5.16697 4.67016 2.34752 4.71080 4.93566 0.86967 4.53686 1.95368 3.32886 4.79041 4.96171 4.64837 4.62289 4.09678 3.66832 2.11724 5.19917 3.84335 411 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 369 2.75487 4.51286 3.53021 2.97845 3.66379 3.69425 3.92689 1.67403 2.33282 2.38904 3.61148 2.61447 4.07898 3.21869 3.14346 2.95836 2.98588 2.67610 5.09788 3.85442 412 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41224 5.13459 0.61958 0.77255 0.48576 0.95510\n- 370 2.72628 5.19753 2.88986 1.85202 4.53278 2.71838 3.67105 4.00586 2.19545 3.49503 4.24926 2.57957 3.87545 2.77714 2.46300 2.31718 2.95865 3.58469 5.63368 4.23539 413 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01227 4.40634 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1073 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_1\n-LENG 350\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:57 2020\n-NSEQ 8\n-EFFN 0.980469\n-CKSUM 1049269790\n-GA 467 467;\n-STATS LOCAL MSV -11.2447 0.70013\n-STATS LOCAL VITERBI -12.1442 0.70013\n-STATS LOCAL FORWARD -5.5635 0.70013\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.79882 4.45168 2.89620 2.55299 3.17135 3.23910 3.76355 2.58092 2.61540 2.30093 3.51729 2.93776 3.71042 3.03708 3.08496 2.69029 2.95676 2.60354 4.79146 3.26955\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.00000 *\n- 1 3.24130 4.74704 4.39647 4.02439 3.38334 4.07368 4.68870 2.59168 3.77291 1.94065 0.89116 4.26059 4.54533 4.13954 3.93984 3.61730 3.55764 2.63151 5.25837 4.04274 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 2 2.87974 4.76180 3.46477 2.91184 3.94489 3.68948 3.86333 2.10104 1.42942 2.82420 3.83582 3.33731 4.09147 3.06827 2.71340 3.01350 3.10897 2.80550 5.30748 4.05505 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 3 3.27037 4.58700 5.00137 4.41738 1.97070 4.51448 4.77461 1.94835 4.27752 1.18448 2.32122 4.58665 4.71159 4.31713 4.32926 3.85014 3.48651 2.40151 5.05497 3.94770 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 4 2.56460 4.46169 3.27279 2.77523 2.58262 3.42162 3.83271 3.13898 2.77052 2.82666 3.69855 2.63704 3.89338 3.09389 3.16470 1.96072 2.45163 2.85963 5.11765 3.82737 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 5 3.20657 4.48834 5.02156 4.53681 3.71277 4.61699 5.24656 1.35043 4.43325 2.20052 3.50176 4.73167 4.91580 4.69482 4.61965 4.01992 3.47400 0.96488 5.71252 4.50177 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32855 4.17917 1.32908 0.61958 0.77255 0.48576 0.95510\n- 6 2.67471 4.83780 2.92698 2.47991 4.19509 3.37217 3.61948 3.62550 2.22930 3.18592 4.02451 2.96177 3.82574 2.08375 2.31431 2.24260 2.92327 3.28448 5.35838 4.05880 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03110 3.88173 4.60408 0.61958 0.77255 0.76284 0.62800\n- 7 3.00462 4.82065 3.13439 2.89513 3.29093 3.45508 1.12312 3.70898 2.73792 3.20184 4.24540 3.30414 4.008'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32855 4.17917 1.32908 0.61958 0.77255 0.48576 0.95510\n- 343 2.70097 4.71840 3.07305 2.58272 3.67956 3.47289 3.05295 3.30531 2.33133 2.37647 3.79243 3.05099 3.88085 2.15681 2.65994 2.76922 2.92685 3.04665 5.04313 3.66951 351 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03110 3.88173 4.60408 0.61958 0.77255 0.34483 1.23217\n- 344 3.01485 5.27422 3.28537 2.24586 4.71409 3.65860 3.65502 4.08214 1.54666 3.51270 4.34322 3.14601 4.03308 2.77659 1.54212 2.98601 3.19405 3.72721 5.56506 4.34123 352 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 345 3.29669 4.62793 4.62522 4.17513 1.57382 4.26990 3.75296 2.29741 4.02291 2.39419 3.58581 4.10174 4.58483 4.07978 4.09688 3.59911 3.52113 2.82780 3.96526 1.38359 353 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 346 3.47838 4.80873 4.98268 4.43638 3.11025 4.69122 4.97507 2.28910 4.23222 0.74720 2.28380 4.70886 4.85940 4.36833 4.34370 4.06457 3.70101 2.46416 5.24005 4.16856 354 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.17917 4.90152 0.61958 0.77255 0.48576 0.95510\n- 347 2.65050 5.00738 2.49552 2.01700 4.29048 3.40776 2.97421 3.73767 2.25349 3.28398 2.76827 2.90018 3.81930 2.75112 2.86933 2.63962 2.88378 3.36561 5.47282 4.09868 355 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11129 4.17917 2.40779 0.61958 0.77255 0.48576 0.95510\n- 348 2.81366 5.24543 2.04224 1.90529 4.58780 3.29351 3.74341 4.06673 2.65470 3.59800 4.41343 2.79233 3.84881 2.89451 3.18954 1.65138 3.08960 3.65929 5.77654 4.33859 356 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24951 4.09299 1.58900 0.61958 0.77255 0.58332 0.81654\n- 349 2.77132 5.11143 2.04739 2.25389 4.43400 3.28270 3.65207 3.88926 1.65244 3.43573 4.27450 2.79869 3.80603 2.80584 2.84038 2.73062 3.02982 3.51711 5.58103 4.20664 357 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03132 3.87480 4.59715 0.61958 0.77255 0.76765 0.62381\n- 350 2.62890 4.82838 1.96766 2.31139 4.13624 3.26033 3.68255 3.50436 2.56859 3.18462 4.03743 2.51232 3.77988 2.85763 3.04839 2.64872 2.90777 2.52706 5.43072 4.05627 358 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02119 3.86467 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1028 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_10\n-LENG 335\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:58 2020\n-NSEQ 23\n-EFFN 1.951294\n-CKSUM 2511353424\n-GA 300 300;\n-STATS LOCAL MSV -10.9938 0.70043\n-STATS LOCAL VITERBI -12.0851 0.70043\n-STATS LOCAL FORWARD -5.5832 0.70043\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76384 4.54656 2.94917 2.55738 3.15614 3.46936 3.76066 2.55414 2.61250 2.25354 3.56984 2.87694 3.63785 3.03323 3.15673 2.65781 2.88957 2.67982 4.87795 3.22050\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.40197 4.60750 1.13625 0.61958 0.77255 0.00000 *\n- 1 2.54257 4.50210 4.13893 3.71803 3.48662 3.80153 4.48714 2.54404 3.52841 2.10460 1.16254 3.94143 4.32002 3.87958 3.74374 3.21663 3.22144 2.47529 5.26898 4.07282 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02191 4.22745 4.94980 0.61958 0.77255 0.52843 0.89045\n- 2 2.69662 4.74943 3.18560 2.48019 3.95141 3.55610 3.76804 3.34644 2.28396 2.99008 2.28244 2.55415 3.94524 2.95566 3.02876 2.77515 2.57498 3.06131 5.27560 2.98409 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01745 4.45287 5.17521 0.61958 0.77255 0.35996 1.19636\n- 3 2.76017 5.24099 2.59306 2.03526 4.56984 3.20125 3.42567 4.04728 2.35808 3.53894 2.76293 2.00130 3.91959 2.63370 2.96261 2.72535 2.99314 3.62322 5.68144 4.27558 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01493 4.60750 5.32985 0.61958 0.77255 0.48576 0.95510\n- 4 2.47729 4.71699 2.99965 2.40610 3.90222 3.61848 3.83967 2.50475 2.39044 2.06722 3.08537 3.21779 4.00472 2.85510 3.14242 2.66629 2.96375 3.01814 5.25912 3.97220 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01493 4.60750 5.32985 0.61958 0.77255 0.48576 0.95510\n- 5 2.75917 4.86608 3.22170 2.34577 4.08597 3.60494 3.34751 2.10824 2.29691 3.11169 3.94405 3.16007 3.99144 2.58660 2.62867 2.81920 2.98781 2.42921 5.37728 4.06961 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01493 4.60750 5.32985 0.61958 0.77255 0.48576 0.95510\n- 6 3.40749 4.75340 5.02657 4.47265 3.08089 4.55622 4.58681 2.16798 4.25266 1.47292 3.29982 4.56686 4.82414 4.38843 4.32798 3.89230 3.63195 2.68695 1.23990 3.49047 6 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01493 4.60750 5.32985 0.61958 0.77255 0.48576 0.95510\n- 7 2.73518 4.05391 2.76501 1.96883 4.51875 3.51499 2.63645 3.98982 2.09858 2.95938 4.24053 2.99087 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01493 4.60750 5.32985 0.61958 0.77255 0.48576 0.95510\n- 328 3.76842 5.22595 2.72680 4.02691 1.98169 4.50401 3.85535 3.79697 4.05325 3.21704 4.37099 4.13554 4.86612 4.16009 4.27140 3.85317 3.99818 3.64470 4.10258 0.71292 332 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09243 4.60750 2.54710 0.61958 0.77255 0.48576 0.95510\n- 329 3.49864 4.76893 5.40801 4.83159 2.34762 4.82472 5.15256 1.55734 4.68624 1.02596 3.14523 4.95830 5.00271 4.69508 4.69590 4.18154 3.71969 2.05410 5.37313 4.29761 333 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.61671 0.77592\n- 330 2.70616 4.97582 2.64112 2.36827 3.13230 3.23274 3.72237 3.30971 2.15901 2.96842 3.50291 2.87844 3.91364 2.66793 2.97679 2.27353 2.93744 3.04507 5.46436 4.11298 334 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01613 4.53120 5.25355 0.61958 0.77255 0.61671 0.77592\n- 331 2.72390 5.16370 2.05948 2.29453 4.47913 3.49463 3.69420 3.94529 2.31311 3.04725 3.72644 2.97346 3.89443 2.50704 2.93150 1.97942 2.95596 3.53855 5.61346 4.21960 335 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11416 4.53120 2.33183 0.61958 0.77255 0.61671 0.77592\n- 332 2.67856 3.43529 4.40432 3.80521 2.51734 3.81947 4.13039 2.09250 3.63849 1.80872 3.20364 3.89891 4.18461 3.42805 3.72907 2.87114 2.91063 2.33627 4.69309 2.48981 336 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01777 4.43481 5.15716 0.61958 0.77255 0.74970 0.63963\n- 333 2.67363 4.42711 3.20131 2.67518 3.56872 3.63866 3.88795 2.50612 2.89304 2.40495 3.52891 3.35320 4.01968 3.20120 3.25970 2.47913 2.71762 2.51013 5.00484 2.22538 337 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10769 4.43481 2.40527 0.61958 0.77255 0.74970 0.63963\n- 334 2.34329 5.05242 2.94597 1.81406 4.35296 3.47003 3.67626 3.79002 1.94162 2.87867 4.12215 2.96918 3.87751 2.80016 2.86326 2.53789 2.93987 3.41860 5.52007 4.15641 338 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14576 4.34655 2.09813 0.61958 0.77255 0.84861 0.55864\n- 335 2.75676 5.27047 2.20485 2.11423 4.59229 2.99053 3.67722 4.08088 2.04080 3.56666 4.33332 2.17428 3.84717 2.79510 2.99824 2.43440 3.00130 3.65171 5.71023 4.27949 339 k - - -\n- 2.68625 4.42232 2.77527 2.73131 3.46337 2.40520 3.72502 3.29286 2.67748 2.69347 4.24697 2.90336 2.73747 3.18154 2.89808 2.37894 2.77495 2.98526 4.58484 3.61510\n- 0.53935 0.87497 * 0.13618 2.06108 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,887 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_11\n-LENG 288\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:59 2020\n-NSEQ 10\n-EFFN 1.127930\n-CKSUM 3294721155\n-GA 218 218;\n-STATS LOCAL MSV -10.8997 0.70164\n-STATS LOCAL VITERBI -11.8592 0.70164\n-STATS LOCAL FORWARD -4.9988 0.70164\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.79985 4.37528 2.84864 2.57198 3.16879 3.42601 3.88271 2.46955 2.55087 2.28035 3.52384 2.81315 3.91127 3.06526 3.17107 2.73749 2.93619 2.64178 5.13885 3.23849\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.00000 *\n- 1 3.32341 4.81947 4.49336 4.13392 3.44405 4.14070 4.78012 2.66179 3.87714 1.99430 0.79289 4.35848 4.61800 4.24098 4.03344 3.70452 3.64412 2.70986 5.32528 4.11468 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 2 2.75760 4.84297 3.04345 2.60484 4.08502 3.51136 3.77183 2.64904 2.25689 3.11012 3.97734 1.62569 3.95099 2.95267 2.88560 2.81575 3.00229 3.14198 5.37267 4.05888 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 3 2.74493 4.98490 3.01942 2.51827 4.29911 2.71853 3.69397 3.71856 1.58159 2.70970 4.09511 2.65888 3.90828 2.83446 2.74318 2.75731 2.97855 3.37237 5.46788 4.14457 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 4 3.41835 4.68985 5.15903 4.63856 3.36779 4.77839 5.18719 1.12465 4.48053 1.24883 3.16521 4.85580 4.97383 4.63042 4.59232 4.16992 3.65715 1.99560 5.46409 4.34125 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 5 2.63929 4.53850 3.44782 2.91242 3.91255 3.47531 3.91563 3.16968 2.69232 2.91500 3.82202 3.30488 3.96604 3.14924 2.39481 2.79248 1.51260 2.51478 5.28189 4.03149 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 6 3.30167 4.55383 5.17112 4.66348 3.66384 4.76663 5.32119 0.99068 4.56099 1.94390 3.44038 4.86072 5.00496 4.77657 4.72040 4.15949 3.55400 1.38069 5.70352 4.52936 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 7 2.72145 3.25496 3.59408 3.01881 3.65562 3.66315 3.93606 2.08938 1.70841 2.63716 3.58917 3.41471 4.06'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 281 2.99587 5.37482 0.93540 2.32894 4.86686 3.31861 3.99086 4.41409 3.04897 3.96475 4.83283 2.89202 3.98059 3.17784 3.63283 2.32493 3.34078 3.95604 6.10043 4.61760 288 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 282 3.26395 4.57200 5.05433 4.47433 2.19290 4.53216 4.82575 1.39256 4.33109 1.42618 2.51508 4.62260 4.74508 4.38557 4.38035 3.87168 3.48515 2.28756 5.12279 4.00867 289 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18412 4.25726 1.87079 0.61958 0.77255 0.48576 0.95510\n- 283 2.75425 4.30277 3.92152 3.40632 3.49276 3.81638 4.22026 1.53715 3.31163 2.37685 3.43534 2.80078 4.22236 3.62473 3.59167 3.13333 3.01583 1.73286 5.09493 3.85880 290 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02498 4.09812 4.82046 0.61958 0.77255 0.66591 0.72115\n- 284 2.71700 5.03821 1.94590 2.35399 4.30208 3.39096 3.66244 3.72671 1.95893 2.67608 4.12180 2.89300 3.84395 2.80332 2.88385 2.70315 2.95779 3.37665 5.50422 4.13062 291 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02498 4.09812 4.82046 0.61958 0.77255 0.38764 1.13525\n- 285 2.69889 4.94281 3.03558 2.27170 4.21888 3.48671 3.66428 3.63632 2.17557 2.63532 4.01588 3.00462 3.88106 2.80296 2.46441 1.92359 2.92525 3.29806 5.41314 4.08483 292 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 286 2.91087 4.40644 4.15248 3.58500 3.42866 4.00997 4.29506 1.41205 2.65273 1.76644 3.34074 3.88739 4.35464 3.71155 3.56027 3.31661 3.14480 2.17864 5.09241 3.89468 293 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 287 3.00332 4.38172 4.62503 4.05080 3.30106 4.21824 4.56674 1.50267 3.91771 1.57963 2.44066 4.24667 4.52055 4.10180 4.06217 3.53646 2.57580 2.09120 5.09185 3.94862 294 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25726 4.97961 0.61958 0.77255 0.48576 0.95510\n- 288 2.84055 4.96539 3.18351 2.65696 4.22071 3.58316 3.72680 3.61597 1.48239 2.25130 4.06381 2.62611 3.98699 2.88667 2.61696 2.87574 3.06036 3.31512 5.40566 4.11739 295 k - - -\n- 2.68622 4.42229 2.77504 2.73127 3.46358 2.40517 3.72498 3.29358 2.67745 2.69359 4.24591 2.90351 2.73743 3.18150 2.89805 2.37891 2.77523 2.98522 4.58481 3.61458\n- 0.24888 1.51265 * 0.21432 1.64552 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,986 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_12\n-LENG 321\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:59 2020\n-NSEQ 8\n-EFFN 1.136719\n-CKSUM 3041532729\n-GA 21 19;\n-STATS LOCAL MSV -11.1093 0.70075\n-STATS LOCAL VITERBI -12.0435 0.70075\n-STATS LOCAL FORWARD -5.5631 0.70075\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76269 4.56767 2.86910 2.53637 3.13678 3.36640 3.76473 2.60453 2.56545 2.29364 3.55741 2.96583 3.58727 3.05450 3.10126 2.73502 2.91107 2.64802 4.23360 3.40168\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.00000 *\n- 1 3.32828 4.82380 4.49902 4.14034 3.44773 4.14463 4.78551 2.66603 3.88327 1.99760 0.78753 4.36423 4.62228 4.24695 4.03895 3.70966 3.64926 2.71456 5.32928 4.11897 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 2 2.98407 5.09898 3.47591 2.80197 4.44173 3.70880 3.70707 2.82495 1.48127 3.31436 4.17579 3.23739 4.06796 2.84872 1.62327 3.00606 3.16967 3.47945 5.46258 4.24376 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 3 2.79094 4.71853 3.25138 1.57360 3.81077 3.64986 3.90025 2.44291 2.73870 2.27545 3.69849 3.25616 4.05060 3.10957 3.13888 2.92094 3.02806 2.70634 5.29328 4.00327 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 4 4.06356 5.28315 4.73639 4.55111 3.17720 4.21091 4.46649 4.12732 4.27913 3.44646 4.73890 4.62877 4.76363 4.64478 4.33219 4.26332 4.38767 4.02693 0.36807 3.16197 4 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 5 2.77343 4.79749 3.16560 2.68180 3.85166 3.55715 1.80304 3.40950 2.50458 3.02527 3.91079 3.15465 3.97739 2.47368 2.85673 2.84741 3.01037 2.48273 5.20322 3.84557 5 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 6 3.30910 4.61376 4.98991 4.48828 2.44412 4.57516 4.82203 0.96723 4.35798 1.88208 3.24888 4.63674 4.83891 4.49491 4.46798 3.95375 3.55429 2.04321 5.12640 3.78428 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 7 2.72749 5.21330 2.00417 2.06639 4.53422 3.40365 2.91484 4.01337 2.10325 3.50627 4.26917 2.87189 3.84669'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 314 2.76813 4.91600 3.20590 2.61765 4.19940 3.55852 3.69333 2.74542 1.59816 3.17173 4.00441 3.10183 3.94344 2.84447 2.31042 2.40801 2.98673 3.27195 5.38055 4.09544 317 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 315 2.90994 4.91135 3.40848 2.87259 4.23571 3.64343 3.85287 3.38611 1.16211 3.13783 4.08920 3.30026 4.08162 3.02660 2.62841 2.99218 3.15586 2.36875 5.46489 4.21094 318 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 316 4.04806 5.16364 4.99487 4.77654 1.11868 4.70018 3.58480 3.68004 4.59629 2.93960 4.24957 4.32815 4.98697 4.43704 4.53410 4.08912 4.26089 3.61962 3.68876 0.99326 319 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 317 3.39311 4.69197 5.08809 4.53309 1.59270 4.63181 4.75009 1.93650 4.38990 1.18671 3.00645 4.67399 4.82212 4.42228 4.44026 3.97934 3.61141 2.42296 4.97795 3.69683 320 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 318 2.35021 5.35798 1.70012 1.75120 4.68809 3.36968 3.77122 4.17732 2.65551 3.68010 4.47329 2.84542 3.89981 2.90760 3.19588 2.32112 3.12213 3.75270 5.84116 4.39240 321 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 319 2.72138 5.20540 2.38478 2.06170 4.53056 3.40179 3.66026 4.00994 2.43709 3.50313 4.26497 2.34330 3.84410 2.77343 2.43446 2.08005 2.96065 3.58818 5.64911 4.23522 322 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26173 4.98407 0.61958 0.77255 0.48576 0.95510\n- 320 2.99317 4.42073 4.42199 3.87000 2.99261 4.10125 4.23628 2.46218 3.71594 1.28342 3.21364 4.05724 4.42757 3.92157 3.87801 3.41337 3.22570 2.03797 4.70865 2.16092 323 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11695 4.26173 2.34055 0.61958 0.77255 0.48576 0.95510\n- 321 2.81104 4.30888 4.15367 3.62362 3.40294 3.90121 4.31428 1.38455 3.48762 1.95272 3.35345 3.88253 4.29856 3.78048 3.71729 2.55175 3.07296 2.07348 5.05682 3.83298 324 i - - -\n- 2.68607 4.42238 2.77481 2.73136 3.46366 2.40525 3.72507 3.29325 2.67753 2.69344 4.24702 2.90359 2.73752 3.18159 2.89813 2.37899 2.77481 2.98499 4.58489 3.61516\n- 0.21478 1.64360 * 1.19265 0.36157 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,872 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_13\n-LENG 283\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:59 2020\n-NSEQ 6\n-EFFN 0.594727\n-CKSUM 2676188522\n-GA 48 47;\n-STATS LOCAL MSV -10.8754 0.70175\n-STATS LOCAL VITERBI -11.9262 0.70175\n-STATS LOCAL FORWARD -5.0538 0.70175\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.75116 4.42780 2.86682 2.57101 3.02528 3.24456 3.61071 2.59392 2.64053 2.27775 3.56835 2.91814 3.64919 3.09889 3.12169 2.76252 2.91743 2.63521 5.06734 3.34951\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.00000 *\n- 1 3.02314 4.56137 4.12245 3.72122 3.23830 3.88478 4.44067 2.42071 3.48552 1.82296 1.25372 3.99028 4.34594 3.86305 3.68284 3.37924 3.32987 2.43464 5.08805 3.85569 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 2 3.03438 5.00059 3.21487 2.82380 4.40252 3.51641 3.79735 3.83606 0.94913 3.38642 4.34435 3.24524 4.01207 2.98508 2.44538 3.07199 3.28267 3.54006 5.42941 4.25198 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 3 3.18936 4.53526 4.68788 4.16516 3.17873 4.43314 4.79016 1.51297 3.99284 1.19278 3.01494 4.43220 4.68071 4.21681 4.16252 3.80268 3.43094 1.95760 5.20697 4.04147 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 4 1.79208 4.20985 3.88458 3.48151 3.72581 3.40000 4.36113 2.31884 3.40349 2.52554 3.63169 3.65667 4.02049 3.71907 3.66730 2.82060 2.90407 1.46892 5.35575 4.13330 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 5 2.24774 4.21568 3.16071 2.95819 4.33166 1.63921 4.14528 3.80189 3.12084 3.47059 4.29971 3.19334 3.67199 3.40714 3.45392 1.61052 2.73268 3.23618 5.65003 4.40827 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 6 2.81468 5.08198 2.56139 1.77727 4.19231 3.34411 2.09936 3.82106 2.43642 3.36282 4.22298 2.86255 3.85539 2.85128 2.83551 2.78735 3.06536 3.47830 5.43573 4.02978 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 7 2.96797 4.38347 4.41644 3.86138 1.94632 4.11127 4.34205 2.21822 3.74152 1.67337 2.45112 4.08624 4.41092'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 276 3.48964 4.77581 4.48238 4.13582 1.26241 4.27555 3.45939 3.18791 3.99207 2.54314 3.79657 3.97985 4.59421 4.01204 4.06414 3.63755 3.71548 3.11165 3.62091 1.35236 276 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 277 3.09882 4.47116 4.55154 4.04668 1.80335 4.23853 4.32945 1.64743 3.91788 1.72933 3.07873 4.21643 4.53451 4.07496 4.06354 3.59129 3.34097 2.15376 4.67343 3.23865 277 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 278 2.89407 5.09715 2.97769 2.54412 4.45209 3.49250 3.61619 3.86700 1.61523 3.35438 4.21685 3.01769 3.92520 1.86044 2.33376 2.88078 3.10325 3.53425 5.45734 4.19639 278 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 279 3.34516 4.72707 4.33172 4.05922 0.90690 4.01882 3.90809 2.86061 3.96457 2.21510 3.58083 4.09587 4.47597 4.11389 4.06753 3.61153 3.64637 2.85627 4.13728 2.49588 279 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 280 3.08088 4.47085 4.53644 3.99583 3.17981 4.27665 4.64126 1.57627 3.83433 1.63987 1.91618 4.26492 4.55708 4.06583 4.01808 3.62350 3.32310 2.02276 5.14210 3.99908 280 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 281 2.78016 4.77877 2.74677 2.63914 4.15296 3.22984 3.97654 3.87805 2.88596 3.51727 4.47219 1.04332 3.88508 3.24950 3.24285 2.84482 3.16432 3.49341 5.45111 4.09649 281 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 282 2.86740 5.01123 3.00875 2.57041 4.14388 3.49409 2.10569 3.75898 1.66769 3.27531 4.14445 3.03920 3.92631 2.79612 2.40723 2.87256 3.08270 3.44049 5.30202 3.97042 282 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02931 3.94034 4.66269 0.61958 0.77255 0.48576 0.95510\n- 283 3.34570 4.80719 3.93862 3.68083 2.29698 3.90933 3.65121 3.34549 3.53640 2.78190 4.01351 3.80740 4.38165 3.82614 3.70616 3.47562 3.63274 3.21927 3.94331 0.86001 283 y - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90302 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.22793 1.59053 * 0.27760 1.41716 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,794 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_14\n-LENG 257\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:59 2020\n-NSEQ 6\n-EFFN 0.987305\n-CKSUM 3498678506\n-GA 115 115;\n-STATS LOCAL MSV -10.6025 0.70264\n-STATS LOCAL VITERBI -11.7978 0.70264\n-STATS LOCAL FORWARD -5.1091 0.70264\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.83307 4.62018 2.92120 2.55911 2.96133 3.44132 3.91652 2.39308 2.56889 2.28694 3.62767 2.65341 3.93863 3.20823 3.22317 2.73739 2.96272 2.64060 4.92361 3.34904\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.00000 *\n- 1 3.26340 4.65040 4.69809 4.17658 2.20282 4.37566 4.51183 2.41817 4.02877 1.64227 1.32069 4.37012 4.64939 4.16788 4.15937 3.72891 3.49952 2.51781 4.84647 3.49799 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 2 3.05824 4.45351 4.59450 4.01443 2.99757 4.20217 4.39188 2.43427 3.83612 1.09443 2.30830 4.19913 4.48127 4.00128 3.95836 3.51663 3.28078 2.48896 2.98651 3.57157 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 3 2.92742 5.20645 2.85418 2.52387 4.59694 3.49125 3.74438 4.05335 1.49739 3.55284 4.38947 1.76301 3.97457 2.88886 2.63087 2.90254 3.16934 3.67809 5.64265 4.32685 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 4 3.25962 4.58885 4.84316 4.34138 1.53184 4.43542 4.48827 1.51164 4.20081 1.81505 3.17480 4.45085 4.71039 4.31011 4.29704 3.79732 3.49849 2.24196 4.76707 3.32424 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14414 4.18293 2.12878 0.61958 0.77255 0.48576 0.95510\n- 5 3.66028 4.89573 4.66596 4.35570 0.99661 4.41811 3.51680 3.31616 4.19927 2.63877 3.91458 4.11125 4.72727 4.16602 4.22755 3.79098 3.88356 3.25203 3.65602 1.47861 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02584 4.06463 4.78697 0.61958 0.77255 0.61589 0.77688\n- 6 2.89452 4.89017 2.83309 2.74016 4.28516 3.32237 4.09338 4.04154 3.01579 3.66759 4.62488 0.85796 3.98550 3.36995 3.37401 2.95655 3.28486 3.64403 5.56917 4.22239 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02584 4.06463 4.78697 0.61958 0.77255 0.61589 0.77688\n- 7 2.91532 5.34526 1.84133 2.20404 4.68021 3.25519 3.82158 4.24138 2.81773 3.77483 4.63047 1.36414 3.876'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 250 2.72368 4.86194 2.46527 2.50614 4.06927 3.47346 3.71970 3.44626 1.99436 1.95680 3.94112 3.01908 3.90301 2.89074 2.90759 2.76369 2.95998 3.15648 5.35945 4.03447 252 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 251 3.28156 4.62918 4.75559 4.39241 3.60371 4.38644 5.07390 0.75896 4.22717 2.13781 3.50275 4.59635 4.79819 4.55047 4.39003 3.92204 3.57934 1.90601 5.55089 4.30899 253 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14414 4.18293 2.12878 0.61958 0.77255 0.48576 0.95510\n- 252 3.15755 5.11964 3.34569 2.93649 4.55029 3.62145 3.88018 3.99276 0.80236 3.51796 4.47306 3.35093 4.11152 3.06365 2.48726 3.18931 3.39849 3.69117 5.52890 4.37133 254 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02584 4.06463 4.78697 0.61958 0.77255 0.41222 1.08523\n- 253 2.66164 4.81783 3.00668 2.49891 4.04291 3.45803 3.67700 3.47617 2.16532 3.08490 3.91285 2.30382 3.86693 2.84109 2.86822 2.70273 2.27801 3.16185 5.31328 2.95624 255 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 254 2.64761 4.61769 3.21160 2.70022 3.89255 3.47652 3.78514 2.54010 2.16910 2.92076 3.79716 3.15563 3.91733 2.99523 2.94191 1.76613 2.90760 2.93840 5.23415 3.95472 256 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02292 4.18293 4.90528 0.61958 0.77255 0.48576 0.95510\n- 255 3.03713 4.63824 3.94643 3.45885 1.22469 3.88329 3.87820 3.04261 3.14169 2.53852 3.66859 3.71633 4.29794 3.57238 2.33570 3.25489 3.29159 2.91094 4.44600 2.87622 257 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14655 4.18293 2.11144 0.61958 0.77255 0.48576 0.95510\n- 256 3.35047 4.68900 4.74201 4.26089 1.57009 4.43650 4.29976 2.41905 4.11111 1.18402 3.05808 4.37878 4.68717 4.20260 4.21203 3.80489 3.58055 2.52476 4.53029 3.02524 258 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02590 4.06228 4.78463 0.61958 0.77255 0.61817 0.77421\n- 257 2.84278 5.28379 2.49208 1.50115 4.60607 3.34794 3.68795 4.07100 2.09901 3.56985 4.38326 2.35296 3.86261 2.82791 2.88683 2.77942 3.09116 3.67383 5.71189 4.31251 259 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01751 4.05389 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,692 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_3\n-LENG 223\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:57 2020\n-NSEQ 23\n-EFFN 2.905884\n-CKSUM 1346469855\n-GA 80 80;\n-STATS LOCAL MSV -10.5687 0.70409\n-STATS LOCAL VITERBI -11.0596 0.70409\n-STATS LOCAL FORWARD -5.1177 0.70409\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.78731 4.33709 2.87697 2.47997 3.09797 3.45648 3.86530 2.53066 2.58177 2.17046 3.49226 2.97727 3.87892 3.07823 3.14152 2.72436 2.96728 2.66442 4.99375 3.39522\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.00000 *\n- 1 4.21053 5.63011 5.41967 5.20750 4.21755 4.80487 5.71515 3.54085 4.93964 2.74415 0.26402 5.33480 5.35279 5.27886 4.99844 4.60532 4.58287 3.65196 6.08697 4.93284 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 2 3.24492 5.49779 3.63978 2.98996 4.88823 3.95935 3.97441 2.56435 1.07170 3.74293 4.56302 2.63300 4.32223 3.09666 1.92079 3.23299 3.43457 3.91832 5.83636 4.58758 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 3 4.10709 5.31227 6.05799 5.46841 2.89868 5.49441 5.77118 2.14490 5.33363 0.51242 2.84809 5.66022 5.50217 5.16069 5.25400 4.88441 4.30533 2.52735 5.74493 4.80668 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 4 2.61852 4.26786 4.69026 4.08533 2.96106 4.02684 4.35408 2.11914 3.90213 1.97006 2.95697 4.13999 4.39101 3.37551 3.96237 2.94858 2.79761 1.40215 4.89267 3.71317 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 5 2.86762 4.50138 3.89703 3.32684 2.41071 3.88294 2.71084 2.67822 3.26427 2.48817 3.60943 2.55362 4.25903 3.54595 3.57516 2.59885 2.81198 2.76867 5.05285 2.04305 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 6 2.61211 5.31961 3.09589 2.21374 4.65286 3.27679 3.80380 3.62081 2.11514 3.61977 4.36352 2.82584 3.09587 2.31668 3.03346 1.85219 3.06883 3.70391 5.75935 3.56352 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 7 2.88645 5.36517 1.76040 2.41385 4.69091 2.16986 3.84439 4.16824 2.23268 3.17924 4.41346 2.62312 4.04098'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 216 3.74831 4.97379 5.78206 5.24604 3.04764 5.21210 5.67343 0.86328 5.13096 1.54222 3.58891 5.37023 5.38797 5.19222 5.16891 4.60030 3.98378 1.74103 5.88450 4.78710 225 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 217 4.47036 6.42291 0.15987 3.55258 6.03018 4.35585 5.28142 5.93423 4.59536 5.35408 6.44400 4.12926 5.06419 4.58369 5.16138 4.38311 4.85028 5.48737 6.92171 5.86371 226 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 218 2.84667 5.33665 2.81478 2.38681 4.67563 3.62026 3.80597 3.46233 1.66944 2.93790 4.37966 2.25547 4.01388 2.17809 2.82127 2.81226 3.07724 3.72418 5.77128 4.36763 227 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 219 3.39871 5.93015 0.67742 2.63164 4.88084 3.75477 3.28483 4.71701 3.20873 4.20024 5.04551 2.73490 4.34138 3.39557 3.77893 3.29670 3.67283 4.30465 6.17842 3.42523 228 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 220 2.87347 4.54318 3.82749 3.26200 1.98565 3.08698 4.12124 3.03161 2.90758 1.54268 3.65009 2.80518 4.24606 3.48879 2.98521 3.12464 3.10494 2.81421 5.12166 3.89202 229 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 221 2.88633 1.20067 4.59764 4.03576 3.55813 3.28506 4.45953 2.33066 3.87672 2.04923 3.56694 4.12041 4.40128 4.07881 3.99931 2.88228 3.16517 2.59537 5.08799 3.90234 230 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 222 2.89400 4.80603 3.49381 1.33428 3.31943 3.79495 4.02452 3.27824 2.92373 2.46562 3.86474 3.42002 4.18112 2.91337 3.33494 3.02693 3.12599 2.14667 5.35301 4.07536 231 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01110 4.90209 5.62444 0.61958 0.77255 0.48576 0.95510\n- 223 2.88292 4.40784 4.17888 3.60043 3.52076 3.95024 3.47488 1.12617 3.06174 2.21711 3.52239 3.86647 4.32446 3.73635 3.67239 2.87877 2.80340 2.64451 5.01691 3.81711 232 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00749 4.89848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,677 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_4\n-LENG 218\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:57 2020\n-NSEQ 12\n-EFFN 0.758789\n-CKSUM 321131578\n-GA 230 230;\n-STATS LOCAL MSV -10.5045 0.70434\n-STATS LOCAL VITERBI -11.3962 0.70434\n-STATS LOCAL FORWARD -4.9377 0.70434\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73616 4.49629 2.90352 2.55636 3.17878 3.38059 3.87875 2.50902 2.65358 2.13632 3.53558 3.08470 3.83161 3.08258 3.19550 2.79322 2.90744 2.47753 5.07621 3.32262\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.00000 *\n- 1 3.12615 4.56144 4.49543 3.95240 3.16928 4.25910 4.61302 2.20583 3.76659 1.53179 1.47018 4.23522 4.55588 4.01809 3.96001 3.60412 3.37293 2.10401 5.13736 3.98928 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 2 2.86906 5.13303 3.04880 2.54716 4.52283 3.52155 3.62247 3.92824 1.51634 3.40714 4.23262 2.21996 3.93112 2.75243 2.16335 2.85082 3.07585 3.57045 5.50141 4.23089 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 3 3.16063 4.47307 4.85259 4.29721 2.90671 4.47102 4.82721 1.40469 4.18560 1.40178 3.06144 4.51002 4.70272 4.32278 4.31637 3.81606 3.39318 1.75917 5.20890 4.06922 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 4 2.87931 4.87574 2.82111 2.72621 4.26801 3.31004 4.07758 4.02015 2.99819 3.64783 4.60465 0.87973 3.97208 3.35350 3.35640 2.94155 3.26875 3.62429 5.55383 4.20588 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 5 2.83600 4.44997 3.91146 3.55354 1.22931 3.66860 3.86095 2.93859 3.49032 2.53236 3.65764 3.70138 4.19257 3.72864 3.70310 2.53243 3.16769 2.77066 4.30697 2.70090 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 6 2.59892 4.77502 2.92898 2.45431 4.10245 3.36831 3.13321 3.52384 2.33132 3.12211 3.94091 2.95877 2.81500 2.82079 2.87146 2.02799 2.66595 3.18384 5.35217 4.02476 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 7 3.31955 4.65830 4.81506 4.29309 3.14487 4.54672 4.87782 1.81530 4.10454 0.89945 2.97300 4.55926 4.7671'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 211 2.86688 5.31680 1.29201 2.17525 4.70815 3.23066 3.79446 4.23156 2.79092 3.75483 4.59368 2.38404 3.84867 2.96256 3.36251 2.39963 3.17379 3.79501 5.91454 4.43503 211 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 212 3.00470 4.62284 2.92783 3.26096 1.97928 3.86096 3.60452 3.13133 3.25212 2.69253 3.73360 3.54160 4.23928 3.47892 3.55340 3.16190 3.23847 2.94587 4.05496 1.45219 212 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 213 2.79074 3.40689 4.27912 3.73018 1.83493 3.86899 3.87350 2.35436 3.58984 2.21904 3.26116 3.83153 4.22260 3.75437 3.72199 3.17377 3.02338 2.40289 4.28563 2.13630 213 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 214 3.36360 4.71389 4.75521 4.25786 2.43142 4.49120 4.57412 2.30673 4.10834 0.83826 2.95420 4.46964 4.72102 4.23013 4.23233 3.87064 3.59545 2.44078 4.83938 3.47703 214 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 215 2.56497 3.69781 3.08515 2.59975 3.50390 3.51577 3.75993 2.60577 2.73625 2.21529 3.15390 3.20830 3.89781 2.88574 3.11495 2.54751 2.79690 2.62941 4.92872 3.68122 215 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 216 2.56914 4.40713 3.27354 2.55145 3.56714 3.24556 3.74167 2.93567 2.68336 2.36130 3.51011 3.16725 3.44856 3.01074 3.07300 2.73414 2.47074 2.57196 4.97611 2.87099 216 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 217 2.60222 4.86838 2.55572 1.95845 4.12029 3.39083 3.60778 3.54582 2.31072 2.89479 3.93624 2.90346 3.79536 2.74769 2.86501 2.61538 2.83520 2.89113 5.35467 3.53563 217 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02625 4.04896 4.77131 0.61958 0.77255 0.48576 0.95510\n- 218 2.62658 4.79364 3.01208 2.47154 4.04669 3.43159 3.63038 3.45195 2.00356 2.84953 3.40306 2.31170 3.83093 2.78621 2.77312 2.49912 2.85779 3.13553 5.29268 3.97467 218 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01775 4.04045 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1052 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_5\n-LENG 343\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:58 2020\n-NSEQ 11\n-EFFN 2.006104\n-CKSUM 3624345262\n-GA 122 122;\n-STATS LOCAL MSV -11.3085 0.70027\n-STATS LOCAL VITERBI -11.9788 0.70027\n-STATS LOCAL FORWARD -5.7689 0.70027\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.83593 4.50735 2.94247 2.52822 3.16308 3.36334 3.81335 2.60133 2.59040 2.26946 3.54264 2.85040 3.69201 2.95787 3.13818 2.65943 2.90194 2.69239 4.83513 3.25164\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.00000 *\n- 1 2.72903 4.46784 3.43919 2.88900 3.68285 3.63744 3.86070 3.07462 2.39358 2.77488 1.59580 3.32142 3.99979 3.16195 3.20959 2.47692 2.95564 2.83874 4.95989 3.83096 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 2 2.96588 5.36332 3.26263 2.66414 4.75725 3.69419 3.77741 4.18582 1.56881 3.63510 4.41453 2.55612 4.07167 2.36262 1.82219 2.93285 2.58217 3.78521 5.72167 4.40651 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 3 3.08378 4.43189 5.00571 4.39702 2.65253 4.28177 4.59771 2.09708 4.20286 1.18651 2.37926 4.43115 4.58291 4.28195 4.20788 3.60244 3.30926 2.11180 3.30499 3.86636 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 4 2.74332 5.11440 3.05079 2.20516 3.40727 3.53869 3.19195 3.85667 2.21903 2.92974 4.16961 2.50680 3.93052 2.84706 2.50641 2.73424 2.16470 3.47689 5.57832 4.20384 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 5 3.45777 4.72894 5.39903 4.83645 1.99979 4.80533 5.16472 1.12221 4.69360 1.65110 3.32192 4.94031 5.02387 4.75711 4.72626 4.16340 3.68800 1.92571 5.44491 4.30780 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 6 2.79496 5.23747 2.97988 1.93798 4.56419 3.54133 3.74849 4.02991 2.17456 3.53314 4.29409 3.02056 3.95084 2.52288 2.95624 2.21258 1.91046 3.62047 5.68330 4.29210 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 7 2.78348 4.92441 3.16137 2.28219 4.06670 3.60457 1.81804 2.87575 2.62545 3.17147 4.00241 2.61065 4.00'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 336 2.74098 5.14066 3.03244 2.25650 4.44293 3.53114 3.72342 3.89907 2.26446 3.42713 3.15639 2.57107 2.93634 2.19691 2.95810 2.40126 2.97211 2.82146 5.59962 4.21709 354 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 337 2.42457 4.35801 4.45955 3.87486 3.35265 4.05012 4.37202 2.16301 3.74223 1.19470 2.82479 4.06430 2.99565 3.94129 3.89714 3.34930 3.15080 2.44435 4.98152 3.81454 355 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 338 3.18023 5.27362 3.08529 0.94563 4.32464 3.77842 4.15040 3.63549 2.97363 1.97826 4.27336 3.35758 4.28010 3.34635 3.38000 3.21602 3.44031 3.44010 5.74613 4.40531 356 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 339 2.74213 4.46901 3.60874 2.17388 3.60408 3.71874 3.97049 2.41537 2.99457 2.13638 2.83175 3.45039 4.09798 2.81072 3.35028 2.96275 2.53640 2.73946 5.04957 2.97314 357 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 340 2.39365 5.29265 2.49871 2.43992 4.63014 3.52270 3.74120 4.11343 1.89303 3.59457 4.34128 2.03468 3.93834 2.40341 2.98542 2.49586 3.02628 3.68045 5.72885 4.31663 358 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 341 4.61933 5.59072 5.47471 5.38248 0.64289 5.13627 3.83698 4.17572 5.17027 3.34172 4.71048 4.70162 5.40007 4.86216 4.99717 4.54958 4.82020 4.14017 3.91550 1.28586 359 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 342 4.03253 5.24742 5.70553 5.20834 2.27494 5.27072 5.21202 2.65783 5.05355 0.49312 3.15973 5.33633 5.33383 4.93279 5.01434 4.69460 4.23888 2.93886 5.23777 3.91801 360 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62698 5.34933 0.61958 0.77255 0.48576 0.95510\n- 343 2.75824 5.18909 3.03593 2.10581 4.50880 3.53863 3.72095 3.97104 1.83905 2.87418 4.23824 2.56401 3.93071 2.82840 2.47351 2.46394 2.98763 3.56655 5.63285 3.19684 361 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00988 4.62222 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,680 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_6\n-LENG 219\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:58 2020\n-NSEQ 19\n-EFFN 2.342529\n-CKSUM 2359018027\n-GA 84 84;\n-STATS LOCAL MSV -10.5869 0.70428\n-STATS LOCAL VITERBI -11.2124 0.70428\n-STATS LOCAL FORWARD -4.9214 0.70428\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76870 4.48541 2.73259 2.61762 3.18166 3.35262 3.74013 2.61083 2.62471 2.29014 3.60312 2.86955 3.72760 2.97891 3.17641 2.72878 2.84838 2.63048 4.74135 3.32684\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.00000 *\n- 1 2.80032 5.22241 3.08306 2.52497 4.54103 3.58165 3.76345 3.12190 1.65651 3.51200 4.27326 2.41391 3.97359 2.59522 2.75300 2.24186 2.65733 3.59941 5.66804 4.28572 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 2 3.80658 5.03242 5.76514 5.20113 2.98504 5.21185 5.56132 1.27104 5.07314 0.89145 3.27073 5.36134 5.31382 5.02235 5.06029 4.59531 4.02446 2.26097 5.66112 4.63726 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 3 2.35805 4.49488 3.67958 3.11313 3.63594 3.76236 4.02639 2.74073 3.06471 2.71062 3.60420 3.51255 4.14582 3.00741 3.41371 2.43798 1.68158 2.35566 5.08386 3.00014 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 4 2.82039 3.32202 4.56387 3.96624 2.61730 3.96276 4.25614 2.27599 3.79403 2.39824 3.33848 4.04638 4.32687 3.96296 3.15927 3.26554 3.05258 2.19290 4.79646 1.51507 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 5 2.44664 4.42537 3.80348 2.72344 2.28654 3.79848 3.43645 2.90569 3.17030 2.44291 3.53265 3.59599 4.17512 3.45558 3.17293 3.05435 2.76688 2.47964 5.01334 2.05747 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 6 2.67420 4.65884 3.89270 3.54244 4.87964 2.53537 4.64445 4.33099 3.59595 3.97156 4.76160 3.72797 1.09067 3.87768 3.94818 1.83085 2.16963 3.72265 6.17913 4.95695 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 7 4.05225 5.39970 4.82557 4.44742 1.53878 4.78229 1.34481 4.01833 4.34457 3.38541 4.56833 3.00712 5.10040'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 212 3.62834 4.86161 5.59921 5.09541 2.92051 5.09179 5.56311 0.63540 4.99297 2.25400 3.61991 5.23041 5.30543 5.12069 5.08410 4.49230 3.87646 1.85614 5.81678 4.59909 228 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 213 4.19668 6.21199 0.21363 3.29793 5.77255 4.13224 5.02349 5.61942 4.30348 5.07356 6.14026 3.87412 4.83707 4.31067 4.87556 4.10972 4.57075 5.18349 6.71907 5.59835 229 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 214 2.95708 5.43597 3.02775 1.27729 4.79606 3.64327 3.83533 4.26255 2.26129 3.72336 4.48702 2.31380 4.06423 2.67864 2.40804 2.91009 3.18370 3.83782 5.83329 4.45296 230 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 215 4.19668 6.21199 0.21363 3.29793 5.77255 4.13224 5.02349 5.61942 4.30348 5.07356 6.14026 3.87412 4.83707 4.31067 4.87556 4.10972 4.57075 5.18349 6.71907 5.59835 231 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 216 4.18926 5.36767 5.28579 4.99005 0.85230 4.94607 2.10444 3.93429 4.80782 2.33150 4.51056 4.61494 5.23775 4.69843 4.77513 4.30361 4.40018 3.82190 4.05935 1.71879 232 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 217 3.62937 4.83775 5.68839 5.24897 4.21557 5.21647 6.04268 1.54184 5.18640 2.62711 3.94735 5.40628 5.46773 5.46245 5.36511 4.67100 3.90085 0.56513 6.36217 5.12637 233 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 218 3.05415 5.58179 1.27448 2.32295 4.91506 3.62197 3.92905 4.40408 2.70371 3.87091 4.64687 3.08094 4.10793 2.33486 2.04158 2.98578 3.29774 3.97093 5.99649 4.57053 234 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73889 5.46123 0.61958 0.77255 0.48576 0.95510\n- 219 4.13489 5.36013 5.17907 4.88776 1.31671 4.87673 3.95666 3.93799 4.69473 3.30794 4.51979 3.14766 5.19987 4.65714 4.69714 4.25159 4.36202 3.81942 0.95456 2.36188 235 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00882 4.73463 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,788 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_7\n-LENG 255\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:58 2020\n-NSEQ 12\n-EFFN 0.688477\n-CKSUM 2268560745\n-GA 50 49;\n-STATS LOCAL MSV -10.8964 0.70273\n-STATS LOCAL VITERBI -11.8173 0.70273\n-STATS LOCAL FORWARD -5.1089 0.70273\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.80262 4.53227 2.82052 2.58101 3.01230 3.30837 3.77649 2.50076 2.55214 2.30972 3.60327 2.76665 3.89898 3.16762 3.16063 2.77933 2.96166 2.62993 4.87814 3.29533\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05075 4.00385 3.46621 0.61958 0.77255 0.00000 *\n- 1 3.16806 4.59724 4.47974 3.94639 3.08669 4.28306 4.58852 2.22915 3.73211 1.32584 1.59677 4.23989 4.56004 3.99542 3.91753 3.63898 3.40798 2.31073 5.07895 3.91710 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98122 4.70356 0.61958 0.77255 0.50880 0.91934\n- 2 2.94992 5.13858 3.06795 2.60545 4.51695 3.54062 3.62756 3.92025 1.31960 3.39183 4.25828 3.06560 3.96343 2.20850 2.27977 2.93521 3.15005 3.58941 5.47603 4.23586 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98122 4.70356 0.61958 0.77255 0.50880 0.91934\n- 3 3.11464 4.46852 4.64137 4.13107 2.31081 4.31239 4.52650 1.29536 4.00579 1.75244 3.10368 4.32087 4.60001 4.17524 4.15494 3.67163 3.35903 2.01202 4.89804 3.54028 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98122 4.70356 0.61958 0.77255 0.50880 0.91934\n- 4 2.79289 4.90416 3.15388 2.60192 4.15211 3.52708 3.62604 3.54038 1.66225 2.48705 3.97450 3.06817 3.91781 2.32247 2.43456 2.82605 3.00119 3.25322 5.31290 4.04493 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98122 4.70356 0.61958 0.77255 0.50880 0.91934\n- 5 2.70579 4.32959 3.67149 3.15464 3.37989 3.70611 4.01350 1.81262 3.03582 1.99841 3.37412 2.70252 4.10062 3.38457 3.33640 3.00610 2.95426 2.22973 4.95987 3.69154 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98122 4.70356 0.61958 0.77255 0.50880 0.91934\n- 6 2.86514 4.68422 3.36161 2.92193 3.07737 3.62490 1.77154 3.16589 2.66026 2.13851 3.75929 3.31566 4.05890 3.15739 2.94796 2.98627 3.11401 2.98031 4.63096 3.09543 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98122 4.70356 0.61958 0.77255 0.50880 0.91934\n- 7 2.81558 5.04969 2.66499 2.41087 4.41223 3.35317 3.70439 3.88802 1.94483 3.43547 4.28881 1.63770 3.87648'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00385 4.72619 0.61958 0.77255 0.48576 0.95510\n- 248 3.09573 5.06108 3.28022 2.87924 4.47760 3.56917 3.83764 3.91552 0.87172 3.45280 4.40879 3.29731 4.06157 3.02283 2.46426 3.13005 3.34004 3.61648 5.47951 4.31192 250 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00385 4.72619 0.61958 0.77255 0.48576 0.95510\n- 249 2.71460 4.96033 2.52518 1.61964 4.40762 3.25375 3.76383 3.85379 2.62191 3.44503 4.28855 2.86223 3.82548 2.93481 3.07865 1.83660 3.02080 3.46534 5.63547 4.25594 251 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00385 4.72619 0.61958 0.77255 0.48576 0.95510\n- 250 3.30500 4.72926 4.39994 4.04202 3.18995 4.14795 4.65664 2.40291 3.80846 0.72889 3.17481 4.30470 4.56177 4.14527 3.96238 3.73655 3.59387 2.47404 5.11522 3.86833 252 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14283 4.00385 2.16409 0.61958 0.77255 0.48576 0.95510\n- 251 2.98948 4.95441 3.16678 2.78439 4.34525 3.47706 3.76945 3.77569 1.01214 3.33646 4.29669 3.20807 3.97589 2.95970 2.43470 3.03009 3.24121 3.48232 5.39183 4.20730 253 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03079 3.89180 4.61415 0.61958 0.77255 0.59046 0.80760\n- 252 2.74650 4.63871 3.30028 2.77615 3.80763 3.54914 3.75400 2.33500 1.68516 2.71331 3.72182 3.20659 3.96407 2.96483 2.65084 2.87700 2.98346 2.72027 5.18346 3.91738 254 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03079 3.89180 4.61415 0.61958 0.77255 0.42545 1.05980\n- 253 2.68332 4.68395 3.06615 2.59506 2.70869 3.48850 2.39710 3.29190 2.56546 2.90333 3.78869 2.52291 3.89929 2.80624 2.96644 2.75762 2.91864 3.01972 4.83833 3.35495 255 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00385 4.72619 0.61958 0.77255 0.48576 0.95510\n- 254 3.16129 4.49227 4.77114 4.21898 2.33939 4.40651 4.63276 1.48099 4.09278 1.39734 2.98242 4.41839 4.63936 4.21421 4.21391 3.74599 3.38921 2.09242 4.97632 3.73046 256 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00385 4.72619 0.61958 0.77255 0.48576 0.95510\n- 255 2.65513 4.71559 2.98298 2.52926 2.87303 3.43314 3.66693 3.33697 2.15410 2.96741 3.83530 2.12131 3.86233 2.88050 2.87226 2.71941 2.89725 3.04984 5.12769 3.75125 257 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01858 3.99495 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,950 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_8\n-LENG 309\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:58 2020\n-NSEQ 3\n-EFFN 0.454102\n-CKSUM 1645931904\n-GA 87 87;\n-STATS LOCAL MSV -11.4880 0.70105\n-STATS LOCAL VITERBI -12.0202 0.70105\n-STATS LOCAL FORWARD -5.4195 0.70105\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.78440 4.26791 2.83147 2.74374 2.95639 3.30339 3.93335 2.47436 2.67725 2.26871 3.59934 2.67384 3.76065 3.24587 3.22705 2.72255 3.00322 2.60510 4.86284 3.19311\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.00000 *\n- 1 2.94190 4.49652 4.01144 3.60267 3.19328 3.80752 4.34609 2.36537 3.37252 1.79376 1.44801 3.88442 4.26833 3.75700 3.58193 3.28707 3.24672 2.36723 5.02908 3.78744 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 2 2.94036 4.90159 3.11392 2.74278 4.27986 3.43307 3.74090 3.70703 1.08817 3.28019 4.24408 3.16863 3.93637 2.93480 2.42690 2.98500 3.19656 3.41702 5.34960 4.15744 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 3 2.95974 4.35052 4.47545 3.98328 3.44219 4.18496 4.74236 1.51113 3.85612 1.97968 3.28107 4.23513 4.54755 4.15059 4.08360 3.56538 3.23666 1.25198 5.36064 4.13999 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 4 2.60491 4.27451 3.72773 3.26880 3.53188 3.53524 4.17077 1.89275 3.14317 2.31022 3.45080 3.56507 4.05189 3.50597 3.43058 2.91083 1.95381 2.10414 5.17236 3.93166 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 5 2.69481 4.68927 2.69030 2.57246 4.04729 3.16078 3.89379 3.75053 2.79480 3.40163 4.35752 1.22278 3.81116 3.16695 3.14785 2.76366 3.07578 3.37635 5.35739 3.99855 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 6 2.94036 4.90159 3.11392 2.74278 4.27986 3.43307 3.74090 3.70703 1.08817 3.28019 4.24408 3.16863 3.93637 2.93480 2.42690 2.98500 3.19656 3.41702 5.34960 4.15744 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 7 2.59945 4.47556 3.10470 2.73157 3.62501 3.38160 3.81922 2.27805 2.69390 2.70769 3.70222 2.07704 3.88698 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 302 2.78010 4.33317 4.07550 3.73808 3.52466 3.68642 4.54616 2.05401 3.60530 2.21828 3.49579 3.93347 4.24932 3.96792 3.82113 3.18815 3.14277 1.07114 5.30288 4.03203 302 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 303 3.21381 4.62626 4.18968 3.89787 1.07193 3.91098 3.86281 2.74242 3.80591 2.12098 3.47821 3.97935 4.37076 3.98386 3.93443 3.48527 3.51513 2.73041 4.12335 2.49519 303 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 304 2.85365 4.83720 2.88061 2.63544 4.00086 3.34314 3.79321 3.62673 2.45886 3.13257 4.16207 3.09462 3.89649 1.29884 2.74347 2.90320 3.15094 3.35882 5.27952 3.97110 304 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 305 3.19664 4.70006 3.78606 3.50925 2.29569 3.78896 3.60349 3.21093 3.36780 2.67393 3.88982 3.68029 4.26389 3.68239 3.55861 3.33670 3.48329 3.07987 3.93791 1.02720 305 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 306 3.11302 4.49971 4.49634 3.97988 3.12809 4.29989 4.64260 1.66165 3.79562 1.20647 2.99122 4.26748 4.57567 4.05940 3.98982 3.66632 3.35891 1.96779 5.12536 3.92834 306 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 307 3.00341 4.43279 4.28393 3.89883 3.35077 4.02713 4.63395 1.12320 3.72623 1.94475 3.29234 4.14920 4.46227 4.07854 3.92692 3.51945 3.30343 1.84653 5.23382 3.96866 307 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 308 2.69481 4.68927 2.69030 2.57246 4.04729 3.16078 3.89379 3.75053 2.79480 3.40163 4.35752 1.22278 3.81116 3.16695 3.14785 2.76366 3.07578 3.37635 5.35739 3.99855 308 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83682 4.55917 0.61958 0.77255 0.48576 0.95510\n- 309 2.63865 4.56918 3.00129 2.66533 3.60205 3.35599 3.76759 3.08630 2.61465 2.21090 3.79799 1.99866 3.87312 3.04305 2.95638 2.75465 2.93626 2.84615 5.06070 3.66382 309 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02203 3.82629 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csn2_II-A_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1139 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csn2_II-A_9\n-LENG 372\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:58 2020\n-NSEQ 8\n-EFFN 1.652344\n-CKSUM 2029148976\n-GA 20 20;\n-STATS LOCAL MSV -11.1378 0.69971\n-STATS LOCAL VITERBI -12.3724 0.69971\n-STATS LOCAL FORWARD -5.7352 0.69971\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.85868 4.53868 2.86121 2.55658 3.09390 3.42647 3.89952 2.45923 2.47684 2.26286 3.63723 2.63768 3.90294 3.15639 3.16491 2.70053 2.96436 2.75329 5.08886 3.37903\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49402 5.21636 0.61958 0.77255 0.00000 *\n- 1 3.60721 5.07540 4.81039 4.49753 3.67131 4.36252 5.08927 2.92149 4.22743 2.20523 0.54482 4.68518 4.86197 4.58332 4.34960 3.99949 3.94420 2.99407 5.56329 4.36895 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49402 5.21636 0.61958 0.77255 0.48576 0.95510\n- 2 3.22552 5.74653 2.47077 0.83344 5.07522 3.51208 4.05121 4.61894 3.00664 4.10895 4.96517 2.14466 4.13339 3.21903 3.54293 3.11913 3.51897 4.18428 6.22736 4.74437 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49402 5.21636 0.61958 0.77255 0.48576 0.95510\n- 3 2.84401 4.27204 4.41670 3.83689 3.28359 3.98585 4.28466 1.48764 3.68953 2.01714 3.31445 4.00482 4.34084 3.90028 3.83707 3.28834 2.41139 2.28862 4.87783 2.35363 3 i - - -\n- 2.68642 4.42249 2.77543 2.73147 3.46378 2.40536 3.72518 3.29269 2.67735 2.69311 4.24713 2.90287 2.73763 3.18170 2.89824 2.37889 2.77479 2.98491 4.58501 3.61527\n- 0.33124 1.28539 5.21636 1.18749 0.36383 0.48576 0.95510\n- 4 3.38953 4.67307 5.29464 4.71929 2.07570 4.70175 5.03581 1.49853 4.57055 1.26208 3.16461 4.83144 4.91299 4.61303 4.59405 4.05225 3.61452 1.94320 5.30863 4.20147 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49402 5.21636 0.61958 0.77255 0.48576 0.95510\n- 5 2.72338 4.45103 3.58488 3.01444 3.58296 3.69586 3.93916 2.24166 2.19411 2.22840 2.47672 2.67143 4.07333 3.26005 3.26847 2.94363 2.95394 2.68874 5.03236 3.79864 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49402 5.21636 0.61958 0.77255 0.48576 0.95510\n- 6 2.76793 5.21691 2.18678 2.41015 4.52507 3.48391 3.72359 3.99992 2.23071 3.50940 4.27470 2.02662 3.91143 2.83814 2.99263 2.29079 3.00483 3.59223 5.66569 2.95228 10 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49402 5.21636 0.61958 0.77255 0.48576 0.95510\n- 7 2.69971 4.57979 3.36067 2.80083 2.81014 3.61639 3.84717 2.67399 2.76927 2.46760 3.67329 2.61999 4.00132'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 365 2.89395 4.91286 1.63839 2.62872 3.93206 3.53129 3.94724 3.24932 2.89360 1.66850 3.95070 3.14537 4.04125 3.17603 3.34078 2.96257 3.16551 3.05416 5.41140 4.05072 393 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 366 3.31003 5.25684 3.50604 3.08168 4.72048 3.74790 3.99093 4.17463 0.66061 3.67343 4.62934 3.48655 4.23495 3.17243 2.55626 3.33769 3.54449 3.86836 5.64756 4.51500 394 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 367 1.99539 1.98547 4.16871 3.64993 2.37408 3.55149 4.19914 2.59314 3.52966 2.41796 3.41184 3.76190 4.07602 3.75599 3.71199 2.91675 2.89950 2.39004 4.89847 3.64887 395 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 368 2.78372 4.44711 3.61677 3.11828 3.06931 3.71901 3.84338 2.88133 3.01269 1.56966 3.52060 2.61481 4.11106 3.34727 3.31354 3.01072 3.02119 2.69301 4.62937 2.47991 396 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 369 2.71027 4.44260 2.55533 2.95497 3.31442 3.64090 3.85384 2.25310 2.92666 2.56118 3.52137 3.36214 4.03669 3.23716 3.27825 2.91670 2.94832 2.65718 2.25068 3.45881 397 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 370 2.75149 4.91605 2.82598 2.01028 4.12764 3.45119 3.74226 3.53065 2.55091 2.11531 4.01624 2.11909 3.90867 2.91614 2.98256 2.77919 2.99575 3.22820 5.41641 4.07326 398 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 371 2.77819 4.33688 3.88404 3.36437 1.85402 3.79101 3.96777 2.08683 3.28141 2.36146 3.39444 2.53199 4.17680 3.54667 3.54151 3.08844 3.02155 2.45960 4.63678 3.22054 399 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02248 4.20220 4.92455 0.61958 0.77255 0.84363 0.56237\n- 372 3.02546 4.87950 3.25979 2.95942 2.85966 3.70144 3.73551 3.54880 2.99437 3.09412 4.09590 1.88840 4.18024 3.33910 3.33659 3.09623 3.29551 3.30314 4.45214 1.43266 400 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01519 4.19491 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,992 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx10gr5_III-D_1\n-LENG 323\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:03 2020\n-NSEQ 4\n-EFFN 0.613281\n-CKSUM 108086365\n-GA 26 24;\n-STATS LOCAL MSV -11.0646 0.70070\n-STATS LOCAL VITERBI -12.0046 0.70070\n-STATS LOCAL FORWARD -5.5991 0.70070\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67817 4.59597 2.86923 2.61425 3.38947 2.82257 3.73371 2.67400 2.54126 2.43261 3.70455 3.03413 3.54538 3.18770 2.92917 2.67425 2.94168 2.58834 4.60118 3.34087\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40514 3.72496 3.29356 2.67743 2.69357 4.24691 2.90348 2.73741 3.18148 2.89802 2.37889 2.77521 2.98482 4.58479 3.61505\n- 0.17471 1.89062 4.67558 0.32548 1.28079 0.00000 *\n- 1 2.73998 4.55115 3.40617 2.88057 3.63618 3.58219 3.81307 2.90048 2.05083 2.51680 2.02269 3.28947 3.99406 3.06316 2.78205 2.90765 2.98004 2.72738 5.08896 3.84370 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 2 2.63084 4.53475 3.31234 2.73765 3.75029 3.48594 3.72536 3.05783 2.43882 2.71712 2.83521 3.16841 3.89794 2.94617 2.06760 2.76417 2.43336 2.81961 5.11215 3.86189 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 3 2.66065 4.79236 2.39945 2.42766 3.79914 3.39286 2.50333 3.41264 2.49680 2.42988 3.88789 2.94171 3.83565 2.84941 2.93237 2.69750 2.90268 3.11734 5.16283 3.75590 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 4 2.88609 4.32924 4.16091 3.63570 2.44965 3.89801 3.71393 2.11056 3.47430 2.28743 3.36323 3.75930 4.24475 3.67584 3.64242 3.20189 3.11481 2.56202 2.38754 2.06715 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14798 3.95323 2.13403 0.61958 0.77255 0.48576 0.95510\n- 5 2.94121 4.90252 3.11483 2.74348 4.28101 3.43383 3.74137 3.70823 1.08679 3.28117 4.24499 3.16929 3.93704 2.93519 2.42699 2.98577 3.19732 3.41816 5.35034 4.15830 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03253 3.83778 4.56013 0.61958 0.77255 0.42662 1.05761\n- 6 2.85168 4.90024 3.35849 2.71263 4.18412 3.58780 3.61268 3.54289 1.72907 2.48192 3.98181 3.14137 3.95606 2.77106 1.79071 2.89636 3.04411 3.26389 5.28719 4.06208 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 7 3.01354 4.36501 4.62603 4.08036 2.48955 4.26776 4.60667 1.47774 3.96962 1.80995 3.11458 4.28913 4.55'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 316 3.00656 4.36309 4.60941 4.06213 2.35156 4.24799 4.56818 1.53923 3.94914 1.79464 3.09877 4.26711 4.53597 4.12584 4.10682 3.58420 3.24678 1.64882 5.02341 3.78252 329 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 317 2.79138 4.79004 2.75480 2.64858 4.16632 3.23891 3.98776 3.89440 2.89839 3.53222 4.48723 1.02268 3.89488 3.26092 3.25556 2.85566 3.17607 3.50845 5.46301 4.10905 330 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 318 3.08564 4.88826 3.20674 2.97513 3.34292 3.51717 0.98296 3.80103 2.81606 3.28473 4.33423 3.38107 4.07432 3.34251 3.07677 3.15568 3.39188 3.53463 4.80686 3.29157 331 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 319 2.79577 4.99150 3.12290 2.56452 4.37312 3.49429 3.59644 3.76364 1.61727 3.27670 4.11023 3.03210 2.85179 2.73332 2.03236 2.80251 3.00741 3.42378 5.40469 4.14735 332 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 320 2.87195 4.39255 4.23670 3.90264 3.60974 3.80697 4.69059 2.04845 3.77164 2.28297 3.56295 4.07941 4.36320 4.12577 3.97630 3.31582 3.23167 0.92896 5.40771 4.14420 333 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 321 3.08564 4.88826 3.20674 2.97513 3.34292 3.51717 0.98296 3.80103 2.81606 3.28473 4.33423 3.38107 4.07432 3.34251 3.07677 3.15568 3.39188 3.53463 4.80686 3.29157 334 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 322 2.71254 5.00398 2.69103 1.79041 4.35431 2.62599 3.63906 3.78906 2.34779 3.33271 4.15069 2.87412 3.81918 2.78334 2.30748 2.70014 2.96135 3.42184 5.50220 4.15773 335 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 323 2.81828 4.60562 3.44332 2.94026 3.60691 3.63608 3.84834 2.86131 2.01345 1.60859 3.57758 3.34320 4.04791 3.10615 2.76772 2.99114 3.05524 2.71351 5.09414 3.83018 336 l - - -\n- 2.68624 4.42231 2.77525 2.73129 3.46359 2.40497 3.72500 3.29360 2.67746 2.69360 4.24695 2.90352 2.73745 3.18106 2.89806 2.37872 2.77525 2.98524 4.58482 3.61509\n- 0.16535 1.88125 * 0.91153 0.51401 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1181 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx10gr5_III-D_2\n-LENG 386\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:03 2020\n-NSEQ 5\n-EFFN 1.079102\n-CKSUM 3474774991\n-GA 54 25;\n-STATS LOCAL MSV -11.4932 0.69949\n-STATS LOCAL VITERBI -12.2989 0.69949\n-STATS LOCAL FORWARD -5.2842 0.69949\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47472 4.41278 3.01249 2.66088 3.24629 2.69997 3.78798 2.85419 2.78793 2.44477 3.80134 3.14631 3.35060 3.06560 2.83019 2.64754 2.85161 2.62919 4.38893 3.48018\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.00000 *\n- 1 3.28527 4.59714 4.97246 4.43992 3.37355 4.58998 5.00912 1.05344 4.28041 1.80078 2.21927 4.65443 4.83603 4.46661 4.41490 3.96075 3.52818 1.97949 5.39041 4.26216 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 2 2.71397 4.85261 2.97792 1.68312 4.00770 3.47682 3.72614 3.51115 2.53312 3.11584 3.96054 3.03743 2.76898 2.90702 2.96145 2.75532 2.95453 3.20302 2.97732 3.95981 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 3 3.24856 4.66577 4.45958 3.97995 2.73680 4.25568 4.13627 2.66342 3.77193 0.97826 3.30100 4.14063 4.57412 4.00402 3.92748 3.60817 3.48137 2.68331 4.48320 2.12554 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 4 2.85220 5.01410 3.26695 2.67945 4.38628 3.58573 3.70134 3.76399 1.81302 3.30736 4.14261 3.14233 3.98395 2.84320 2.03047 2.87539 1.79512 3.43338 5.46435 4.20661 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 5 3.28796 4.54675 5.14048 4.61824 3.56484 4.72712 5.23108 1.12322 4.51244 1.66786 3.34544 4.81424 4.95521 4.69671 4.65459 4.10865 3.53420 1.43165 5.59643 4.44787 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 6 2.79471 4.88558 3.20007 2.73366 4.35813 3.49572 3.81531 3.68949 1.54848 3.31360 4.17777 3.17907 3.97955 2.97847 2.68737 2.85259 1.70896 3.35429 5.51983 4.25456 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 7 1.55167 4.39397 3.52143 3.04534 3.79052 3.40668 4.03768 3.03943 2.99234 2.15557 3.73365 3.38536 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 379 2.52021 1.18468 3.75522 3.43341 4.02585 3.26247 4.33792 3.41257 3.34629 3.21565 4.13155 2.20848 3.96003 3.70240 3.59932 2.73044 2.96614 3.04777 5.45179 4.19326 436 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 380 2.69686 4.72703 3.14143 2.62946 3.64769 3.52301 2.69141 3.35129 2.57905 2.97594 3.83736 2.43287 3.92952 2.95429 2.98754 2.33000 2.93391 3.06734 2.68380 3.63768 437 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 381 2.69549 4.98336 2.90338 2.04845 4.25448 3.44757 3.66754 3.68375 2.41615 2.63633 4.05529 2.95642 2.78440 2.13052 2.85919 2.69828 2.92867 3.33634 5.45777 4.10586 438 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 382 2.88061 4.46425 4.13291 3.71347 1.24280 3.78746 4.13876 2.75328 3.61545 2.36642 3.53946 3.87247 4.29033 3.85991 3.81991 3.18029 2.22977 2.62524 4.65640 3.15213 439 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 383 3.00181 5.26693 2.67483 1.90990 4.32785 3.48428 1.38938 4.03395 2.58943 3.56013 4.43179 3.00782 4.01189 3.01702 2.97632 2.96603 3.25633 3.68771 5.57672 4.15694 440 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 384 2.75963 4.99050 2.97354 2.51310 4.25400 3.48150 2.76715 3.72880 2.38090 3.28563 4.10977 3.02109 3.91292 1.73380 2.76266 2.77098 2.36487 3.38554 5.45018 4.10850 441 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 385 2.72059 4.87100 2.94997 1.67137 4.04299 3.48214 2.82175 2.59455 2.50792 3.10019 3.95228 3.02182 3.90551 2.89018 2.93336 2.75795 2.95558 3.17686 5.34028 3.99523 442 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 386 3.20488 4.54878 4.83536 4.28789 1.61401 4.40340 4.56497 2.27972 4.14953 1.45306 3.10197 4.43199 4.66736 4.25854 4.24829 3.74128 3.43607 1.78851 4.89559 3.56763 443 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01473 4.22500 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1202 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx10gr5_III-D_3\n-LENG 393\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 5\n-EFFN 1.079102\n-CKSUM 2364782203\n-GA 52 27;\n-STATS LOCAL MSV -11.4584 0.69935\n-STATS LOCAL VITERBI -12.3114 0.69935\n-STATS LOCAL FORWARD -5.5674 0.69935\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49164 4.43709 2.96389 2.63853 3.28036 2.69616 3.79528 2.87625 2.79023 2.47968 3.80655 3.09984 3.23220 3.06319 2.83229 2.64610 2.85596 2.64714 4.48153 3.49767\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14188 4.23207 2.13921 0.61958 0.77255 0.00000 *\n- 1 3.17773 4.69172 4.31941 3.93802 3.33833 4.02053 4.61723 2.53930 3.69097 1.90210 0.97914 4.18352 4.48828 4.06010 3.86642 3.54900 3.49088 2.57228 5.20744 3.98761 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02456 4.11476 4.83710 0.61958 0.77255 0.62101 0.77089\n- 2 2.86112 5.28476 2.54267 1.96291 4.61147 3.37810 3.70565 4.07196 2.06502 3.57242 4.38690 1.69684 3.88683 2.84550 2.87277 2.80231 3.10762 3.67879 5.71344 4.32376 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02456 4.11476 4.83710 0.61958 0.77255 0.62101 0.77089\n- 3 2.05197 4.36175 3.59265 3.04596 3.56762 3.59001 3.94429 1.87767 2.85647 2.53651 3.50810 3.41495 4.01892 3.26064 2.56769 2.88922 2.90990 2.47092 5.04511 3.81620 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02456 4.11476 4.83710 0.61958 0.77255 0.40962 1.09035\n- 4 3.28790 4.59774 4.97729 4.44790 3.38897 4.59801 5.02506 1.01465 4.28796 1.81660 2.33513 4.66329 4.84551 4.48009 4.42540 3.97138 3.53212 1.95971 5.40842 4.27571 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 5 2.71061 4.83246 2.99540 1.82963 3.98990 3.47981 3.73052 3.48650 2.53977 3.09620 3.94338 3.04730 2.35606 2.91483 2.96476 2.75766 2.95164 3.18212 3.14212 3.95245 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 6 3.26296 4.67681 4.44161 3.97348 2.61703 4.24076 4.01371 2.76002 3.76889 1.16374 3.40686 4.09877 4.56814 3.98997 3.92161 3.59057 3.49576 2.74898 4.33158 1.69177 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 7 2.88700 5.05592 3.30718 2.70061 4.44058 3.61052 3.69608 3.81431 1.83204 3.34101 4.17664 3.15778 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 386 2.74033 4.95121 2.98435 2.51743 4.21704 3.47597 2.88708 3.67932 2.40144 3.24849 4.07417 3.02405 3.90669 1.91285 2.78988 2.75950 2.06773 3.34161 5.42973 4.09242 417 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 387 2.73436 4.94144 2.89691 1.54054 4.12221 3.46912 2.91081 2.85458 2.48739 3.17962 4.02201 2.99446 3.89993 2.87123 2.91871 2.75348 2.97041 3.26255 5.39447 4.03467 418 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 388 3.24661 4.58101 4.90060 4.34536 1.80492 4.45974 4.64709 2.28483 4.20703 1.22082 3.04554 4.49930 4.70185 4.29595 4.29376 3.79887 3.47381 1.88009 4.95933 3.68504 419 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 389 2.65801 4.41188 3.47163 2.41921 3.52731 3.60678 3.82672 2.10904 2.75083 2.60422 3.50634 3.31404 3.98588 3.13492 2.61760 2.85965 2.88649 2.68004 2.94421 3.70783 420 i - - -\n- 2.68626 4.42233 2.77528 2.73131 3.46362 2.40521 3.72503 3.29362 2.67749 2.69363 4.24698 2.90355 2.73748 3.18154 2.89734 2.37895 2.77528 2.98444 4.58485 3.61511\n- 0.27187 1.46537 4.95442 0.67364 0.71304 0.48576 0.95510\n- 390 3.11325 5.74101 1.46924 1.18165 5.02557 3.33876 3.90667 4.56718 2.95475 4.04493 4.90394 2.79471 3.97589 3.07472 3.57551 2.97857 3.40681 4.12163 6.18553 4.65554 423 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02181 4.23207 4.95442 0.61958 0.77255 0.48576 0.95510\n- 391 2.78860 5.09985 2.79580 2.44412 4.48673 3.42652 3.73787 3.93622 2.03610 3.46794 4.27588 1.92723 2.24178 2.87732 2.85582 2.77569 3.04540 3.54957 5.62503 4.26982 424 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14188 4.23207 2.13921 0.61958 0.77255 0.48576 0.95510\n- 392 3.10616 4.81565 3.74060 3.61953 4.58274 3.48979 4.67118 4.19807 3.69910 3.79537 4.85999 3.89867 0.47941 4.08023 3.91124 3.28271 3.56800 3.81440 5.69559 4.70882 425 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02456 4.11476 4.83710 0.61958 0.77255 0.62101 0.77089\n- 393 3.11307 4.48490 4.68469 4.20077 3.49282 4.33986 4.88386 1.90695 4.04329 1.71867 3.35342 4.42260 4.69449 4.33027 4.23848 3.73393 3.38882 1.01371 5.42541 4.19884 426 v - - -\n- 2.68536 4.42931 2.77365 2.73069 3.46928 2.40852 3.73029 3.28729 2.67966 2.68661 4.24531 2.90525 2.74126 3.17859 2.88571 2.38147 2.77695 2.98652 4.58374 3.61902\n- 0.30357 1.34009 * 4.82779 0.00804 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1469 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx10gr5_III-D_4\n-LENG 482\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 2\n-EFFN 0.371094\n-CKSUM 1439950379\n-GA 26 26;\n-STATS LOCAL MSV -11.0934 0.69825\n-STATS LOCAL VITERBI -12.6136 0.69825\n-STATS LOCAL FORWARD -6.3418 0.69825\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49784 3.98116 2.84852 2.65987 3.16610 2.69929 3.76166 2.81715 2.70265 2.50863 3.75724 3.14814 3.45285 3.13631 2.88172 2.71365 2.95383 2.64988 4.56782 3.39786\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.81294 3.01475 3.05797 2.86534 3.17483 3.41477 5.47667 4.20272 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 2.80593 4.78222 2.84227 2.59911 3.93602 3.30170 3.75522 3.55431 2.42807 3.06657 4.10101 3.05652 3.85605 1.42836 2.71278 2.85976 3.10475 3.29152 5.22825 3.91616 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 3.13265 4.56593 4.09695 3.79484 1.19557 3.84077 3.84007 2.67221 3.70505 2.06775 3.41987 3.90558 4.30405 3.90230 3.85001 3.40607 3.43498 2.65475 4.12499 2.50708 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 475 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.81294 3.01475 3.05797 2.86534 3.17483 3.41477 5.47667 4.20272 475 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 476 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 476 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 477 1.17216 4.14682 3.36293 3.15321 3.95417 2.97327 4.18677 3.06495 3.16685 2.95070 3.99690 3.32739 3.70315 3.51837 3.42243 2.49955 2.76997 2.73744 5.39182 4.18130 477 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 478 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 478 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 479 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 479 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 480 2.48017 1.17422 3.97101 3.68982 3.70771 3.12180 4.35978 2.83721 3.51693 2.75599 3.87534 3.70412 3.82066 3.86768 3.65839 2.75108 2.93882 2.58808 5.14229 3.99525 480 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 481 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 481 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 482 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 482 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx10gr5_III-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,950 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx10gr5_III-D_5\n-LENG 309\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 11\n-EFFN 0.926514\n-CKSUM 2014678949\n-GA 52 50;\n-STATS LOCAL MSV -11.2488 0.70104\n-STATS LOCAL VITERBI -11.7154 0.70104\n-STATS LOCAL FORWARD -5.6247 0.70104\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60752 4.33313 3.03582 2.63637 3.23049 2.91331 3.81743 2.78870 2.53953 2.45341 3.61303 3.11995 3.32662 3.12427 2.96130 2.62870 2.87151 2.64574 4.51996 3.27319\n- 2.68621 4.42228 2.77522 2.73110 3.46357 2.40515 3.72497 3.29357 2.67734 2.69358 4.24612 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58480 3.61506\n- 0.25819 1.72835 2.99631 0.26421 1.46021 0.00000 *\n- 1 3.10764 4.47639 4.66994 4.11429 3.27780 4.34306 4.72483 1.85745 3.98449 1.75513 1.63857 4.35700 4.61977 4.17804 4.15391 3.68036 3.34747 1.71216 5.21223 4.08642 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02478 4.10578 4.82812 0.61958 0.77255 0.53545 0.88046\n- 2 2.82064 5.00556 3.24781 2.61767 4.32082 3.57140 3.16556 3.71658 1.55101 3.24442 3.21609 3.08716 3.93933 2.76240 2.01938 2.83396 3.01993 3.39239 5.39113 4.12828 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02478 4.10578 4.82812 0.61958 0.77255 0.45590 1.00479\n- 3 2.49301 4.24579 4.47940 3.89491 2.14263 4.02666 4.34685 2.05357 3.76127 1.66737 2.77977 4.06437 4.34626 3.92929 3.88888 3.33466 3.07918 1.98645 4.87937 3.72084 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 4 2.18324 4.66916 2.79953 2.52998 3.88836 3.45117 3.68354 3.01960 2.52527 2.92477 3.76440 2.75798 3.84903 2.69595 2.96969 2.67334 2.55890 2.53981 5.21099 3.90496 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 5 3.42597 4.74640 4.96047 4.43971 3.16567 4.66488 4.99144 1.90452 4.24488 0.78494 2.98363 4.69834 4.86166 4.40777 4.36807 4.05331 3.66047 2.24443 5.27599 4.15349 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 6 2.91995 4.30684 4.55110 3.96967 2.65186 4.09145 4.34540 2.02380 3.83025 1.29906 3.03984 4.12485 4.39501 3.97463 3.94196 3.40211 3.14714 2.06244 4.80910 2.99198 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 7 2.95469 5.24734 3.21732 2.34071 4.67299 3.61597 3.63298 4.05484 1.37084 3.48975 4.30919 3.09838 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 302 2.69316 5.05773 2.46100 2.14471 4.35750 3.37121 3.23214 3.81118 2.47667 3.35789 4.15092 2.87067 3.82882 2.79865 2.96819 1.79878 2.62796 3.43288 5.54888 4.16114 309 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 303 3.46980 4.79321 4.92289 4.42336 2.41368 4.62032 4.68468 2.35487 4.27211 0.75645 2.97055 4.61797 4.82222 4.35365 4.36774 4.00550 3.69695 2.51643 4.90244 3.55321 310 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 304 3.42597 4.74640 4.96047 4.43971 3.16567 4.66488 4.99144 1.90452 4.24488 0.78494 2.98363 4.69834 4.86166 4.40777 4.36807 4.05331 3.66047 2.24443 5.27599 4.15349 311 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 305 2.64373 5.09274 2.48080 1.98577 4.40947 3.38364 3.60060 3.87787 2.35513 2.97349 4.14500 2.62982 3.79736 2.45961 2.59703 2.47551 2.87742 3.46893 5.53854 4.14097 312 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 306 2.78258 4.99271 3.08462 2.16086 4.24183 3.52382 3.65148 3.69232 1.48293 3.23969 4.06887 3.04125 3.91798 2.79714 2.57747 2.79374 2.99737 3.36427 3.68055 4.08226 313 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 307 2.79686 4.45293 3.70362 3.29852 3.60691 3.69737 4.19734 2.50412 3.11962 2.46911 3.58535 3.62932 4.18597 2.86379 3.38466 3.08746 3.09550 1.16463 5.20407 3.94099 314 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02372 4.14901 4.87135 0.61958 0.77255 0.48576 0.95510\n- 308 2.42299 4.87067 2.93829 2.25963 4.13835 3.41770 3.63739 3.56204 2.26239 3.14732 3.34655 2.60700 3.82295 2.77906 2.87360 2.06613 2.85822 3.22197 5.37138 4.02655 315 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20751 4.14901 1.76250 0.61958 0.77255 0.48576 0.95510\n- 309 2.63683 4.64459 3.18454 2.60400 3.87477 3.47861 3.65507 3.21291 1.97687 2.66611 3.74162 3.07271 3.86648 2.84357 2.45429 2.72520 2.58880 2.57771 5.16683 3.89645 316 k - - -\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40504 3.72497 3.29357 2.67725 2.69358 4.24693 2.90350 2.73742 3.18149 2.89804 2.37881 2.77522 2.98521 4.58480 3.61506\n- 0.26005 1.47408 * 0.25342 1.49676 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx15_I_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx15_I_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,326 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx15_I_III_1\n-LENG 101\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 17\n-EFFN 1.382080\n-CKSUM 1585194639\n-GA 97 96.7;\n-STATS LOCAL MSV -9.4126 0.71735\n-STATS LOCAL VITERBI -10.1268 0.71735\n-STATS LOCAL FORWARD -4.4806 0.71735\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49129 4.65167 3.08997 2.59231 3.43332 3.00037 3.59528 2.62668 2.76037 2.37764 3.65249 3.14608 3.28749 3.00748 2.80841 2.75396 2.96462 2.49114 4.33149 3.80706\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.00000 *\n- 1 2.54891 4.48214 3.02114 2.82556 3.64022 3.59569 3.83814 2.13016 2.55141 2.70244 3.21748 3.27036 3.97965 3.11245 3.18360 2.35932 2.55524 2.52734 5.05445 3.80002 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 2 2.40054 5.03757 2.68993 2.08815 4.33611 3.45519 3.67450 3.78387 2.44645 2.95851 4.10870 2.95568 2.57084 2.79621 2.92935 2.28938 2.71835 3.40605 5.51904 4.14347 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 3 2.97736 5.36024 2.86001 1.19488 4.71434 3.56008 3.77895 4.15807 2.38502 3.63273 4.44602 3.04127 4.02018 2.71670 2.17147 2.93050 3.20377 3.77278 5.74428 4.40398 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 4 3.36344 4.60378 5.30161 4.78578 3.69068 4.84365 5.38118 1.36581 4.68761 1.65493 3.46511 4.95679 5.06683 4.86669 4.81582 4.23319 3.61077 1.09801 5.72322 4.56918 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 5 2.68827 4.22100 3.95813 3.37503 3.31551 3.75816 3.56689 1.80885 3.24913 2.12153 3.02997 3.65709 4.12620 3.52347 2.55421 3.03446 2.91952 2.12474 4.82808 3.62788 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 6 2.50038 5.22052 1.95353 1.95025 3.67088 3.43830 3.68892 4.01608 2.47049 3.51446 4.27497 2.49754 3.87350 2.49612 2.97333 2.70021 2.97952 3.59758 5.66499 4.25162 6 e - - -\n- 2.68626 4.42233 2.77528 2.73131 3.46362 2.40521 3.72503 3.29362 2.67728 2.69363 4.24698 2.90355 2.73703 3.18155 2.89809 2.37895 2.77528 2.98446 4.58485 3.61511\n- 0.31191 1.33993 5.10135 0.46619 0.98722 0.48576 0.95510\n- 7 2.67427 4.27017 3.78320 2.87488 3.40115 3.71114 3.99723 1.87264 3.14124 2.26190 3.38368 3.55111 3.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 94 2.90031 4.70014 3.70478 3.09566 3.85720 3.78595 3.99021 2.55906 2.63996 2.72208 3.75680 3.49362 4.17977 3.22616 1.31749 3.08401 3.13743 2.29062 5.29464 4.05692 97 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 95 2.76356 5.26952 2.11252 1.75944 4.60303 3.44616 3.18206 4.08707 2.44613 3.56528 4.32102 2.91104 3.88274 2.57600 2.30008 2.71496 3.00003 3.65588 5.69771 4.28283 98 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 96 2.45681 5.07640 2.71580 2.00936 4.38150 3.24928 2.73725 3.83991 2.11833 3.36415 3.44434 2.93783 3.84762 2.75882 2.88331 2.64975 2.89878 3.11476 5.53338 4.14812 99 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 97 1.55459 4.86205 3.03185 2.57968 4.34443 2.89556 3.81820 3.77775 2.19900 3.35932 4.16063 2.76201 3.90064 2.96726 3.05739 2.33794 2.95437 3.38696 5.57050 4.23351 100 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 98 2.41368 4.84584 3.42420 2.90903 4.49761 3.49582 3.92732 3.89119 2.46697 3.46631 4.30464 3.30337 4.02361 3.09147 1.16110 2.30628 3.09733 3.49648 5.62916 4.38406 101 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 99 2.59207 5.09384 2.97341 2.25315 4.41576 2.76728 3.66330 3.86775 2.18231 3.38734 4.15775 2.96499 3.87238 2.77708 2.02328 2.42990 2.60268 3.47557 5.54913 4.17701 102 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 100 2.69490 5.07123 2.58293 2.43279 4.37753 3.24609 3.66110 3.25530 2.07315 3.35491 4.12928 2.96668 3.87030 2.77726 1.92496 2.68215 2.66223 3.44155 5.52613 4.15675 103 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01880 4.37900 5.10135 0.61958 0.77255 0.48576 0.95510\n- 101 3.28727 5.43535 3.75611 3.00144 4.91874 3.89842 2.86280 4.25854 1.57046 3.64754 4.50784 3.39250 4.23528 2.88639 1.10134 3.26332 3.42823 3.93155 5.64508 4.49366 104 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01269 4.37289 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx16_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx16_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,251 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx16_I_III_2\n-LENG 76\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 5\n-EFFN 1.567383\n-CKSUM 114867730\n-GA 130 130;\n-STATS LOCAL MSV -9.0681 0.71869\n-STATS LOCAL VITERBI -9.2680 0.71869\n-STATS LOCAL FORWARD -4.0397 0.71869\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42521 3.84561 3.07671 2.70829 3.19841 2.88171 3.43887 2.67845 2.76093 2.28938 3.76636 3.38286 3.67482 3.11915 2.79956 2.73310 2.97118 2.71867 4.29111 3.44757\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.00000 *\n- 1 1.74748 4.38956 4.54545 3.96754 3.35250 4.14665 4.48636 1.89373 3.83962 1.68108 2.32975 4.16502 4.47588 4.03369 3.99537 3.45510 3.21122 2.25463 5.06323 3.90615 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 2 3.13132 5.53390 2.69960 1.86417 4.85740 3.57121 3.93151 4.34505 2.64980 3.82588 4.67451 3.06223 4.10787 1.08984 3.04582 3.06323 3.38420 3.95798 5.94262 4.56215 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 3 3.02753 4.38342 4.84360 4.25106 3.23327 4.23300 4.54535 1.87287 4.07789 1.30773 3.16350 4.33858 4.53807 4.20064 4.13413 3.55331 3.25641 1.82552 2.74886 3.81569 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 4 3.04686 5.04434 1.16222 2.75980 4.21652 3.66791 4.14866 1.90862 3.11882 3.13407 4.18204 3.28352 4.20353 3.36874 3.58965 3.13155 3.33083 2.95331 5.69366 4.33096 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 5 3.04340 2.67088 3.58201 2.90841 4.52634 3.77131 3.81084 3.88442 1.21549 3.41709 4.26819 3.33583 4.14774 2.95570 1.91647 3.07536 3.24370 3.57050 5.55267 4.33676 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 6 2.89579 4.53704 3.83005 3.32674 1.56067 3.82969 2.56528 3.04812 3.23936 2.70206 3.67083 3.63688 4.23876 3.53470 3.52896 3.12810 2.02299 2.84427 4.60707 3.09727 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 7 2.20586 4.82953 3.12114 1.47970 4.09428 3.58268 3.89925 2.37814 2.74138 3.05804 3.96259 3.18971 4.0264'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 69 3.05515 5.05323 3.10810 1.14315 2.02857 3.71196 3.98651 3.54306 2.99633 3.10705 4.12884 3.31922 4.19571 3.30723 3.41676 3.11341 3.31468 3.32447 5.16983 3.66510 69 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 70 2.08105 5.26513 2.69756 0.96595 4.76378 3.47673 4.02814 4.14671 2.91474 3.76599 4.62448 3.08098 4.06860 3.19572 3.39422 2.97185 3.30018 3.75335 5.97475 4.58362 70 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 71 4.39553 5.39138 5.34178 5.21687 0.93641 4.96909 3.68602 4.02198 4.99854 3.23931 4.55939 4.54107 5.22932 4.69609 4.82751 4.36102 4.59224 3.95089 1.76552 1.47782 71 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 72 1.77138 4.33045 3.74799 3.19464 3.47135 3.67373 4.01302 2.24848 3.12810 2.56707 3.47882 3.53443 4.08636 3.41500 3.43318 2.28238 2.93475 2.59775 4.94945 2.61942 72 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 73 3.42929 4.65493 5.41920 4.95456 3.95638 4.96686 5.68633 0.94386 4.87567 2.39154 3.70759 5.12286 5.22041 5.12989 5.04571 4.39693 3.69483 1.09932 6.04502 4.83145 73 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 74 2.94943 5.29037 3.21975 2.64754 4.68422 1.96836 3.73932 4.09764 1.84522 3.56040 4.35799 3.14291 4.04137 2.19061 2.01207 2.92345 3.15513 3.71648 5.65403 4.36013 74 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 75 3.09147 5.18939 3.60442 2.91634 4.53438 3.81499 3.79959 2.47550 1.30592 3.39865 4.26486 3.34477 4.17007 2.94239 1.72005 3.11648 3.27333 3.56349 5.54911 4.33918 75 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45926 5.18161 0.61958 0.77255 0.48576 0.95510\n- 76 2.69098 2.64294 4.15454 3.59802 3.44351 3.72242 4.21575 2.61692 3.48607 1.97418 3.43398 3.79564 4.17540 3.72862 3.69614 1.81333 2.97150 1.95696 4.96842 3.77088 76 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.45363 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx16_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx16_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,296 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx16_I_III_4\n-LENG 91\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 15\n-EFFN 1.549072\n-CKSUM 4066887436\n-GA 85 85;\n-STATS LOCAL MSV -9.2111 0.71837\n-STATS LOCAL VITERBI -9.7321 0.71837\n-STATS LOCAL FORWARD -4.0321 0.71837\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56390 4.40885 3.00159 2.61354 3.51837 2.79009 3.43715 2.72599 2.73959 2.36109 3.69203 3.28891 3.47623 3.04204 2.86888 2.78626 2.89040 2.47533 4.42536 3.53087\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.00000 *\n- 1 2.96352 4.36591 4.50186 3.95681 2.48040 4.03841 3.97764 2.36550 3.80303 2.47500 3.46718 4.00736 4.39124 3.94636 3.90604 3.34396 2.67467 2.63086 2.35064 1.55000 1 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 2 3.28606 4.58900 5.14421 4.57113 1.59778 4.57031 4.88267 1.84329 4.42221 1.52671 3.17883 4.68072 4.81243 4.49829 4.46743 3.91267 3.51387 1.74853 5.20620 4.04513 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 3 3.42356 4.65045 5.40939 4.94413 3.94821 4.95769 5.67412 0.94123 4.86430 2.38425 3.70042 5.11288 5.21222 5.11810 5.03424 4.38703 3.68910 1.10893 6.03479 4.82180 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 4 2.45694 2.74766 4.11513 3.69803 4.28832 3.23899 4.53994 3.63438 3.61970 3.38456 4.24140 3.71282 3.97638 3.88657 3.87516 1.69213 1.13935 3.18861 5.70049 4.51926 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 5 3.43277 5.53691 3.92381 3.13294 5.08904 4.00004 3.81778 4.37777 1.71793 3.73859 4.61462 3.49545 4.33023 2.46094 0.89864 3.40466 3.55477 4.06089 5.71708 4.60887 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 6 3.62182 5.24678 3.96126 3.62942 2.54399 4.24161 0.85400 3.92357 3.41517 3.29855 4.43830 3.86943 4.65451 3.80986 3.65337 3.65249 3.86034 3.74218 4.18447 1.98030 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 7 2.58025 5.10083 2.90735 2.31851 4.45000 3.47415 3.74896 3.90108 2.51929 3.44052 4.22388 2.99717 2.2910'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 84 2.85858 5.23439 3.13194 2.56589 4.60491 2.92485 3.71252 4.03678 2.07879 3.51485 4.29777 3.07772 3.98097 1.96267 1.78829 2.51684 3.07396 3.64537 5.62862 4.30205 94 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 85 3.52826 4.76841 5.43037 4.89308 3.49797 4.96081 5.40430 1.27803 4.77484 1.07118 3.26088 5.07866 5.12377 4.85152 4.84728 4.34789 3.76242 1.81832 5.61870 4.54816 95 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 86 2.53862 4.52843 3.39604 1.94426 3.68499 3.61806 3.85193 2.47231 2.78533 2.74431 3.62369 3.28141 4.00088 3.11764 2.74465 2.85087 2.91876 2.44703 3.24348 3.83496 96 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 87 2.57693 5.11036 2.97796 1.92845 4.42077 3.48325 3.67212 3.87764 1.93885 3.39789 4.16326 2.96787 3.41395 2.78363 2.73798 2.68373 2.29446 3.48281 5.56233 3.67143 97 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 88 2.90775 4.32980 4.43052 3.87341 2.16594 4.00053 4.06978 2.16515 3.73003 2.36836 3.39021 3.98235 4.35600 3.90132 3.85895 3.30397 2.54697 2.51887 4.51363 1.58913 98 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 89 2.68846 5.14121 2.50416 2.08872 4.46372 3.46829 3.33475 3.51165 2.27790 3.43597 4.18833 2.94514 3.86209 2.76247 2.09308 2.53355 2.76773 3.51979 5.58663 3.61372 99 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 90 2.43712 4.46870 2.72474 3.20080 3.67108 3.80223 4.14920 2.55669 3.18657 2.15487 3.60128 3.59355 4.20709 3.48426 3.53302 3.08933 3.05831 1.38728 5.19393 3.95710 100 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45161 5.17396 0.61958 0.77255 0.48576 0.95510\n- 91 2.68440 4.86086 3.10064 2.30322 4.09314 3.52047 3.04748 2.80280 2.31073 3.11592 3.57117 3.05751 3.90956 2.71290 2.45496 2.72536 2.58891 2.93240 5.36691 3.34758 101 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01180 4.44594 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx16_III_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx16_III_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,293 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx16_I_III_3\n-LENG 90\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 7\n-EFFN 0.919434\n-CKSUM 854471452\n-GA 89 89;\n-STATS LOCAL MSV -9.3764 0.71844\n-STATS LOCAL VITERBI -10.0113 0.71844\n-STATS LOCAL FORWARD -3.9378 0.71844\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56635 4.35827 2.90465 2.70920 3.50889 2.77940 3.42892 2.69504 2.70935 2.33625 3.68076 3.29147 3.49207 3.06374 2.93838 2.81612 2.95420 2.50050 4.14479 3.45984\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.00000 *\n- 1 3.76907 4.99853 4.69242 4.37613 1.99706 4.46164 3.52233 3.57598 4.14093 2.90622 4.14304 4.13065 4.77837 4.17883 4.18479 3.84736 3.98764 3.46909 1.47966 1.19265 1 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 2 3.28162 4.59570 4.94655 4.38924 1.83444 4.51769 4.67905 1.79566 4.25187 1.22928 2.97123 4.55096 4.72607 4.31659 4.32701 3.85983 3.50283 2.30584 4.95060 3.68854 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 3 3.19756 4.48146 4.99874 4.51200 3.66513 4.60027 5.21493 1.08740 4.40503 2.14214 3.45463 4.71057 4.89478 4.66024 4.58823 4.00178 3.46366 1.23756 5.67186 4.46932 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 4 2.30576 2.57554 3.85739 3.41851 3.98596 3.10434 4.27275 3.30280 3.33790 3.07152 3.94340 3.49915 3.80951 3.61925 3.60691 1.89208 1.49561 2.90930 5.40991 4.21659 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 5 3.20399 5.27178 3.66921 2.95479 4.76234 3.78631 3.68891 4.09420 1.59464 3.51308 4.39790 3.32720 4.14747 2.82485 1.09979 3.19929 3.35588 3.78412 5.52715 4.39299 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 6 3.24132 4.94866 3.63690 3.25073 2.45887 3.93336 1.32906 3.58659 3.07147 3.02776 4.10893 3.55221 4.33942 3.46387 3.34679 3.29658 3.47676 3.38713 4.08660 1.87565 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 7 2.30449 4.73529 2.96590 2.52800 4.23217 3.31474 3.75843 3.66007 2.55763 3.25452 4.06513 3.00969 2.68713 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 83 0.98261 4.24317 3.57070 3.34180 4.44547 2.02114 4.40771 3.80961 3.43419 3.55073 4.39556 3.44830 3.79228 3.70427 3.71889 2.50393 2.82265 3.25881 5.78872 4.60496 93 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 84 3.04281 5.24880 3.39305 2.74814 4.69152 3.68658 3.64543 4.04986 1.78435 3.48021 4.32359 3.18304 4.04971 1.82411 1.56608 3.02237 3.21297 3.71005 5.52825 4.32853 94 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 85 3.37534 4.67275 5.01402 4.48417 3.22968 4.67672 5.03558 1.50660 4.31739 0.98952 3.03288 4.72471 4.87049 4.46476 4.43593 4.05722 3.60933 2.08514 5.32558 4.21399 95 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 86 2.40485 4.44818 3.31297 2.05362 3.57538 3.54252 3.78436 2.47675 2.71898 2.63831 3.54015 3.21557 3.93274 3.05969 3.09810 2.78989 2.85516 2.70037 3.18541 3.73181 96 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 87 2.46930 4.99283 2.91010 2.05463 4.27491 3.44223 3.63795 3.70620 1.72474 3.26069 4.06530 2.94662 3.85381 2.77224 2.74915 2.69779 2.92786 3.35417 5.44516 3.34969 97 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 88 2.70764 4.19518 4.05645 3.49086 2.62848 3.78529 3.97606 2.09798 3.37858 2.24509 3.25299 3.71462 4.14931 3.60548 3.58307 3.07463 2.40394 2.35509 4.58395 2.13153 98 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 89 2.62877 5.02666 2.41337 2.00126 4.32548 3.39134 3.14465 3.22327 2.36272 3.31135 4.08290 2.87713 3.79798 2.71873 2.61722 2.40618 2.86174 3.39316 5.48529 4.10111 99 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02382 4.14498 4.86733 0.61958 0.77255 0.48576 0.95510\n- 90 2.75197 4.47025 2.58976 3.00812 3.62137 3.70195 4.04106 2.47816 3.02222 2.11267 3.54936 3.43744 4.11373 3.33442 3.39442 3.00019 3.00469 1.57838 5.17404 3.90742 100 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01610 4.13726 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx18_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx18_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,311 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx18_I_III_1\n-LENG 96\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 20\n-EFFN 1.586914\n-CKSUM 366837565\n-GA 81 81;\n-STATS LOCAL MSV -10.0055 0.71831\n-STATS LOCAL VITERBI -10.3334 0.71831\n-STATS LOCAL FORWARD -4.2992 0.71831\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40427 4.40713 3.25377 2.92542 3.43231 3.03134 3.97668 2.51263 2.88989 2.19694 3.55437 3.04592 3.47955 3.15371 3.00867 2.65880 2.67350 2.41903 4.78582 3.78557\n- 2.68630 4.42237 2.77531 2.73135 3.46366 2.40512 3.72506 3.29366 2.67740 2.69367 4.24281 2.90338 2.73751 3.18158 2.89797 2.37877 2.77531 2.98530 4.58489 3.61515\n- 0.35985 1.21522 5.18971 0.57193 0.83112 0.00000 *\n- 1 2.47148 4.20497 4.01675 3.43521 2.92144 3.76671 4.05744 2.48134 3.32899 2.38669 1.70416 3.69394 4.13804 3.57432 3.08022 2.80172 2.92083 2.45546 4.80668 3.23427 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 2 2.47461 4.43144 3.52355 2.95669 3.23063 3.65348 3.90054 2.72829 2.70419 2.45137 3.53347 3.08346 4.03361 3.21885 2.91409 2.64890 2.91711 2.70742 5.00559 2.01643 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 3 2.68782 4.25909 3.86402 3.29147 3.37956 3.19411 4.02087 1.91446 2.92443 1.79806 3.37335 3.23402 4.11143 3.47376 3.46878 2.77486 2.92143 2.32266 4.86609 3.65865 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 4 2.67462 4.79696 3.17051 2.62382 4.10508 3.50237 3.78959 3.51251 2.60098 3.13456 3.95818 2.88051 3.43397 2.95645 2.62695 1.76206 2.38594 2.59568 5.39282 4.07797 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 5 2.53093 3.78574 3.17439 2.61468 3.51631 3.54796 3.45330 3.07622 2.23369 2.85855 3.84010 3.11611 3.27124 2.94301 2.32370 2.35912 2.76460 3.07246 5.28582 3.97985 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 6 3.04933 5.35734 3.39430 2.75515 4.78678 3.74189 3.75072 4.17390 1.58543 3.60749 4.41723 2.87584 4.10683 2.54020 1.44161 3.02107 2.79802 3.80198 5.66871 4.41778 8 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 7 1.93158 4.27025 3.84296 3.27078 3.16271 2.57519 4.02222 2.49337 3.19521 2.03644 3.39210 3.58857 4.10422'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 89 2.49253 5.12174 2.63094 2.14094 4.43532 2.87634 3.66665 3.07929 2.41558 3.41362 4.17153 2.95499 3.45138 2.65409 2.36665 2.53265 2.69415 3.49549 5.57413 4.18303 94 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 90 2.53999 5.13658 2.77169 2.08413 4.45661 3.47138 3.66116 3.61150 2.17993 3.08564 4.18397 2.94920 3.46977 2.56152 2.59858 2.28483 2.73809 3.51371 5.58442 3.73783 95 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 91 2.69386 5.18194 2.69217 2.19797 4.51775 3.46645 3.65659 3.42319 2.16613 3.48274 4.22554 2.63483 3.51496 2.26674 2.66850 2.18303 2.92514 3.56770 5.61945 4.21444 96 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 92 2.70133 5.16366 2.29993 2.40240 4.48924 3.16679 3.42420 3.96128 2.26260 3.45957 4.21062 2.43063 3.86986 2.77033 2.27219 2.67175 2.78196 3.54415 5.60642 3.14961 97 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 93 2.70859 4.49227 3.49471 2.92253 3.64294 3.65535 3.88672 2.38369 2.34676 1.86402 3.58982 3.34925 3.15448 3.17671 2.80827 2.89802 2.67683 2.76534 5.06190 3.81967 98 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 94 2.74839 5.26222 1.99066 1.94642 4.60163 3.46780 3.69053 4.08825 2.19623 3.56315 4.30858 2.76808 3.30602 2.55718 2.55604 2.70345 2.98304 3.65064 5.69276 4.27681 99 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01720 4.46736 5.18971 0.61958 0.77255 0.48576 0.95510\n- 95 2.73751 5.21284 2.71104 2.26007 4.55561 3.49268 3.67387 4.02748 2.06718 3.50802 4.25846 2.54107 3.89075 2.61548 1.83881 2.70222 2.96601 3.60324 5.63736 3.74946 100 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11239 4.46736 2.35570 0.61958 0.77255 0.48576 0.95510\n- 96 2.67149 4.94958 2.80607 2.00937 4.18641 3.47750 3.07162 3.64129 2.46082 3.21676 4.01437 2.98843 3.87209 2.59531 2.93142 2.53477 2.90302 3.29485 3.22790 2.86263 101 e - - -\n- 2.68625 4.42232 2.77450 2.73113 3.46361 2.40520 3.72501 3.29361 2.67748 2.69362 4.24697 2.90354 2.73746 3.18153 2.89808 2.37894 2.77526 2.98525 4.58368 3.61510\n- 0.40614 1.09726 * 0.14404 2.00882 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,452 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_1\n-LENG 143\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:04 2020\n-NSEQ 7\n-EFFN 0.673340\n-CKSUM 2737989986\n-GA 119 114;\n-STATS LOCAL MSV -10.3896 0.71022\n-STATS LOCAL VITERBI -11.0272 0.71022\n-STATS LOCAL FORWARD -4.5191 0.71022\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64870 4.60973 3.02250 2.60390 3.01246 3.03345 3.62788 2.93799 2.64293 2.38978 3.76045 3.06817 3.38340 2.91562 2.89379 2.69682 2.81052 2.74813 4.09789 3.33889\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24542 2.90349 2.73742 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.18529 1.83140 4.71621 0.30804 1.32760 0.00000 *\n- 1 2.53752 4.36988 3.27726 2.82811 3.62779 3.38099 3.83895 2.99359 2.75711 2.70886 2.02742 2.77276 3.87611 3.12935 3.09675 2.38035 2.83304 2.73601 5.05559 3.78380 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 2 1.61945 2.91930 3.63477 3.17679 3.94166 3.03603 4.11030 3.30848 3.12692 3.02728 3.88165 3.34051 2.87517 3.41529 3.43918 1.92872 2.67915 2.90039 5.33974 4.13256 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 3 3.41596 4.78258 4.40513 4.14387 0.83222 4.07489 3.93588 2.92604 4.04815 2.26871 3.63904 4.15752 4.53167 4.18299 4.13784 3.67885 3.71762 2.92544 4.15122 2.50394 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 4 2.90454 4.41501 4.29211 3.96027 3.64107 3.84803 4.74173 2.05110 3.82989 2.30788 3.58905 4.13025 4.40271 4.18153 4.03050 3.36020 3.26373 0.88470 5.44559 4.18418 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 5 2.82205 4.58416 3.52057 3.43605 4.57369 0.56416 4.54776 4.20394 3.63375 3.84252 4.82014 3.68504 3.97914 3.94841 3.85535 2.99764 3.31274 3.70885 5.63561 4.68010 6 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 6 2.63658 4.23181 3.77359 3.24641 3.27058 3.64367 3.99595 2.44273 3.13937 2.33904 3.35278 3.55179 4.06342 3.44529 3.41317 2.95287 2.51965 1.67125 4.83026 2.68172 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 7 2.88301 5.07889 2.90257 2.53995 4.47262 3.45350 3.67279 3.91243 1.29306 3.42759 4.28457 2.49963 3.92'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 136 3.41596 4.78258 4.40513 4.14387 0.83222 4.07489 3.93588 2.92604 4.04815 2.26871 3.63904 4.15752 4.53167 4.18299 4.13784 3.67885 3.71762 2.92544 4.15122 2.50394 141 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 137 3.04497 4.40457 4.65972 4.17628 3.55813 4.31435 4.91718 1.58655 4.05103 2.09047 3.38695 4.40197 4.67291 4.34151 4.26503 3.70702 3.32405 1.02336 5.49500 4.27027 142 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 138 0.85205 4.25612 3.58889 3.38732 4.17616 3.07711 4.39461 3.32007 3.40677 3.19594 4.21558 3.50528 3.82795 3.73708 3.64803 2.60595 2.89179 2.95342 5.59118 4.40534 143 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 139 3.29333 4.72036 4.38397 4.02569 3.18536 4.13542 4.64341 2.39745 3.79223 0.73903 3.17277 4.28934 4.55076 4.13145 3.94791 3.72239 3.58254 2.46605 5.10734 3.85824 144 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 140 2.48164 4.32648 3.53964 3.29898 4.07976 3.16132 4.30655 3.22183 3.24435 3.08098 4.12483 3.48776 3.87515 3.63340 3.49629 2.68441 0.98161 2.90368 5.50686 4.29683 145 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 141 3.11438 4.42176 4.79839 4.26946 3.44668 4.47331 4.94098 1.40452 4.15825 1.72352 3.25025 4.50614 4.73884 4.38547 4.34473 3.83635 3.36295 1.30027 5.41882 4.24739 146 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02776 3.99386 4.71621 0.61958 0.77255 0.48576 0.95510\n- 142 2.35803 3.52204 3.34684 2.78628 3.64804 3.48296 3.78584 2.53691 1.96472 2.66221 3.56976 3.21089 3.90146 3.04210 3.00107 2.75007 2.83071 2.62040 5.05630 3.80499 147 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10961 3.99386 2.46059 0.61958 0.77255 0.48576 0.95510\n- 143 2.75968 4.99112 2.81708 2.18164 4.34307 3.40057 3.61723 3.71966 1.60698 3.27954 4.11874 2.92973 3.85187 2.76292 2.54140 2.75652 2.64153 3.38049 5.44960 4.14826 148 k - - -\n- 2.68609 4.42231 2.77525 2.73129 3.46360 2.40518 3.72500 3.29335 2.67732 2.69361 4.24695 2.90335 2.73745 3.18128 2.89806 2.37892 2.77525 2.98504 4.58483 3.61509\n- 0.26307 1.46398 * 0.66820 0.71873 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,431 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_10\n-LENG 136\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 15\n-EFFN 1.351318\n-CKSUM 4028301044\n-GA 57 56.8;\n-STATS LOCAL MSV -10.5445 0.71109\n-STATS LOCAL VITERBI -10.6889 0.71109\n-STATS LOCAL FORWARD -4.5432 0.71109\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70060 4.39394 2.95708 2.52149 3.10983 2.96355 3.69634 2.86368 2.54723 2.54141 3.67463 2.94798 3.35940 3.04098 3.05667 2.66930 2.92976 2.71675 4.08261 3.22022\n- 2.68628 4.42235 2.77530 2.73133 3.46364 2.40523 3.72505 3.29364 2.67736 2.69365 4.24393 2.90357 2.73750 3.18157 2.89811 2.37870 2.77491 2.98529 4.58487 3.61513\n- 0.67332 1.31264 1.51014 0.61386 0.77927 0.00000 *\n- 1 2.62956 4.97239 2.62539 2.37333 4.26198 3.40980 3.60148 3.70308 2.14332 3.24805 2.83914 2.66382 3.80711 2.42230 2.60155 2.62357 2.85911 3.33380 5.43360 4.07102 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02435 4.12333 4.84568 0.61958 0.77255 0.58191 0.81832\n- 2 2.63371 3.27641 4.27737 3.68447 3.15706 3.77212 4.09314 2.06074 3.53590 2.21006 2.62018 3.82161 4.13630 3.72778 3.65949 3.07056 2.56329 2.03563 4.69390 2.53379 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02201 4.22293 4.94528 0.61958 0.77255 0.45664 1.00350\n- 3 2.63733 4.21939 3.78649 2.59535 2.66952 3.68068 3.95736 2.46424 3.13164 2.41370 2.44582 3.53318 4.05468 3.40095 3.03499 2.94616 2.52002 2.47905 3.64847 3.60598 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01980 4.32796 5.05030 0.61958 0.77255 0.45401 1.00806\n- 4 2.65108 4.47028 3.09904 2.82414 3.62371 3.59164 3.26072 2.20204 2.79126 2.48232 3.23442 2.71068 3.97416 3.10930 3.18023 2.59482 2.66024 2.51557 5.03891 3.78565 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 5 2.67845 5.13633 2.70980 2.13150 4.46440 3.44966 3.22867 3.11378 1.90843 3.43080 4.18330 2.60033 3.84525 2.74137 2.48979 2.64923 2.90866 3.51822 5.57547 4.18169 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 6 2.80328 5.32893 1.78277 2.04232 4.65535 3.43029 3.71961 4.14639 2.00024 3.62417 4.38626 2.67056 3.89511 2.62667 3.02349 2.74478 2.73736 3.71175 5.76051 4.32950 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 7 3.46898 4.72654 5.25683 4.75682 3.51533 4.86583 5.33010 0.86785 4.59740 1.56262 3.31658 4.96256 5.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 129 2.45428 2.98653 4.02646 3.44843 3.29263 3.73856 4.05731 2.57787 2.93278 2.37195 3.29834 3.69226 4.12038 3.57967 3.54220 3.02614 2.89961 1.58152 4.79965 2.79882 135 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 130 3.39285 5.09053 4.16389 4.13713 5.21597 0.25842 5.19706 4.96489 4.38303 4.54327 5.54272 4.33086 4.49321 4.66902 4.53751 3.58288 3.91059 4.39742 6.15208 5.34403 136 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 131 3.50224 4.79586 5.11944 4.59932 1.11941 4.69261 4.61403 2.14454 4.44755 1.48525 3.14767 4.68592 4.89752 4.47776 4.49778 4.04646 3.72314 2.54387 4.81281 3.37309 137 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 132 2.79327 5.21961 2.97627 2.13632 4.57400 3.05452 3.67546 4.02431 1.49839 3.50226 4.27386 2.99041 3.91773 2.55737 2.53693 2.57973 3.01546 3.61878 5.62263 4.26445 138 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01907 4.36503 5.08738 0.61958 0.77255 0.48576 0.95510\n- 133 2.66016 4.66024 2.97065 2.64538 3.84922 3.54028 3.75818 2.64458 1.90685 2.89283 3.21502 3.13341 3.92683 2.96197 3.04558 2.75850 2.38356 2.95731 5.19924 3.38383 139 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30091 4.36503 1.39779 0.61958 0.77255 0.48576 0.95510\n- 134 2.80216 4.78095 3.31090 2.79090 4.07950 3.55539 3.79158 3.22303 1.38538 2.99617 3.95274 3.22243 3.99693 2.97527 2.62899 2.89740 3.05288 2.29666 5.35562 4.09383 140 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08932 4.81166 0.61958 0.77255 0.79331 0.60211\n- 135 2.62352 4.87784 2.64572 2.13580 4.13678 2.99922 3.63540 2.78440 2.44412 3.15052 3.95873 2.53123 3.81015 2.78067 2.91882 2.63773 2.57036 3.22097 5.38015 4.02735 141 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08932 4.81166 0.61958 0.77255 0.79331 0.60211\n- 136 2.62000 4.80668 2.98823 2.01701 4.04525 3.43238 3.63137 3.12981 2.06964 3.05960 3.88059 2.96461 3.82730 2.78452 2.83188 2.65442 2.61608 3.13488 5.30043 3.32805 142 e - - -\n- 2.68606 4.42229 2.77524 2.73109 3.46358 2.40505 3.72499 3.29358 2.67745 2.69359 4.24694 2.90333 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.33494 1.25660 * 0.20162 1.70047 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,386 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_11\n-LENG 121\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 3\n-EFFN 0.383789\n-CKSUM 18723590\n-GA 36.6 36.4;\n-STATS LOCAL MSV -10.0013 0.71323\n-STATS LOCAL VITERBI -10.6095 0.71323\n-STATS LOCAL FORWARD -4.2109 0.71323\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72158 4.37246 2.74613 2.50833 3.08389 2.86859 3.86866 2.57600 2.58068 2.38640 3.72274 3.11190 3.55115 3.20294 3.04908 2.85068 3.06948 2.62697 4.98527 3.21848\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.00000 *\n- 1 2.90041 4.46489 3.95195 3.54076 3.17326 3.76542 4.29729 2.33994 3.31293 1.78410 1.56620 3.82889 4.22760 3.70221 3.52858 3.23886 3.20501 2.33476 5.00043 3.75270 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 2 2.89174 4.84637 3.06139 2.70365 4.21170 3.38823 3.71528 3.63583 1.17179 3.22248 4.19151 3.13122 3.89727 2.91396 2.42425 2.94133 3.15329 3.34971 5.30632 4.10678 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 3 2.95969 4.40760 4.19951 3.81411 3.31522 3.96247 4.56106 1.19972 3.64019 1.92349 3.26834 4.07239 4.40505 3.99967 3.84740 3.45121 3.26163 1.85202 5.18497 3.91336 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 4 2.87823 4.96285 2.45764 1.16385 4.29840 3.21828 3.80083 3.73410 2.67008 3.36742 4.34845 2.88912 3.81938 3.02035 3.06708 2.87193 3.18278 3.42858 5.48763 4.21302 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 5 2.89174 4.84637 3.06139 2.70365 4.21170 3.38823 3.71528 3.63583 1.17179 3.22248 4.19151 3.13122 3.89727 2.91396 2.42425 2.94133 3.15329 3.34971 5.30632 4.10678 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 6 2.95969 4.40760 4.19951 3.81411 3.31522 3.96247 4.56106 1.19972 3.64019 1.92349 3.26834 4.07239 4.40505 3.99967 3.84740 3.45121 3.26163 1.85202 5.18497 3.91336 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 7 2.81462 4.97226 2.84579 2.47270 4.28318 3.40064 3.58603 3.71260 1.80576 3.23412 4.11685 2.95015 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 114 2.90637 4.74676 3.38812 2.92215 4.07809 3.40849 3.76593 3.61565 2.21251 3.14856 4.15377 3.28761 3.91791 2.99314 1.12878 2.99651 3.18017 3.34424 5.19999 4.02801 114 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 115 2.36822 4.21214 3.35114 3.10215 3.89207 3.05358 4.12588 3.00823 3.04326 2.87481 3.93364 3.32448 3.75111 3.44345 3.30473 2.56876 1.33783 2.71310 5.33821 4.10952 115 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 116 3.05460 4.54564 4.04054 3.68284 3.10536 3.86275 4.36742 2.30798 3.45136 0.99738 3.16221 3.96682 4.31587 3.84183 3.64131 3.42694 3.35417 2.32091 4.94850 3.64976 116 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 117 2.63852 4.40812 3.23629 3.06431 4.06241 3.10096 4.14728 3.58656 3.11415 3.22254 4.27042 3.37892 1.01742 3.50589 3.36790 2.80378 3.07352 3.24221 5.27188 4.18276 117 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 118 2.02862 4.17516 3.76954 3.38426 3.64900 3.35107 4.28982 2.24842 3.29811 2.42019 3.55913 3.58147 3.96810 3.63496 3.56491 2.77735 2.86328 1.52029 5.30088 4.06650 118 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 119 2.89174 4.84637 3.06139 2.70365 4.21170 3.38823 3.71528 3.63583 1.17179 3.22248 4.19151 3.13122 3.89727 2.91396 2.42425 2.94133 3.15329 3.34971 5.30632 4.10678 119 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 120 3.14529 4.57520 4.11169 3.81107 1.17504 3.85194 3.84329 2.68296 3.72091 2.07571 3.42862 3.91717 4.31454 3.91506 3.86328 3.41847 3.44739 2.66640 4.12410 2.50447 120 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 121 2.95969 4.40760 4.19951 3.81411 3.31522 3.96247 4.56106 1.19972 3.64019 1.92349 3.26834 4.07239 4.40505 3.99967 3.84740 3.45121 3.26163 1.85202 5.18497 3.91336 121 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 3.76960 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,440 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_12\n-LENG 139\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 6\n-EFFN 0.788086\n-CKSUM 428557330\n-GA 37 36.9;\n-STATS LOCAL MSV -10.1373 0.71073\n-STATS LOCAL VITERBI -10.8276 0.71073\n-STATS LOCAL FORWARD -4.4338 0.71073\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74214 4.60911 2.74161 2.35902 3.21880 3.19201 3.79950 2.76537 2.52076 2.43114 3.77111 2.88594 3.91408 2.97686 3.04415 2.74645 2.96213 2.70503 4.57323 3.18369\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.00000 *\n- 1 2.71664 4.36562 3.88266 3.40460 3.44635 3.64849 4.22460 2.51371 3.23472 2.16757 1.61682 3.68273 4.14049 3.59199 3.49028 3.01811 2.33645 2.39674 5.12260 3.91747 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 2 2.89234 5.46297 1.75130 1.53380 4.75304 3.27945 3.73427 4.26404 2.66404 3.74648 4.56169 2.73341 3.85169 2.33480 3.22121 2.79240 3.16087 3.83330 5.89778 4.41585 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 3 2.74520 4.81745 2.95505 2.54914 3.57956 3.47988 3.66478 3.46064 2.51570 3.05277 3.93065 2.36279 3.91530 2.38646 2.90468 2.79033 2.98325 3.17123 5.00137 2.18439 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 4 2.76425 4.29153 3.95798 3.38773 3.37655 3.85843 4.15478 1.86380 2.64475 1.85415 3.29326 3.71415 4.21086 3.56290 3.50981 3.14412 2.99936 1.83312 4.99460 3.79224 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 5 2.73317 5.08463 2.06914 2.27619 4.47651 3.28288 3.73245 3.93549 2.61724 3.49547 4.30941 1.86985 3.82658 2.88452 3.12861 2.70612 2.28504 3.53446 5.68330 4.27232 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 6 2.91160 4.89927 3.36026 2.80931 4.05680 3.62818 3.74512 3.37147 1.31189 2.31583 3.96745 3.23765 4.03478 2.92721 2.47521 2.98196 3.12932 3.14793 5.31119 4.04702 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 7 2.79087 4.90330 3.14751 2.60699 4.13492 3.53770 3.65815 3.52799 1.92079 2.39300 3.96948 3.08090 3.93'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 132 2.73299 5.12139 2.72809 1.74964 4.44778 2.90400 3.62813 3.89638 2.32708 3.40611 4.19931 2.87548 3.83591 2.31153 2.45292 2.70036 2.96685 3.50978 5.55689 4.18992 136 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 133 2.86488 5.15506 2.45258 1.24815 4.61568 2.21044 3.84545 4.09048 2.75263 3.65104 4.50483 2.87831 3.88946 3.02110 3.23584 2.83309 3.17281 3.68565 5.79117 4.41580 137 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 134 2.89741 5.26002 2.61233 1.45232 4.60408 3.40487 3.70141 4.03629 1.81471 3.54345 4.38008 2.89720 3.90700 2.84510 2.73239 2.84562 3.13732 3.66294 5.67034 4.32135 138 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 135 2.64489 4.80885 2.88439 2.45113 4.07944 2.59928 3.67423 3.50638 2.45729 2.55008 3.94380 2.34064 3.83715 2.44130 2.88273 2.68168 2.89357 3.18250 5.34453 4.01313 139 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 136 2.62896 3.35825 3.07886 2.52944 3.97292 3.44453 2.95589 3.40172 2.38893 3.01514 3.84980 2.29700 3.84830 2.82449 2.37867 2.68592 2.86443 3.09459 5.24524 3.93383 140 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06717 4.78952 0.61958 0.77255 0.48576 0.95510\n- 137 2.78891 5.16243 2.52600 1.51590 4.44265 2.78484 2.69950 3.93691 2.51369 3.47000 4.28747 2.83633 3.85018 2.84732 2.98073 2.74801 3.04468 3.55640 5.62623 4.22422 141 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12709 4.06717 2.28062 0.61958 0.77255 0.48576 0.95510\n- 138 2.65459 4.88045 2.84143 2.41329 4.23013 2.63182 3.63397 3.64742 2.12759 3.21583 4.03450 2.92254 3.81504 2.19294 2.72687 2.66989 2.55182 3.29589 5.41344 4.08802 142 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16261 3.96856 2.03124 0.61958 0.77255 0.58487 0.81459\n- 139 2.83996 5.01519 2.88233 2.49280 4.33907 3.42968 3.59788 3.76519 1.77613 3.27630 4.15158 2.97049 3.88071 1.87708 2.36048 2.83561 3.06007 3.44277 5.40274 4.12954 143 k - - -\n- 2.68624 4.42231 2.77526 2.73130 3.46360 2.40519 3.72501 3.29360 2.67715 2.69361 4.24696 2.90353 2.73746 3.18100 2.89807 2.37870 2.77526 2.98525 4.58483 3.61509\n- 0.21333 1.64967 * 0.92622 0.50426 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,665 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_13\n-LENG 214\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 3\n-EFFN 0.547852\n-CKSUM 3738058704\n-GA 26 19.8;\n-STATS LOCAL MSV -10.3210 0.70453\n-STATS LOCAL VITERBI -11.5183 0.70453\n-STATS LOCAL FORWARD -5.2334 0.70453\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50796 4.47171 2.91445 2.67012 3.31869 2.68473 3.83401 3.00966 2.77013 2.36063 3.78306 3.21302 3.23519 3.22610 2.69892 2.81084 2.93714 2.60308 3.90426 3.36475\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.00000 *\n- 1 2.99623 4.53953 4.08639 3.68234 3.22266 3.85980 4.40948 2.40170 3.44857 1.81205 1.31330 3.95560 4.32050 3.82812 3.64986 3.34900 3.30216 2.41185 5.06815 3.83302 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 2 2.62786 4.65380 3.04993 2.63365 4.10392 3.33560 3.73298 3.40079 1.87445 3.08391 3.97314 3.06927 3.84501 2.91924 2.67654 2.71296 1.91444 3.08805 5.34606 4.07913 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 3 2.70769 4.47994 3.38856 3.29223 4.43435 0.67775 4.41060 4.04217 3.47822 3.69202 4.66789 3.55280 3.87219 3.79961 3.71067 2.88056 3.19161 3.56381 5.52058 4.53734 3 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 4 3.35804 4.71955 4.28670 3.88783 1.98971 4.13213 3.44022 3.24465 3.66340 2.65005 3.83066 3.84804 4.47422 3.83260 3.79345 3.49836 3.58479 3.12035 1.68864 1.53048 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 5 2.99600 4.42073 4.41327 3.91855 3.31361 4.15065 4.63233 1.93710 3.75648 1.50430 3.19032 4.17906 4.51191 4.05265 3.97170 3.52830 3.26907 1.34785 5.22764 4.00402 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 6 3.19383 4.64575 4.24498 3.88480 3.14862 4.02610 4.52969 2.35435 3.65222 0.83383 3.16045 4.15694 4.45540 4.01229 3.82271 3.60071 3.48644 2.40069 5.04063 3.77199 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 7 2.58771 4.61626 2.95914 2.59843 4.03123 3.28801 3.76030 3.39622 2.49067 3.03914 3.94815 3.04265 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 207 2.85948 4.58559 3.62210 3.05650 3.10871 3.63375 3.70203 3.16415 2.52179 2.72831 3.72697 3.39358 4.04465 3.13655 2.08504 3.01602 3.09271 2.95797 1.95160 3.12740 208 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 208 2.58771 4.61626 2.95914 2.59843 4.03123 3.28801 3.76030 3.39622 2.49067 3.03914 3.94815 3.04265 3.82238 2.18878 2.83223 2.67612 1.90213 3.08372 5.33591 4.04082 209 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 209 3.19383 4.64575 4.24498 3.88480 3.14862 4.02610 4.52969 2.35435 3.65222 0.83383 3.16045 4.15694 4.45540 4.01229 3.82271 3.60071 3.48644 2.40069 5.04063 3.77199 210 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 210 2.62786 4.65380 3.04993 2.63365 4.10392 3.33560 3.73298 3.40079 1.87445 3.08391 3.97314 3.06927 3.84501 2.91924 2.67654 2.71296 1.91444 3.08805 5.34606 4.07913 211 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 211 1.77447 4.24215 3.23251 2.95904 4.13359 3.01059 4.08069 3.43973 3.00756 3.18231 4.08930 3.21992 1.72977 3.34452 3.33050 2.47523 2.75850 3.02108 5.49550 4.26202 212 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 212 2.74444 4.81527 2.76974 1.74867 3.60892 3.40315 3.66422 3.40669 2.55028 3.01556 3.93225 2.96960 3.87678 2.92344 2.95240 2.78242 2.99255 3.13362 5.03564 2.46498 213 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 213 2.70769 4.47994 3.38856 3.29223 4.43435 0.67775 4.41060 4.04217 3.47822 3.69202 4.66789 3.55280 3.87219 3.79961 3.71067 2.88056 3.19161 3.56381 5.52058 4.53734 214 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90701 4.62936 0.61958 0.77255 0.48576 0.95510\n- 214 2.70769 4.47994 3.38856 3.29223 4.43435 0.67775 4.41060 4.04217 3.47822 3.69202 4.66789 3.55280 3.87219 3.79961 3.71067 2.88056 3.19161 3.56381 5.52058 4.53734 215 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02051 3.89720 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,431 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_14\n-LENG 136\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 10\n-EFFN 0.981445\n-CKSUM 1510656867\n-GA 150 150;\n-STATS LOCAL MSV -10.3107 0.71112\n-STATS LOCAL VITERBI -10.7398 0.71112\n-STATS LOCAL FORWARD -4.4151 0.71112\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71490 4.23152 2.82002 2.50628 3.15622 3.02527 3.69479 2.83841 2.57561 2.54081 3.65223 2.98346 3.38881 3.03589 3.02004 2.70038 2.95224 2.69440 4.17950 3.23785\n- 2.68625 4.42232 2.77527 2.73130 3.46361 2.40520 3.72501 3.29361 2.67748 2.69362 4.24504 2.90354 2.73747 3.18153 2.89808 2.37861 2.77527 2.98498 4.58484 3.61510\n- 0.49365 1.41316 1.92255 0.56845 0.83564 0.00000 *\n- 1 2.67744 4.51832 3.39166 2.79322 3.66290 3.57095 3.73618 3.00353 2.15785 2.33020 2.44062 3.22134 3.94449 2.97876 2.48274 2.83097 2.89779 2.78308 5.04349 3.80565 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02675 4.03028 4.75263 0.61958 0.77255 0.64476 0.74400\n- 2 2.61336 4.20176 3.71718 2.69133 3.29827 3.65875 3.93472 2.05915 3.06709 2.29380 2.93250 3.48899 4.02760 3.35037 3.35800 2.92555 2.84589 2.05184 4.81914 3.15573 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02675 4.03028 4.75263 0.61958 0.77255 0.50507 0.92498\n- 3 2.62653 4.95925 2.65470 1.93510 4.23993 3.39496 3.61141 3.67637 2.17529 3.23491 3.26256 2.89391 3.80345 2.73901 2.85169 2.62234 2.47910 3.31256 5.43350 4.06635 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02460 4.11302 4.83537 0.61958 0.77255 0.44043 1.03216\n- 4 2.77592 4.26970 4.08009 3.51295 3.31811 3.88396 4.19080 1.53106 3.38934 1.95944 2.78964 3.01040 4.23844 3.66238 3.62432 3.17573 3.01184 2.16673 4.93611 3.73287 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02300 4.17971 4.90206 0.61958 0.77255 0.48576 0.95510\n- 5 2.72931 5.13315 2.89316 2.19956 4.47405 3.44742 3.62471 3.92134 2.03741 3.41567 4.19373 2.23305 3.85714 2.73959 2.20549 2.39780 2.95438 3.52576 5.55083 4.19244 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07229 4.17971 2.91081 0.61958 0.77255 0.48576 0.95510\n- 6 2.83802 5.33386 1.51677 2.04432 4.63326 3.32493 3.72653 4.11721 2.61245 3.62587 4.42996 2.79196 3.85996 2.47428 3.14565 2.76612 2.56821 3.70608 5.79282 4.34647 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02414 4.13157 4.85392 0.61958 0.77255 0.45186 1.01182\n- 7 3.27882 4.62702 4.75141 4.38791 3.60107 4.38322 5.06977 0.76173 4.22258 2.13562 3.50039 4.59225 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02300 4.17971 4.90206 0.61958 0.77255 0.48576 0.95510\n- 129 2.47534 4.38708 4.63336 4.12931 3.69450 4.23423 4.85295 1.65594 4.03011 2.33287 3.52909 4.33531 4.62616 4.30427 4.24807 3.60621 3.27904 1.01538 5.50862 4.29804 134 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02300 4.17971 4.90206 0.61958 0.77255 0.48576 0.95510\n- 130 3.09372 4.82710 3.82943 3.77319 4.88794 0.38113 4.86345 4.57345 3.99561 4.18464 5.17081 3.99516 4.22701 4.29604 4.18728 3.27616 3.59862 4.04217 5.89059 5.00405 135 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02300 4.17971 4.90206 0.61958 0.77255 0.48576 0.95510\n- 131 3.51600 4.83561 4.78765 4.38864 0.98654 4.47727 4.08395 2.68590 4.22273 1.70691 3.35472 4.37688 4.77506 4.29360 4.29812 3.87876 3.75936 2.75618 4.26566 2.63728 136 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02300 4.17971 4.90206 0.61958 0.77255 0.48576 0.95510\n- 132 2.75422 5.11559 2.93190 2.23090 4.46338 2.87846 3.63799 3.89826 1.59098 3.40031 4.18990 2.95841 3.87799 2.75815 2.44284 2.51869 2.97837 3.51511 5.53860 4.19881 137 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02300 4.17971 4.90206 0.61958 0.77255 0.48576 0.95510\n- 133 2.72558 5.12103 2.53126 2.35344 4.45518 3.40051 3.66229 3.90866 1.62962 3.42847 4.21388 2.51851 3.84938 2.78712 2.85588 2.69705 2.48631 3.51455 5.58883 4.20773 138 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27279 4.17971 1.49858 0.61958 0.77255 0.48576 0.95510\n- 134 2.73764 4.71621 3.22675 2.72684 4.00790 3.48207 3.73711 3.18185 1.50814 2.93579 3.89608 3.15817 3.93293 2.92448 2.58638 2.83280 2.99343 2.41556 5.29277 4.02553 139 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93634 4.65869 0.61958 0.77255 0.72336 0.66382\n- 135 2.82562 5.29863 2.01247 1.47945 4.62236 2.52303 3.70932 4.11184 2.66382 3.63485 4.46623 2.70130 3.80212 2.86858 3.21860 2.74555 3.10669 3.70089 5.80643 4.34837 140 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 3.93634 4.65869 0.61958 0.77255 0.72336 0.66382\n- 136 2.66263 4.55382 3.17271 1.94930 3.73782 3.52982 3.82390 2.45490 2.67471 2.62266 3.62748 3.17464 3.94754 3.04279 3.06962 2.81397 2.91067 2.19447 5.20217 3.91632 141 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01990 3.92682 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,512 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_15\n-LENG 163\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 3\n-EFFN 0.583008\n-CKSUM 2013904703\n-GA 225 225;\n-STATS LOCAL MSV -10.1069 0.70806\n-STATS LOCAL VITERBI -11.1186 0.70806\n-STATS LOCAL FORWARD -4.4628 0.70806\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46968 4.29315 2.94252 2.48985 3.20329 2.94968 3.75329 2.85894 2.56540 2.53989 3.80947 3.02420 3.49898 3.08287 2.99331 2.78156 2.97917 2.64243 3.98778 3.29377\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40518 3.72499 3.29359 2.67709 2.69360 4.24521 2.90351 2.73744 3.18151 2.89806 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.22846 1.63617 4.65446 0.66550 0.72158 0.00000 *\n- 1 3.07542 4.46874 4.52173 3.98134 3.17552 4.26706 4.63059 1.59437 3.81938 1.63669 1.91138 4.25258 4.54906 4.05334 4.00519 3.61347 3.31786 2.02572 5.13633 3.99211 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 2 1.55897 4.13737 3.37012 3.09516 4.21029 2.92125 4.17047 3.55662 3.14527 3.30667 4.16245 3.26140 3.66559 3.44779 3.45214 1.48420 2.68464 3.05751 5.57480 4.34797 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 3 2.69588 4.88343 2.58679 1.55975 4.28342 3.27220 3.73980 3.60412 2.56310 3.27594 4.15566 2.88280 3.82118 2.91435 2.99191 2.71376 2.29693 3.27003 5.53808 4.18763 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 4 2.88135 5.07746 2.93321 2.52706 4.41712 3.47297 3.62387 3.84121 1.75892 3.33883 4.20639 3.00497 3.91683 1.73344 2.37123 2.87080 3.09707 3.51133 5.45198 4.18191 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 5 2.75506 4.51885 3.45186 2.93718 3.65665 3.62688 3.87362 1.86462 1.97758 2.53560 3.58584 3.34337 4.03727 3.12960 2.85656 2.95742 2.99735 2.46956 5.12927 3.87647 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 6 3.33353 4.79836 3.92635 3.66692 2.29604 3.89965 3.64692 3.33444 3.52272 2.77300 4.00329 3.79708 4.37211 3.81445 3.69421 3.46430 3.62050 3.20782 3.94209 0.87212 8 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 7 2.64636 4.68473 3.05932 2.63368 4.13289 3.35302 3.73058 3.43564 1.81309 3.10851 3.99341 3.07265 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 156 3.33445 4.71874 4.32045 4.04629 0.91898 4.01023 3.90407 2.85081 3.95182 2.20714 3.57218 4.08649 4.46750 4.10338 4.05682 3.60131 3.63562 2.84588 4.13552 2.49508 174 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 157 3.02665 4.99277 3.20661 2.81694 4.39282 3.50969 3.79244 3.82582 0.95957 3.37791 4.33618 3.23878 4.00584 2.98056 2.44333 3.06474 3.27550 3.53025 5.42300 4.24435 175 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 158 2.77307 4.77159 2.74176 2.63324 4.14447 3.22412 3.96948 3.86768 2.87815 3.50779 4.46269 1.05668 3.87890 3.24234 3.23484 2.83799 3.15690 3.48387 5.44355 4.08852 176 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 159 2.83125 4.57874 3.44486 3.29246 4.28260 3.26287 4.36506 3.84328 3.35484 3.46369 4.51606 3.59318 0.72386 3.74182 3.59367 3.00060 3.27750 3.48186 5.45287 4.40407 177 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 160 3.02665 4.99277 3.20661 2.81694 4.39282 3.50969 3.79244 3.82582 0.95957 3.37791 4.33618 3.23878 4.00584 2.98056 2.44333 3.06474 3.27550 3.53025 5.42300 4.24435 178 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 161 2.77307 4.77159 2.74176 2.63324 4.14447 3.22412 3.96948 3.86768 2.87815 3.50779 4.46269 1.05668 3.87890 3.24234 3.23484 2.83799 3.15690 3.48387 5.44355 4.08852 179 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 162 3.00377 5.12692 2.51310 0.94351 4.48065 3.31264 3.90459 3.94639 2.79262 3.55393 4.52531 2.96709 3.92004 3.11899 3.20765 2.98011 3.30846 3.62407 5.64099 4.36324 180 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02955 3.93211 4.65446 0.61958 0.77255 0.48576 0.95510\n- 163 2.92833 4.91583 2.94259 2.69817 4.09229 3.40554 3.85703 3.73211 2.51483 3.22856 4.25467 3.15846 3.95981 1.13169 2.79787 2.97353 3.22522 3.45806 5.35373 4.05140 181 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01999 3.92255 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_16.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_16.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,470 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_16\n-LENG 149\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 4\n-EFFN 0.699219\n-CKSUM 540957561\n-GA 32 31;\n-STATS LOCAL MSV -10.0905 0.70949\n-STATS LOCAL VITERBI -10.9608 0.70949\n-STATS LOCAL FORWARD -4.5652 0.70949\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71180 4.19368 2.76102 2.43786 3.19177 2.99173 3.90377 2.61680 2.57206 2.35281 3.70845 2.90816 3.81349 3.19700 3.03500 2.79843 3.09031 2.64786 5.05989 3.26303\n- 2.68631 4.42238 2.77533 2.73107 3.46367 2.40526 3.72508 3.29367 2.67754 2.69340 4.24433 2.90360 2.73753 3.18113 2.89814 2.37900 2.77502 2.98532 4.58490 3.61445\n- 0.32843 1.93829 1.99511 1.54959 0.23868 0.00000 *\n- 1 3.10449 4.54585 4.38189 3.84596 3.05416 4.21543 4.51419 2.18366 3.64082 1.26372 1.88365 4.15162 4.49573 3.91210 3.83921 3.56407 3.34356 2.25509 5.03515 3.86844 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03132 3.87482 4.59717 0.61958 0.77255 0.61098 0.78268\n- 2 2.59528 4.67816 2.88935 2.54353 4.18526 3.25585 3.71889 3.60416 1.90356 3.21762 4.07506 2.99275 3.79900 2.90082 2.71546 1.81977 2.90752 3.23931 5.40146 4.10494 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03132 3.87482 4.59717 0.61958 0.77255 0.61098 0.78268\n- 3 2.95414 5.06591 2.48834 1.02203 4.41239 3.27546 3.86234 3.86675 2.74315 3.48345 4.45728 2.93399 3.88012 3.07789 3.15231 2.93624 3.25836 3.55032 5.58351 4.30565 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03132 3.87482 4.59717 0.61958 0.77255 0.61098 0.78268\n- 4 3.18566 4.57447 4.45098 3.97757 1.68958 4.22528 4.11611 2.35897 3.83432 1.35725 3.05420 4.13630 4.51887 3.98939 3.98442 3.59028 3.42500 2.41884 4.40533 2.87566 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03132 3.87482 4.59717 0.61958 0.77255 0.61098 0.78268\n- 5 2.59229 4.67336 2.88870 2.54480 4.18276 3.25297 3.72137 3.60194 1.91767 3.21666 4.07438 2.99331 3.79792 2.90410 2.72179 1.80693 2.90596 3.23666 5.40137 4.10464 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03132 3.87482 4.59717 0.61958 0.77255 0.61098 0.78268\n- 6 2.59528 4.67816 2.88935 2.54353 4.18526 3.25585 3.71889 3.60416 1.90356 3.21762 4.07506 2.99275 3.79900 2.90082 2.71546 1.81977 2.90752 3.23931 5.40146 4.10494 13 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03132 3.87482 4.59717 0.61958 0.77255 0.61098 0.78268\n- 7 2.74117 4.74157 2.86798 1.78768 3.82679 3.43154 3.75857 3.08692 2.55490 2.15566 3.79214 3.04202 3.9046'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 142 2.69005 4.48826 3.46646 3.07261 3.61914 3.46171 4.04978 2.92862 2.95718 1.92925 3.67344 3.42667 1.65392 3.36358 3.25943 2.88472 3.02288 2.75281 5.16212 3.87089 155 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 143 2.75275 0.69825 4.30160 4.07411 4.03571 3.34488 4.69095 3.20424 3.90242 3.11267 4.23913 4.02436 4.06258 4.24296 4.00164 3.02440 3.23131 2.93905 5.42061 4.32193 156 c - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40493 3.72496 3.29356 2.67743 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.16737 1.92883 4.73322 0.32207 1.28970 0.48576 0.95510\n- 144 2.05886 4.61374 3.00544 2.59079 4.16869 3.26125 3.77150 3.56113 2.06304 3.19057 4.02332 3.03628 3.79909 2.94914 2.91135 1.89802 2.85233 3.18550 5.42266 4.12741 158 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 145 3.07257 4.44948 4.58676 4.04093 1.97963 4.24800 4.43652 2.18202 3.91622 1.43229 3.02939 4.23759 4.52765 4.06755 4.06215 3.57887 3.30676 1.78265 4.83121 3.51096 159 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 146 2.70021 4.37515 3.56670 2.45429 3.42340 3.68793 3.95825 2.12664 2.94127 2.25790 2.30570 3.43538 4.06194 3.27978 3.27008 2.96134 2.93538 2.37223 4.99280 3.77025 160 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 147 2.61722 4.39365 3.50758 3.15743 2.21512 1.48436 3.99972 3.13447 3.17828 2.80063 3.80999 3.44462 3.96000 3.47365 3.48239 2.81425 2.98239 2.87955 4.86386 3.42024 161 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 148 2.70925 4.78041 2.88769 2.61661 4.37431 1.53855 3.84856 3.81119 1.92307 3.40750 4.26954 3.07161 3.87520 3.03806 2.87667 2.76922 3.03945 3.42275 5.54616 4.28086 162 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02728 4.01087 4.73322 0.61958 0.77255 0.48576 0.95510\n- 149 2.84444 5.11906 2.75572 1.48655 4.45785 3.41905 3.67517 3.89128 2.29069 3.41286 4.25826 2.94377 3.89408 2.82215 2.10203 2.82084 3.08065 3.53780 5.54524 4.22887 163 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01845 4.00203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_17.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_17.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,422 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_17\n-LENG 133\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 2\n-EFFN 0.371094\n-CKSUM 2644739802\n-GA 118 118;\n-STATS LOCAL MSV -9.5140 0.71151\n-STATS LOCAL VITERBI -10.6907 0.71151\n-STATS LOCAL FORWARD -4.4828 0.71151\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44403 4.17072 2.82344 2.71648 3.28688 2.91814 3.69099 2.83527 2.78633 2.34208 3.67638 3.20791 3.32747 3.20597 3.03751 2.71099 2.91211 2.60271 3.90010 3.37683\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.36359 4.20727 3.34269 3.09392 3.88359 3.04887 4.11833 2.99853 3.03481 2.86544 3.92547 3.31758 3.74578 3.43570 3.29644 2.56408 1.35825 2.70456 5.33074 4.10122 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 126 3.10546 4.63588 3.68956 3.40274 2.30871 3.71272 3.58056 3.12943 3.26317 2.60908 3.81617 3.60176 4.19052 3.59391 3.46665 3.25135 3.39256 2.99561 3.94751 1.15464 126 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 127 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 127 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 128 2.48017 1.17422 3.97101 3.68982 3.70771 3.12180 4.35978 2.83721 3.51693 2.75599 3.87534 3.70412 3.82066 3.86768 3.65839 2.75108 2.93882 2.58808 5.14229 3.99525 128 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 129 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 129 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 130 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 130 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 131 2.64364 4.63134 2.66197 2.53879 3.97922 3.11912 3.84748 3.67062 2.74432 3.33031 4.28873 1.35324 3.76754 3.12283 3.09307 2.71655 3.02383 3.30326 5.29751 3.93702 131 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 132 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 132 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 133 1.17216 4.14682 3.36293 3.15321 3.95417 2.97327 4.18677 3.06495 3.16685 2.95070 3.99690 3.32739 3.70315 3.51837 3.42243 2.49955 2.76997 2.73744 5.39182 4.18130 133 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_18.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_18.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,494 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_18\n-LENG 157\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 5\n-EFFN 0.659180\n-CKSUM 604578750\n-GA 260 260;\n-STATS LOCAL MSV -10.3458 0.70876\n-STATS LOCAL VITERBI -10.7943 0.70876\n-STATS LOCAL FORWARD -4.7982 0.70876\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44937 4.27383 2.82549 2.64366 3.39679 2.89677 3.78494 2.83077 2.73477 2.39261 3.76175 3.18266 3.39326 3.03894 2.80446 2.74069 2.93722 2.66602 4.11727 3.42387\n- 2.68596 4.42231 2.77525 2.73129 3.46359 2.40518 3.72500 3.29360 2.67746 2.69360 4.24562 2.90352 2.73745 3.18152 2.89806 2.37872 2.77525 2.98524 4.58482 3.61509\n- 0.16861 1.92327 4.70678 0.91134 0.51414 0.00000 *\n- 1 2.07922 4.31845 3.80680 3.34412 3.45401 3.56091 4.19110 2.49970 3.20906 2.19197 1.78759 3.61880 4.07620 3.55189 3.47505 2.93733 2.97234 2.36752 5.11720 3.90688 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 2 2.64388 4.85355 2.70569 2.39906 4.27964 3.28308 3.70677 3.74526 2.48395 3.31754 4.14279 2.50947 3.80745 2.26633 2.90092 1.84180 2.93402 3.36389 5.49854 4.14655 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 3 2.72771 5.04224 2.50739 1.89649 4.40062 3.28570 3.69488 3.83511 2.52755 3.40766 4.23442 1.91667 3.81547 2.85072 2.99364 2.70608 2.53446 3.45968 5.60305 4.21701 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 4 2.61357 4.68028 3.01914 2.09606 3.88438 3.43971 3.66374 2.79860 2.46140 2.87688 3.75430 3.00837 3.84218 2.39889 2.87762 2.68519 2.84683 2.63434 5.21100 3.90727 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14133 3.98443 2.17864 0.61958 0.77255 0.48576 0.95510\n- 5 2.66717 4.44251 3.34136 3.24096 4.38341 0.72608 4.36120 3.98343 3.42251 3.63733 4.61303 3.50564 3.83371 3.74650 3.65842 2.83912 3.14856 3.51136 5.47813 4.48535 8 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87443 4.59678 0.61958 0.77255 0.58686 0.81209\n- 6 3.24978 4.73798 3.84107 3.57074 2.29339 3.83237 3.61923 3.25871 3.42820 2.71215 3.93351 3.72577 4.30613 3.73378 3.61154 3.38631 3.53645 3.12934 3.93725 0.96253 9 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87443 4.59678 0.61958 0.77255 0.42737 1.05620\n- 7 3.10366 4.43562 4.73268 4.17211 3.23420 4.39533 4.76295 1.61183 4.06007 1.43299 2.55083 4.41017 4.63'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 150 2.20712 4.46684 3.24322 2.75813 3.99413 3.27671 3.81645 3.31541 2.56197 3.00874 3.87936 3.14784 3.81612 3.02555 2.35322 2.62381 1.83044 2.98486 5.30475 4.04863 172 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 151 2.52842 4.57518 2.95943 2.58152 4.02113 2.14802 2.78253 3.47450 2.60304 3.10827 3.95390 3.03079 3.79800 2.97664 2.99857 2.61860 2.24765 3.12074 5.33272 4.01925 173 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 152 2.73591 4.42209 3.61501 3.06495 3.46534 3.69159 3.95060 2.55292 2.34926 1.67407 3.39152 3.45121 4.07702 3.25569 3.09123 2.98803 2.97561 2.14898 5.02710 3.79503 174 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 153 2.13901 4.99873 2.62522 1.87710 4.31839 3.33044 3.66107 3.74070 2.43900 3.30988 4.13621 2.85580 3.81862 2.27138 2.87771 2.69616 2.96192 3.38422 5.51558 4.15284 175 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 154 2.67552 4.95510 2.76568 2.15450 4.29176 2.70630 3.62994 3.71427 1.87866 3.27204 4.08351 2.89079 3.81438 2.77133 2.75912 2.67352 2.54765 3.35392 5.46091 4.11786 176 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 155 2.76705 5.13068 2.55814 1.72841 4.46946 2.60928 3.65676 3.91423 1.98895 3.44085 4.25681 2.83099 3.82949 2.79941 2.82773 2.72887 3.01698 3.53342 5.60207 4.22925 177 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 156 2.84997 5.19112 2.52815 1.81968 4.48696 3.34777 3.68579 3.94971 2.40441 3.46711 4.32028 2.84880 3.86623 1.72479 2.79799 2.80369 3.09972 3.58832 5.62100 4.25322 178 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02803 3.98443 4.70678 0.61958 0.77255 0.48576 0.95510\n- 157 2.78550 5.12880 2.73325 1.68959 4.45731 3.40215 3.61772 3.89304 2.24282 3.39549 4.21209 2.89057 3.85336 2.30751 2.31820 2.75235 3.01230 3.52406 5.53315 4.19623 179 e - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18120 2.89783 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.18810 1.76335 * 0.29947 1.35175 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_19.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_19.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,623 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_19\n-LENG 200\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 6\n-EFFN 0.647461\n-CKSUM 2107198082\n-GA 340 200;\n-STATS LOCAL MSV -10.7791 0.70537\n-STATS LOCAL VITERBI -11.3288 0.70537\n-STATS LOCAL FORWARD -5.4745 0.70537\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60260 4.47060 2.88043 2.60880 3.05722 2.81668 3.62007 3.00512 2.69324 2.49951 3.68322 3.12430 3.50305 3.05347 2.82687 2.74323 2.94292 2.71639 3.65580 3.29179\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.00000 *\n- 1 3.05327 4.58618 4.16212 3.76432 3.25653 3.91218 4.47542 2.44266 3.52642 1.83637 1.19181 4.02870 4.37416 3.90193 3.71934 3.41282 3.36104 2.46064 5.11070 3.88117 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 2 2.64639 4.84743 2.75205 2.41999 4.28959 3.29749 3.69616 3.73039 2.10885 3.30357 4.12840 2.42307 3.81150 2.85579 2.83064 1.83643 2.93137 3.35301 5.48796 4.15249 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 3 2.80382 5.25168 1.59851 2.16706 4.58646 2.55772 3.71171 4.08290 2.63568 3.60381 4.42731 2.73615 3.81163 2.33906 3.17260 2.73641 3.08314 3.67113 5.77107 4.32410 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 4 2.57278 3.07907 2.72147 2.34208 3.80705 3.41227 3.66742 3.18649 2.52844 2.51831 3.70331 2.71083 3.82313 2.86699 2.96195 2.66013 2.81201 2.90623 5.14923 3.85035 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 5 2.36844 4.28977 3.29922 3.12062 4.18103 3.01784 4.22721 3.71810 3.20141 3.43059 4.34851 3.32818 3.76540 3.54275 3.48368 0.94430 2.85651 3.23036 5.54535 4.26531 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 6 2.68230 4.85626 3.04619 2.49596 4.13463 3.45443 3.60532 3.02120 2.00647 3.11362 3.94302 2.29523 3.84862 2.75460 2.28427 2.71014 2.90313 3.21371 5.31500 4.01751 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 7 2.74559 5.11275 1.58687 2.21078 4.50630 3.22937 3.72689 3.96882 2.65267 3.53355 4.36061 2.39621 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 193 2.77465 4.66783 3.39268 2.79258 3.59236 3.58698 3.65767 3.25709 2.28586 2.85744 3.76543 3.20611 3.96578 2.55135 2.10278 2.88267 2.98672 3.00984 2.41993 3.59858 194 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 194 2.75894 4.91870 3.07489 2.56115 4.28835 3.46339 3.63026 3.68544 1.90455 3.23038 4.06993 3.03178 2.23268 2.77826 2.13732 2.78163 2.98722 3.35190 5.38916 4.12100 195 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 195 2.64853 5.00768 2.28531 2.04473 4.27966 2.78965 3.08678 3.73389 2.42090 2.87201 4.08177 2.82129 3.78157 2.74513 2.91034 2.62836 2.88973 3.36443 5.47861 4.09233 196 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 196 2.30756 4.87030 2.89832 2.44120 4.22691 3.37860 3.63241 3.63970 1.86907 3.20772 4.02701 2.94343 3.82221 2.48536 2.68632 2.33029 2.90308 3.28984 5.40194 4.08503 197 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 197 2.69656 4.98576 2.23229 1.75891 4.25850 3.31922 3.67212 3.61240 2.53198 3.26088 4.09956 2.83211 3.81134 2.82746 3.02445 2.68675 2.95142 2.52901 5.50890 4.12689 198 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02825 3.97656 4.69890 0.61958 0.77255 0.48576 0.95510\n- 198 2.77510 5.13291 2.51957 1.89907 4.35876 3.32753 2.26901 3.88230 2.43932 3.41448 4.23881 2.37306 3.83004 2.80917 2.87991 2.73481 3.02339 3.51322 5.54994 4.14819 199 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10217 3.97656 2.54621 0.61958 0.77255 0.48576 0.95510\n- 199 2.57838 4.78554 1.97037 2.32594 4.32029 2.51772 3.74085 3.74364 2.64830 3.35478 4.18260 2.83966 3.75204 2.91243 3.13724 2.60413 2.22001 3.34048 5.57330 4.20546 200 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03039 3.90477 4.62711 0.61958 0.77255 0.55360 0.85537\n- 200 2.73624 5.05859 2.50405 1.96753 4.38788 2.60259 3.65017 3.83631 2.42953 3.38145 4.20990 2.80439 3.80288 2.04563 2.86294 2.70703 2.99482 3.46664 5.56006 4.18754 201 e - - -\n- 2.68626 4.42233 2.77505 2.73110 3.46362 2.40521 3.72503 3.29362 2.67749 2.69363 4.24698 2.90330 2.73748 3.18155 2.89758 2.37895 2.77528 2.98527 4.58485 3.61459\n- 0.25479 1.49199 * 0.95264 0.48731 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,626 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_2\n-LENG 201\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 15\n-EFFN 3.504639\n-CKSUM 3167468396\n-GA 36 26;\n-STATS LOCAL MSV -10.3830 0.70528\n-STATS LOCAL VITERBI -11.2751 0.70528\n-STATS LOCAL FORWARD -5.1840 0.70528\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58383 4.49532 2.89282 2.49425 3.35260 2.82675 3.68292 2.91737 2.68392 2.41764 3.76157 3.08598 3.50645 2.98721 2.79924 2.71422 2.86462 2.74751 4.21506 3.43621\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.50787 5.05056 0.93696 0.61958 0.77255 0.00000 *\n- 1 2.73582 4.33930 3.90123 3.35201 2.68839 2.69990 4.09814 2.81805 3.27435 2.51890 1.65793 3.65494 2.80747 3.54537 3.54713 3.03603 2.99027 2.61765 4.95047 3.72171 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01569 4.55838 5.28073 0.61958 0.77255 1.25258 0.33655\n- 2 2.71684 4.81953 2.54638 2.62855 4.04532 3.56503 3.79161 2.82924 2.62268 2.61145 3.91111 3.13325 2.99594 2.96570 3.07306 1.98797 2.43081 3.14157 5.35439 4.04121 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01569 4.55838 5.28073 0.61958 0.77255 1.25258 0.33655\n- 3 1.92783 4.86922 2.66038 2.59208 4.09758 3.55805 3.76995 3.50400 2.24865 2.53793 3.08384 3.10482 3.94995 2.93189 3.03908 2.37355 2.95138 3.19443 5.38492 4.06147 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01569 4.55838 5.28073 0.61958 0.77255 1.04230 0.43486\n- 4 2.75083 5.14921 2.22771 2.48370 4.45110 3.53668 3.73069 3.90654 2.18631 2.85902 3.21839 3.02331 2.52146 2.29935 2.96215 2.73519 2.98203 3.51653 5.60747 4.22555 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63479 5.35714 0.61958 0.77255 0.78751 0.60693\n- 5 2.41232 4.77684 2.69219 2.79876 3.96101 3.68290 2.91864 2.80564 2.18967 2.25487 2.45087 3.28355 4.06893 3.11475 3.20601 2.90122 3.02706 3.07698 5.31935 4.03326 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01259 4.77688 5.49922 0.61958 0.77255 0.80873 0.58955\n- 6 2.82778 5.05206 3.21495 2.65486 4.30045 2.85817 3.84783 3.72038 1.84028 3.31340 2.69520 3.17554 3.15643 2.99212 2.54970 2.85478 2.64261 3.39001 5.54616 2.72078 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01182 4.83980 5.56214 0.61958 0.77255 0.65741 0.73021\n- 7 2.49361 4.79390 3.45465 2.89311 3.97083 3.75190 3.97775 2.79735 2.25591 3.02416 2.57440 3.36928 4.137'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00956 5.05056 5.77290 0.61958 0.77255 0.48576 0.95510\n- 194 4.04187 5.22504 6.11063 5.59731 3.95207 5.60532 6.12902 1.24835 5.51081 0.86995 3.67959 5.77649 5.69467 5.51805 5.54093 5.03249 4.27624 1.78283 6.18401 5.15190 211 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00956 5.05056 5.77290 0.61958 0.77255 0.48576 0.95510\n- 195 2.48189 5.24452 3.22971 1.65239 4.52658 3.70794 3.90198 3.96775 2.66343 2.97111 4.30344 3.20687 4.09970 2.65721 2.28951 2.90506 2.33503 2.59331 5.71702 4.35028 212 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00956 5.05056 5.77290 0.61958 0.77255 0.48576 0.95510\n- 196 1.94757 4.77796 2.93694 3.03171 3.93966 3.04935 3.22957 3.31381 3.00426 2.52122 3.87322 3.48890 2.77392 3.32746 3.40684 3.06521 2.66131 2.09518 3.33270 4.07721 213 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00956 5.05056 5.77290 0.61958 0.77255 0.48576 0.95510\n- 197 2.49252 5.31818 3.19257 2.37333 4.62668 3.01495 3.88140 3.26609 1.75887 2.99086 4.36900 3.17581 4.08422 2.26270 2.36110 2.88508 3.13438 2.92823 5.77251 4.38706 214 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17359 5.05056 1.87762 0.61958 0.77255 0.48576 0.95510\n- 198 2.18698 5.34419 2.56436 1.64478 4.68309 2.99733 3.81140 4.16485 2.55500 3.64828 4.39057 3.08264 3.01128 2.91170 2.60782 2.81354 2.56052 3.73237 5.78358 4.37496 215 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07202 4.88822 2.78138 0.61958 0.77255 0.85348 0.55500\n- 199 2.81153 5.25480 2.56457 2.25460 4.57265 2.18702 3.78539 3.10428 2.53186 3.54834 4.30304 3.07272 3.01714 2.44218 2.52518 2.78699 3.04284 2.94645 5.70408 4.31013 216 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08412 4.82816 2.62166 0.61958 0.77255 0.95039 0.48872\n- 200 2.86223 5.38341 2.42109 1.68095 4.72345 2.36906 3.80295 4.21267 2.21816 3.68532 4.43015 2.54624 3.99734 2.90630 2.48806 2.81514 3.09782 3.77228 5.81377 4.39407 217 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08805 4.75688 2.58112 0.61958 0.77255 1.04811 0.43171\n- 201 2.32578 4.94579 3.16352 2.28006 3.02497 2.78785 3.80075 3.59578 2.60558 2.65306 4.02004 3.12853 3.98416 2.07832 3.06693 2.45373 2.99275 3.27672 5.45315 4.12144 218 q - - -\n- 2.68568 4.42093 2.77515 2.73074 3.46430 2.40475 3.72570 3.29430 2.67734 2.69431 4.24766 2.90338 2.73771 3.18222 2.89723 2.37840 2.77551 2.98480 4.58553 3.61579\n- 0.78696 0.60739 * 1.50314 0.25158 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_21.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_21.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,464 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_21\n-LENG 147\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 6\n-EFFN 0.870117\n-CKSUM 639151541\n-GA 208 208;\n-STATS LOCAL MSV -10.1436 0.70976\n-STATS LOCAL VITERBI -10.8570 0.70976\n-STATS LOCAL FORWARD -4.8206 0.70976\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60094 4.34518 3.00475 2.63899 3.14903 2.80719 3.84115 2.97299 2.80782 2.35592 3.69606 3.12457 3.24825 3.07044 2.84048 2.66811 2.89128 2.68875 3.93140 3.32636\n- 2.68627 4.42235 2.77529 2.73107 3.46363 2.40505 3.72504 3.29363 2.67728 2.69364 4.24474 2.90356 2.73749 3.18156 2.89780 2.37896 2.77529 2.98528 4.58486 3.61513\n- 0.23985 1.58309 4.83882 0.96664 0.47862 0.00000 *\n- 1 2.66618 4.46352 3.40956 2.88893 3.59535 3.56167 3.86357 2.90200 2.72991 2.52597 1.98464 3.30271 3.98122 2.57132 3.05786 2.85235 2.47172 2.70762 5.06325 3.82367 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 2 2.88955 5.19805 3.14943 2.57353 4.60273 3.56948 3.61724 3.99981 1.53235 3.45073 4.26234 2.55969 3.95099 2.29071 2.04573 2.86203 3.08425 3.63086 5.52831 4.26221 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 3 2.46056 4.28824 3.63976 3.31259 3.97926 1.48836 4.28573 3.04067 3.30379 2.99448 3.96643 3.50601 3.91169 3.61859 3.58864 2.68141 2.89360 1.71999 5.44641 4.21672 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 4 3.75974 4.98779 4.67719 4.38401 1.64450 4.46803 3.52263 3.45586 4.22876 2.77217 4.05320 4.13481 4.78177 4.19944 4.26443 3.84787 3.98416 3.38191 3.65911 0.83272 7 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 5 2.15666 4.31107 4.21387 3.82318 3.79326 3.66521 4.64194 2.15534 3.73297 2.51962 3.67418 3.95769 4.26203 4.03968 3.96322 3.09629 3.08618 1.04323 5.50695 4.28713 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 6 3.44511 4.96428 3.95211 3.60148 2.18868 4.12490 2.40593 3.59498 3.42103 2.98602 4.13631 3.75453 4.50493 3.71905 3.63699 3.50079 3.67637 3.43058 3.84055 0.98028 9 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 7 2.60441 4.71951 3.04636 2.26906 3.97975 3.42989 3.67082 3.37370 2.46407 3.00385 3.83510 3.00969 3.83'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 140 2.42415 4.37102 4.43797 3.86708 3.23395 4.13429 4.46884 1.87923 3.74730 1.35393 2.54487 4.11371 4.43907 3.95109 3.93054 3.44517 3.18963 2.12477 5.04293 3.90330 150 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 141 2.59515 4.80874 2.35652 2.44038 4.30990 3.28446 3.75739 3.74612 2.60414 3.33369 4.14016 2.94471 2.19007 2.91270 3.07887 2.27831 2.40342 3.34645 5.54788 4.19335 151 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12173 4.11647 2.31959 0.61958 0.77255 0.48576 0.95510\n- 142 2.62914 4.80803 1.81287 2.39664 4.22603 2.53950 3.75912 3.58764 2.65080 3.25810 4.10232 2.91162 3.81305 2.93282 3.13145 2.66341 2.92914 2.53691 5.51027 4.15179 152 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02699 4.02172 4.74407 0.61958 0.77255 0.58593 0.81325\n- 143 2.34839 5.11840 2.56454 1.85597 4.42964 3.32835 3.64922 3.88564 2.44552 3.41654 4.21810 2.34489 3.81376 2.33664 2.91726 2.68827 2.97417 3.50023 5.59183 4.19823 153 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02699 4.02172 4.74407 0.61958 0.77255 0.58593 0.81325\n- 144 2.28297 4.25109 3.22863 3.02980 4.40783 1.50011 4.21445 3.88297 3.19784 3.54805 4.37195 3.25104 3.71449 3.47741 3.52850 1.58132 2.77400 3.29848 5.72294 4.48676 154 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02699 4.02172 4.74407 0.61958 0.77255 0.58593 0.81325\n- 145 2.54379 4.62435 2.90123 2.57295 4.20574 1.88227 3.81432 3.61951 2.62095 3.24198 4.08265 3.02322 3.80308 2.39963 3.01425 2.62375 2.37184 3.23326 5.47521 4.17111 155 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12404 4.02172 2.31533 0.61958 0.77255 0.58593 0.81325\n- 146 2.43778 2.56677 2.47455 2.73920 3.82078 3.24462 3.84545 3.09116 2.77360 2.86638 3.74799 3.13614 3.79058 3.08987 3.16638 2.59009 2.28965 2.78810 5.21031 3.94234 156 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02970 3.92738 4.64972 0.61958 0.77255 0.66875 0.71815\n- 147 2.69381 5.04351 1.93607 2.23601 4.36644 3.26971 3.65479 3.81435 2.50345 3.37461 4.19446 2.78614 3.78458 2.29361 2.99388 2.66568 2.42163 3.43775 5.57252 4.17405 157 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02009 3.91777 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,503 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_4\n-LENG 160\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 4\n-EFFN 0.574219\n-CKSUM 3514084148\n-GA 27.2 26.4;\n-STATS LOCAL MSV -10.0656 0.70846\n-STATS LOCAL VITERBI -11.0228 0.70846\n-STATS LOCAL FORWARD -4.7962 0.70846\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40642 4.17135 2.97459 2.67338 3.39515 2.81484 3.76338 2.93072 2.76951 2.43209 3.75022 3.15556 3.10807 3.18264 2.79160 2.73822 2.83528 2.60939 3.94124 3.73889\n- 2.68623 4.42230 2.77525 2.73129 3.46359 2.40518 3.72500 3.29359 2.67746 2.69360 4.24564 2.90284 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61509\n- 0.30722 1.87883 2.19157 0.90950 0.51538 0.00000 *\n- 1 2.66170 4.65870 2.92597 1.89121 3.79371 3.41217 3.71675 3.04959 2.51144 2.70834 2.81885 3.02794 3.86379 2.92158 2.89053 2.75064 2.91292 2.83398 5.20270 3.89899 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03318 3.81813 4.54048 0.61958 0.77255 0.43125 1.04896\n- 2 2.74880 4.28532 3.97566 3.42421 3.30759 3.82208 4.19695 1.94282 3.30432 2.02062 2.30284 3.73625 4.19857 3.59817 3.56757 3.12898 2.35462 2.09739 5.00002 3.81123 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 3 2.30615 5.00248 2.62977 1.79111 4.33259 3.33013 3.63963 3.73401 2.05936 3.30801 4.13730 2.85193 3.81457 2.78860 2.78062 2.70323 2.96607 3.38099 5.50293 4.15261 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 4 2.49966 4.54851 2.82939 2.58263 4.17628 3.14823 3.85616 3.56917 2.70138 3.26385 4.13421 1.74472 3.77019 3.06565 3.08437 2.59342 2.14228 3.17831 5.48404 4.15940 7 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 5 2.44153 4.28672 3.47555 3.22997 4.01607 3.12424 4.24321 3.14971 3.17400 3.01131 4.05837 3.43083 3.83218 3.56614 3.43015 2.64338 1.08450 2.83898 5.44918 4.23269 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 6 1.79673 1.62446 3.99199 3.63550 3.85514 3.03795 4.37050 2.87045 3.49600 2.85186 3.83980 3.57271 3.77387 3.78457 3.68462 2.50187 2.72164 2.55530 5.36063 4.17339 9 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 7 2.21987 4.77137 3.02610 2.61884 4.25153 3.36345 3.71640 3.55638 1.47488 3.20321 4.08993 3.06130 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 153 3.42484 4.78046 4.17318 3.89239 2.72161 3.79025 3.96602 3.45060 3.61340 2.83631 4.08194 4.03064 4.31242 3.99825 3.73239 3.62804 3.72792 3.34242 0.78413 2.72090 182 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 154 3.06571 4.90129 3.56181 3.06164 4.26940 3.54358 3.86303 3.81473 2.25902 3.32095 4.31964 3.41735 4.04349 3.08062 0.89984 3.14725 3.32797 3.53635 5.33074 4.18506 183 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 155 3.21516 4.66155 4.27524 3.91527 3.15612 4.04997 4.55423 2.36302 3.68249 0.81214 3.16228 4.18556 4.47610 4.03804 3.84985 3.62696 3.50696 2.41424 5.05486 3.79054 184 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 156 2.63830 4.29636 3.78871 3.32353 3.55715 3.57934 4.21278 1.86513 3.20167 2.33971 3.47398 3.61440 4.09191 3.55597 3.48678 2.95211 1.81727 2.12002 5.19634 3.96053 185 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 157 3.04638 4.39882 4.64751 4.15830 3.47081 4.32236 4.88612 1.19669 4.02953 1.97279 3.29384 4.39310 4.65892 4.30715 4.23667 3.71109 3.31860 1.43775 5.43223 4.22431 186 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 158 2.25068 4.21348 3.13280 2.95455 4.32507 1.41962 4.15109 3.80014 3.13294 3.47572 4.31224 3.18946 3.66985 3.42041 3.45844 1.88047 2.73900 3.23602 5.64572 4.40341 187 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02974 3.92590 4.64824 0.61958 0.77255 0.48576 0.95510\n- 159 2.60236 4.24379 3.95144 3.53297 3.66387 3.53714 4.39375 2.17693 3.42008 2.42011 3.56115 3.73531 4.11412 3.75889 3.67672 2.94979 2.33180 1.29804 5.33602 4.10873 188 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17715 3.92590 1.94756 0.61958 0.77255 0.48576 0.95510\n- 160 1.84315 4.52156 2.96563 2.61762 4.03404 3.22128 3.75239 3.30250 2.01855 3.02905 3.93537 3.03639 3.77944 2.95716 2.76533 2.63500 2.85759 2.98517 5.32089 4.05195 189 a - - -\n- 2.68624 4.42231 2.77525 2.73107 3.46359 2.40518 3.72500 3.29360 2.67746 2.69360 4.24695 2.90352 2.73723 3.18117 2.89806 2.37892 2.77502 2.98524 4.58483 3.61509\n- 0.15334 1.95078 * 1.06101 0.42481 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,536 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_5\n-LENG 171\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 9\n-EFFN 0.786621\n-CKSUM 1296764874\n-GA 133 133;\n-STATS LOCAL MSV -10.6882 0.70736\n-STATS LOCAL VITERBI -11.3090 0.70736\n-STATS LOCAL FORWARD -5.0307 0.70736\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45807 4.27979 2.93025 2.53861 3.53911 2.78375 3.72225 2.98200 2.78263 2.51275 3.65572 3.08194 3.47562 3.10872 2.91925 2.63601 2.73586 2.64403 3.80160 3.56221\n- 2.68606 4.42247 2.77542 2.73128 3.46376 2.40535 3.72516 3.29376 2.67763 2.69360 4.24540 2.90303 2.73744 3.18141 2.89823 2.37852 2.77499 2.98540 4.58499 3.61476\n- 0.30003 1.77827 2.40494 1.83091 0.17467 0.00000 *\n- 1 2.82792 4.37090 4.02877 3.48157 3.25246 3.88005 4.24101 2.31422 3.32366 1.68658 1.92644 3.79491 4.24874 3.63230 3.57342 3.19518 2.59546 2.25337 5.00906 3.83089 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02813 3.98077 4.70312 0.61958 0.77255 0.57270 0.83011\n- 2 2.01321 4.25619 3.22855 2.92774 4.22717 3.00425 4.06923 3.62180 2.99605 3.30873 4.14804 3.19670 1.72920 3.31266 3.34441 2.01401 2.73812 3.13739 5.56017 4.31368 11 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08387 3.98077 2.78416 0.61958 0.77255 0.57270 0.83011\n- 3 2.79628 5.28365 2.10057 1.70914 4.57295 3.25180 3.65948 4.05883 2.53158 3.56577 4.38207 2.71777 3.79633 2.07023 3.04361 2.71983 3.05640 3.65459 5.72737 4.28590 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02972 3.92661 4.64896 0.61958 0.77255 0.62071 0.77125\n- 4 2.68823 4.99896 2.32743 2.31059 4.34055 3.31895 3.63122 3.75764 1.72746 3.32335 4.14126 2.84347 3.79954 2.77444 2.80161 2.67322 2.61028 3.39113 5.50830 4.14626 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13092 3.92661 2.27298 0.61958 0.77255 0.62071 0.77125\n- 5 2.73235 4.30530 3.94167 3.43058 3.37213 3.75910 4.25860 2.13414 3.28900 1.63274 3.25892 3.73392 4.19168 3.62244 3.55905 3.10423 2.56468 1.79513 5.11071 3.89793 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03283 3.82852 4.55087 0.61958 0.77255 0.69646 0.68985\n- 6 2.27910 4.16966 3.59931 3.03744 3.26190 3.52677 3.84281 2.58839 2.92675 2.29086 2.71656 3.37750 3.92826 3.24043 3.22070 2.80766 2.52455 2.39677 3.56712 3.53528 15 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03283 3.82852 4.55087 0.61958 0.77255 0.69646 0.68985\n- 7 2.68260 4.40351 3.44942 2.57889 3.38693 3.62517 3.88139 2.56967 2.79076 1.97897 2.42250 3.34716 4.00'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 164 3.13232 5.27034 2.58700 0.77808 4.64291 3.40868 4.01800 4.13611 2.92403 3.72393 4.69398 3.06053 4.02386 3.23251 3.34969 3.09760 3.43952 3.80162 5.77782 4.50568 194 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 165 3.37918 4.78640 4.49991 4.14481 3.22037 4.22622 4.74012 2.43924 3.91072 0.66868 3.19023 4.40146 4.63092 4.23229 4.05337 3.82607 3.66610 2.52611 5.16560 3.93227 195 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 166 3.21095 4.64237 4.52639 4.00327 3.12595 4.31125 4.63230 2.27614 3.77103 1.42465 1.38498 4.28689 4.60078 4.04642 3.95065 3.67932 3.45642 2.35788 5.11693 3.94347 196 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 167 2.52858 4.37257 3.61271 3.37917 4.15241 3.20410 4.38008 3.30373 3.32598 3.16022 4.20169 3.55361 3.92474 3.71198 3.57238 2.73247 0.88111 2.97736 5.57284 4.37040 197 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 168 2.92386 4.67578 3.63699 3.56312 4.69373 0.48418 4.66759 4.34439 3.77051 3.97289 4.95316 3.80188 4.07287 4.07964 3.98146 3.10199 3.42018 3.83527 5.73364 4.80358 198 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 169 2.79555 5.09604 3.01762 2.16727 4.45626 3.49499 3.60957 3.86243 1.56748 3.36021 4.16976 2.99076 3.89369 2.73452 2.25000 2.77890 2.68757 3.50047 5.48478 4.18826 199 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 170 3.67761 4.97967 4.40036 4.15732 2.89157 3.95820 4.15941 3.71399 3.87772 3.07355 4.33809 4.26836 4.49293 4.25521 3.97054 3.87930 3.98876 3.60955 0.57107 2.88422 200 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06627 4.78862 0.61958 0.77255 0.48576 0.95510\n- 171 2.05393 4.50508 2.91112 2.68170 4.39011 1.68284 3.98927 3.82851 2.90408 3.46234 4.28559 2.17831 3.77476 3.19456 3.31782 2.55623 2.86546 3.34018 5.67323 4.37228 201 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01744 4.05791 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,497 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_6\n-LENG 158\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 4\n-EFFN 0.613281\n-CKSUM 3072090078\n-GA 19.4 19.2;\n-STATS LOCAL MSV -10.2087 0.70862\n-STATS LOCAL VITERBI -11.0566 0.70862\n-STATS LOCAL FORWARD -4.4305 0.70862\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59688 4.28866 2.85551 2.61711 3.26177 2.95706 3.74648 2.84378 2.69124 2.42888 3.71444 3.16733 3.43438 2.91763 2.85899 2.64510 2.91496 2.72195 3.90388 3.44300\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.00000 *\n- 1 3.03376 4.57007 4.13651 3.73646 3.24464 3.89450 4.45293 2.42837 3.49999 1.82755 1.23135 4.00386 4.35592 3.87678 3.69575 3.39111 3.34084 2.44375 5.09599 3.86465 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 2 2.66182 4.89287 2.70639 2.38333 4.31070 3.29902 3.67522 3.75460 2.08339 3.31841 4.14120 2.14957 3.80685 2.83066 2.81118 2.09413 2.93840 3.37746 5.49632 4.15309 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 3 2.14620 4.27026 3.58951 3.10904 3.60372 3.41366 4.04016 2.60675 3.01345 1.96279 3.52970 3.42144 3.94402 3.35867 3.32471 2.76860 2.08712 2.39849 5.13497 3.90755 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 4 2.73090 4.56424 2.25370 2.74481 3.71183 3.52791 3.93809 1.74101 2.89356 2.62226 3.67444 3.21833 4.00267 3.19673 3.30005 2.90441 3.00112 2.43661 5.23572 3.92283 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 5 2.73354 5.06138 2.43209 1.93668 4.43862 3.24996 3.70190 3.90452 2.56225 3.45976 4.28776 1.89318 3.80364 2.86223 3.03995 2.25945 3.01688 3.51402 5.64202 4.24210 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 6 3.07983 4.79906 3.51541 3.11000 2.39689 3.80341 1.80335 3.41697 2.94621 2.88639 3.94772 3.42441 4.20503 3.32914 3.23197 3.14917 3.31419 3.21406 4.02021 1.75559 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 7 3.36202 4.74023 4.34938 4.07952 0.88831 4.03228 3.91452 2.87610 3.98459 2.22771 3.59454 4.11062 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 151 3.36202 4.74023 4.34938 4.07952 0.88831 4.03228 3.91452 2.87610 3.98459 2.22771 3.59454 4.11062 4.48930 4.13041 4.08436 3.62761 3.66332 2.87267 4.14024 2.49738 162 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 152 3.09411 4.49090 4.44950 4.06864 3.42924 4.15292 4.78208 0.98322 3.89832 1.99920 3.35247 4.30269 4.57672 4.23852 4.08569 3.65633 3.39198 1.85066 5.33651 4.08152 163 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 153 2.76745 4.53462 3.45773 3.36753 4.50786 0.61469 4.48264 4.12734 3.55977 3.77128 4.74787 3.62204 3.92834 3.87756 3.78673 2.94172 3.25497 3.64007 5.58145 4.61257 164 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 154 3.36202 4.74023 4.34938 4.07952 0.88831 4.03228 3.91452 2.87610 3.98459 2.22771 3.59454 4.11062 4.48930 4.13041 4.08436 3.62761 3.66332 2.87267 4.14024 2.49738 165 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 155 3.07735 5.21679 0.80880 2.38760 4.60488 3.27274 4.00367 4.21165 3.10330 3.80575 4.78594 2.94790 3.93128 3.24318 3.63023 3.03083 3.41776 3.84235 5.75772 4.46487 166 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 156 2.82819 4.55612 3.48112 3.01880 3.05653 3.66081 2.45238 2.92700 2.76765 1.61438 3.54653 3.39161 4.07524 3.23133 3.04478 3.00679 3.07260 2.78329 4.63774 3.15432 167 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 157 2.27652 4.21588 3.27946 3.03138 4.24750 1.54691 4.15418 3.59943 3.10804 3.33536 4.19845 3.25169 3.70525 3.42414 3.42318 2.44767 1.86224 3.11461 5.58528 4.36662 168 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02893 3.95323 4.67558 0.61958 0.77255 0.48576 0.95510\n- 158 2.85222 5.18472 2.58003 1.57477 4.52172 3.36303 3.66041 3.94450 1.83002 3.46658 4.31080 2.86223 3.86553 2.80809 2.68181 2.80712 3.09264 3.58203 5.60330 4.26177 169 e - - -\n- 2.68592 4.42232 2.77526 2.73096 3.46360 2.40519 3.72501 3.29360 2.67747 2.69361 4.24696 2.90353 2.73746 3.18153 2.89767 2.37893 2.77526 2.98525 4.58483 3.61510\n- 0.19067 1.75102 * 0.92802 0.50308 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,638 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_7\n-LENG 205\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 9\n-EFFN 0.883301\n-CKSUM 2649791556\n-GA 244 244;\n-STATS LOCAL MSV -10.6701 0.70509\n-STATS LOCAL VITERBI -11.5157 0.70509\n-STATS LOCAL FORWARD -5.0232 0.70509\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43584 4.38778 2.85420 2.51167 3.39604 2.74549 3.62681 3.04036 2.74391 2.60461 3.75782 3.00587 3.51192 3.05274 3.03347 2.61683 2.70463 2.67279 4.11242 3.59293\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26014 4.07445 1.55091 0.61958 0.77255 0.00000 *\n- 1 2.64481 4.49707 2.61782 2.71395 3.57066 3.44443 3.83321 2.82280 2.76667 2.50078 2.06167 3.16707 3.91347 3.10253 3.14484 2.80157 2.91586 2.63971 5.08126 3.78286 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03224 3.84655 4.56890 0.61958 0.77255 0.69095 0.69535\n- 2 2.59048 4.68537 2.83878 2.47428 4.09896 3.28273 3.67640 3.48052 2.14658 3.11471 3.96528 2.53430 3.78908 2.85581 2.76007 2.64925 2.08936 3.14462 5.34380 4.04297 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03224 3.84655 4.56890 0.61958 0.77255 0.69095 0.69535\n- 3 2.93066 5.03548 2.47773 1.06282 4.37855 3.25782 3.84283 3.82732 2.72014 3.44877 4.42432 2.91922 3.86129 3.05927 3.12602 2.91593 3.23482 3.51398 5.55504 4.27768 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03224 3.84655 4.56890 0.61958 0.77255 0.69095 0.69535\n- 4 2.45287 4.48030 2.83790 2.58183 4.10288 3.11422 3.83206 3.48115 2.67793 3.19011 4.06590 1.98242 3.73691 3.04830 3.05187 2.55641 2.05395 3.09946 5.42272 4.10609 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03224 3.84655 4.56890 0.61958 0.77255 0.69095 0.69535\n- 5 2.77226 5.22319 1.71862 2.12131 4.52419 3.20826 3.65024 4.01299 2.22796 3.53721 4.36408 2.32161 3.76997 2.80511 3.05640 2.70126 3.04241 3.61314 5.70100 4.25998 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03224 3.84655 4.56890 0.61958 0.77255 0.69095 0.69535\n- 6 2.50638 4.45194 3.06097 2.63699 3.76281 3.29790 3.75209 2.64900 2.61170 2.82930 3.72847 2.64368 2.44765 2.98697 2.98860 2.63428 2.80517 2.81834 5.14771 3.84809 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03224 3.84655 4.56890 0.61958 0.77255 0.56486 0.84035\n- 7 2.61261 4.89570 2.53218 2.33801 4.16636 3.35731 3.59162 3.59502 2.04483 3.16940 3.21842 2.45726 3.78'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 4.12417 4.84652 0.61958 0.77255 0.48576 0.95510\n- 198 3.44984 4.84169 4.59289 4.24120 3.25123 4.29898 4.81880 2.47614 4.00676 0.61733 3.20848 4.49241 4.69569 4.31393 4.13861 3.91064 3.73518 2.57747 5.21406 3.99305 213 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 4.12417 4.84652 0.61958 0.77255 0.48576 0.95510\n- 199 3.59718 4.92713 4.58559 4.35444 0.67500 4.21405 4.01513 3.09767 4.25709 2.41244 3.79439 4.31253 4.67188 4.35699 4.31416 3.84942 3.90093 3.10578 4.20179 2.54228 214 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 4.12417 4.84652 0.61958 0.77255 0.48576 0.95510\n- 200 2.56933 4.41236 3.67491 3.44828 4.21432 3.24095 4.44339 3.37335 3.39630 3.22764 4.26780 3.61019 3.96734 3.77993 3.63753 2.77420 0.80693 3.04007 5.62909 4.43331 215 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 4.12417 4.84652 0.61958 0.77255 0.48576 0.95510\n- 201 3.00909 4.75191 3.73380 3.66883 4.79202 0.42848 4.76647 4.46004 3.88392 4.07996 5.06299 3.89911 4.15053 4.18862 4.08540 3.18938 3.50984 3.93964 5.81330 4.90494 216 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 4.12417 4.84652 0.61958 0.77255 0.48576 0.95510\n- 202 2.85159 5.24827 2.61560 1.38604 4.54087 3.40501 2.97733 4.01660 2.18120 3.51951 4.33472 2.88252 3.89279 2.83208 2.81327 2.80124 3.09006 3.63479 5.65178 4.27239 217 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 4.12417 4.84652 0.61958 0.77255 0.48576 0.95510\n- 203 3.78847 5.06701 4.49809 4.27170 2.97079 4.03116 4.24633 3.83137 3.99319 3.17938 4.45208 4.37217 4.57124 4.36742 4.07459 3.98952 4.10329 3.72831 0.50124 2.96095 218 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02433 4.12417 4.84652 0.61958 0.77255 0.48576 0.95510\n- 204 2.37317 4.71588 3.04467 2.56895 4.21004 3.33477 3.74885 3.61286 1.92545 3.21988 4.03758 3.03791 3.83034 2.90866 2.89742 1.90503 2.50661 3.24009 5.44224 4.13319 219 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22840 4.12417 1.67124 0.61958 0.77255 0.48576 0.95510\n- 205 2.77047 4.68806 3.17414 2.70878 3.34916 3.51883 3.62706 3.26520 1.87788 2.86912 3.80961 3.14015 3.93857 2.94094 2.67827 2.85817 3.00086 3.01988 4.79820 2.20778 220 k - - -\n- 2.68592 4.42229 2.77523 2.73127 3.46358 2.40517 3.72498 3.29358 2.67745 2.69359 4.24694 2.90313 2.73744 3.18150 2.89805 2.37891 2.77523 2.98522 4.58481 3.61507\n- 0.19567 1.72757 * 0.66216 0.72513 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,446 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_8\n-LENG 141\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 7\n-EFFN 1.090332\n-CKSUM 4067214999\n-GA 104.5 104.2;\n-STATS LOCAL MSV -10.1458 0.71049\n-STATS LOCAL VITERBI -10.9615 0.71049\n-STATS LOCAL FORWARD -4.3616 0.71049\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71650 4.29686 2.79252 2.47683 3.08081 3.03076 3.73343 2.76613 2.50600 2.50921 3.71038 2.94901 3.75694 3.01533 3.07293 2.68826 2.98779 2.68600 4.31110 3.33640\n- 2.68625 4.42233 2.77527 2.73097 3.46361 2.40520 3.72502 3.29361 2.67748 2.69362 4.24582 2.90324 2.73747 3.18154 2.89808 2.37894 2.77492 2.98526 4.58484 3.61511\n- 0.48267 1.54584 1.77352 0.67248 0.71425 0.00000 *\n- 1 2.69916 4.75958 3.06714 2.22503 3.97895 3.48820 3.67946 3.33590 2.00963 2.96302 2.34132 3.05311 3.89271 2.85861 2.73355 2.76321 2.92524 3.06058 5.25743 3.97283 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02595 4.06032 4.78267 0.61958 0.77255 0.38113 1.14914\n- 2 2.63736 4.27183 3.66825 3.09207 2.80729 3.65110 3.90944 2.71693 2.60508 2.42568 2.30967 3.45081 4.02517 3.29831 2.77569 2.91157 2.86830 2.15902 4.85819 3.63912 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 3 2.70685 4.42173 3.56057 2.99632 2.57952 3.66784 3.83295 2.49551 1.88060 2.55139 3.49616 3.38852 4.04234 3.22920 3.22765 2.92049 2.93666 2.67015 4.77886 2.78925 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 4 2.78488 5.14187 2.09442 2.34791 4.53790 3.35400 3.78876 3.99861 2.66301 3.55225 4.35955 1.95355 3.88819 2.93657 3.17374 2.75930 1.88687 3.59404 5.73779 4.32884 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 5 2.80465 4.83927 3.30725 2.71802 4.05622 3.60701 3.73151 2.39217 2.32621 3.01826 3.90969 3.17920 3.98894 1.94304 2.05320 2.87393 3.02012 3.14819 5.30452 4.03966 7 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 6 2.84722 5.36143 1.91459 2.26747 4.68634 2.51380 3.74730 4.18053 2.21688 3.67129 4.45946 1.92963 3.88815 2.87973 3.13561 2.77760 3.10535 3.75235 5.82205 4.37558 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 7 3.11208 5.73162 1.59458 1.09773 5.01813 3.34395 3.90857 4.55764 2.95118 4.03769 4.89580 2.80139 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 134 3.18513 4.90795 3.93221 3.88524 4.98990 0.33718 4.96690 4.69454 4.11523 4.29606 5.28595 4.09836 4.30901 4.41115 4.29591 3.36990 3.69425 4.15184 5.97231 5.10957 145 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 135 3.76528 5.06331 4.74569 4.54320 0.56170 4.33916 4.09686 3.26142 4.44563 2.55230 3.94462 4.45356 4.79960 4.51521 4.47392 4.00596 4.07169 3.27673 4.26317 2.59496 146 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 136 2.66061 4.80197 3.09063 2.54268 4.07137 2.25358 3.69317 2.92208 2.19389 3.08496 3.91104 3.04243 3.88003 2.85391 2.51017 2.38571 2.89729 3.15920 5.32894 4.01850 147 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 137 2.64378 4.98325 2.59209 2.40143 4.27022 3.43582 3.00715 3.71134 2.16384 3.26034 4.04314 2.93376 3.82960 2.74959 2.38903 2.64041 2.56030 2.72651 5.44993 4.08616 148 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 138 2.81066 5.22605 2.17736 2.42642 4.58256 3.47814 3.66676 4.03181 1.57404 3.50914 4.29416 2.95630 3.90522 2.78400 2.21672 2.77135 3.03559 3.63113 5.62498 4.27048 149 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 139 2.82299 5.34606 2.21158 1.67268 4.66422 2.55081 3.71978 4.15563 1.97261 3.64004 4.41942 2.84012 3.87759 2.84564 3.06617 2.75544 3.07312 3.72703 5.78432 4.34468 150 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 4.23792 4.96027 0.61958 0.77255 0.48576 0.95510\n- 140 2.72888 5.05409 2.93533 2.17193 4.35578 3.46895 3.65745 3.04665 1.67120 3.32520 4.12191 2.43835 3.87793 2.78485 2.75617 2.71962 2.95599 3.41860 5.50035 4.15316 151 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30826 4.23792 1.38295 0.61958 0.77255 0.48576 0.95510\n- 141 2.77773 5.23089 2.04586 2.18796 4.54102 3.27260 3.66320 4.02407 2.09122 3.53745 4.34850 1.94671 3.80472 2.80737 3.00199 2.71420 3.03775 3.62075 5.69443 4.26736 152 n - - -\n- 2.68625 4.42232 2.77527 2.73108 3.46361 2.40496 3.72502 3.29361 2.67695 2.69362 4.24697 2.90354 2.73747 3.18153 2.89808 2.37894 2.77527 2.98525 4.58484 3.61510\n- 0.31686 1.30354 * 0.67173 0.71504 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx19_III-D_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,467 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx19_III-D_9\n-LENG 148\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:05 2020\n-NSEQ 4\n-EFFN 0.675781\n-CKSUM 1694550676\n-GA 119 119;\n-STATS LOCAL MSV -10.0106 0.70964\n-STATS LOCAL VITERBI -11.0260 0.70964\n-STATS LOCAL FORWARD -4.1888 0.70964\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65781 4.14182 2.86783 2.55106 2.99578 2.90317 3.72566 2.79996 2.62190 2.44583 3.72997 2.83747 3.60390 3.03982 3.06731 2.70333 2.97499 2.73132 4.48099 3.45943\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18794 3.99548 1.87771 0.61958 0.77255 0.00000 *\n- 1 2.94429 4.49838 4.01480 3.60621 3.19451 3.80988 4.34889 2.36690 3.37591 1.79445 1.44164 3.88759 4.27065 3.76014 3.58496 3.28983 3.24914 2.36915 5.03076 3.78945 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03245 3.83999 4.56233 0.61958 0.77255 0.62440 0.76697\n- 2 2.49793 4.57297 2.62992 2.47521 4.27730 2.08576 3.85127 3.79700 2.75865 3.41757 4.27180 1.82905 3.72116 3.06702 3.16672 2.57274 2.89103 3.34369 5.54619 4.21651 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03245 3.83999 4.56233 0.61958 0.77255 0.62440 0.76697\n- 3 2.84105 5.01707 2.88511 2.49393 4.34195 3.43121 3.59769 3.76752 1.76932 3.27795 4.15276 2.97145 3.88152 1.88074 2.35854 2.83644 3.06073 3.44482 5.40369 4.13100 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03245 3.83999 4.56233 0.61958 0.77255 0.62440 0.76697\n- 4 1.97188 4.28485 3.59076 3.12846 3.09410 3.42917 3.83983 2.83619 2.95614 2.49295 3.51621 3.40974 3.93756 3.33196 3.22221 2.80983 2.89327 2.62910 2.33009 3.21342 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03245 3.83999 4.56233 0.61958 0.77255 0.62440 0.76697\n- 5 2.64269 4.56584 3.12872 2.70866 3.71823 3.41030 3.77894 2.98827 2.52668 2.66152 3.69895 3.14299 3.89203 2.01907 2.84974 2.76962 2.92371 2.24982 5.16071 3.85313 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03245 3.83999 4.56233 0.61958 0.77255 0.62440 0.76697\n- 6 2.81372 5.10312 2.56237 1.72375 4.43358 3.32823 3.62436 3.84324 1.82858 3.38358 4.23877 2.83824 3.83083 2.77765 2.62241 2.77819 3.05445 3.49495 5.53105 4.20191 6 e - - -\n- 2.68613 4.42248 2.77512 2.73146 3.46377 2.40514 3.72517 3.29377 2.67708 2.69349 4.24578 2.90370 2.73763 3.18123 2.89824 2.37889 2.77481 2.98503 4.58500 3.61526\n- 0.19941 1.76991 4.56233 2.01157 0.14361 0.40791 1.09374\n- 7 2.61647 4.61178 3.05079 2.01832 3.82517 3.43991 3.72062 3.10687 2.54926 2.80336 2.72735 3.06019 3.86'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16812 3.99548 1.99251 0.61958 0.77255 0.48576 0.95510\n- 141 2.71194 4.89711 2.44667 1.70275 4.38570 1.94925 3.76788 3.83272 2.65951 3.43434 4.30100 2.83421 3.78627 2.95776 3.10743 2.71721 3.03236 3.44885 5.59663 4.25864 162 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03183 3.85918 4.58153 0.61958 0.77255 0.41556 1.07872\n- 142 2.35174 4.21155 3.51852 3.07073 3.85791 3.16449 4.04922 3.04485 3.02039 2.89219 3.79615 3.32504 3.79585 3.34182 3.34705 1.95011 1.87564 2.18983 5.28438 4.05441 163 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02771 3.99548 4.71782 0.61958 0.77255 0.48576 0.95510\n- 143 3.07057 5.15202 3.49966 2.82992 4.60490 3.67580 3.62052 3.95211 1.56107 3.39914 4.27905 3.22084 4.04741 2.75933 1.31163 3.07201 3.23654 3.64117 5.44044 4.28173 164 r - - -\n- 2.68664 4.42271 2.77425 2.73069 3.46191 2.40534 3.72450 3.29400 2.67723 2.69368 4.24735 2.90313 2.73785 3.18139 2.89807 2.37909 2.77565 2.98521 4.58522 3.61549\n- 0.18794 1.81767 4.71782 2.56755 0.07983 0.48576 0.95510\n- 144 2.82426 4.58616 3.52311 3.43882 4.57633 0.56224 4.55038 4.20703 3.63674 3.84538 4.82305 3.68759 3.98119 3.95127 3.85812 2.99991 3.31508 3.71162 5.63777 4.68282 186 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02771 3.99548 4.71782 0.61958 0.77255 0.48576 0.95510\n- 145 2.87891 5.28638 2.31342 1.31122 4.60356 3.26503 3.74938 4.10246 2.63735 3.64087 4.49380 2.20122 3.85256 2.91676 3.12359 2.80923 3.16214 3.70772 5.78454 4.35055 187 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02771 3.99548 4.71782 0.61958 0.77255 0.48576 0.95510\n- 146 2.82915 4.82739 2.78261 2.68121 4.21059 3.26944 4.02599 3.94891 2.94079 3.58220 4.53776 0.95742 3.92795 3.30010 3.29865 2.89237 3.21577 3.55862 5.50251 4.15097 188 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02771 3.99548 4.71782 0.61958 0.77255 0.48576 0.95510\n- 147 2.53955 4.59515 2.75021 2.60924 4.40191 1.45771 3.98469 3.92851 2.91327 3.54804 4.39791 2.09612 3.79110 3.20766 3.31612 2.62811 2.95571 3.44201 5.66881 4.35364 189 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18794 3.99548 1.87771 0.61958 0.77255 0.48576 0.95510\n- 148 2.78511 5.16606 1.63500 2.16792 4.47338 3.22066 3.66846 3.94558 2.04661 3.49844 4.34703 2.72853 3.78365 2.83130 3.01385 2.72702 3.05826 3.56546 5.65310 4.24189 190 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02196 3.82950 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1298 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_1\n-LENG 425\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:46:59 2020\n-NSEQ 62\n-EFFN 4.870239\n-CKSUM 3271430282\n-GA 330 330;\n-STATS LOCAL MSV -11.3625 0.69889\n-STATS LOCAL VITERBI -12.3282 0.69889\n-STATS LOCAL FORWARD -5.7357 0.69889\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63710 4.51226 3.03128 2.53845 3.20614 3.05579 3.73078 2.70008 2.57711 2.37906 3.74171 2.95599 3.43796 3.17677 2.97566 2.64077 2.90655 2.64900 4.70901 3.31040\n- 2.68615 4.42239 2.77533 2.73137 3.46368 2.40519 3.72508 3.29329 2.67755 2.69369 4.24147 2.90360 2.73753 3.18160 2.89815 2.37871 2.77533 2.98532 4.58491 3.61517\n- 0.56673 1.23871 1.94586 0.08211 2.54048 0.00000 *\n- 1 2.74755 4.99043 3.41716 2.85513 4.19640 3.78481 3.99331 3.15628 2.22569 3.23266 1.56048 3.10937 3.46725 2.68239 2.72372 2.99788 3.15384 2.79334 5.51530 4.21252 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00945 5.06192 5.78426 0.61958 0.77255 0.76905 0.62260\n- 2 3.10990 5.47621 3.43748 2.84089 4.83080 3.86667 3.97806 4.26046 1.27626 3.74987 3.83579 2.86881 4.24599 3.09047 1.63066 3.08988 2.63980 3.43907 5.87397 4.54671 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13003 5.08400 2.15647 0.61958 0.77255 0.71614 0.67067\n- 3 2.77434 4.31606 4.65879 4.05736 3.41342 3.50400 4.37457 1.86023 3.88577 1.56687 3.10425 3.58529 4.41741 4.05735 3.50097 3.10151 3.13841 1.68195 4.93713 3.75562 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.99026 4.01691 0.61958 0.77255 0.55829 0.84907\n- 4 2.99528 3.49266 4.90883 4.29942 3.45630 3.42537 4.49793 2.15681 4.09727 1.16132 3.47500 4.31052 4.52587 4.23742 4.12463 3.47577 3.22792 2.23801 5.00102 2.22386 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00916 5.09381 5.81616 0.61958 0.77255 0.73944 0.64890\n- 5 3.95770 5.11892 6.12135 5.69193 4.53602 5.69946 6.60155 0.63629 5.67713 2.68808 4.22486 5.87300 5.86909 5.95454 5.87021 5.17654 4.22078 1.19642 6.79973 5.56647 6 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02980 5.10698 3.75910 0.61958 0.77255 0.77372 0.61858\n- 6 1.39419 4.41686 4.46631 3.87926 2.75723 3.56860 4.37213 2.72788 3.75158 2.61625 3.53781 4.06342 4.42949 3.96334 3.91557 3.07729 3.00224 2.37356 5.03158 1.90391 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08641 5.80875 0.61958 0.77255 0.68993 0.69637\n- 7 2.94432 5.30714 3.24169 2.49620 4.61811 3.73120 3.94343 4.06753 2.70351 3.60875 4.38321 3.23528 2.538'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10291 5.82526 0.61958 0.77255 0.77430 0.61809\n- 418 2.92824 5.31560 2.65275 2.54411 3.81333 3.72250 3.91537 2.44609 1.84737 3.60016 3.78297 2.48651 3.71423 3.02988 2.47739 2.66000 2.96729 3.02799 5.77815 3.94762 467 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02574 5.11708 3.94143 0.61958 0.77255 0.81262 0.58644\n- 419 2.93362 1.96544 2.45974 1.90257 4.77036 3.28417 3.89459 4.25273 2.39611 3.73435 4.47514 2.47825 3.70070 2.99390 2.84889 2.65854 3.16555 3.81912 5.86805 4.45927 468 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02999 5.10043 3.75306 0.61958 0.77255 0.75054 0.63887\n- 420 2.29842 4.36884 4.70761 4.10612 2.94200 4.10199 4.42220 2.37571 3.93566 1.64417 3.48635 3.31291 3.86986 4.10633 4.01890 2.95654 3.19008 2.61802 2.07538 2.80497 469 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03244 5.10051 3.65620 0.61958 0.77255 0.75073 0.63870\n- 421 2.93166 4.80751 3.27972 2.67488 3.62580 3.01928 4.08442 3.34599 2.87238 1.14325 3.90224 3.49527 4.23473 3.12069 3.41719 2.87404 2.97599 2.83887 5.36743 4.10286 470 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02512 5.08139 3.98494 0.61958 0.77255 0.75583 0.63416\n- 422 2.78109 5.32595 3.01430 2.48930 4.63429 3.69683 3.88797 3.69514 1.55135 2.15874 4.37650 2.97765 3.34818 2.86552 2.93354 2.72745 2.66258 3.69671 5.78115 3.81652 471 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07471 5.07135 2.72247 0.61958 0.77255 0.57259 0.83025\n- 423 2.62539 5.40580 2.70062 1.96455 3.77973 3.68146 3.86898 4.22908 1.94286 3.47749 4.01305 2.78494 4.07482 2.75943 2.40148 2.37082 2.94402 3.45532 5.84122 3.61866 472 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05948 5.07186 2.96664 0.61958 0.77255 0.84228 0.56340\n- 424 2.66881 5.11209 3.05319 2.34058 4.42890 3.41757 3.86248 2.59220 2.41201 3.24313 4.22453 2.95138 3.04439 3.00318 1.84410 2.87773 3.10253 2.96738 5.54077 3.41081 473 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11922 5.00878 2.24703 0.61958 0.77255 0.78959 0.60519\n- 425 2.58147 5.25134 2.79555 1.80634 4.55604 3.40199 3.82515 2.85451 2.15562 3.19451 4.30290 2.80578 4.02580 2.93636 2.74779 2.82617 3.07429 2.49205 5.70890 4.32383 474 e - - -\n- 2.68613 4.42255 2.77549 2.73012 3.46353 2.40533 3.72524 3.29311 2.67726 2.69384 4.24568 2.90346 2.73754 3.18134 2.89830 2.37898 2.77537 2.98533 4.58414 3.61533\n- 0.60196 0.79349 * 0.57581 0.82611 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,680 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_10\n-LENG 219\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:01 2020\n-NSEQ 18\n-EFFN 2.254395\n-CKSUM 2002995599\n-GA 105 105;\n-STATS LOCAL MSV -10.4928 0.70429\n-STATS LOCAL VITERBI -11.3689 0.70429\n-STATS LOCAL FORWARD -5.0009 0.70429\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52407 4.48956 2.97623 2.63143 3.46386 2.96802 3.59558 2.76943 2.72415 2.33198 3.62380 3.20922 3.29237 3.01269 2.89862 2.72190 2.73859 2.57562 4.86586 3.59702\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.00000 *\n- 1 2.44692 5.11490 3.09333 2.53673 4.39830 3.57296 3.27329 3.84126 2.34628 3.39254 2.18921 2.74568 3.11082 2.64902 2.73448 2.31952 3.00332 3.47213 5.58571 4.21819 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 2 2.95946 5.29945 3.28725 2.70481 4.68831 3.70171 3.83166 4.11377 1.14099 3.60251 4.39026 3.20817 3.50424 2.94725 2.35348 2.64524 2.53438 3.72679 5.72313 4.40633 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 3 2.23269 5.26854 2.77718 2.30683 4.60744 3.54558 3.37082 4.08826 2.12195 3.57038 4.31150 2.26283 3.94086 2.83397 2.37946 2.73907 2.38337 3.65601 5.70396 4.29779 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 4 2.21528 4.46151 4.89167 4.32594 3.66217 4.36354 4.77660 1.21728 4.19079 2.00584 3.58244 4.45271 4.70375 4.39061 4.31402 3.69230 2.62499 1.75111 5.32690 4.13712 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 5 4.03067 5.23095 5.88427 5.34883 3.45955 5.43700 5.76436 1.82239 5.18709 0.51467 3.20848 5.58520 5.45676 5.11037 5.16941 4.86906 4.24420 2.63989 5.73151 4.74501 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 6 3.65490 4.86890 5.68143 5.16447 3.79182 5.16862 5.69757 1.34339 5.06634 1.16820 3.54537 5.31862 5.33886 5.16571 5.13961 4.57191 3.89613 1.36302 5.90867 4.80987 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 7 0.86984 1.92837 4.64626 4.33393 4.72973 3.35395 5.02938 4.10235 4.23589 3.85377 4.68795 4.05775 4.162'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 212 2.56581 5.23293 3.06019 2.00861 4.55916 3.56545 3.74661 4.02499 2.16459 2.90476 4.28059 3.04288 3.95740 2.65275 1.99565 2.54588 2.55907 3.61383 5.67313 4.28431 254 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 213 2.43482 4.86719 3.23759 2.30545 4.08290 3.62226 3.83774 3.48239 2.66865 2.86253 3.43103 2.82362 4.01250 3.01266 3.11829 1.82709 2.44103 2.64813 5.39336 4.08137 255 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 214 3.15321 4.49229 5.02075 4.43542 3.46897 4.39719 4.75150 2.14933 4.26968 1.73581 2.88141 4.51541 4.70652 4.40585 4.32905 3.72334 3.38626 1.01406 5.20174 3.19225 256 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 215 2.45416 5.19797 3.04952 2.11124 3.24364 3.19392 3.74410 3.97500 1.96015 3.48925 3.53402 3.03526 3.94680 2.44721 2.54261 2.42043 2.99902 3.57155 5.64967 4.25968 257 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 216 2.04589 5.02425 2.44374 2.57772 4.27983 3.58608 3.78764 3.70627 2.57325 2.59122 3.17101 2.76788 3.97743 2.92586 2.63308 2.53619 2.53537 3.36604 5.51657 4.16827 258 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 217 2.07131 4.22536 4.35307 3.76068 3.32202 3.89796 4.20851 2.30967 3.62182 1.80661 2.64769 3.92258 3.04504 3.24483 3.76477 3.19037 3.00964 2.28673 3.13688 3.65258 259 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 218 2.79857 4.96687 3.21586 2.65483 4.19584 3.62838 3.82071 3.61277 2.59365 2.37434 4.04052 2.67765 4.01671 1.84924 2.59066 2.83977 2.73235 3.29842 5.46166 2.78012 260 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01346 4.71076 5.43311 0.61958 0.77255 0.48576 0.95510\n- 219 2.37800 5.17619 3.06286 1.99421 4.48104 3.56171 3.75253 3.93749 2.07992 3.46320 3.14838 3.04767 3.95457 2.04096 2.98037 2.57805 3.00392 3.07430 5.63325 4.25071 261 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 4.70638 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1157 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_11\n-LENG 378\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:01 2020\n-NSEQ 11\n-EFFN 2.204834\n-CKSUM 563056525\n-GA 49.7 49.9;\n-STATS LOCAL MSV -11.2015 0.69960\n-STATS LOCAL VITERBI -12.3145 0.69960\n-STATS LOCAL FORWARD -5.8102 0.69960\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40882 4.46372 2.93890 2.59019 3.34460 2.95622 3.66166 2.90085 2.67117 2.34818 3.68198 3.10650 3.56881 3.05968 2.80480 2.71499 2.88578 2.72094 4.65704 3.34971\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.00000 *\n- 1 2.45753 5.31295 2.38076 1.60517 4.65272 3.54487 3.04872 4.13778 2.50019 3.61477 4.35772 3.01157 3.95502 2.38562 2.52473 2.76344 3.03817 3.70130 5.74537 4.33251 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 2 2.06653 4.62262 3.85793 3.43622 4.73326 2.54445 4.51872 4.17403 3.44924 3.81557 4.61117 3.65418 1.24978 3.74260 3.81709 2.14801 2.11574 3.61425 6.03783 4.80463 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 3 2.82429 2.99644 4.55102 3.95646 3.34009 3.97532 4.31322 2.12338 3.79551 1.50228 3.34331 4.05880 2.79339 3.97433 3.89363 3.28035 2.50158 2.08802 4.88465 3.70297 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 4 2.16183 4.45385 3.69891 2.66995 2.93696 3.75913 4.01920 2.06597 3.07826 2.66270 3.55966 3.52034 4.13809 3.37443 2.84145 2.27419 2.99817 2.35816 5.04184 3.81354 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 5 2.76629 4.89086 2.60103 2.35486 3.08530 3.61261 3.82323 3.51225 2.35793 1.90606 3.96735 3.16420 4.00249 2.60816 3.09844 2.82267 2.99774 2.74855 5.40771 4.08992 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 6 1.57208 4.56857 3.90057 3.44913 4.21902 3.50893 4.41761 3.53313 3.40797 2.24429 4.17017 3.69104 4.14828 3.71617 3.73502 1.20750 3.10530 3.19054 5.64086 4.41115 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 7 3.64117 4.84143 5.68476 5.20103 3.97629 5.22716 5.87453 0.70866 5.12476 1.99541 3.71600 5.37339 5.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 371 2.52568 4.66052 5.37856 4.86163 3.97337 4.86162 5.42275 1.27452 4.76085 2.16023 3.78222 4.99161 5.13930 4.98042 4.89392 4.24090 3.65729 1.01746 5.86330 4.66125 448 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 372 2.76329 4.70145 3.36816 1.97553 3.87685 3.66394 3.88959 3.25818 2.78385 2.55853 3.06143 3.28224 4.04903 2.60415 3.20361 2.52494 2.52520 2.58897 3.22316 3.97404 449 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 373 2.81110 5.32453 2.51941 1.76553 4.66389 2.83134 3.76160 4.15128 2.51664 3.62790 4.37081 2.35431 2.91672 2.86348 2.60961 2.42743 3.04587 3.71292 5.75913 4.34212 450 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 374 2.38029 4.30123 4.66539 4.07329 2.16370 4.05529 4.31287 2.63370 3.90016 1.42683 3.31847 4.14065 4.40645 4.04930 3.97033 3.36269 3.13839 2.21587 4.80040 2.36613 451 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 375 2.41996 3.08388 3.10107 3.40318 3.43891 3.82418 4.10882 2.30752 3.31965 1.78578 2.78463 2.95782 4.19780 3.57782 3.57914 3.09413 2.57564 2.57752 4.92860 3.72330 452 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 376 2.77572 5.27254 2.42191 2.02884 4.61008 3.53928 3.73563 3.20359 2.47718 3.57436 4.31614 2.17573 3.93884 2.44382 2.60145 2.32817 3.00774 3.65932 5.70874 4.30017 453 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 377 2.76331 4.97315 2.64442 2.23009 2.77723 2.87640 3.79507 3.63185 2.59210 2.72385 3.20336 3.12002 3.98196 2.94324 2.12598 2.79493 2.99462 3.30627 5.47346 4.13618 454 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01368 4.69459 5.41693 0.61958 0.77255 0.48576 0.95510\n- 378 2.76818 2.95331 4.16528 3.58069 2.53432 3.85916 4.15675 2.37679 2.84933 1.67965 3.37629 3.81400 4.22959 2.94814 3.66911 2.57351 3.00022 2.51666 4.87245 3.67730 455 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00923 4.69014 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1019 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_12\n-LENG 332\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:01 2020\n-NSEQ 2\n-EFFN 0.371094\n-CKSUM 2141230273\n-GA 107 107;\n-STATS LOCAL MSV -10.7226 0.70044\n-STATS LOCAL VITERBI -12.2765 0.70044\n-STATS LOCAL FORWARD -5.5017 0.70044\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58454 4.17219 2.97017 2.73263 3.18887 2.69186 3.77969 2.77026 2.80159 2.34514 3.64014 3.19469 3.23203 3.30761 2.85450 2.71698 2.95638 2.59427 4.33387 3.35181\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 2.54708 4.32883 3.19946 3.08782 4.22483 0.90597 4.21134 3.80228 3.25469 3.46879 4.44633 3.36461 3.71668 3.58760 3.49902 2.71666 3.02051 3.35076 5.34402 4.32439 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 3.10546 4.63588 3.68956 3.40274 2.30871 3.71272 3.58056 3.12943 3.26317 2.60908 3.81617 3.60176 4.190'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 325 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 325 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 326 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 326 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 327 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.81294 3.01475 3.05797 2.86534 3.17483 3.41477 5.47667 4.20272 327 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 328 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 328 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 329 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 329 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 330 3.13265 4.56593 4.09695 3.79484 1.19557 3.84077 3.84007 2.67221 3.70505 2.06775 3.41987 3.90558 4.30405 3.90230 3.85001 3.40607 3.43498 2.65475 4.12499 2.50708 330 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 331 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.81294 3.01475 3.05797 2.86534 3.17483 3.41477 5.47667 4.20272 331 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 332 2.48017 1.17422 3.97101 3.68982 3.70771 3.12180 4.35978 2.83721 3.51693 2.75599 3.87534 3.70412 3.82066 3.86768 3.65839 2.75108 2.93882 2.58808 5.14229 3.99525 332 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,641 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_13\n-LENG 206\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:01 2020\n-NSEQ 2\n-EFFN 0.394531\n-CKSUM 3352494322\n-GA 100 100;\n-STATS LOCAL MSV -10.5806 0.70503\n-STATS LOCAL VITERBI -11.4807 0.70503\n-STATS LOCAL FORWARD -5.0176 0.70503\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55923 4.39293 2.83819 2.65109 3.14697 2.94075 3.89558 2.71211 2.64451 2.37224 3.61729 3.10520 3.43321 3.28746 3.09244 2.72471 2.85499 2.48732 5.03047 3.35712\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.96657 4.41143 4.21298 3.82754 3.32069 3.97284 4.57258 1.18727 3.65384 1.92656 3.27184 4.08459 4.41414 4.01212 3.86003 3.46203 3.26815 1.85079 5.19261 3.92210 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 2.74304 4.31099 4.00832 3.67118 3.49189 3.63543 4.48797 2.06276 3.53756 2.19514 3.47211 3.87363 4.20220 3.90440 3.75760 3.13557 3.10768 1.13696 5.26148 3.98686 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 1.14050 4.15466 3.38133 3.17137 3.97240 2.98086 4.20281 3.08585 3.18551 2.97092 4.01400 3.34102 3.7124'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 199 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 199 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 200 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 200 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 201 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 201 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 202 2.37217 4.21627 3.35826 3.10915 3.89921 3.05757 4.13230 3.01640 3.05044 2.88271 3.94056 3.33034 3.75563 3.45006 3.31175 2.57276 1.32098 2.72031 5.34452 4.11652 202 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 203 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 203 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 204 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 204 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 205 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 205 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 206 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 206 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_14.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_14.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1301 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_14\n-LENG 426\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:02 2020\n-NSEQ 11\n-EFFN 1.318604\n-CKSUM 1356314934\n-GA 362 362;\n-STATS LOCAL MSV -11.7449 0.69888\n-STATS LOCAL VITERBI -12.4948 0.69888\n-STATS LOCAL FORWARD -5.7970 0.69888\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65285 4.37697 2.86368 2.50902 3.38425 3.00429 3.79411 2.71799 2.44183 2.48883 3.68098 2.81440 3.72996 3.03269 3.04997 2.68940 2.86584 2.78788 4.72061 3.30807\n- 2.68635 4.42243 2.77537 2.73141 3.46371 2.40530 3.72512 3.29372 2.67660 2.69351 4.24510 2.90341 2.73757 3.18133 2.89769 2.37904 2.77537 2.98536 4.58361 3.61521\n- 0.40258 1.31899 2.74882 1.07303 0.41851 0.00000 *\n- 1 2.69908 4.76777 3.07572 2.32298 3.98538 3.51002 3.74256 3.37805 2.53848 3.01028 2.08708 3.08252 3.92068 2.34494 2.94879 2.46045 2.93376 3.09031 5.29315 3.99220 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02056 4.29049 5.01283 0.61958 0.77255 0.43794 1.03667\n- 2 2.42504 4.80285 3.08414 2.23936 4.02813 3.49465 3.70221 3.43672 2.51488 3.05548 3.29165 2.73221 3.88417 2.86409 2.65844 2.21599 2.88419 2.77105 5.31540 3.33366 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 3 2.67704 5.08812 2.94095 2.24433 3.46866 3.45385 2.93970 3.85618 1.85918 3.37483 4.14022 2.65485 3.84975 2.50482 2.85022 2.44505 2.90724 3.46059 5.53743 4.15526 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 4 2.67066 5.06566 2.95065 1.89840 4.36947 2.99050 3.64470 3.82360 2.13369 3.35056 4.11933 2.66035 3.84871 2.75841 2.57504 2.65503 2.90108 2.97783 5.52110 3.47984 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 5 2.24967 5.16836 2.94026 2.22751 4.50570 3.48373 3.66582 3.95992 1.86329 3.45601 4.22581 2.18307 3.88931 2.77742 2.50943 2.71893 2.97490 3.55786 5.59507 4.22501 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 6 2.74106 3.23712 4.40412 3.81647 2.77020 3.90231 4.23777 1.50836 3.03530 2.27023 3.25729 3.95536 4.26118 3.86530 3.79391 3.20634 2.97640 1.88878 4.83174 3.64350 10 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08927 4.34995 2.62426 0.61958 0.77255 0.48576 0.95510\n- 7 2.83807 5.29540 1.50778 1.96546 4.56835 3.39669 3.75361 4.06042 2.61857 3.58133 4.37823 2.86856 3.90'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 419 2.84976 5.31333 2.74425 1.98054 4.65747 2.99367 3.73144 4.12510 1.54670 3.60604 4.38658 2.27731 3.93043 2.85192 2.89104 2.79857 3.08723 3.71048 5.73599 4.34328 489 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 420 2.74343 5.23780 2.28717 1.90294 4.56405 3.43231 3.67965 4.04514 1.94749 3.01026 4.29067 2.39559 3.86846 2.79011 2.94305 2.69807 2.98074 3.61963 5.67383 4.25926 490 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 421 3.00490 4.45890 4.36202 3.79139 3.36455 4.13033 4.42124 1.73063 2.88377 1.21482 3.25784 4.05849 4.45544 3.87670 3.74327 3.44304 3.23634 2.28015 5.10036 3.93052 491 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 422 3.06131 4.41675 4.79186 4.21645 2.55961 4.24349 4.42581 1.47015 4.05578 1.42654 3.13575 4.30516 4.53788 4.16363 4.12103 3.56364 3.28765 2.37848 4.80397 2.79625 492 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34995 5.07230 0.61958 0.77255 0.48576 0.95510\n- 423 2.72645 4.82385 3.17251 2.61946 4.02553 2.81797 3.73625 3.01067 1.52458 3.07278 3.91532 3.11198 3.94272 2.91118 2.86239 2.78511 2.95561 3.15244 5.30922 3.21300 493 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18629 4.34995 1.85114 0.61958 0.77255 0.48576 0.95510\n- 424 2.65165 5.08485 2.58635 2.15841 4.40911 3.41443 3.59949 3.29066 1.91749 3.37343 4.13506 2.89274 3.81246 2.46019 2.48980 2.62523 2.88059 3.46503 5.52196 4.13905 494 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10526 4.18651 2.46849 0.61958 0.77255 0.68622 0.70012\n- 425 2.34116 4.40156 3.31768 2.51663 3.01227 3.52455 3.76245 2.91743 2.72383 2.61370 3.49822 3.20206 3.90851 2.66496 3.10854 2.76200 2.81897 2.40354 4.95682 2.91518 495 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02478 4.10602 4.82837 0.61958 0.77255 0.76236 0.62842\n- 426 2.67080 4.79183 2.51598 2.19920 4.01330 3.40852 3.70928 3.40414 2.57146 2.01044 3.89659 2.96338 3.85878 2.89201 3.02737 2.38066 2.91602 3.10626 5.32636 3.99775 496 l - - -\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40518 3.72500 3.29359 2.67711 2.69339 4.24695 2.90326 2.73745 3.18151 2.89806 2.37892 2.77525 2.98523 4.58482 3.61508\n- 0.40247 1.10464 * 0.17829 1.81218 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1625 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_15\n-LENG 534\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:02 2020\n-NSEQ 22\n-EFFN 1.259521\n-CKSUM 144276658\n-GA 268 268;\n-STATS LOCAL MSV -11.8299 0.69772\n-STATS LOCAL VITERBI -12.8408 0.69772\n-STATS LOCAL FORWARD -6.0085 0.69772\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59485 4.53966 2.92173 2.60028 3.23810 3.19591 3.70132 2.82718 2.58298 2.36724 3.71738 2.95141 3.51983 2.88633 3.00107 2.67171 2.84029 2.72244 4.21922 3.39332\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.00000 *\n- 1 2.99795 4.64356 3.88128 3.42997 3.58509 3.86224 4.23402 2.82186 2.73695 2.35189 1.09017 3.75582 4.31034 3.57752 3.26457 3.26496 3.26988 2.72908 5.21090 3.97927 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 2 2.39762 4.77010 3.09059 2.55888 4.07492 3.45323 3.73889 3.11429 2.45087 3.10266 3.92506 2.44044 3.88029 2.90327 3.00073 1.93799 2.42230 3.15548 5.35895 4.03940 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 3 3.03129 4.38545 4.71610 4.15238 3.46452 4.29598 4.68698 1.30704 4.03159 1.80657 3.08379 4.33764 4.60573 4.23310 4.18416 3.62253 2.43973 1.75540 5.23001 4.06148 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 4 4.18818 5.38070 4.84254 4.67565 3.27488 4.29190 4.56817 4.26363 4.40854 3.56956 4.87068 4.74461 4.85000 4.76998 4.44869 4.38756 4.51655 4.16404 0.32162 3.25753 4 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 5 3.40395 4.72808 4.93453 4.58612 3.72269 4.52510 5.25474 0.64729 4.42552 2.23918 3.61137 4.77382 4.93416 4.74141 4.57484 4.08562 3.70318 1.96490 5.69038 4.45440 5 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 6 3.32543 4.57648 5.22637 4.70336 3.61664 4.77786 5.28793 1.42066 4.59989 1.56289 3.39692 4.88083 5.00391 4.77287 4.72771 4.16028 3.57093 1.15748 5.63925 4.49278 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 7 2.73100 4.56923 3.91367 3.71755 4.45274 3.38639 4.68923 3.64142 3.67036 3.48714 4.52536 3.82969 4.133'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 527 2.73241 5.17567 2.87855 1.91262 4.50702 3.45828 3.65765 3.96921 2.03785 3.46368 4.22932 2.61276 3.87112 2.05310 2.81274 2.69895 2.96221 3.16783 5.60399 4.22045 563 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 528 2.33301 5.19436 2.63509 1.74291 4.51715 3.15838 3.15962 3.99277 2.02253 3.48873 4.24857 2.89770 3.85543 2.77555 2.92011 2.68040 2.95629 3.57454 5.63592 4.22836 564 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 529 2.69647 4.38759 4.75795 4.20737 3.57326 4.33234 4.77379 1.21817 4.09202 1.85838 3.43946 4.38915 4.65409 4.31395 4.25586 3.66994 2.93923 1.61924 5.33512 4.14915 565 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 530 1.38498 4.39561 4.17817 3.63794 3.59527 3.93846 4.42466 2.08262 3.54917 2.18820 3.49237 3.92250 4.35797 3.83179 3.82038 3.26317 3.13618 1.83084 5.25323 4.04618 566 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 531 3.00525 5.57165 1.38437 2.27697 4.87888 3.39809 3.85217 4.39441 2.26759 3.87256 4.68481 1.85953 3.96964 2.99821 3.31939 2.90743 3.27529 3.95748 6.01557 4.53565 567 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 532 2.53101 4.90959 2.68106 2.45233 4.16892 3.46185 3.35212 3.59673 2.44795 2.85813 3.66700 2.97888 3.41021 2.80173 2.76822 1.93925 2.68667 3.25402 5.40165 4.05190 568 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32214 5.04449 0.61958 0.77255 0.48576 0.95510\n- 533 2.73781 4.20232 4.19650 3.61248 3.20196 3.84909 4.13742 2.15850 3.48010 1.39283 2.77845 3.28486 4.20386 3.70213 3.65793 3.13973 2.96882 2.36203 4.78536 3.13587 569 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13734 4.32214 2.16238 0.61958 0.77255 0.48576 0.95510\n- 534 2.52132 4.86154 2.74201 2.43081 4.11317 3.19049 3.37867 2.99416 2.42568 3.12610 3.92916 2.69035 3.82732 2.59858 2.64330 2.52612 2.73569 2.76386 5.35529 4.00983 570 k - - -\n- 2.68626 4.42233 2.77527 2.73109 3.46362 2.40520 3.72473 3.29320 2.67732 2.69363 4.24697 2.90354 2.73719 3.18154 2.89808 2.37894 2.77520 2.98526 4.58485 3.61484\n- 0.27578 1.42288 * 0.62371 0.76777 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_16.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_16.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1445 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_16\n-LENG 474\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:02 2020\n-NSEQ 12\n-EFFN 1.473633\n-CKSUM 830332409\n-GA 182 182;\n-STATS LOCAL MSV -11.5280 0.69829\n-STATS LOCAL VITERBI -12.4545 0.69829\n-STATS LOCAL FORWARD -5.8846 0.69829\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49937 4.45194 2.94899 2.62298 3.30033 3.04388 3.67174 2.79238 2.71466 2.30632 3.66967 3.02549 3.46737 2.93516 2.81735 2.74796 2.87671 2.71877 4.87759 3.43913\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09252 4.41946 2.57272 0.61958 0.77255 0.00000 *\n- 1 3.38735 4.74899 4.93161 4.40217 3.30198 4.58266 4.96464 1.94488 4.20209 1.70456 1.08162 4.63730 4.84157 4.39763 4.33707 3.95761 3.63237 2.33080 5.34145 4.22243 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01943 4.34637 5.06872 0.61958 0.77255 0.42505 1.06055\n- 2 2.68181 5.09048 2.96361 2.26672 4.39711 3.46752 3.19237 3.85506 2.20264 3.37797 3.31004 2.42720 3.86123 2.50728 2.88516 2.38225 2.37168 3.46049 5.54563 4.16181 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 3 2.15849 4.47971 3.49357 2.92029 3.63451 3.65006 3.88292 2.11430 2.47803 2.45323 3.57868 3.34595 4.02998 3.17248 2.40713 2.89376 2.93109 2.58698 5.05730 3.81531 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 4 3.68755 4.93271 5.48843 4.91326 3.24556 5.03978 5.33982 1.81677 4.77259 0.72582 2.39649 5.13873 5.11522 4.73430 4.78799 4.41482 3.89649 2.49217 5.43842 4.45599 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 5 2.60174 4.51245 4.91504 4.35688 3.47608 4.45707 4.86849 1.78960 4.23031 1.12053 3.31484 4.53026 4.74659 4.40178 4.35884 3.79747 3.41774 1.70979 5.33613 4.19569 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 6 3.27407 4.57883 5.15774 4.57035 2.22126 4.54829 4.87950 1.42328 4.41317 1.48164 2.39501 4.67637 4.77946 4.46372 4.43679 3.88773 3.49749 2.09021 5.18978 4.10016 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 7 1.47208 1.04423 4.50723 4.22530 4.37041 3.24511 4.86128 3.45901 4.08079 3.41044 4.35426 3.94582 4.038'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 467 2.69575 4.49271 5.04404 4.49982 3.62524 4.55322 5.01641 1.47320 4.38154 1.54211 3.45928 4.64961 4.83927 4.57147 4.50812 3.90708 3.44030 1.33082 5.47806 4.30917 502 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 468 2.49976 5.15470 2.48675 1.94897 4.47798 3.45472 3.65788 3.35563 2.40907 3.45093 4.20314 2.56933 3.85726 2.41537 2.90066 2.48342 2.61800 3.53392 5.60039 4.19941 503 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 469 2.86234 5.25713 3.09881 2.32068 4.62875 3.58317 3.70068 4.06278 2.11148 3.53046 4.31162 3.06087 3.97371 1.77527 1.95180 2.46218 3.07560 3.66669 5.63576 4.30689 504 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 470 2.49573 4.54031 3.38744 2.61693 3.70127 3.61865 3.84735 3.05567 2.46011 1.77375 3.63463 3.27905 4.00328 2.77988 3.12337 2.85981 2.92888 2.31762 5.10222 3.84827 505 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41946 5.14181 0.61958 0.77255 0.48576 0.95510\n- 471 3.83677 5.15519 5.07053 4.74491 3.44693 4.67461 5.23773 2.70657 4.51340 0.40999 3.35371 4.97288 5.03615 4.74181 4.58640 4.36498 4.11612 2.87947 5.48714 4.32677 506 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09122 4.41946 2.58835 0.61958 0.77255 0.48576 0.95510\n- 472 2.76867 4.97733 3.16949 2.58248 4.24859 3.56183 3.69586 3.66201 2.17513 3.22865 4.04634 3.08217 3.94232 2.11654 1.92335 2.78996 2.98637 2.79452 5.42308 3.22886 507 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10810 4.34765 2.41322 0.61958 0.77255 0.58953 0.80875\n- 473 2.47367 5.01919 2.99535 2.45324 4.32631 3.47017 2.53339 3.76327 2.33856 3.30266 4.09315 2.97545 3.86868 2.34941 2.35802 2.23477 2.92782 3.39667 5.47699 4.13027 508 s - - -\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40516 3.72498 3.29357 2.67728 2.69358 4.24693 2.90350 2.73743 3.18149 2.89785 2.37890 2.77505 2.98521 4.58480 3.61506\n- 0.27723 1.71984 2.76426 0.24469 1.52760 0.69408 0.69222\n- 474 2.32804 4.79640 2.66133 2.48047 4.05724 2.36870 3.70518 3.46417 2.53480 2.41320 3.91413 2.99445 3.85913 2.59531 2.99141 2.68983 2.89097 3.14768 5.34493 4.01689 510 a - - -\n- 2.68625 4.42232 2.77526 2.73130 3.46361 2.40519 3.72501 3.29321 2.67747 2.69362 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77457 2.98504 4.58484 3.61510\n- 0.49063 0.94737 * 0.14659 1.99249 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_17.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_17.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1283 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_17\n-LENG 420\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:02 2020\n-NSEQ 25\n-EFFN 2.297974\n-CKSUM 3374613424\n-GA 78 78;\n-STATS LOCAL MSV -11.4351 0.69896\n-STATS LOCAL VITERBI -12.5118 0.69896\n-STATS LOCAL FORWARD -5.9502 0.69896\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62989 4.38355 2.92265 2.52605 3.38505 3.00546 3.67105 2.82199 2.47594 2.41277 3.70493 2.98064 3.57827 2.99169 2.98952 2.65533 2.82313 2.76914 4.45514 3.44649\n- 2.68633 4.42252 2.77533 2.73150 3.46381 2.40527 3.72472 3.29381 2.67768 2.69382 4.24217 2.90311 2.73766 3.18147 2.89828 2.37845 2.77487 2.98522 4.58504 3.61530\n- 1.12248 1.07352 1.10045 0.91562 0.51128 0.00000 *\n- 1 2.63976 4.33355 3.56144 2.79730 3.46711 3.63040 3.88914 2.65138 2.94092 2.10334 2.72785 3.07556 3.05552 3.23943 3.28248 2.87924 2.42881 2.40057 4.92146 3.69216 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01982 4.32665 5.04900 0.61958 0.77255 0.90609 0.51768\n- 2 2.47167 4.73982 3.14359 2.58621 3.94903 3.51996 3.30425 3.34738 2.39185 2.61734 2.95409 2.86689 3.50497 2.91435 3.00843 2.01135 2.89361 3.05587 5.26640 3.95991 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01886 4.37620 5.09855 0.61958 0.77255 0.74238 0.64623\n- 3 2.49632 5.06657 2.53755 2.12836 4.35934 3.48640 3.68086 3.04998 2.21044 3.34929 3.09581 2.81206 3.47310 2.79752 2.92262 2.50536 2.69289 3.42879 5.53199 4.15493 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01703 4.47727 5.19962 0.61958 0.77255 0.74528 0.64360\n- 4 2.70230 4.49002 2.79085 2.91578 2.35087 3.20773 3.89817 3.00464 2.65227 2.43379 3.12964 3.34843 3.49144 2.88855 3.25857 2.89131 2.93396 2.76983 3.54822 3.24764 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01622 4.52526 5.24761 0.61958 0.77255 0.81312 0.58604\n- 5 2.72705 5.19523 2.03019 2.00841 4.51965 3.10637 3.69141 3.43362 2.44266 3.12018 4.24297 2.69500 3.89074 2.41487 2.93484 2.69532 2.79377 3.57498 5.63932 4.23684 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01622 4.52526 5.24761 0.61958 0.77255 0.71149 0.67513\n- 6 2.45516 5.01256 2.87526 2.35789 3.18241 3.11121 3.72529 3.71306 1.98758 2.95545 3.55243 3.03534 3.91857 2.71129 2.74604 2.59648 2.72341 3.36023 5.49535 3.62616 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01563 4.56209 5.28444 0.61958 0.77255 0.56461 0.84068\n- 7 2.74540 4.83721 3.21220 2.45875 4.04452 3.59980 2.58792 3.44807 2.64397 3.08291 3.11447 2.91518 3.9891'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72477 5.44711 0.61958 0.77255 0.48576 0.95510\n- 413 2.65997 5.15533 2.82007 2.56842 4.42352 3.60199 3.01118 3.87772 2.05447 3.42921 4.21818 2.60210 4.00408 2.93015 3.00906 2.82345 3.05776 3.51394 1.84535 4.24734 471 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72477 5.44711 0.61958 0.77255 0.48576 0.95510\n- 414 3.02426 4.69195 5.36924 4.82367 3.11639 4.80692 5.26114 0.81821 4.69741 1.93666 3.56942 4.93712 5.06685 4.84373 4.77999 4.16867 3.66097 1.81154 5.64043 4.48470 472 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72477 5.44711 0.61958 0.77255 0.48576 0.95510\n- 415 2.77306 4.82013 2.54427 2.57607 2.88220 3.64236 3.51688 3.08230 2.34276 2.45202 3.90282 3.21912 4.02959 2.83348 2.59304 2.85507 3.00448 2.88747 4.02863 3.15254 473 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72477 5.44711 0.61958 0.77255 0.48576 0.95510\n- 416 2.61262 4.01270 2.47466 1.86989 4.53686 2.99810 3.74478 3.49102 2.40281 2.98423 4.26526 2.87389 3.94763 2.85012 2.46505 2.55751 2.82294 3.59433 5.66617 4.27140 474 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08888 4.72477 2.57474 0.61958 0.77255 0.48576 0.95510\n- 417 2.56430 5.08946 3.06690 2.05049 4.37385 3.54871 3.74710 3.07533 2.51248 3.36980 4.15071 2.01400 3.94240 2.86962 2.74143 2.29729 2.75514 3.16479 5.56484 4.19645 475 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09482 4.65019 2.51450 0.61958 0.77255 0.62890 0.76181\n- 418 2.52398 5.15058 2.40588 2.11940 4.46313 3.14703 3.69817 3.50479 2.33814 3.44193 4.20021 2.70945 3.89969 2.80626 2.68684 2.57897 2.75528 2.55541 5.60331 4.21270 476 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05224 4.57086 3.20512 0.61958 0.77255 0.75231 0.63729\n- 419 2.47143 5.11517 2.74291 2.09335 2.79819 3.20999 3.69180 3.87655 2.32890 3.06668 4.16711 2.98491 3.53613 2.53486 2.44884 2.69329 2.94095 3.48343 5.57318 4.18887 477 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20171 4.53469 1.76062 0.61958 0.77255 0.80107 0.59575\n- 420 2.51964 5.10366 2.57213 1.92002 4.41802 3.07359 3.63836 3.50749 2.19833 3.39576 4.15351 2.72867 3.83819 2.74650 2.87893 2.47894 2.89759 3.47789 5.55463 3.35954 478 e - - -\n- 2.68592 4.42240 2.77534 2.73123 3.46369 2.40511 3.72464 3.29346 2.67724 2.69359 4.24705 2.90362 2.73754 3.18143 2.89796 2.37892 2.77534 2.98501 4.58492 3.61496\n- 0.55258 0.85676 * 0.54887 0.86181 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_18.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_18.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1163 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_18\n-LENG 380\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:03 2020\n-NSEQ 7\n-EFFN 1.186035\n-CKSUM 4198959535\n-GA 50 50;\n-STATS LOCAL MSV -11.0184 0.69956\n-STATS LOCAL VITERBI -12.2944 0.69956\n-STATS LOCAL FORWARD -6.0530 0.69956\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56466 4.37819 2.82270 2.56377 3.44767 2.94938 3.74567 2.77932 2.64911 2.31435 3.68979 2.98254 3.65878 3.04948 2.85297 2.73298 2.90203 2.63850 4.61858 3.61652\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.00000 *\n- 1 2.73025 4.29483 3.91396 3.36079 3.24896 3.75842 4.03918 2.64555 3.23195 2.30469 1.77675 3.65274 4.14593 3.52395 3.48204 3.05131 2.37233 2.48482 4.81222 2.61303 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 2 2.15172 4.99429 2.46661 2.41704 4.28276 3.44868 3.64490 3.13656 2.07489 3.27302 4.05787 2.94904 3.84531 2.76874 2.41830 2.65747 2.89098 3.35271 5.46534 4.10227 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 3 2.23394 4.28507 4.38578 3.82195 3.45555 4.04110 4.42870 1.55527 3.71408 1.92277 3.37693 4.04313 4.39847 3.95085 3.91277 3.35303 2.62036 1.80347 5.09638 3.90302 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 4 2.91885 4.72151 3.53234 3.05559 3.33610 3.73087 1.41415 3.19279 2.79660 2.72664 2.50812 3.44844 4.15890 3.27909 3.08828 3.06791 3.16933 3.01232 4.87360 3.40757 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 5 3.29245 4.55139 5.15892 4.63801 3.62400 4.73559 5.25050 1.53508 4.53445 1.67790 3.40868 4.82654 4.97317 4.72828 4.67945 4.11653 3.54015 1.03061 5.63385 4.47360 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 6 2.54965 1.86408 3.47080 3.02774 4.00184 2.05344 4.05606 3.39086 2.95038 3.08012 3.94913 3.35944 3.93032 2.38398 3.28811 2.71725 2.91456 3.05074 5.37440 4.13034 6 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 7 3.51566 4.78554 5.23254 4.70014 3.27842 4.85019 5.20900 1.51541 4.53556 0.87126 3.06450 4.92828 5.00673'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 373 3.39356 4.73375 5.00022 4.49251 3.30699 4.61733 5.05470 2.18602 4.31723 0.81269 3.12068 4.71313 4.87632 4.48573 4.44140 4.01171 3.64670 1.76726 5.38283 4.26226 404 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 374 2.45589 5.01403 2.97305 1.98917 4.30822 3.45781 3.64286 3.74709 2.36849 2.86940 4.07460 2.95491 3.85189 2.33758 2.38824 2.66743 2.63416 3.37749 5.47464 4.11478 405 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 375 2.50731 5.40435 2.02773 1.90192 4.71610 3.38721 3.75187 4.21547 2.61157 3.69687 4.47739 1.86770 3.89965 2.51954 3.14745 2.78465 3.11286 3.78141 5.84231 4.38840 406 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 376 3.22627 4.90421 4.01144 3.43416 3.27841 3.92323 3.94631 3.53762 2.73304 3.06100 4.08650 3.72698 4.34362 3.43021 1.99422 3.37565 3.45756 3.33641 1.12967 3.26952 407 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 377 2.65606 4.31671 3.63070 3.07076 2.21152 3.64928 3.91256 2.29095 2.43799 2.50146 3.42252 3.43946 4.03467 3.29571 3.29590 2.36441 2.89218 2.55818 4.87978 3.62838 408 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 378 2.28071 4.85610 3.20625 2.62323 4.12883 3.54743 3.71045 3.51092 2.17534 2.70110 3.95362 3.10785 3.93708 2.87012 1.82238 2.78796 2.64162 3.20508 5.35105 4.06387 409 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 379 1.95689 4.77431 3.05643 2.16914 3.98555 3.49431 2.83093 3.39021 2.53976 2.44765 3.86631 3.05929 3.90251 2.90602 2.97012 2.73919 2.91363 3.09540 5.29349 3.97840 410 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 4.28643 5.00877 0.61958 0.77255 0.48576 0.95510\n- 380 1.93393 4.47745 3.38050 2.82753 3.63662 3.57290 3.82871 2.98653 2.28974 2.70477 3.59320 3.26396 3.96937 3.10297 3.11979 2.82295 2.89030 2.30527 5.05078 2.79305 411 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01394 4.27973 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_19.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_19.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1145 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_19\n-LENG 374\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:03 2020\n-NSEQ 71\n-EFFN 11.938782\n-CKSUM 903740383\n-GA 50 50;\n-STATS LOCAL MSV -11.2361 0.69967\n-STATS LOCAL VITERBI -12.3365 0.69967\n-STATS LOCAL FORWARD -5.0986 0.69967\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66172 4.56021 2.88432 2.52403 3.25355 2.93510 3.77589 2.74395 2.58928 2.39314 3.98885 2.91144 3.27692 3.16849 2.93671 2.62363 2.86827 2.85041 4.51166 3.37069\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03200 6.10617 3.53144 0.61958 0.77255 0.00000 *\n- 1 2.91838 3.33386 5.67147 5.05885 2.00221 4.87328 5.21219 2.28532 4.84474 0.95436 4.12557 5.04079 5.22773 4.96889 4.84813 4.18834 3.92052 1.86773 5.68828 3.81308 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00341 6.07758 6.79993 0.61958 0.77255 0.70103 0.68533\n- 2 5.00256 6.16620 7.08904 6.56233 2.94703 6.57691 7.04256 0.71836 6.47943 1.42697 3.66698 6.76195 6.59149 6.38120 6.45317 6.01322 5.22523 1.81707 6.98300 6.01322 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00341 6.07758 6.79993 0.61958 0.77255 0.70103 0.68533\n- 3 1.41982 4.04920 5.62660 5.21740 5.56597 3.82704 5.94693 4.96388 5.13278 4.67978 5.53351 5.11506 5.30205 5.35041 5.33902 1.08758 1.45767 4.50978 6.99557 2.58772 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00341 6.07758 6.79993 0.61958 0.77255 0.70103 0.68533\n- 4 2.96852 4.98725 5.40074 4.79604 1.10521 4.74050 5.06799 2.31854 4.61337 2.90557 4.10374 4.85260 2.10609 3.03132 4.67532 4.04561 2.12158 2.76044 5.60908 4.42940 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00341 6.07758 6.79993 0.61958 0.77255 0.70103 0.68533\n- 5 3.07366 5.50758 6.17828 5.57536 4.32231 5.42785 5.76791 2.14837 5.38047 0.96699 3.72029 5.59791 5.70974 5.44296 5.36905 4.75922 4.41363 2.32117 1.36333 5.01297 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00341 6.07758 6.79993 0.61958 0.77255 0.70103 0.68533\n- 6 3.86670 5.78853 6.03783 6.10378 6.75995 0.15799 6.79800 6.30487 6.21908 5.98992 6.70337 5.46749 5.45857 6.24215 6.18388 3.04378 3.18702 5.27235 8.08490 7.09896 6 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00341 6.07758 6.79993 0.61958 0.77255 0.70103 0.68533\n- 7 3.01343 5.66551 2.22286 3.34523 3.78921 4.32494 4.53045 3.13365 3.00496 2.73851 4.73812 1.85379 4.0576'..b'.68784 4.41762 2.77320 2.72708 3.46520 2.40595 3.72661 3.29116 2.67741 2.69411 4.24587 2.90375 2.73848 3.18313 2.89967 2.37931 2.77686 2.98309 4.57904 3.61531\n- 0.06455 2.78946 6.85248 2.92186 0.05534 0.48576 0.95510\n- 367 4.86275 7.69109 3.04593 2.52286 6.92965 4.84039 5.55124 3.68768 4.80699 5.98054 6.93779 0.24968 5.56387 4.74848 5.57997 4.65596 5.19939 6.05349 8.12970 6.45172 826 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00324 6.13013 6.85248 0.61958 0.77255 0.48576 0.95510\n- 368 2.77168 5.85253 1.52916 2.89858 1.51481 3.43022 3.70179 4.57624 2.95380 2.88302 3.02670 3.01955 4.08841 3.35106 3.75609 3.51072 3.74349 3.42384 6.32578 4.95737 827 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00324 6.13013 6.85248 0.61958 0.77255 0.48576 0.95510\n- 369 2.99703 5.06297 5.67779 5.06384 1.95490 4.87672 5.21414 1.21559 4.84831 1.49122 3.62179 5.04410 5.23393 4.97360 4.85150 4.19072 3.31954 2.22573 5.69442 3.38224 828 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00324 6.13013 6.85248 0.61958 0.77255 0.48576 0.95510\n- 370 0.77540 5.72659 3.39469 3.38305 4.96825 4.36375 3.66923 4.05040 3.38058 3.55638 3.32602 2.09181 4.75786 3.72883 3.84337 2.52000 3.76839 4.06215 6.23696 4.90349 829 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00324 6.13013 6.85248 0.61958 0.77255 0.48576 0.95510\n- 371 7.02626 7.83921 7.04017 7.09561 6.90842 6.42391 0.01363 8.08617 7.17777 7.17348 8.50381 7.39114 7.06435 7.56846 7.09908 7.27158 7.43609 7.74332 7.93493 6.90697 830 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00324 6.13013 6.85248 0.61958 0.77255 0.48576 0.95510\n- 372 1.00872 1.91484 5.43903 4.89050 3.10947 2.18824 5.32358 3.81424 4.74716 3.56395 4.48077 4.93850 5.19897 4.93488 4.87038 2.00561 3.77099 3.20186 5.97574 4.15353 831 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00324 6.13013 6.85248 0.61958 0.77255 0.48576 0.95510\n- 373 2.68867 5.63566 4.12046 3.43974 4.08378 0.57520 4.69966 4.25699 3.52719 3.90334 4.74889 4.06237 4.86184 3.06452 3.34989 3.15555 3.84419 3.97026 3.81026 4.89423 832 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00324 6.13013 6.85248 0.61958 0.77255 0.48576 0.95510\n- 374 3.62225 4.99829 4.67684 4.96301 1.72127 4.79066 5.12368 3.27983 4.22462 1.39725 1.86953 4.95042 5.15443 4.33699 4.05552 4.10160 2.84574 2.99694 3.13193 2.38681 833 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00218 6.12907 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1205 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_2\n-LENG 394\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:00 2020\n-NSEQ 11\n-EFFN 2.704346\n-CKSUM 3923823912\n-GA 105 105;\n-STATS LOCAL MSV -11.4259 0.69934\n-STATS LOCAL VITERBI -12.1781 0.69934\n-STATS LOCAL FORWARD -5.4731 0.69934\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63434 4.63446 2.98420 2.53415 3.23257 3.03699 3.74566 2.69555 2.54524 2.46142 3.79646 2.92497 3.45273 3.17265 2.99370 2.62175 2.89421 2.64462 4.82759 3.23252\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.00000 *\n- 1 2.44765 5.10307 3.43171 2.85870 4.36425 3.78872 3.94219 3.74935 1.61324 3.34211 1.68365 3.34283 4.17733 2.55385 2.93247 3.03646 3.21001 3.44927 5.58455 4.30092 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 2 2.98226 5.24262 3.35643 2.76943 2.76929 3.75795 3.88956 3.97056 1.43461 3.51077 4.31772 3.27160 4.14235 3.02169 2.00865 2.12650 3.20115 3.62267 5.67163 4.35298 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 3 3.72815 4.91561 5.83300 5.35946 4.15403 5.35919 6.05703 1.09536 5.30151 1.87897 3.88321 5.51811 5.54327 5.50095 5.43622 4.79329 3.98209 0.98233 6.30013 5.12546 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 4 3.65678 4.91236 5.64791 5.08171 2.60752 5.02706 5.40829 1.86347 4.93742 1.07094 3.41800 5.18395 5.21781 4.96527 4.94503 4.39237 3.88416 1.33764 5.63901 4.55706 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 5 3.14411 4.48526 5.05117 4.47148 2.16674 4.35393 4.59814 1.37592 4.28426 2.41074 3.50229 4.47709 4.68640 4.40658 4.31301 3.67812 3.37775 1.55222 5.00691 2.52568 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 6 1.36186 4.91795 3.46248 2.97293 4.56857 3.57466 4.15636 3.99677 2.97598 3.60236 4.40469 3.40784 4.12317 2.38753 3.40995 1.73978 2.30850 3.57459 5.82579 4.51628 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 7 2.95226 4.53971 4.16770 3.61755 3.68797 3.97630 4.37947 2.17773 3.51922 2.20613 3.64183 3.91417 1.477'..b'.68636 4.42243 2.77537 2.73080 3.46372 2.40479 3.72512 3.29372 2.67725 2.69373 4.24708 2.90364 2.73757 3.18164 2.89776 2.37905 2.77537 2.98490 4.58267 3.61521\n- 0.51245 1.49760 1.72988 0.97578 0.47305 0.82992 0.57285\n- 387 2.68770 4.45090 3.50322 2.94757 2.74977 2.82467 3.90771 2.22623 2.90655 2.67404 3.56373 3.36586 4.03262 2.54929 3.27280 2.13411 2.92506 2.73392 5.03306 3.78654 601 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47100 5.19335 0.61958 0.77255 0.37686 1.15841\n- 388 2.79205 3.39581 2.48975 2.60304 2.92706 3.61106 3.81198 3.72486 1.95582 3.31088 4.11205 2.60121 4.00209 2.50783 3.06744 2.81194 3.02341 2.54018 5.53735 4.18980 602 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01261 4.77514 5.49749 0.61958 0.77255 0.40000 1.10962\n- 389 2.85871 5.28130 3.09278 1.93796 4.59738 3.62441 3.82119 2.58353 1.67457 3.57127 4.33508 2.60052 4.02546 2.93200 3.02970 2.26163 3.08995 3.65667 5.73015 4.34459 603 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 390 3.07331 5.63647 2.30955 1.16287 4.96464 3.64561 3.97062 4.46808 2.17831 3.93248 4.69691 2.51278 4.13461 2.48374 3.31346 3.00149 3.32085 4.02093 6.06150 4.61226 604 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 391 2.89568 5.24077 3.18222 2.26575 4.53100 3.67096 3.84562 3.97884 1.33086 2.56134 4.29923 2.64846 4.06478 2.96762 2.98085 2.88721 3.12212 3.60796 5.68400 3.15917 605 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 392 1.99200 4.76772 5.46799 4.97771 4.16181 4.91039 5.59967 0.93567 4.88664 2.74301 3.95803 5.09475 5.23915 5.12811 5.03839 4.31018 3.76241 1.33422 6.07004 4.85458 606 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 393 2.32137 5.31675 2.58523 1.59867 4.64868 3.60083 3.79729 4.12569 2.53891 2.71951 4.36224 3.07267 4.00046 2.31290 2.59252 2.80246 3.06792 3.70055 5.75596 4.35218 607 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84672 5.56906 0.61958 0.77255 0.48576 0.95510\n- 394 2.98348 5.40895 3.25002 2.30149 4.77628 3.72604 3.85136 4.22248 1.82115 2.84632 4.45775 1.81214 4.11202 2.95738 1.93331 2.95092 3.20006 3.81468 5.79706 4.45030 608 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00792 4.84290 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_20.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_20.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,656 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_20\n-LENG 211\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:03 2020\n-NSEQ 13\n-EFFN 2.123291\n-CKSUM 3805805956\n-GA 80 80;\n-STATS LOCAL MSV -10.0641 0.70471\n-STATS LOCAL VITERBI -11.4194 0.70471\n-STATS LOCAL FORWARD -4.8783 0.70471\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54943 4.47291 2.93257 2.59880 3.44230 3.05210 3.60207 2.75919 2.73409 2.32330 3.62350 3.19437 3.27716 2.99646 2.88424 2.74683 2.76975 2.59036 4.83748 3.53814\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.00000 *\n- 1 2.24756 5.16157 3.02325 2.11953 4.49912 3.54379 3.78180 3.95490 2.54514 3.48645 4.25753 3.05347 3.96201 2.37559 3.02627 1.78959 2.36249 3.55908 5.66089 4.27941 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 2 4.11329 5.66137 4.80044 4.78456 5.61770 4.30899 5.72534 5.46055 4.92634 4.94937 6.07106 4.99199 0.14013 5.27958 5.01843 4.31785 4.61726 4.99637 6.50504 5.76668 2 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 3 1.87416 5.01873 3.18674 2.78249 4.58744 3.54558 4.02318 4.02078 2.78379 3.59585 4.40855 3.25876 2.76789 1.27919 3.19864 2.88611 3.15181 3.61108 5.79534 4.46638 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 4 3.54958 4.79059 5.53673 5.09992 4.12267 5.04495 5.85764 1.73790 5.01035 2.55982 3.88021 5.24945 5.34265 5.29054 5.18614 4.49549 3.82945 0.53691 6.22630 4.98778 4 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 5 3.58587 4.78270 5.65701 5.18232 4.07015 5.19856 5.89446 1.17218 5.11937 2.15437 3.80665 5.34624 5.40214 5.34517 5.27127 4.62744 3.84193 0.87630 6.18744 4.99175 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 6 3.09403 4.91960 4.41779 4.29168 4.95985 3.71399 5.20864 4.22034 4.25725 4.04271 5.08047 4.29728 4.49477 4.61266 4.42269 3.30872 0.32973 3.80025 6.29173 5.19263 6 T - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 7 2.35055 4.66022 3.46729 1.48795 2.76197 3.73081 3.98656 2.41656 2.92452 2.81357 3.74033 3.39335 4.12422'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 204 2.30930 5.22221 3.01252 2.16327 4.55023 3.53590 3.73019 4.02198 2.47200 3.52103 4.27175 2.63617 3.93289 2.36896 2.67338 2.05248 2.35649 3.60459 5.66854 4.27058 240 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 205 2.22053 4.30392 4.19607 3.61119 3.35851 3.89893 4.18932 2.70907 3.48134 1.38834 2.82077 3.84888 4.26363 2.91317 3.68190 3.18309 3.04077 2.54025 2.96437 3.70136 241 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 206 2.78400 4.54925 3.58079 3.01868 3.65519 3.73832 3.97222 2.10820 2.95145 2.20598 3.64048 2.81288 4.11883 1.88523 3.31235 2.98235 3.01493 2.81455 5.09720 3.16909 242 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 207 2.20147 5.22235 3.12244 2.32944 4.54920 3.60042 3.75870 3.99612 2.22703 3.50398 4.27560 3.08485 3.98894 2.33159 1.73847 2.80927 3.05280 3.00992 5.65224 4.29178 243 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01406 4.66740 5.38975 0.61958 0.77255 0.48576 0.95510\n- 208 2.45834 4.47916 3.62698 2.46186 2.72924 3.73324 3.98607 2.47181 2.32035 2.12035 3.58191 3.46720 4.11268 3.31697 3.36872 2.61404 2.98693 2.49016 5.06132 3.82633 244 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08915 4.66740 2.57844 0.61958 0.77255 0.48576 0.95510\n- 209 2.47434 4.84630 3.16682 2.20735 4.07211 3.58015 3.81525 3.47068 2.64757 1.84899 3.93996 2.73096 2.95091 2.99135 3.09530 2.80871 2.61400 3.17192 5.38102 4.06822 245 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01515 4.59340 5.31574 0.61958 0.77255 0.62049 0.77150\n- 210 2.42279 4.82305 3.22853 2.68473 4.17112 2.92279 3.85507 3.02759 2.67933 3.20362 4.02410 2.71949 3.19631 3.02203 3.12961 2.02598 1.97019 3.24803 5.46061 4.14473 246 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01515 4.59340 5.31574 0.61958 0.77255 0.40989 1.08983\n- 211 2.76237 5.04543 2.78613 2.55513 4.31024 3.57264 3.76766 3.17094 2.32703 2.15122 4.10893 3.08291 2.63500 2.27364 2.68643 2.77395 2.99286 3.39223 5.52760 4.17526 247 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00948 4.66283 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_21.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_21.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1154 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_21\n-LENG 377\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:03 2020\n-NSEQ 9\n-EFFN 1.981934\n-CKSUM 1133838297\n-GA 231 231;\n-STATS LOCAL MSV -11.0995 0.69962\n-STATS LOCAL VITERBI -12.3677 0.69962\n-STATS LOCAL FORWARD -5.8998 0.69962\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43065 4.53317 2.94897 2.56321 3.34550 2.94849 3.66349 2.89449 2.65826 2.33502 3.66928 3.10693 3.58954 3.07449 2.78586 2.71326 2.89499 2.72070 4.69616 3.38138\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.00000 *\n- 1 2.40640 5.31060 2.41097 1.48790 4.64257 3.52444 2.96200 4.12521 2.51418 3.60910 4.36069 2.99208 3.94919 2.86217 2.48082 2.76924 3.04797 3.69556 5.74616 4.33282 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 2 2.01021 4.58615 3.75909 3.32794 4.65485 2.46673 4.42274 4.09397 3.34133 3.73243 4.52920 3.57212 1.37469 3.63981 3.71840 2.08640 2.22995 3.54929 5.95596 4.71438 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 3 2.77019 2.92487 4.33918 3.76078 3.37394 3.86526 4.25241 2.61038 3.62694 1.41854 3.37198 3.92355 2.92976 3.83895 3.78492 3.17373 2.43622 2.09499 4.90721 3.72054 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 4 1.93781 4.52029 3.52071 2.51627 2.93683 3.68994 3.93563 2.55768 2.91795 2.73679 3.62105 3.38692 4.07195 3.23149 2.72526 2.44361 2.96846 2.37938 5.09508 3.84877 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 5 2.74883 4.55204 3.50108 2.49512 2.83994 3.69224 3.92964 3.06211 2.46980 1.73981 3.64375 3.37502 4.07367 2.68838 3.26196 2.92964 2.97981 2.42931 5.11885 3.86939 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 6 1.48343 4.53370 3.82687 3.37535 4.19783 3.45750 4.35997 3.51414 3.33706 2.36971 4.14519 3.62745 4.09637 3.64874 3.67085 1.30076 3.05817 3.16453 5.61111 4.37760 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 7 3.66976 4.89605 5.55744 5.07870 3.72378 5.13050 5.65713 0.66028 4.92673 1.75642 3.51087 5.26772 5.321'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 370 2.79555 4.21788 4.44845 3.85565 2.27772 3.94053 4.26221 2.13556 2.88211 2.01928 3.31556 3.99130 4.30178 3.89715 3.82699 3.23980 2.51459 1.68886 4.85848 3.67414 432 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 371 2.44795 4.59289 5.24032 4.71270 3.87214 4.73204 5.25747 1.44897 4.60500 2.06643 3.69805 4.84861 5.02163 4.82021 4.73943 4.09996 3.56903 0.99967 5.72432 4.52745 433 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 372 2.73720 4.84219 3.19989 1.93229 4.05582 3.59029 3.80152 3.45530 2.62887 2.63741 3.05905 3.14850 3.97906 2.50077 3.07844 2.43419 2.49128 2.65823 5.36376 4.05068 434 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 373 2.83293 5.35336 2.38730 1.59562 4.68837 2.73894 3.77127 4.17839 2.54650 3.65519 4.40512 2.51362 3.95717 2.87840 2.55197 2.37492 3.07146 3.74027 5.78857 4.36424 435 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 374 2.35368 4.41159 4.60636 4.04070 2.44338 4.11806 4.23592 2.71850 3.88674 1.23992 3.37403 4.13492 4.46284 4.04023 3.99056 3.42536 3.23618 2.60193 4.67168 2.13229 436 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 375 2.37810 3.09894 2.86654 3.01761 3.62137 3.70484 3.96084 2.97966 2.97567 1.91128 2.81671 2.78177 4.08749 3.28119 3.33768 2.94859 2.52335 2.75162 5.06090 3.82275 437 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 376 2.76395 5.25417 2.48278 1.95722 4.58818 3.51763 3.72068 3.10800 2.46507 3.55381 4.29962 2.08730 3.92222 2.40336 2.55097 2.72735 2.99652 3.63922 5.69114 4.28386 438 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01477 4.61844 5.34079 0.61958 0.77255 0.48576 0.95510\n- 377 2.73984 4.62643 2.72094 2.83444 2.38296 2.83671 3.88642 3.16566 2.80537 2.41734 2.96912 3.29711 4.04008 3.13389 2.28921 2.88312 2.97152 2.91547 5.18067 3.91178 439 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00997 4.61364 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,665 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_3\n-LENG 214\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:00 2020\n-NSEQ 6\n-EFFN 1.227539\n-CKSUM 2738073082\n-GA 129 129;\n-STATS LOCAL MSV -10.2847 0.70454\n-STATS LOCAL VITERBI -11.1846 0.70454\n-STATS LOCAL FORWARD -4.5448 0.70454\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61465 4.52527 2.86818 2.66447 3.21605 3.00478 3.72680 2.76385 2.68805 2.31883 3.61084 3.19995 3.46031 3.11309 3.03151 2.71465 2.81153 2.50813 4.54696 3.32223\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.00000 *\n- 1 2.70556 4.39309 3.63772 3.07646 3.57456 3.69543 3.98850 2.24129 2.45674 2.56838 3.51553 3.46721 4.08595 3.31697 3.30981 2.96161 1.93139 2.01850 5.05517 3.82392 1 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 2 3.43684 4.72620 5.17223 4.61189 1.66927 4.69229 4.83913 1.89438 4.46763 1.11090 3.00718 4.75259 4.86878 4.48227 4.50356 4.04283 3.65355 2.44657 5.04992 3.80809 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 3 3.31521 4.56646 5.22166 4.74525 3.80780 4.78834 5.45293 0.98440 4.65084 2.26285 3.57781 4.92501 5.06112 4.90181 4.82355 4.20418 3.58071 1.18783 5.85550 4.64958 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 4 2.40781 4.35343 3.64979 3.37179 4.51744 3.12493 4.43431 3.90630 3.39988 3.62607 4.46451 3.50666 3.88275 3.70770 3.69862 0.90591 2.06292 3.35622 5.86368 4.64485 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 5 3.06691 4.65973 4.10050 3.73830 1.00940 3.86652 4.10602 3.13495 3.68458 2.63705 3.79798 3.91737 2.31150 3.92502 3.89841 3.31228 3.38854 2.99767 4.57248 3.00134 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 6 3.57531 4.84876 5.25198 4.72096 3.24723 4.88582 5.22177 1.77185 4.54431 0.72917 3.03437 4.96020 5.02961 4.63018 4.62302 4.28100 3.80245 2.30005 5.40698 4.33471 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 7 3.29636 5.00591 4.05660 4.02061 5.11189 0.29185 5.09100 4.84012 4.25936 4.42945 5.42429 4.22322 4.40800'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 207 2.65609 4.55949 3.29399 2.73736 3.71172 2.81039 3.78419 3.12132 2.66725 2.38725 3.66538 3.19728 3.94580 3.02766 2.52487 2.38237 2.89086 2.86471 5.09776 2.53294 238 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 208 2.80637 4.25969 4.28524 3.71214 2.54433 3.93047 4.24493 2.39700 3.59225 1.77128 3.22630 3.92272 2.93749 3.80553 3.77108 3.23137 3.04380 1.57103 4.87096 3.66136 239 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 209 3.43426 4.72042 5.19471 4.62983 1.84928 4.70329 4.88847 1.78263 4.48646 1.06818 2.99930 4.77600 4.87547 4.49831 4.51892 4.05483 3.65098 2.42058 5.09888 3.89657 240 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 210 1.86918 4.95531 2.96237 2.12259 4.30485 3.44113 3.71019 3.73586 2.46175 3.30180 4.09980 2.99513 3.87658 2.84654 2.42914 2.20266 2.93533 3.36857 5.50219 4.15384 241 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 211 2.84998 5.16287 3.02940 2.54777 4.54713 3.53685 3.71265 3.97496 1.54157 3.47367 4.27791 3.05291 3.96101 2.32507 2.63279 1.95825 3.07742 3.59676 5.59928 4.28319 242 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 212 3.02820 4.57590 4.31675 3.86438 3.43322 4.00952 4.58331 2.47856 3.66957 0.91154 3.32102 4.10117 4.46272 3.99404 3.87192 3.40685 2.41134 2.44306 5.27022 4.08876 243 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 213 2.25500 4.56719 4.31575 3.88945 3.46076 3.96863 4.61802 2.48733 3.73098 0.90357 3.34990 4.10750 4.45091 4.03356 3.93193 3.37969 3.32644 2.44442 5.30103 4.11874 244 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02023 4.30675 5.02910 0.61958 0.77255 0.48576 0.95510\n- 214 3.00647 5.45313 2.56020 1.24345 4.76405 3.45637 3.83373 4.25328 2.61034 3.74038 4.57463 2.93596 3.99459 1.88878 3.04953 2.93383 3.26221 3.85605 5.87349 4.46582 245 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01366 4.30019 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1061 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_4\n-LENG 346\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:00 2020\n-NSEQ 16\n-EFFN 6.074219\n-CKSUM 142955526\n-GA 276 276;\n-STATS LOCAL MSV -11.4495 0.70020\n-STATS LOCAL VITERBI -12.0960 0.70020\n-STATS LOCAL FORWARD -5.3606 0.70020\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68706 4.60928 2.91437 2.51066 3.24482 3.13040 3.76695 2.70536 2.50411 2.38806 3.83103 2.88613 3.48165 3.22440 2.98073 2.62343 2.93846 2.67362 4.79585 3.25013\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.00000 *\n- 1 3.71556 5.01412 5.71852 5.16505 4.28595 5.05494 5.52402 1.06438 5.01324 2.47239 4.18581 5.21508 5.37959 5.19592 5.08354 2.85415 2.82752 1.09237 5.99401 4.79801 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 2 2.66519 4.74792 5.32193 4.71870 2.21014 4.57013 4.92263 2.95523 4.51987 1.08657 3.77301 4.72866 4.92096 4.64882 4.54168 3.88884 2.32361 1.69549 5.39941 4.23190 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 3 4.25888 5.46595 6.33584 5.80946 1.66153 5.76129 6.23310 0.91692 5.70216 1.87159 4.04797 5.93215 5.91156 5.74072 5.72691 5.16269 4.49427 1.76005 6.38978 5.29124 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 4 1.54017 5.48637 3.45575 2.12613 4.78056 3.93741 4.14149 4.22493 2.45963 2.49907 4.55446 3.44033 4.33440 3.26314 3.38222 1.74900 2.67572 3.85185 5.96702 4.59744 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 5 2.54523 5.09311 3.75386 3.19293 2.86064 2.21696 3.09173 3.65272 2.56450 2.33191 4.18459 3.66891 1.85037 3.50284 3.59103 3.27256 2.34431 3.39074 5.64363 4.36579 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 6 2.55559 4.65057 5.23334 4.62120 3.69226 4.45489 4.78084 2.08791 4.41025 1.29237 3.71078 4.61274 4.80999 4.53587 4.42029 3.76789 3.51196 2.41699 1.69641 2.97145 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 7 2.65438 5.65933 3.50821 2.51050 5.01046 0.78036 4.39444 4.43519 2.47604 2.91742 4.81580 3.64139 4.5555'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 339 3.12774 5.58903 2.28289 2.33935 2.72629 3.90761 4.09783 4.38569 2.84200 3.88541 4.63525 2.35360 4.30146 1.96912 3.33140 2.16245 3.35904 3.96873 3.42789 2.72055 440 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 340 1.92988 5.26689 3.58795 2.55070 4.48537 3.98797 4.19701 2.49573 2.47400 2.02076 4.34352 2.75052 4.37660 3.36457 2.65982 2.63405 2.76055 2.87720 5.78374 4.46540 441 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 341 2.92010 6.42723 5.30397 4.23186 6.19571 4.94277 4.65111 5.37813 1.82914 4.65836 5.57185 4.48021 5.25550 3.77668 0.42378 4.44744 4.55048 5.07728 6.56354 5.56037 442 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 342 3.94348 6.58144 2.30009 3.07506 5.92596 4.20468 4.75746 5.47411 2.72017 4.92312 5.76091 0.55048 4.83375 3.91675 4.36263 2.49085 4.23783 5.00119 7.05915 5.52505 443 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 343 2.61964 5.53104 3.42733 2.13277 2.19340 3.92350 2.15400 4.28902 2.40290 2.50996 4.58354 2.28960 4.31576 3.22697 2.76054 3.11748 3.36341 3.89854 5.98935 4.60756 444 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 344 2.50856 4.89494 5.44414 4.86578 4.08151 4.81720 5.20760 1.44149 2.47949 1.80749 4.02388 4.93762 5.15334 4.87870 4.77255 4.14493 3.79536 1.25535 5.71909 4.53251 445 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 345 0.97806 5.42323 3.56645 2.55242 4.79307 2.96604 4.30883 4.22358 3.11705 3.81223 4.61511 3.58523 2.36150 3.45571 3.58496 2.65931 3.47218 3.86076 6.03702 3.13671 446 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00600 5.51560 6.23795 0.61958 0.77255 0.48576 0.95510\n- 346 3.12651 5.61231 3.38336 2.07409 4.94756 2.99262 1.54774 4.42614 2.44307 3.91302 4.65575 2.67998 4.29661 3.19078 2.76722 2.62639 3.35756 2.82400 6.05051 3.23129 447 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00404 5.51365 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,650 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_5\n-LENG 209\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:00 2020\n-NSEQ 5\n-EFFN 0.805664\n-CKSUM 730179880\n-GA 200 200;\n-STATS LOCAL MSV -10.0804 0.70478\n-STATS LOCAL VITERBI -11.3398 0.70478\n-STATS LOCAL FORWARD -4.6560 0.70478\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48083 4.43319 2.93589 2.64976 3.35390 2.89707 3.65978 2.70635 2.74154 2.32988 3.68453 3.18340 3.26907 3.09898 2.96951 2.74824 2.77107 2.61516 5.04801 3.53924\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.00000 *\n- 1 3.19394 4.56209 4.61795 4.24546 3.52065 4.28099 4.93984 0.85440 4.07762 2.06983 3.42937 4.46272 4.69689 4.40778 4.25137 3.80041 3.49127 1.87381 5.45059 4.20347 1 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 2 3.39328 4.79737 4.51863 4.16417 3.22639 4.24088 4.75588 2.44644 3.92999 0.65799 3.19361 4.41970 4.64393 4.24868 4.07048 3.84300 3.67987 2.53623 5.17523 3.94440 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 3 3.19300 4.57840 4.68332 4.17828 3.24556 4.37167 4.80885 2.08363 4.00559 1.01073 3.08634 4.42378 4.67540 4.23583 4.17465 3.75388 3.45282 1.69339 5.25527 4.09224 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 4 1.71859 1.75319 3.96768 3.58094 4.01068 3.01229 4.36234 3.30297 3.48996 3.10233 3.97785 3.53465 3.75842 3.74625 3.70956 1.90840 2.70929 2.88333 5.44661 4.27191 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 5 3.11845 4.44016 4.82472 4.33880 3.62476 4.45263 5.06276 1.50275 4.22317 2.13638 3.43469 4.55098 4.78307 4.49910 4.42458 3.84849 3.39127 0.97440 5.58920 4.37245 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 6 2.06810 4.28152 3.49610 2.99098 3.72312 3.32215 3.96438 2.38641 2.94666 2.76390 3.66235 3.31957 3.86776 3.26085 3.29549 1.95548 2.32325 2.66993 5.15449 3.92038 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 7 2.94078 4.69093 3.65625 3.58416 4.71339 0.47240 4.68732 4.36748 3.79310 3.99429 4.97507 3.82122 4.08834 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 202 3.15590 4.45346 4.87942 4.35031 3.48409 4.52941 5.00227 1.54672 4.24000 1.67763 3.28542 4.57515 4.78958 4.45775 4.41588 3.89476 3.40375 1.16589 5.45944 4.29164 217 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 203 2.84123 4.88457 3.31217 2.80274 4.36148 3.49635 3.78604 3.79471 2.27044 3.33502 4.21355 3.21956 2.50882 2.95580 1.30334 2.89949 3.11006 3.45354 5.45371 4.23162 218 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 204 2.90825 4.56987 3.65593 3.19586 3.06446 3.76981 2.67975 2.87341 2.93210 1.30470 3.49578 3.54199 4.17675 3.38351 3.18852 3.12517 3.15265 2.76509 4.67814 3.21353 219 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 205 3.13661 5.23643 3.58479 2.87809 4.71857 3.73573 3.64494 4.05235 1.38489 3.47317 4.34838 3.26438 4.09453 2.77785 1.35593 3.12784 3.29132 3.73597 5.49438 4.34745 220 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 206 2.81252 5.18442 2.55023 1.96850 4.41375 3.36233 2.06022 3.94083 2.47560 3.46754 4.28895 2.26171 3.86529 2.84260 2.91958 2.76909 3.06095 3.56677 5.59893 4.19342 221 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 207 2.62794 4.54896 3.24132 2.68140 3.73089 2.86868 3.72531 3.07856 2.02861 2.37855 2.88473 3.14104 3.89942 2.94986 2.89910 2.75385 2.86045 2.82932 5.09826 3.83190 222 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 208 3.27970 4.59693 4.90978 4.35021 2.24031 4.52258 4.71838 1.83396 4.21974 1.05654 2.91931 4.54622 4.71836 4.29054 4.30942 3.86508 3.49990 2.27988 4.99563 3.78223 223 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02549 4.07794 4.80029 0.61958 0.77255 0.48576 0.95510\n- 209 2.84164 5.30586 1.97868 1.82263 4.62091 3.29285 3.73940 4.10387 2.65674 3.62674 4.44530 2.77540 2.00535 2.89035 3.19724 2.77172 3.11278 3.69728 5.79949 4.35419 224 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.06968 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,419 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_7\n-LENG 132\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:00 2020\n-NSEQ 6\n-EFFN 0.993164\n-CKSUM 3949192147\n-GA 104 104;\n-STATS LOCAL MSV -9.7582 0.71162\n-STATS LOCAL VITERBI -10.6365 0.71162\n-STATS LOCAL FORWARD -4.3147 0.71162\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58900 4.45127 2.99601 2.72604 3.36313 2.99975 3.81053 2.48161 2.65440 2.26263 3.54513 3.21017 3.62454 3.22398 3.07308 2.73544 2.79024 2.43854 4.99108 3.47768\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.00000 *\n- 1 3.29128 5.24041 3.48639 3.06360 4.70012 3.73250 3.97696 4.15279 0.67613 3.65463 4.61027 3.46968 4.21977 3.15857 2.54701 3.31932 3.52644 3.84700 5.63315 4.49750 1 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 2 2.75760 5.02705 2.84177 2.02740 4.35150 3.44043 3.69920 3.75784 2.04586 3.32759 4.14616 2.96662 3.89117 2.84225 2.80818 2.75642 1.83513 3.40684 5.52179 4.18337 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 3 2.36789 4.39410 4.37735 3.85128 3.42330 4.04021 4.53778 2.16164 3.72760 1.29502 3.29253 4.08754 4.43377 3.98487 3.94049 3.38663 3.19722 1.69062 5.20540 4.03118 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 4 3.45585 4.75888 5.04683 4.51997 3.19182 4.72576 5.05798 1.81346 4.33632 0.79247 2.99685 4.77127 4.90561 4.47342 4.44674 4.11310 3.68747 2.23264 5.31495 4.21123 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 5 3.28430 4.63133 4.75976 4.39688 3.60634 4.38964 5.07803 0.75620 4.23173 2.14001 3.50511 4.60043 4.80130 4.55485 4.39428 3.92578 3.58210 1.90717 5.55402 4.31227 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 6 1.21569 4.51777 3.09685 2.85487 4.35529 3.18336 4.09997 3.74713 3.00741 3.44944 4.30314 2.02327 3.85896 3.32668 3.38566 2.63730 2.93314 3.29923 5.67657 4.38405 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 7 2.56335 4.42801 3.42889 2.94625 3.80337 3.40328 3.96810 3.06375 2.87667 2.35241 3.74102 3.31707 2.41317'..b'.68622 4.42229 2.77487 2.73128 3.46358 2.40492 3.72499 3.29358 2.67745 2.69359 4.24694 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.16079 1.95798 4.90849 0.66419 0.72297 0.48576 0.95510\n- 125 2.26357 4.34919 3.52061 2.24588 2.91347 3.62826 3.89559 2.36916 2.91807 2.50266 3.44126 3.36917 4.00882 3.22321 3.27239 2.87998 2.87669 2.19615 4.96509 3.72808 134 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 126 3.12715 5.74402 1.00989 1.73359 5.02633 3.31209 3.91101 4.57025 2.99205 4.05892 4.93777 2.77318 3.96581 3.08761 3.62559 2.98699 3.42902 4.13010 6.19958 4.66507 135 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 127 2.63908 3.20438 3.01860 1.91576 4.12195 2.83076 3.67949 3.53372 2.43695 3.13315 3.95031 3.00193 3.85255 2.83209 2.35920 2.67669 2.88329 3.20117 5.36466 4.04075 136 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 128 3.20285 4.54977 4.82449 4.31881 3.41834 4.45704 4.94100 1.98658 4.16460 1.32025 3.25381 4.53524 4.76321 4.39652 4.32977 3.84037 3.46365 1.20157 5.39590 4.21863 137 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 129 3.98754 5.08537 4.99402 4.77078 1.50030 4.65364 3.50215 3.68104 4.57757 2.96632 4.23749 4.26967 4.93046 4.38624 4.49130 4.02725 4.19246 3.58998 2.14966 0.98360 138 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 130 2.85831 4.90695 3.10367 2.67631 3.19624 3.59836 2.05790 3.56444 2.64730 3.11237 4.02181 2.22362 4.01901 3.02975 3.04081 2.89226 3.09353 3.28165 4.71534 2.36091 139 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 131 3.33464 4.62105 5.02790 4.51855 3.38919 4.67966 5.10820 1.03630 4.35448 1.47635 3.20464 4.74281 4.90853 4.55638 4.49471 4.07256 3.58032 1.89278 5.45016 4.28760 140 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18614 4.90849 0.61958 0.77255 0.48576 0.95510\n- 132 2.88089 4.27544 4.50726 3.93657 3.15982 4.05321 4.33956 1.39671 3.77181 2.02973 3.19400 4.08939 4.38753 3.97366 3.90401 3.37155 3.11809 1.84820 2.95417 3.59514 141 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01544 4.17873 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1241 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_8\n-LENG 406\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:01 2020\n-NSEQ 20\n-EFFN 5.102539\n-CKSUM 1375291025\n-GA 107 107;\n-STATS LOCAL MSV -11.4859 0.69916\n-STATS LOCAL VITERBI -12.2493 0.69916\n-STATS LOCAL FORWARD -5.6015 0.69916\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64970 4.53406 2.97231 2.53223 3.26535 3.03606 3.76021 2.67950 2.54243 2.41396 3.82310 2.90222 3.41279 3.22492 3.02545 2.61850 2.91597 2.69081 4.80426 3.20364\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.00000 *\n- 1 2.80080 5.33376 3.54426 2.97078 4.58856 3.23487 4.12422 2.92331 1.45403 3.58891 1.77811 3.48049 4.33753 2.83813 2.45532 3.16616 3.36089 3.67566 5.81468 4.49503 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 2 2.64507 5.31158 3.44836 2.59133 4.56572 3.89007 4.08495 2.03560 1.92163 3.57492 4.37936 3.41039 4.27969 3.22563 1.99401 2.14121 3.30093 2.80575 5.80192 4.46062 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 3 3.73155 5.02480 5.73297 5.15770 3.94099 5.04052 5.41188 1.80844 4.98644 1.16044 3.82641 5.20021 5.31503 5.08132 5.00425 4.38579 3.96509 1.28959 5.76874 2.39736 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 4 3.25748 4.62640 5.18461 4.57456 3.02071 4.43404 4.75574 2.19330 4.37090 1.04532 3.61354 4.58340 4.77926 2.96486 4.38699 3.74753 3.48787 1.86353 5.22396 2.70944 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 5 3.51933 4.84385 5.50720 4.91810 2.04586 4.76520 5.09223 1.23017 4.72641 2.06059 3.77689 4.92315 5.08059 4.83424 4.73642 4.09536 3.75243 1.45003 5.49756 3.06099 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 6 0.89997 5.19368 4.04381 3.57521 5.13562 2.67080 4.73400 4.58384 3.58808 4.18799 4.97323 3.92587 4.51587 2.87200 4.00621 1.92979 2.09576 4.06542 6.39166 5.10652 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 7 3.11418 4.55264 4.72704 4.13320 2.95175 4.24127 4.55569 1.98862 3.98710 2.25373 3.66330 4.27997 1.814'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 399 3.15274 5.66687 2.47400 2.78409 5.01242 1.61677 4.09270 4.49922 2.30588 3.97134 4.71661 1.82800 4.29051 3.19568 2.24148 2.76311 3.38769 4.05971 6.09812 4.68331 585 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12639 5.36405 2.17116 0.61958 0.77255 0.48576 0.95510\n- 400 3.01599 5.48322 1.66582 2.27767 4.80771 2.22880 3.98101 2.98994 2.19825 2.70268 4.53062 2.86500 4.18110 3.08577 3.22230 2.98475 3.24850 3.86291 5.92723 4.52540 586 d - - -\n- 2.68669 4.41951 2.77420 2.73071 3.46405 2.40468 3.72545 3.29405 2.67694 2.69406 4.24740 2.90286 2.73790 3.18197 2.89851 2.37886 2.77570 2.98569 4.58528 3.61381\n- 0.51491 0.91658 5.96787 0.87578 0.53877 0.30749 1.32913\n- 401 3.04541 3.88261 2.81499 2.16183 4.89378 3.81954 3.07372 3.08334 1.38497 3.85454 4.59168 3.28784 4.21289 2.46999 2.52776 2.70199 3.27640 3.94017 5.98371 4.57474 592 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 402 4.23510 5.39522 6.38018 5.91623 4.44625 5.92749 6.65088 0.83815 5.87944 1.34953 4.14874 6.10333 6.03613 5.99923 5.98450 5.38920 4.48441 1.51345 6.72177 5.61839 593 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 403 3.07481 3.69771 3.20020 2.18507 4.02587 4.02239 4.26418 2.46603 2.24904 2.38815 3.97463 3.70803 4.40411 3.55100 3.61907 3.25735 3.30645 2.70058 5.44687 1.68147 594 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 404 3.52689 4.85637 5.51004 4.91286 2.08323 4.75821 5.08095 1.46015 4.71643 1.53145 3.70626 4.91945 5.06700 4.80799 4.71704 4.08603 3.75718 1.56867 5.47584 3.06205 595 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 405 3.04801 5.44085 3.34650 2.50867 3.00779 3.84101 4.03307 3.02358 1.74994 3.72620 4.49391 2.63216 4.23318 3.14666 2.23898 1.99591 2.92423 3.80672 5.90165 3.35756 596 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 5.36405 6.08639 0.61958 0.77255 0.48576 0.95510\n- 406 2.56612 4.73927 4.08890 2.62241 3.86856 4.09541 4.36733 3.22122 3.46392 2.59575 3.84982 3.89010 4.47590 3.75106 3.78360 2.77530 2.59776 2.28856 5.33383 1.24945 597 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00470 5.36177 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx1_III_9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,950 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx1_III_9\n-LENG 309\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:01 2020\n-NSEQ 25\n-EFFN 4.129028\n-CKSUM 762643557\n-GA 33 33;\n-STATS LOCAL MSV -11.3223 0.70104\n-STATS LOCAL VITERBI -11.6876 0.70104\n-STATS LOCAL FORWARD -5.1096 0.70104\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54769 4.44851 2.95553 2.56895 3.22692 3.00156 3.76344 2.78360 2.61901 2.37685 3.76697 3.10751 3.41526 3.04910 2.92697 2.68769 2.79038 2.72506 4.51699 3.39070\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.00000 *\n- 1 3.28137 5.33263 3.82779 3.20415 4.64150 4.07161 4.18595 3.95933 1.12118 3.59350 4.45006 3.65345 4.45603 3.35000 2.65610 3.34429 2.25110 1.75743 5.81750 4.57150 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 2 2.78636 3.04077 5.04788 4.43508 2.27545 4.26594 4.59866 2.25260 4.22421 1.05032 3.50864 4.42657 4.61959 4.34840 4.23276 3.57946 3.31978 2.41054 5.07668 3.30799 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 3 3.97216 5.18491 6.04159 5.51467 2.85774 5.46976 5.95855 0.79973 5.40708 1.63693 3.81596 5.63768 5.63468 5.46659 5.44317 4.86768 4.20922 1.67321 6.14536 5.04859 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 4 2.59587 3.34090 4.99988 4.67630 5.34820 2.93753 5.45354 4.79512 4.60052 4.48623 5.27584 4.42556 4.54311 4.80383 4.79085 0.75024 1.40890 4.10381 6.71027 5.59123 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 5 2.48020 4.47459 4.71768 4.13021 1.11453 4.15651 4.51867 2.87141 3.97699 2.40725 3.59691 4.24351 3.14805 4.16348 4.09056 3.46479 2.65245 2.15970 5.11408 3.92752 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 6 3.12293 5.21882 5.97208 5.42415 3.92424 5.38690 5.83165 1.94612 5.29398 0.55066 3.69061 5.55496 5.55931 5.32260 5.31527 4.77169 4.21063 2.14763 6.02094 4.96891 6 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 7 4.84564 6.32907 5.69722 5.76165 6.61456 0.05257 6.61567 6.66161 6.05354 6.04638 7.13698 5.86958 5.70951 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 302 2.97616 5.09937 3.42512 2.62293 4.33246 3.81827 4.04468 3.73850 2.86728 3.36461 4.19230 2.42164 4.21576 3.21351 3.31915 1.39939 2.09225 2.82029 3.44951 4.31347 410 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 303 2.32324 4.54596 4.21674 3.63885 2.07589 3.37676 3.56505 3.00844 2.32087 2.04336 3.65744 3.93572 4.42485 3.80977 2.80667 3.32215 3.22481 2.15983 3.88043 3.39122 411 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 304 2.44391 4.41399 4.89252 4.28544 2.23459 3.37451 4.51942 2.58075 4.09292 1.25477 3.52478 4.31771 4.55052 4.24240 4.13657 3.49493 2.40195 2.13679 5.04112 3.86349 412 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 305 2.17718 2.07684 3.42256 3.65174 3.65334 4.05447 4.33995 2.52771 3.08729 2.36786 2.54217 3.01045 3.55002 3.81934 3.81682 3.32575 2.93077 2.18828 5.14448 3.94077 413 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 306 2.73349 3.67038 2.73952 2.39809 2.32986 4.03226 4.30953 2.52839 3.48141 1.69145 3.68669 3.88125 4.40678 3.14341 3.76232 2.95447 3.22249 2.83859 3.95559 3.29941 414 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 307 2.50244 4.02307 3.33090 2.00873 3.61255 3.31208 3.43033 3.05499 2.38519 2.59635 4.28497 2.76278 4.17303 2.66402 2.52427 2.98222 3.19417 2.90607 5.71045 3.54065 415 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 308 2.53408 5.18040 2.30347 2.61039 3.29996 3.79220 3.99506 3.84219 2.79135 2.59376 3.12144 2.93671 4.18220 2.45799 2.61708 2.99411 2.92137 3.13506 5.67997 2.47232 416 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18498 5.90732 0.61958 0.77255 0.48576 0.95510\n- 309 2.99028 5.50330 2.66022 2.43091 4.84633 1.53997 3.94491 4.33306 2.46621 3.80736 4.54602 2.19879 4.14729 2.72439 2.67731 2.68636 2.95232 3.89314 5.93557 4.52203 417 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00563 5.18225 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx20_I_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx20_I_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,416 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx20_I_III_1\n-LENG 131\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 13\n-EFFN 1.044189\n-CKSUM 1497065368\n-GA 111 111;\n-STATS LOCAL MSV -9.7630 0.71178\n-STATS LOCAL VITERBI -10.5235 0.71178\n-STATS LOCAL FORWARD -4.2584 0.71178\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59674 4.44254 3.00619 2.56329 3.10732 3.03324 3.52470 2.84281 2.69462 2.45230 3.66257 3.09446 3.50728 3.00502 2.96089 2.72939 2.85151 2.53655 4.17641 3.40647\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.00000 *\n- 1 2.86358 4.47107 3.88121 3.31457 3.39042 3.85746 4.09782 2.61812 2.62405 1.92227 1.58520 3.66305 4.21896 3.45223 3.26251 3.15851 3.09535 2.52794 5.02260 3.81771 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11587 4.21367 2.35796 0.61958 0.77255 0.48576 0.95510\n- 2 2.78081 5.12750 2.62608 2.11516 4.44883 3.37628 3.69911 3.89471 2.26863 3.43383 4.24692 2.45100 1.97022 2.84282 2.91069 2.75163 3.03080 3.52060 5.61190 4.23717 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02438 4.12218 4.84452 0.61958 0.77255 0.42454 1.06153\n- 3 2.52382 5.01428 3.01041 2.45596 4.34645 3.46248 3.63760 3.77792 1.83668 3.30968 4.09888 2.73809 3.86105 2.76048 2.26236 2.51516 2.46614 3.40624 5.47627 4.13645 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 4 2.50072 4.24347 4.33054 3.75351 2.89435 3.96592 4.30051 2.12128 3.63658 1.42352 3.19252 3.96462 4.30845 3.84446 3.81128 3.26803 2.71518 1.96644 4.92215 3.74824 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 5 3.23381 4.57462 4.65274 4.17093 1.36357 4.25625 3.86098 2.48171 4.01697 1.98372 3.45484 4.13388 4.56505 4.08399 4.09005 3.58021 3.45723 2.74659 4.09517 1.81162 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 6 2.64520 2.93044 3.96515 3.40708 3.33424 3.68422 4.08148 2.51774 3.28629 1.54175 3.32729 2.94870 4.10202 3.56045 3.52219 2.99123 2.90617 2.18294 4.87070 3.65877 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 7 3.28919 4.57732 5.04652 4.50377 3.38890 4.64793 5.07088 1.73570 4.38284 1.15485 3.17832 4.71469 4.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 124 3.72870 5.03356 4.71135 4.50261 0.58420 4.31220 4.07850 3.22545 4.40499 2.52140 3.91151 4.42306 4.77197 4.48102 4.43943 3.97201 4.03449 3.23925 4.24883 2.58234 124 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 125 2.99033 5.04138 3.52161 2.86119 4.40520 3.69782 3.72382 3.73119 1.92952 3.28496 4.16628 3.27203 4.07760 2.87587 1.21832 3.03095 3.18661 2.84885 5.44177 4.23707 125 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 126 2.85145 5.21270 2.55948 2.50458 4.58889 3.52873 3.65754 4.01489 1.63822 3.48505 4.28308 3.01340 3.93607 2.77615 1.74774 2.81962 3.06445 3.63030 5.58590 4.27218 126 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02222 4.21367 4.93601 0.61958 0.77255 0.48576 0.95510\n- 127 3.91753 5.10129 4.81993 4.56058 1.68024 4.58918 3.57213 3.59183 4.39598 2.88059 4.17964 4.23923 4.89595 4.32328 4.39829 3.97817 4.13949 3.52426 3.69427 0.72735 127 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07033 4.21367 2.93523 0.61958 0.77255 0.48576 0.95510\n- 128 2.61212 4.72997 3.04943 2.32453 3.95016 2.90689 3.66632 2.90188 2.30980 2.97983 3.81013 3.00890 3.18038 2.63117 2.92643 2.66983 2.84382 2.56175 5.24840 3.93358 128 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08819 4.16664 2.67499 0.61958 0.77255 0.54309 0.86977\n- 129 2.46915 4.72723 3.08824 2.52538 3.95215 2.87701 3.65386 3.35200 2.02834 2.62232 3.81040 3.02268 3.85238 2.82517 2.56722 2.68756 2.85525 3.05443 5.23362 3.37800 129 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18653 4.10330 1.87307 0.61958 0.77255 0.61171 0.78181\n- 130 2.71137 3.03537 4.16577 3.60534 2.17583 3.79614 3.89643 2.47351 3.47230 1.87956 3.17568 3.75760 4.15173 3.66187 3.62963 3.09600 2.94466 2.32988 4.37885 2.55393 130 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02914 3.94591 4.66825 0.61958 0.77255 0.74945 0.63984\n- 131 2.64629 4.92625 2.73141 1.95950 4.27682 2.72822 3.62625 3.71079 2.36935 3.26753 4.07646 2.87050 3.79290 2.76895 2.40699 2.36721 2.89887 3.34334 5.45775 4.10759 131 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01971 3.93648 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx20_I_III_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx20_I_III_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,398 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx20_I_III_2\n-LENG 125\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 5\n-EFFN 0.649414\n-CKSUM 1167944226\n-GA 95 95;\n-STATS LOCAL MSV -9.8317 0.71268\n-STATS LOCAL VITERBI -10.6696 0.71268\n-STATS LOCAL FORWARD -3.8688 0.71268\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53890 4.24443 3.06621 2.66035 3.18298 3.00459 3.63383 2.74964 2.70595 2.42045 3.64218 3.08636 3.23780 3.08322 2.89556 2.70701 2.91752 2.57684 4.51009 3.40826\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.00000 *\n- 1 3.05438 4.58711 4.16357 3.76591 3.25722 3.91318 4.47670 2.44348 3.52792 1.83688 1.18961 4.03011 4.37520 3.90337 3.72068 3.41406 3.36219 2.46160 5.11154 3.88211 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 2 3.28342 4.64380 4.65396 4.15567 2.11277 4.39259 4.40349 2.31011 4.01198 0.99673 2.96301 4.34606 4.63916 4.13750 4.14199 3.75874 3.51479 2.42172 4.68021 3.25738 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 3 3.11354 4.50423 4.48335 4.10387 3.44669 4.17861 4.81321 0.95624 3.93402 2.01223 3.36672 4.33453 4.60055 4.27203 4.11864 3.68488 3.41119 1.85382 5.35865 4.10542 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 4 2.81322 4.81175 2.77074 2.66730 4.19204 3.25656 4.00979 3.92601 2.92281 3.56118 4.51646 0.98419 3.91398 3.28345 3.28042 2.87684 3.19900 3.53754 5.48594 4.13335 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 5 2.84637 4.54559 3.53998 3.07882 3.05154 3.69202 2.61801 2.88577 2.82358 1.48560 3.51002 3.44096 4.10389 3.28196 3.09246 3.04183 3.09111 2.75673 4.64593 3.17256 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 6 2.25956 4.20307 3.35359 3.05529 4.20479 2.98212 4.13904 3.55878 3.07477 3.29633 4.15581 3.26217 3.70652 3.40400 3.39050 1.32994 2.02193 3.08152 5.56257 4.32361 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 7 2.81322 4.81175 2.77074 2.66730 4.19204 3.25656 4.00979 3.92601 2.92281 3.56118 4.51646 0.98419 3.9139'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 118 2.96614 5.07262 3.29890 2.72745 4.43326 3.59248 3.62822 3.85493 1.97784 3.32379 4.20750 3.15042 3.99273 2.17287 1.40119 2.97484 3.15961 3.54296 5.40571 4.18917 121 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 119 3.39459 4.76576 4.38317 4.11848 0.85385 4.05809 3.92728 2.90618 4.02305 2.25235 3.62130 4.13899 4.51493 4.16220 4.11672 3.65858 3.69609 2.90448 4.14661 2.50103 122 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 120 3.12673 4.95691 3.62836 3.11853 4.33828 3.59345 3.90439 3.88797 2.28512 3.38479 4.38294 3.46985 4.09156 3.12011 0.82884 3.20625 3.38592 3.60755 5.37901 4.24351 123 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 121 2.77294 5.01265 2.53464 1.58306 4.40890 3.28560 3.76395 3.84912 2.60847 3.43116 4.29181 2.87660 2.13967 2.93653 3.05535 2.76376 3.06311 3.48260 5.61237 4.25963 124 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 122 3.40190 4.84811 3.99493 3.74486 2.30294 3.95376 3.67175 3.39666 3.59937 2.82320 4.06093 3.85499 4.42553 3.88001 3.76115 3.52780 3.68930 3.27231 3.95047 0.80705 125 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15078 3.97787 2.10999 0.61958 0.77255 0.48576 0.95510\n- 123 2.29722 2.33070 3.66199 3.26408 3.82307 3.05514 4.13871 3.10595 3.15918 2.89563 3.83751 3.40481 1.82231 3.49179 3.41954 2.51618 2.73556 2.76642 5.24094 4.04558 126 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03183 3.85893 4.58127 0.61958 0.77255 0.59353 0.80380\n- 124 2.53089 2.15953 3.48606 3.01989 3.33382 3.34620 2.51060 2.98243 2.82593 2.68535 3.62977 3.32726 3.87530 3.24037 3.10586 2.73379 2.85247 2.72619 4.81577 3.44047 127 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03183 3.85893 4.58127 0.61958 0.77255 0.59353 0.80380\n- 125 3.14019 4.60653 4.16770 3.80761 3.13074 3.96485 4.46760 2.33418 3.57548 0.89205 3.15812 4.08438 4.40262 3.94706 3.75372 3.53430 3.43510 2.36797 5.00500 3.72515 128 l - - -\n- 2.68597 4.42235 2.77530 2.73134 3.46297 2.40523 3.72505 3.29364 2.67751 2.69334 4.24700 2.90357 2.73750 3.18106 2.89811 2.37874 2.77530 2.98529 4.58487 3.61513\n- 0.20128 1.70202 * 1.29896 0.31857 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx20_I_III_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx20_I_III_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,416 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx20_I_III_3\n-LENG 131\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:06 2020\n-NSEQ 12\n-EFFN 0.870117\n-CKSUM 2307701349\n-GA 84.7 84.6;\n-STATS LOCAL MSV -9.7444 0.71182\n-STATS LOCAL VITERBI -10.6157 0.71182\n-STATS LOCAL FORWARD -4.4050 0.71182\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68347 4.47885 2.92606 2.64748 3.13770 3.11693 3.55695 2.69612 2.60033 2.44507 3.67208 3.06692 3.43950 3.01051 2.94387 2.77384 2.86500 2.56214 4.25956 3.36435\n- 2.68629 4.42236 2.77509 2.73134 3.46365 2.40524 3.72506 3.29347 2.67679 2.69366 4.24550 2.90358 2.73751 3.18125 2.89812 2.37898 2.77520 2.98529 4.58488 3.61514\n- 0.31349 1.50199 3.06991 1.02286 0.44561 0.00000 *\n- 1 2.63251 4.40623 3.38144 2.53394 3.51497 3.56739 3.82493 2.82264 2.76516 2.23067 2.19330 3.27291 3.32617 3.11621 3.11887 2.82875 2.86811 2.62397 4.98248 3.74154 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02551 4.07720 4.79955 0.61958 0.77255 0.52967 0.88868\n- 2 2.70729 5.04444 2.94358 2.41930 4.36991 3.44341 3.11659 3.80401 1.82607 3.31899 4.11180 2.59281 2.79188 2.72294 2.46733 2.69274 2.92889 3.43197 5.46693 4.13136 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02551 4.07720 4.79955 0.61958 0.77255 0.52967 0.88868\n- 3 2.93676 5.12174 3.31268 2.69439 4.55450 3.60741 3.63102 3.92460 1.48801 3.39569 4.23569 3.13550 3.99014 2.76205 1.67183 2.57202 3.12906 3.58366 5.47597 4.25705 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02551 4.07720 4.79955 0.61958 0.77255 0.52967 0.88868\n- 4 3.20047 4.56674 4.72027 4.15503 3.14262 4.41761 4.74108 2.16742 4.01335 1.18678 1.90149 4.41571 4.64992 4.17044 4.16368 3.75263 3.42876 1.95377 5.15256 4.06511 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02551 4.07720 4.79955 0.61958 0.77255 0.52967 0.88868\n- 5 3.22206 4.55920 4.77285 4.23563 1.57387 4.40870 4.46452 1.88858 4.09869 1.47922 3.02363 4.39149 4.64948 4.20102 4.20602 3.74746 3.44811 2.28914 4.75773 3.37177 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02551 4.07720 4.79955 0.61958 0.77255 0.45926 0.99900\n- 6 2.73949 4.26991 3.96014 3.38992 3.28641 3.82094 4.11640 2.25364 3.28412 1.49311 2.94044 3.03925 4.17649 3.55690 3.54176 3.10337 2.97417 2.08471 4.90392 3.70594 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 7 3.19167 4.47396 4.96860 4.43912 3.49358 4.58841 5.06554 1.41237 4.33134 1.62936 3.28732 4.65023 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 124 3.58613 4.91823 4.57484 4.34181 0.68342 4.20571 4.01001 3.08705 4.24452 2.40344 3.78470 4.30317 4.66341 4.34649 4.30354 3.83908 3.88972 3.09466 4.19819 2.53933 128 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 125 2.85716 4.78398 3.55684 2.96524 4.07284 3.59318 3.82867 3.35096 2.29911 3.00513 3.99432 3.33922 4.04781 3.02491 1.24568 2.96766 3.11868 2.54933 5.33792 4.09314 129 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 126 2.81068 5.16229 2.57160 2.46299 4.52845 3.48574 3.62862 3.95529 1.53665 3.43616 4.23697 2.97381 3.89851 2.74999 2.02938 2.78143 3.02651 3.57507 5.54625 4.22912 130 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 127 3.74763 4.98602 4.65361 4.35735 1.69911 4.45557 3.52685 3.45070 4.20344 2.77096 4.05135 4.12579 4.77332 4.18716 4.24791 3.83683 3.97383 3.37578 3.66688 0.81524 131 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11647 4.83882 0.61958 0.77255 0.48576 0.95510\n- 128 2.48568 4.80345 2.91434 1.93689 4.06595 3.02527 3.66144 2.79442 2.47575 3.08762 3.90778 2.79885 3.20563 2.81907 2.93579 2.65286 2.85961 3.15132 5.33587 4.00136 132 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09969 4.11647 2.54361 0.61958 0.77255 0.48576 0.95510\n- 129 2.49798 4.72163 3.05879 2.50187 3.96832 3.04584 3.63977 3.36658 2.14776 2.51637 3.81743 2.99978 3.49168 2.80689 2.49499 2.66320 2.67670 3.06187 5.24104 3.93651 133 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09012 4.04318 2.67892 0.61958 0.77255 0.56491 0.84029\n- 130 2.67616 2.69964 4.10735 3.54331 2.75385 3.74771 3.83764 2.55824 3.39693 2.02863 3.22640 3.69852 4.11128 3.60529 3.56023 3.04373 2.90869 2.38159 3.13984 2.37529 134 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15381 3.98118 2.08828 0.61958 0.77255 0.62333 0.76821\n- 131 2.36545 4.23773 3.30362 2.84452 3.73548 2.62411 3.86947 2.48989 2.81504 2.79215 3.67503 3.18462 3.75911 3.14451 3.16962 2.08728 2.47213 2.72373 5.14053 3.89574 135 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02153 3.84891 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx21_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx21_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,653 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx21_III-A_1\n-LENG 210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 26\n-EFFN 1.558350\n-CKSUM 1365469929\n-GA 100 100;\n-STATS LOCAL MSV -10.7407 0.70478\n-STATS LOCAL VITERBI -11.3103 0.70478\n-STATS LOCAL FORWARD -5.1628 0.70478\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52929 4.60033 3.02156 2.53536 3.52225 3.13952 3.74554 2.80238 2.46558 2.42811 3.72684 3.07276 3.69247 2.89633 2.89593 2.68227 2.81362 2.67324 4.57154 3.25765\n- 2.68617 4.42231 2.77525 2.73129 3.46360 2.40519 3.72500 3.29360 2.67747 2.69347 4.24517 2.90353 2.73745 3.18152 2.89807 2.37886 2.77508 2.98517 4.58483 3.61509\n- 0.55870 1.32579 1.81734 0.16079 1.90696 0.00000 *\n- 1 2.64711 4.37241 2.96825 2.74809 3.50715 3.62521 3.88015 2.63681 2.89811 2.27186 2.13280 3.35435 4.00399 3.20401 3.25577 2.87101 2.71732 2.41405 4.96447 3.72915 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28493 5.00727 0.61958 0.77255 0.71412 0.67261\n- 2 2.65173 4.81065 3.04783 2.28803 3.77847 3.47810 3.69069 3.44908 2.49109 2.47702 3.88905 3.02182 3.87396 2.12019 2.93946 2.26925 2.77685 3.13805 5.32063 3.99562 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28493 5.00727 0.61958 0.77255 0.71412 0.67261\n- 3 2.43542 4.99503 2.61899 2.29661 4.28211 3.25980 3.63140 3.26000 2.39480 3.27550 4.05244 2.72486 3.02329 2.66313 2.67761 2.63203 2.54462 3.10726 5.46493 4.09224 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28493 5.00727 0.61958 0.77255 0.61752 0.77496\n- 4 2.29820 4.68894 2.96357 2.60117 3.89654 3.51130 3.73629 3.28516 2.35509 2.63211 3.33958 3.09603 3.90362 2.92707 3.02102 2.56495 2.02898 3.00100 5.22917 3.93010 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32917 5.05151 0.61958 0.77255 0.66319 0.72403\n- 5 2.65059 4.97120 2.76435 1.88226 4.24580 3.45463 3.65171 3.68450 2.42092 3.24556 3.76318 2.95704 3.84699 2.64320 2.61705 2.56801 2.77300 2.80194 5.44808 3.28104 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32917 5.05151 0.61958 0.77255 0.62246 0.76922\n- 6 2.69909 5.11441 2.42837 2.18281 4.43078 3.14429 3.67454 3.89333 2.45098 3.41637 3.87900 2.73301 3.85789 2.79135 2.94350 1.77519 2.71018 3.49420 5.58600 4.19227 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34675 5.06910 0.61958 0.77255 0.58150 0.81885\n- 7 3.70659 5.00424 5.25840 4.73640 3.20517 4.92662 5.21980 2.39931 4.49216 0.54986 2.73753 4.99435 5.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42531 5.14766 0.61958 0.77255 0.53326 0.88356\n- 203 2.98518 4.38401 4.56969 4.00355 3.45590 4.18644 4.55863 1.43906 3.88060 1.79650 3.35888 4.20576 2.58945 4.09766 4.05123 3.50278 3.22590 1.74594 5.15860 3.98150 219 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42531 5.14766 0.61958 0.77255 0.53326 0.88356\n- 204 3.00060 5.23096 3.38243 2.75775 4.61886 3.71161 3.75184 4.00013 1.13074 3.49026 4.31516 2.91877 4.08592 2.87881 2.12591 2.99573 3.19713 2.97913 5.59466 4.34400 220 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42531 5.14766 0.61958 0.77255 0.53326 0.88356\n- 205 2.72145 5.17906 2.64089 2.40674 4.51094 3.47466 2.70469 3.97976 1.67459 3.47335 4.22916 2.85129 3.87750 2.77428 2.72704 2.35388 2.83411 3.56405 5.61455 4.22269 221 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42531 5.14766 0.61958 0.77255 0.53326 0.88356\n- 206 2.97931 4.55549 5.17008 4.65617 3.81968 4.72962 5.29319 1.56558 4.55910 2.08284 3.61416 4.83035 5.00572 4.79362 4.72323 4.10987 3.54278 0.85358 5.75456 4.55799 222 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42531 5.14766 0.61958 0.77255 0.53326 0.88356\n- 207 3.18027 5.41659 3.47453 2.85977 4.89048 3.80453 3.77894 4.25294 1.00030 3.66409 4.50203 2.57572 4.17798 2.90107 1.99981 3.15092 3.35406 3.89812 5.69293 4.48943 223 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42531 5.14766 0.61958 0.77255 0.53326 0.88356\n- 208 2.72875 2.64531 4.36506 3.77892 2.34092 3.85022 4.09371 2.57746 3.62499 1.87978 3.25493 3.89221 3.31025 3.80465 3.73837 3.14993 2.96139 2.39713 4.63251 2.28415 224 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42531 5.14766 0.61958 0.77255 0.53326 0.88356\n- 209 2.35759 3.50762 4.12521 3.31051 3.00023 3.77338 4.07713 2.01677 2.93211 2.17199 3.26427 3.75084 4.14278 3.64284 3.60446 2.81590 2.90295 1.89453 4.76482 3.57226 225 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10886 4.42531 2.39495 0.61958 0.77255 0.53326 0.88356\n- 210 2.65763 4.44580 2.44067 2.25142 4.45331 3.00735 3.62452 3.92691 2.11808 3.42317 4.17192 2.70773 2.88313 2.72754 2.54214 2.62758 2.78342 3.50703 5.56855 4.16846 226 k - - -\n- 2.68600 4.42238 2.77525 2.73136 3.46367 2.40526 3.72479 3.29367 2.67715 2.69334 4.24703 2.90352 2.73742 3.18128 2.89814 2.37872 2.77533 2.98532 4.58490 3.61516\n- 0.43254 1.04657 * 0.62403 0.76740 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx21_III-D_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx21_III-D_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,335 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx21_III-A_2\n-LENG 104\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 3\n-EFFN 0.442383\n-CKSUM 2825742889\n-GA 200 200;\n-STATS LOCAL MSV -9.4008 0.71652\n-STATS LOCAL VITERBI -10.5206 0.71652\n-STATS LOCAL FORWARD -3.9889 0.71652\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41560 4.25553 2.86734 2.66014 3.44370 2.86401 3.93688 3.00637 2.58951 2.46359 3.61022 3.04447 3.53296 3.18164 2.70809 2.80260 2.92184 2.75165 3.76143 3.27189\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.00000 *\n- 1 2.93504 4.49121 4.00175 3.59250 3.18981 3.80071 4.33804 2.36101 3.36276 1.79187 1.46656 3.87532 4.26166 3.74796 3.57321 3.27916 3.23978 2.36176 5.02426 3.78170 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 2 2.94282 5.06194 0.98447 2.30978 4.43330 3.17792 3.89368 4.01156 2.96967 3.62827 4.60618 2.86356 3.82765 3.13334 3.47914 2.91082 3.28073 3.65580 5.61054 4.31462 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 3 3.26362 4.65383 4.02423 3.71982 2.62383 3.68124 3.84744 3.28603 3.44327 2.68831 3.92183 3.87809 4.19544 3.83329 3.57927 3.46769 3.56193 3.17513 0.98069 2.62840 3 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 4 2.91534 5.01497 2.47129 1.09085 4.35583 3.24629 3.83031 3.80087 2.70530 3.42560 4.40248 2.90997 3.84901 3.04747 3.10882 2.90285 3.21953 3.48967 5.53592 4.25912 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 5 2.71934 4.59118 3.28583 2.77281 3.74934 3.52865 3.75034 2.31061 1.79143 2.65712 3.67483 3.19999 3.94797 2.96998 2.66968 2.86053 2.96001 2.65862 5.14678 3.87873 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 6 2.95401 4.34805 4.46155 3.96945 3.43538 4.17445 4.73035 1.51197 3.84168 1.97371 3.27557 4.22288 4.53855 4.13720 4.07022 3.55451 3.23124 1.26538 5.35240 4.13128 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 7 3.10579 4.58181 4.11720 3.75768 3.12005 3.92454 4.42750 2.32266 3.52584 0.93241 3.15851 4.03741 4.36'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 97 2.95401 4.34805 4.46155 3.96945 3.43538 4.17445 4.73035 1.51197 3.84168 1.97371 3.27557 4.22288 4.53855 4.13720 4.07022 3.55451 3.23124 1.26538 5.35240 4.13128 97 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 98 2.95637 4.79708 3.44260 2.96411 4.14034 3.45192 3.79428 3.67961 2.22290 3.20376 4.20588 3.32688 3.95738 3.01751 1.04912 3.04316 3.22584 3.40569 5.24200 4.07820 98 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 99 3.10579 4.58181 4.11720 3.75768 3.12005 3.92454 4.42750 2.32266 3.52584 0.93241 3.15851 4.03741 4.36817 3.90492 3.70890 3.49138 3.40241 2.34820 4.98225 3.69496 99 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 100 1.08031 4.17113 3.41826 3.20841 4.00883 2.99668 4.23560 3.12775 3.22354 3.01131 4.04879 3.36899 3.73175 3.56902 3.47665 2.52217 2.79647 2.78996 5.44050 4.23595 100 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 101 2.93236 4.89272 3.10528 2.73618 4.26889 3.42579 3.73649 3.69554 1.10133 3.27084 4.23546 3.16234 3.92993 2.93108 2.42608 2.97774 3.18937 3.40613 5.34259 4.14920 101 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 102 1.97789 4.18517 3.81029 3.41835 3.67000 3.37273 4.31493 2.25714 3.33484 2.44715 3.57695 3.60949 3.98872 3.66463 3.60066 2.79658 2.87761 1.48671 5.31743 4.08729 102 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 103 2.61143 4.39038 3.27594 3.17013 4.31152 0.80169 4.29240 3.90094 3.34522 3.56054 4.53655 3.44045 3.78007 3.67306 3.58544 2.78221 3.08922 3.43798 5.41773 4.41218 103 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03286 3.82769 4.55004 0.61958 0.77255 0.48576 0.95510\n- 104 2.61362 4.66650 2.79976 2.53215 4.22797 1.87327 3.76041 3.65551 1.95877 3.27047 4.14038 2.98543 3.78493 2.95682 2.80242 2.67991 2.94298 3.28201 5.42509 4.15798 104 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02224 3.81707 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx21_III-D_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx21_III-D_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,653 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx21_III-A_III-D_3\n-LENG 210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 25\n-EFFN 1.412964\n-CKSUM 547860799\n-GA 91 91;\n-STATS LOCAL MSV -10.5709 0.70477\n-STATS LOCAL VITERBI -11.2294 0.70477\n-STATS LOCAL FORWARD -5.1318 0.70477\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52062 4.52617 3.01711 2.53323 3.52570 3.14360 3.75431 2.79268 2.47433 2.42984 3.71195 3.06607 3.71073 2.90223 2.88731 2.69163 2.80075 2.67566 4.63675 3.27766\n- 2.68617 4.42231 2.77525 2.73129 3.46360 2.40519 3.72500 3.29360 2.67747 2.69348 4.24519 2.90352 2.73745 3.18152 2.89807 2.37885 2.77508 2.98517 4.58483 3.61509\n- 0.60338 1.28076 1.74174 0.16298 1.89449 0.00000 *\n- 1 2.62408 4.36630 2.95292 2.70814 3.50445 3.59524 3.84759 2.63100 2.85215 2.26521 2.31450 3.31311 3.97460 3.16112 3.21649 2.83886 2.69430 2.41155 4.95638 3.71774 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02236 4.20745 4.92980 0.61958 0.77255 0.71687 0.66998\n- 2 2.63547 4.76070 3.04692 2.28958 3.72804 3.46648 3.68093 3.38306 2.48619 2.43086 3.84107 3.01934 3.86272 2.10619 2.92615 2.46588 2.75371 3.08171 5.27515 3.95795 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02236 4.20745 4.92980 0.61958 0.77255 0.71687 0.66998\n- 3 2.40714 4.95476 2.60886 2.28455 4.23498 3.24307 3.61659 3.23894 2.38446 3.23226 4.01436 2.71622 3.47753 2.64723 2.67621 2.61717 2.52055 3.06905 5.42939 4.06172 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02236 4.20745 4.92980 0.61958 0.77255 0.61999 0.77208\n- 4 2.27053 4.74989 2.88082 2.52939 4.00194 3.45902 3.70267 3.40238 2.30721 3.03129 3.36789 3.03401 3.86598 2.87119 2.96973 2.52047 1.99609 3.09310 5.29715 3.98023 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02130 4.25532 4.97766 0.61958 0.77255 0.66592 0.72114\n- 5 2.63323 4.87464 2.77090 1.87579 4.12393 3.44868 3.65454 3.54716 2.44542 3.13802 3.67969 2.96895 3.84263 2.66064 2.91351 2.56352 2.75492 2.72156 5.36893 3.25247 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02130 4.25532 4.97766 0.61958 0.77255 0.62395 0.76750\n- 6 2.65306 4.95552 2.42121 2.42632 4.32136 3.07848 3.70223 3.76599 2.49882 3.32637 3.79087 2.73465 3.84679 2.83523 2.97943 1.71920 2.67431 3.38288 5.52516 4.15726 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02089 4.27482 4.99717 0.61958 0.77255 0.58568 0.81357\n- 7 3.62125 4.93640 5.13569 4.61421 3.17319 4.82476 5.12033 2.35710 4.37078 0.59623 2.72021 4.87593 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36055 5.08289 0.61958 0.77255 0.53342 0.88332\n- 203 2.95037 4.36528 4.47412 3.91300 3.46907 4.14066 4.52010 1.40565 3.79742 1.98517 3.37248 4.13895 2.59661 4.03311 3.99190 3.45585 3.19400 1.70031 5.16179 3.97562 209 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36055 5.08289 0.61958 0.77255 0.53342 0.88332\n- 204 2.94544 5.17732 3.32282 2.70754 4.55160 3.66570 3.72128 3.93711 1.21985 3.43804 4.26102 2.87273 4.04251 2.84943 2.12884 2.94320 3.14584 2.92848 5.55412 4.29446 210 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36055 5.08289 0.61958 0.77255 0.53342 0.88332\n- 205 2.70321 5.15708 2.60915 2.38782 4.48736 3.45501 3.01722 3.95523 1.66486 3.45086 4.20802 2.82780 3.85892 2.75730 2.71140 2.33120 2.81152 3.54128 5.59383 4.20263 211 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36055 5.08289 0.61958 0.77255 0.53342 0.88332\n- 206 2.94088 4.51582 5.08492 4.56568 3.75927 4.65709 5.20011 1.55704 4.46606 2.02990 3.56068 4.74679 4.93820 4.69961 4.63341 4.03100 3.49147 0.91196 5.67777 4.48414 212 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36055 5.08289 0.61958 0.77255 0.53342 0.88332\n- 207 3.12076 5.36558 3.40370 2.80193 4.82593 3.75319 3.74439 4.19572 1.07366 3.61651 4.45103 2.53234 4.13037 2.86684 2.00036 3.09282 3.29953 3.83928 5.65487 4.44044 213 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36055 5.08289 0.61958 0.77255 0.53342 0.88332\n- 208 2.69532 2.58190 4.27156 3.68659 2.61281 3.80914 4.06583 2.55955 3.54354 1.86771 3.23652 3.83097 3.26871 3.73697 3.67955 3.10538 2.92832 2.37771 4.64025 2.34713 214 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36055 5.08289 0.61958 0.77255 0.53342 0.88332\n- 209 2.33162 3.48948 4.30004 3.43151 2.94322 3.80798 4.12991 1.92400 3.56363 2.11651 3.22216 3.85171 4.17387 3.75918 3.69331 2.83498 2.90468 1.80090 4.74116 3.55454 215 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11599 4.36055 2.33564 0.61958 0.77255 0.53342 0.88332\n- 210 2.64093 4.39020 2.41853 2.24006 4.40468 3.00716 3.61255 3.87228 2.27248 3.38008 4.13563 2.69410 2.83802 2.71935 2.54206 2.61530 2.76229 3.46266 5.53530 4.14057 216 e - - -\n- 2.68617 4.42235 2.77522 2.73134 3.46364 2.40523 3.72478 3.29364 2.67712 2.69352 4.24700 2.90348 2.73740 3.18124 2.89811 2.37870 2.77530 2.98529 4.58487 3.61513\n- 0.36140 1.19303 * 0.61473 0.77825 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx22_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx22_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,596 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx22_III-A_1\n-LENG 191\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 5\n-EFFN 0.395508\n-CKSUM 3706971210\n-GA 175 175;\n-STATS LOCAL MSV -10.2924 0.70591\n-STATS LOCAL VITERBI -11.2132 0.70591\n-STATS LOCAL FORWARD -5.0140 0.70591\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58203 4.36137 3.02980 2.70409 3.13528 2.75638 3.90093 2.73171 2.70494 2.37117 3.72587 3.25419 3.21379 3.34997 2.93299 2.66542 2.89050 2.43383 4.81192 3.45474\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.00000 *\n- 1 2.86766 4.39792 4.11012 3.60652 3.18383 3.90266 4.36628 2.14570 3.42677 1.72276 1.91410 3.89739 4.29887 3.74577 3.66168 3.26618 3.14777 1.92565 5.06047 3.86012 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 2 2.74366 4.31136 4.00946 3.67231 3.49244 3.63630 4.48895 2.06258 3.53870 2.19551 3.47249 3.87463 4.20300 3.90547 3.75867 3.13646 3.10826 1.13581 5.26217 3.98762 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 3 2.56900 4.35001 3.22566 3.11594 4.25491 0.86803 4.23919 3.83640 3.28573 3.50050 4.47735 3.39053 3.73849 3.61681 3.52878 2.73897 3.04395 3.38084 5.36973 4.35480 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 4 2.91647 4.75709 3.39912 2.93046 4.09086 3.41736 3.77146 3.62870 2.21423 3.15980 4.16429 3.29541 3.92589 2.99778 1.11204 3.00587 3.18933 3.35674 5.20857 4.03823 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 5 3.15688 4.58374 4.12510 3.82588 1.15666 3.86210 3.84636 2.69288 3.73540 2.08313 3.43676 3.92776 4.32413 3.92674 3.87541 3.42982 3.45880 2.67712 4.12350 2.50233 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 6 2.64969 4.41823 3.24841 3.07741 4.07558 3.11050 4.15995 3.60180 3.12801 3.23687 4.28481 3.39129 0.99567 3.51942 3.38105 2.81514 3.08533 3.25638 5.28279 4.19589 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 7 2.96719 4.41178 4.21419 3.82875 3.32118 3.97377 4.57362 1.18616 3.65507 1.92685 3.27216 4.08569 4.41'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 184 2.74366 4.31136 4.00946 3.67231 3.49244 3.63630 4.48895 2.06258 3.53870 2.19551 3.47249 3.87463 4.20300 3.90547 3.75867 3.13646 3.10826 1.13581 5.26217 3.98762 184 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 185 2.88568 4.97363 2.46013 1.14857 4.31023 3.22391 3.80664 3.74784 2.67705 3.37936 4.35944 2.89311 3.82532 3.02561 3.07547 2.87805 3.19012 3.44112 5.49758 4.22242 185 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 186 2.96719 4.41178 4.21419 3.82875 3.32118 3.97377 4.57362 1.18616 3.65507 1.92685 3.27216 4.08569 4.41496 4.01325 3.86117 3.46301 3.26874 1.85068 5.19331 3.92289 186 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 187 3.13254 4.65481 3.71855 3.43452 2.30348 3.73563 3.58677 3.15357 3.29439 2.62824 3.83784 3.62515 4.21245 3.62022 3.49413 3.27673 3.41943 3.02055 3.94339 1.11435 187 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 188 2.91647 4.75709 3.39912 2.93046 4.09086 3.41736 3.77146 3.62870 2.21423 3.15980 4.16429 3.29541 3.92589 2.99778 1.11204 3.00587 3.18933 3.35674 5.20857 4.03823 188 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 189 2.96719 4.41178 4.21419 3.82875 3.32118 3.97377 4.57362 1.18616 3.65507 1.92685 3.27216 4.08569 4.41496 4.01325 3.86117 3.46301 3.26874 1.85068 5.19331 3.92289 189 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 190 2.74366 4.31136 4.00946 3.67231 3.49244 3.63630 4.48895 2.06258 3.53870 2.19551 3.47249 3.87463 4.20300 3.90547 3.75867 3.13646 3.10826 1.13581 5.26217 3.98762 190 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03413 3.79031 4.51266 0.61958 0.77255 0.48576 0.95510\n- 191 2.88568 4.97363 2.46013 1.14857 4.31023 3.22391 3.80664 3.74784 2.67705 3.37936 4.35944 2.89311 3.82532 3.02561 3.07547 2.87805 3.19012 3.44112 5.49758 4.22242 191 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02310 3.77928 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx23_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx23_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,416 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx23_III-D_1\n-LENG 131\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 9\n-EFFN 1.630371\n-CKSUM 1067794495\n-GA 111 111;\n-STATS LOCAL MSV -9.6937 0.71175\n-STATS LOCAL VITERBI -10.5479 0.71175\n-STATS LOCAL FORWARD -4.8346 0.71175\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65936 4.53177 3.05165 2.53506 3.20037 3.11472 3.83991 2.51911 2.51776 2.44344 3.63974 3.03903 3.70994 2.96228 2.83081 2.74355 2.82669 2.68393 4.97751 3.50591\n- 2.68624 4.42231 2.77525 2.73129 3.46360 2.40519 3.72500 3.29304 2.67747 2.69361 4.24558 2.90352 2.73745 3.18152 2.89807 2.37893 2.77525 2.98524 4.58483 3.61436\n- 0.82439 1.36858 1.18081 0.16242 1.89765 0.00000 *\n- 1 2.61296 4.57366 2.61591 2.61814 2.87680 3.49189 3.71790 3.11205 2.25647 2.77072 2.65307 3.09924 3.88356 2.93972 3.01788 2.72438 2.84560 2.85617 5.09952 3.80409 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12624 4.84859 0.61958 0.77255 0.71337 0.67333\n- 2 2.63226 4.34153 3.51468 2.48734 3.45682 3.60612 3.85996 2.81905 2.87403 2.51930 2.21249 3.35278 3.98888 3.19977 3.21038 2.86147 2.42898 2.60384 3.29414 3.67588 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02194 4.22622 4.94857 0.61958 0.77255 0.81102 0.58771\n- 3 2.24661 4.81236 2.46574 2.48438 4.08641 3.41468 3.72195 3.52472 2.56019 3.13883 3.96296 2.99697 3.86124 2.88852 3.02393 1.90922 2.90142 3.19470 5.37455 2.97935 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02194 4.22622 4.94857 0.61958 0.77255 0.81102 0.58771\n- 4 2.73323 2.86229 4.30986 3.74518 3.34399 3.84864 4.28938 2.27073 3.61501 1.60531 3.29689 3.91967 4.25027 3.84069 3.78817 3.17152 2.40662 1.82139 4.94653 3.75947 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02194 4.22622 4.94857 0.61958 0.77255 0.81102 0.58771\n- 5 2.27441 4.26332 3.82173 3.25840 3.41859 3.73826 4.05190 2.12776 3.18260 2.08648 3.37932 2.75005 4.11835 3.46584 3.47384 3.01430 2.92521 1.87349 4.94098 3.72552 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02194 4.22622 4.94857 0.61958 0.77255 0.81102 0.58771\n- 6 2.31459 4.72824 2.59436 2.52638 3.95342 3.46353 2.89966 2.74834 2.53227 2.98743 3.82277 3.03199 3.86608 2.87473 2.98132 2.69064 2.29941 3.04801 5.26391 3.94960 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02194 4.22622 4.94857 0.61958 0.77255 0.81102 0.58771\n- 7 2.70853 5.12528 2.76431 2.05231 4.44685 2.71861 3.65908 3.90781 2.12064 3.42525 4.20157 2.28093 3.84'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01689 4.48514 5.20749 0.61958 0.77255 0.48576 0.95510\n- 124 2.80934 4.29149 4.17613 3.60796 3.03272 3.87907 4.01973 2.74138 3.48527 2.15673 3.40395 2.87619 4.24484 3.70683 3.67702 3.16612 3.04059 1.94938 3.13450 1.85583 128 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18630 4.48514 1.84076 0.61958 0.77255 0.48576 0.95510\n- 125 2.06723 5.20932 2.29000 2.04255 4.53089 3.41343 3.70828 4.00337 2.51714 3.51605 4.29010 2.23240 3.87470 2.83006 3.02490 2.71700 2.52802 3.59318 5.67943 4.26634 129 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01998 4.31883 5.04117 0.61958 0.77255 0.71544 0.67134\n- 126 2.69361 4.79456 3.15534 2.58944 4.01620 3.53106 3.71644 2.75442 1.85552 2.58308 3.86957 3.08704 3.02136 2.50166 2.87300 2.75346 2.92040 3.11125 5.29921 3.99799 130 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11413 4.31883 2.35868 0.61958 0.77255 0.71544 0.67134\n- 127 2.74034 5.03013 3.00768 2.48281 4.33921 3.48968 3.65741 3.75984 1.70475 3.30293 4.10653 2.48725 3.89148 2.37108 2.68902 2.73886 2.96460 2.70046 5.47511 4.14610 131 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12234 4.22662 2.29706 0.61958 0.77255 0.81064 0.58802\n- 128 2.64180 4.92315 2.38405 2.37567 4.20244 3.38641 3.65150 3.63584 2.45674 3.21517 2.97283 2.25169 2.93685 2.79294 2.93365 2.64842 2.88493 3.28441 5.43233 4.06962 132 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02422 4.12850 4.85085 0.61958 0.77255 0.89487 0.52536\n- 129 2.57334 4.58075 3.17341 2.64825 3.91668 3.40404 3.75938 3.26657 2.17050 2.94931 3.80171 3.10576 3.85917 2.95857 2.97612 2.09387 2.35367 2.45187 5.24493 3.96156 133 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02422 4.12850 4.85085 0.61958 0.77255 0.89487 0.52536\n- 130 1.80768 4.23633 3.55443 3.18552 4.29490 3.03854 4.22963 3.65791 3.19225 3.37434 4.20503 3.36065 3.76246 3.48993 3.52091 1.37457 2.03724 3.15630 5.64297 4.42734 134 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02422 4.12850 4.85085 0.61958 0.77255 0.89487 0.52536\n- 131 2.25006 4.37483 3.38535 2.84336 3.48092 3.54072 3.80305 2.88278 2.79020 2.58889 2.52898 2.63523 3.93804 3.11678 3.15198 2.79777 2.84177 2.65238 4.92561 2.80757 135 a - - -\n- 2.68624 4.42231 2.77493 2.73129 3.46360 2.40519 3.72500 3.29360 2.67747 2.69330 4.24696 2.90353 2.73745 3.18152 2.89807 2.37893 2.77494 2.98524 4.58483 3.61509\n- 0.45989 0.99791 * 0.16166 1.90202 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx23_III-D_III-A_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx23_III-D_III-A_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx24_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx24_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,470 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx24_III-D_1\n-LENG 149\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 2\n-EFFN 0.378906\n-CKSUM 3980820832\n-GA 300 300;\n-STATS LOCAL MSV -9.7361 0.70942\n-STATS LOCAL VITERBI -10.8588 0.70942\n-STATS LOCAL FORWARD -4.3668 0.70942\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30794 4.14448 3.00093 2.91286 3.50520 2.46199 3.82138 2.92151 2.95848 2.46291 3.74441 3.31740 3.17298 3.22230 2.83436 2.61663 2.79754 2.63021 3.88856 3.66749\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 2.27294 4.19044 3.12785 2.94209 3.98201 2.92230 4.05319 3.49296 3.00917 3.22179 4.15813 3.18047 3.65381 3.36680 3.29620 1.24540 2.74641 3.04931 5.36292 4.06569 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.33193 3.70624 3.52388 3.42842 2.50191 2.77276 2.74326 5.39725 4.18738 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 142 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 142 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 143 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 143 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 144 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 144 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 145 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 145 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 146 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 146 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 147 2.63387 4.40391 3.23126 3.05887 4.05692 3.09698 4.14202 3.58020 3.10839 3.21656 4.26443 3.37378 1.02669 3.50027 3.36243 2.79906 3.06862 3.23630 5.26731 4.17728 147 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 148 2.81043 4.78761 2.84581 2.60235 3.94242 3.30568 3.75867 3.56135 2.43074 3.07300 4.10684 3.05998 3.85986 1.41525 2.71548 2.86378 3.10904 3.29803 5.23325 3.92150 148 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 149 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 149 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx25_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx25_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,767 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx25_III-D_1\n-LENG 248\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 12\n-EFFN 0.612305\n-CKSUM 3465180496\n-GA 240 240;\n-STATS LOCAL MSV -10.9449 0.70301\n-STATS LOCAL VITERBI -11.7631 0.70301\n-STATS LOCAL FORWARD -5.1673 0.70301\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44027 4.27006 2.84713 2.67609 3.55842 2.56128 3.76616 3.02904 2.86377 2.50791 3.83317 3.23661 2.96459 3.17931 2.78141 2.67248 2.77438 2.66515 4.01799 3.85257\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.00000 *\n- 1 3.03320 4.56961 4.13577 3.73566 3.24430 3.89399 4.45229 2.42796 3.49923 1.82730 1.23251 4.00315 4.35539 3.87606 3.69507 3.39048 3.34026 2.44327 5.09557 3.86418 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 2 2.51257 4.60470 2.71859 2.52564 4.27620 3.11758 3.86931 3.80505 2.75094 3.42587 4.27048 1.68290 3.76312 3.07652 3.15829 1.93114 2.89999 3.35327 5.56808 4.20972 2 n - - -\n- 2.68603 4.42232 2.77527 2.73131 3.46361 2.40514 3.72398 3.29361 2.67748 2.69362 4.24697 2.90354 2.73715 3.18154 2.89800 2.37889 2.77527 2.98526 4.58484 3.61510\n- 0.22577 1.64625 4.67491 0.94163 0.49428 0.48576 0.95510\n- 3 2.68333 4.70241 2.75014 2.54429 3.57809 3.44108 2.19565 3.28699 2.53416 2.37810 3.81040 3.03046 3.87911 2.92102 2.92674 2.75320 2.92606 3.01991 5.00114 3.57346 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 4 2.70690 5.14606 2.27766 1.70849 4.44255 3.31022 3.24531 3.91578 2.39912 3.42720 4.21903 2.78346 3.78718 2.74184 2.54254 2.65931 2.94993 3.51921 5.58456 4.17939 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 5 2.85984 4.60360 3.47571 3.32649 4.31437 3.28659 4.39717 3.88059 3.39068 3.49867 4.55212 3.62501 0.69134 3.77703 3.62694 3.02989 3.30776 3.51680 5.47876 4.43621 8 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 6 2.37451 4.32708 3.12557 2.91571 4.18999 3.03438 4.08640 3.65829 2.99980 3.34396 4.23340 3.20520 1.37018 3.35525 3.31790 2.24055 2.82940 3.19602 5.53053 4.25769 9 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 7 2.38991 4.97052 2.42898 2.21286 4.26307 3.32749 3.60514 3.70669 2.40160 3.26159 4.05965 2.83027 2.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 241 2.29049 4.19924 3.37679 3.10108 4.09545 3.01439 4.15113 3.35040 3.08007 3.16985 4.08111 3.29754 3.73475 3.43992 3.36739 2.25923 1.27184 2.94311 5.49432 4.24995 249 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 242 2.76656 4.53381 3.45671 3.36641 4.50678 0.61557 4.48157 4.12608 3.55856 3.77011 4.74668 3.62102 3.92751 3.87640 3.78560 2.94081 3.25403 3.63895 5.58056 4.61146 250 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 243 2.53864 5.10341 1.17320 2.23406 4.55194 3.18595 3.84196 3.96369 2.86934 3.62033 4.52858 2.78717 3.83143 3.03568 3.41488 2.78500 3.15649 3.57905 5.81698 4.38464 251 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 244 2.60950 4.95628 2.63454 2.15341 4.24523 3.35059 3.57848 3.68846 2.34012 3.23594 4.02497 2.84663 2.95595 2.32996 2.67153 2.59869 2.84414 3.10284 5.42537 4.05549 252 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 245 3.07557 4.39891 4.71600 4.19394 3.46670 4.41312 4.89908 1.45126 4.07887 1.85780 3.27844 4.43983 4.70027 4.33206 4.28304 3.77819 3.32982 1.21618 5.42207 4.23078 253 v - - -\n- 2.68622 4.42229 2.77515 2.73127 3.46358 2.40502 3.72499 3.29358 2.67745 2.69359 4.24694 2.90351 2.73735 3.18150 2.89771 2.37891 2.77524 2.98522 4.58481 3.61507\n- 0.21933 1.67337 4.67491 0.59052 0.80752 0.48576 0.95510\n- 246 2.70113 5.03334 2.73312 1.78463 4.34903 3.36810 3.60215 3.78533 2.29088 3.31433 4.12080 2.86627 3.10798 2.59524 2.39162 2.68107 2.93465 3.41793 5.48073 4.13066 256 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 247 2.83492 5.28160 2.11251 1.36165 4.61548 2.66229 3.72527 4.09987 2.67599 3.63183 4.46878 2.71894 3.81352 2.88786 3.22070 2.75988 3.11889 3.69379 5.80315 4.35449 257 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95256 4.67491 0.61958 0.77255 0.48576 0.95510\n- 248 2.30294 4.65454 2.97997 2.38012 3.98152 2.63852 3.65548 3.38453 2.45902 3.00852 3.83698 2.96873 3.16261 2.82620 2.63266 2.60418 2.80268 2.86261 5.26580 3.95439 258 a - - -\n- 2.68614 4.42229 2.77523 2.73112 3.46358 2.40517 3.72476 3.29358 2.67745 2.69351 4.24694 2.90350 2.73736 3.18150 2.89796 2.37891 2.77523 2.98522 4.58435 3.61507\n- 0.17161 1.84709 * 0.66153 0.72580 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx26_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx26_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,389 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx26_III-D_1\n-LENG 122\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 7\n-EFFN 0.898926\n-CKSUM 3114296593\n-GA 40 40;\n-STATS LOCAL MSV -9.9045 0.71310\n-STATS LOCAL VITERBI -10.5395 0.71310\n-STATS LOCAL FORWARD -4.4750 0.71310\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76852 3.71202 2.97220 2.59189 3.17807 3.24098 3.84148 2.66539 2.49324 2.34843 3.62265 3.02462 3.62276 3.16167 2.80215 2.70142 2.97808 2.66647 4.79175 3.32607\n- 2.68626 4.42233 2.77508 2.73131 3.46362 2.40520 3.72502 3.29362 2.67748 2.69319 4.24506 2.90354 2.73747 3.18154 2.89808 2.37884 2.77527 2.98526 4.58485 3.61511\n- 0.52437 1.41350 1.80314 0.67291 0.71380 0.00000 *\n- 1 2.62623 4.26992 3.62304 3.06643 3.37716 3.63719 3.93564 2.27309 2.98236 2.31394 2.50735 2.70561 4.02133 3.29579 3.30091 2.90929 2.86800 2.08832 4.91221 3.68378 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02866 3.96244 4.68478 0.61958 0.77255 0.65641 0.73129\n- 2 2.85043 5.08861 3.07464 2.54805 4.47762 3.51002 3.59022 3.87434 1.59450 3.35658 4.18706 2.38665 3.91161 2.72174 1.99098 2.83744 3.05273 3.52489 5.45187 4.19403 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02866 3.96244 4.68478 0.61958 0.77255 0.65641 0.73129\n- 3 2.74957 4.49119 3.43261 2.34896 2.85421 3.63615 3.64463 3.01721 2.82516 2.64371 3.59503 3.30740 4.01979 3.17114 3.15596 2.91137 2.97934 2.79984 2.70236 2.22588 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02866 3.96244 4.68478 0.61958 0.77255 0.65641 0.73129\n- 4 2.41544 4.29988 4.37662 3.86261 3.54774 4.05875 4.62012 1.48915 3.76478 2.19934 3.39426 4.10705 4.45294 4.04600 4.00430 3.41507 3.14838 1.37108 5.33290 4.12634 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02866 3.96244 4.68478 0.61958 0.77255 0.65641 0.73129\n- 5 3.16665 4.50395 4.69949 4.19147 3.27758 4.43289 4.83483 1.22067 4.01715 1.50536 3.12494 4.44728 4.70306 4.27199 4.19593 3.81319 3.41634 1.83571 5.28223 4.08481 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02866 3.96244 4.68478 0.61958 0.77255 0.65641 0.73129\n- 6 2.72460 4.94834 2.81929 2.44618 4.36478 3.36371 3.65467 3.79544 1.58618 3.33719 4.16523 2.56639 3.84523 2.80364 2.61621 2.35394 2.98224 3.42642 5.48481 4.17104 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16182 3.96244 2.03722 0.61958 0.77255 0.65641 0.73129\n- 7 3.30674 4.65749 4.29203 3.90972 1.33266 4.13119 3.45872 3.01286 3.77778 2.39407 3.63850 3.86337 4.4638'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02410 4.13322 4.85557 0.61958 0.77255 0.48576 0.95510\n- 115 3.23464 4.55508 4.88645 4.33604 1.76826 4.46502 4.61515 1.63697 4.19856 1.44405 3.01967 4.48994 4.69415 4.28637 4.28642 3.80619 3.45984 2.23513 4.90947 3.60575 137 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02410 4.13322 4.85557 0.61958 0.77255 0.48576 0.95510\n- 116 2.90864 5.11884 3.25757 2.66592 4.54334 3.59103 3.65251 3.92650 1.36712 3.40720 4.23848 3.12152 3.98324 2.78272 1.96551 2.40992 3.11143 3.57688 5.50007 4.25997 138 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02410 4.13322 4.85557 0.61958 0.77255 0.48576 0.95510\n- 117 2.79247 5.22829 2.57830 2.01303 4.55498 2.81170 3.68683 4.02046 2.07864 3.52619 4.32244 1.88582 3.85889 2.81936 2.92432 2.74220 3.03965 3.61933 5.68003 4.27954 139 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02410 4.13322 4.85557 0.61958 0.77255 0.48576 0.95510\n- 118 2.92085 0.53634 4.48834 4.29320 4.23475 3.48155 4.88396 3.43060 4.12506 3.33001 4.46249 4.21210 4.20790 4.46069 4.20021 3.19184 3.41008 3.15526 5.58573 4.51831 140 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09772 4.13322 2.56314 0.61958 0.77255 0.48576 0.95510\n- 119 2.05016 4.24398 3.68350 3.14152 3.44302 3.57674 3.98950 2.16491 3.06246 2.07749 3.40086 3.47531 4.01186 3.36562 3.36852 2.43766 2.86106 2.33860 4.95583 3.73359 141 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02592 4.06143 4.78377 0.61958 0.77255 0.56467 0.84060\n- 120 2.68237 5.01585 2.88986 2.23244 4.34332 2.74231 3.60539 3.77710 2.00741 3.30366 4.09631 2.91661 3.82741 2.73043 2.28988 2.33820 2.91127 3.40446 5.46642 4.12226 142 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15219 4.06143 2.08788 0.61958 0.77255 0.56467 0.84060\n- 121 2.69385 4.69315 3.29913 2.77370 4.16134 3.40444 3.72899 3.50009 2.23011 3.11905 4.02197 3.16609 3.89557 2.90942 1.54404 2.78325 2.34021 3.18681 5.34152 4.10685 143 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02936 3.93860 4.66095 0.61958 0.77255 0.67606 0.71054\n- 122 2.89319 5.04872 3.05770 2.59038 4.24791 3.51437 2.66090 3.81163 1.39120 3.31006 4.17588 3.05209 3.93646 2.77449 2.33404 2.89216 3.10019 3.48852 5.34271 4.03998 144 k - - -\n- 2.68621 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67718 2.69358 4.24693 2.90350 2.73743 3.18150 2.89772 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.32024 1.29453 * 0.22997 1.58257 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx27_VI-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx27_VI-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,734 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx27_VI-B_1\n-LENG 237\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 18\n-EFFN 2.025879\n-CKSUM 1889268501\n-GA 200 200;\n-STATS LOCAL MSV -10.8092 0.70345\n-STATS LOCAL VITERBI -11.6788 0.70345\n-STATS LOCAL FORWARD -4.5216 0.70345\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62195 4.25745 3.31094 2.85663 2.87436 3.27320 3.77424 2.51423 2.73714 2.16017 3.43680 3.14811 3.72626 3.18615 3.14881 2.76056 2.93320 2.54374 4.26034 3.02888\n- 2.68629 4.42236 2.77531 2.73101 3.46365 2.40524 3.72506 3.29306 2.67752 2.69313 4.24593 2.90358 2.73751 3.18158 2.89812 2.37876 2.77531 2.98530 4.58488 3.61514\n- 0.27152 1.55057 3.66307 0.67805 0.70847 0.00000 *\n- 1 2.78722 4.53321 2.97065 3.06127 3.66573 3.72279 4.02967 2.99404 3.04054 2.32289 1.46191 3.47271 4.13310 3.35038 3.39616 2.49876 3.03338 2.78115 5.13203 3.88715 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61276 5.33511 0.61958 0.77255 0.52588 0.89412\n- 2 3.05749 5.63516 2.01393 1.45235 4.95513 2.09227 3.93719 4.46776 2.82929 3.93786 4.72271 2.56064 4.06949 3.06906 3.38421 2.38691 3.31866 4.02018 6.07827 4.60429 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61276 5.33511 0.61958 0.77255 0.52588 0.89412\n- 3 3.28966 5.40845 3.79720 3.07122 4.81975 3.96056 3.88817 3.06844 0.84899 3.61723 4.48721 3.47881 4.30874 3.02126 2.02610 3.29344 3.45488 3.83299 5.70579 4.52517 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61276 5.33511 0.61958 0.77255 0.52588 0.89412\n- 4 2.83539 4.34326 4.17244 3.60097 1.78653 3.89876 4.14682 2.75507 3.44551 1.55616 3.40831 3.83643 4.27341 3.71365 2.98914 2.61317 3.07146 2.58366 4.82538 3.53901 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61276 5.33511 0.61958 0.77255 0.52588 0.89412\n- 5 2.75925 4.82247 3.37413 2.98857 4.58616 3.47282 4.16436 3.99921 2.45585 3.61809 4.43993 3.38676 4.07571 3.34736 3.29868 0.93381 2.44753 3.55893 5.82857 4.54565 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61276 5.33511 0.61958 0.77255 0.52588 0.89412\n- 6 3.88323 5.10624 5.73268 5.16255 2.28934 5.22456 5.40050 2.05450 5.02352 0.61559 3.08765 5.33930 5.26980 4.90154 4.98149 4.60738 4.08542 2.74784 5.43409 4.34084 8 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61276 5.33511 0.61958 0.77255 0.52588 0.89412\n- 7 4.56723 5.57767 5.38211 5.26552 1.88466 5.08298 3.83683 4.15756 5.06417 3.33772 4.70517 4.66743 5.36'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63392 5.35626 0.61958 0.77255 0.48576 0.95510\n- 230 1.77480 4.39092 3.84945 2.84953 3.53085 3.80942 4.09455 2.39006 3.21488 2.24101 3.50527 3.63124 4.18733 3.49699 3.51979 3.07293 2.17957 2.18258 5.01835 3.80112 239 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63392 5.35626 0.61958 0.77255 0.48576 0.95510\n- 231 2.57895 5.27708 2.48971 1.77552 4.61172 3.52321 2.51258 4.09351 2.48527 3.57764 4.32400 2.99226 3.93387 2.83831 2.54816 2.23460 3.01518 3.66287 5.71415 4.30380 240 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63392 5.35626 0.61958 0.77255 0.48576 0.95510\n- 232 3.18050 4.68292 4.44255 3.82834 3.49505 4.24714 4.47128 2.13735 3.42130 1.08989 3.37780 4.11955 4.56549 3.86733 1.99397 3.55758 3.40364 2.64876 5.23303 4.07371 241 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63392 5.35626 0.61958 0.77255 0.48576 0.95510\n- 233 2.77420 4.47346 3.68222 3.11823 3.62702 3.75924 4.02556 1.90088 2.41650 2.68068 3.58793 2.97218 4.14250 3.36372 3.38259 3.01398 2.13693 2.08751 5.08270 3.85153 242 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63392 5.35626 0.61958 0.77255 0.48576 0.95510\n- 234 2.51836 5.31474 2.50934 2.02861 4.65091 3.52878 2.04924 4.13507 2.20364 3.61415 4.36213 2.99513 3.94888 2.33333 2.99642 2.76568 3.04386 3.70150 5.74702 4.33336 243 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06726 4.63392 2.89450 0.61958 0.77255 0.48576 0.95510\n- 235 2.74483 5.22726 2.54261 2.28656 4.55990 3.50655 3.41479 2.90638 2.05490 3.52596 4.27264 2.40601 3.90725 2.07936 2.93231 2.71048 2.97667 3.61151 5.66517 4.26120 244 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13496 4.58198 2.15403 0.61958 0.77255 0.58013 0.82059\n- 236 2.76241 5.27396 2.39294 1.93320 4.60804 3.46429 3.70431 4.09487 1.92893 3.57446 4.32403 2.41629 3.89425 2.81054 2.97220 2.34801 2.69890 3.65996 5.70916 4.28972 245 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08493 4.46427 2.66058 0.61958 0.77255 0.75205 0.63752\n- 237 2.71976 5.05008 2.98668 2.26536 4.34162 3.49317 3.68880 2.95883 1.84727 3.32622 4.11495 2.13637 3.89429 2.81418 2.86711 2.71559 2.67301 3.40904 5.51481 4.15647 246 k - - -\n- 2.68641 4.42248 2.77542 2.73146 3.46377 2.40535 3.72517 3.29377 2.67710 2.69349 4.24712 2.90224 2.73731 3.18169 2.89823 2.37888 2.77457 2.98541 4.58500 3.61526\n- 0.52055 0.90188 * 0.90871 0.51591 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx28_VI-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx28_VI-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,581 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx28_VI-B_1\n-LENG 186\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 20\n-EFFN 1.372070\n-CKSUM 1678464697\n-GA 280 280;\n-STATS LOCAL MSV -10.0865 0.70627\n-STATS LOCAL VITERBI -11.1482 0.70627\n-STATS LOCAL FORWARD -4.8676 0.70627\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63289 4.54544 3.10131 2.57568 3.15276 3.26522 3.72112 2.68755 2.49868 2.31437 3.56719 3.00861 3.79087 2.99261 2.83055 2.74580 2.90841 2.72019 4.67985 3.24386\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24763 4.37448 1.57621 0.61958 0.77255 0.00000 *\n- 1 2.83630 4.60788 3.54896 3.02606 3.67133 3.68305 3.92172 2.93820 2.11263 2.53195 1.60706 3.41784 4.09682 3.18653 2.87238 3.02256 3.07799 2.78000 5.14748 3.91204 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02369 4.15053 4.87288 0.61958 0.77255 0.75018 0.63919\n- 2 3.08100 5.69851 1.17381 1.55325 4.98050 3.29318 3.87238 4.51941 2.93245 4.00544 4.87263 2.75160 3.93629 3.04410 3.55666 2.94556 3.37756 4.07905 6.14903 4.61909 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02369 4.15053 4.87288 0.61958 0.77255 0.62596 0.76518\n- 3 2.25280 2.57255 3.59106 2.58508 3.40111 3.60751 3.88245 2.74486 2.96102 2.47716 2.94400 3.39807 3.99136 3.25724 3.28355 2.86613 2.84303 2.52913 4.86588 2.96856 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93818 0.61958 0.77255 0.68568 0.70067\n- 4 2.58601 4.38139 3.42220 2.87449 3.59684 2.83920 3.85432 2.93163 2.83172 2.65918 2.78088 2.89720 3.93873 3.14964 3.20095 2.77942 2.11601 2.28715 5.02319 3.77928 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93818 0.61958 0.77255 0.55569 0.85255\n- 5 2.30396 4.68636 2.83633 2.43941 3.89328 3.49425 3.71774 3.28396 2.56494 2.54769 3.20935 3.07283 3.88633 2.90557 3.00719 2.41927 2.28360 2.99781 5.22282 3.92062 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28007 5.00242 0.61958 0.77255 0.61319 0.78006\n- 6 2.99621 2.75779 4.78652 4.20390 3.26041 4.22923 4.58476 1.67460 4.04929 1.37020 2.67054 4.32448 4.52982 4.19026 4.13186 3.55485 3.22909 2.10396 5.04030 3.90008 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28007 5.00242 0.61958 0.77255 0.61319 0.78006\n- 7 2.46607 4.60847 3.18805 2.41592 3.86318 3.48142 3.78796 3.22769 2.65808 2.35296 3.76447 3.14095 3.91'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07831 4.37448 2.76897 0.61958 0.77255 0.48576 0.95510\n- 179 2.68052 5.12621 2.49584 2.30509 4.45071 3.20907 3.63359 3.91635 2.12372 2.87468 4.17567 2.91800 3.84177 2.03736 2.60950 2.65204 2.91085 3.50646 5.56551 4.17580 182 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03979 4.31620 3.66288 0.61958 0.77255 0.56771 0.83661\n- 180 3.55707 5.32283 4.09725 3.54382 4.79045 3.93405 4.22981 4.38191 2.53690 3.82015 4.82657 3.86151 4.43188 3.44447 0.48796 3.63211 3.80408 4.09134 5.70935 4.64580 183 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02043 4.29684 5.01918 0.61958 0.77255 0.59254 0.80502\n- 181 2.73884 5.19198 1.79354 2.33884 4.50193 3.41706 3.68211 3.97477 2.14114 3.48421 4.25565 2.39186 3.86267 2.80084 2.96361 2.69989 2.65428 3.56740 5.64234 3.79194 184 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02043 4.29684 5.01918 0.61958 0.77255 0.59254 0.80502\n- 182 2.98635 4.49643 4.24215 3.68753 3.26836 4.05536 4.37860 2.51113 3.54275 1.08507 2.51883 3.98296 2.87769 3.80559 3.76596 3.36532 3.22683 2.50915 5.05504 3.89949 185 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02043 4.29684 5.01918 0.61958 0.77255 0.59254 0.80502\n- 183 2.64212 4.16408 3.15833 2.59615 3.87889 3.51129 3.39040 3.27193 2.35658 2.38184 3.76364 2.78066 3.89767 2.43043 2.79368 2.72643 2.87263 2.55050 5.21011 3.62242 186 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02043 4.29684 5.01918 0.61958 0.77255 0.59254 0.80502\n- 184 2.09848 4.39233 3.49947 2.95978 2.07022 3.61334 3.87364 2.89181 2.90008 2.44191 3.50440 3.15612 4.00980 2.69327 3.24529 2.87670 2.90079 2.66925 4.92239 3.63992 187 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12475 4.29684 2.26651 0.61958 0.77255 0.59254 0.80502\n- 185 2.64673 5.05951 2.46153 2.36071 4.37402 3.41645 3.37696 3.83145 2.02730 2.93339 4.11224 2.78823 3.81385 2.71584 2.35912 2.43589 2.87629 3.43481 5.50457 4.12482 188 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20492 4.19474 1.77072 0.61958 0.77255 0.70744 0.67905\n- 186 2.66275 4.85563 2.81367 2.45892 4.30701 3.32367 3.70633 3.74399 1.98273 3.31393 4.13883 2.64023 3.83137 2.86428 2.79437 1.76415 2.94575 3.36697 5.49261 4.16618 189 s - - -\n- 2.68623 4.42230 2.77524 2.73095 3.46359 2.40518 3.72499 3.29359 2.67734 2.69330 4.24695 2.90351 2.73744 3.18151 2.89806 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.41913 1.07184 * 0.18597 1.77372 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,272 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx3_I_III_1\n-LENG 83\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:07 2020\n-NSEQ 5\n-EFFN 0.649414\n-CKSUM 1331394188\n-GA 107 107;\n-STATS LOCAL MSV -9.2519 0.71841\n-STATS LOCAL VITERBI -9.8486 0.71841\n-STATS LOCAL FORWARD -4.0093 0.71841\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62791 4.42819 3.10050 2.87712 3.23840 2.83752 3.45294 2.60114 2.86010 2.31553 3.73434 3.28976 2.96149 3.30737 2.98082 2.80812 2.94341 2.34677 4.25292 3.45039\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.00000 *\n- 1 2.80697 4.33759 3.92384 3.41335 1.78093 3.78689 3.75780 2.72174 3.31323 2.34042 3.39632 3.63487 4.16719 3.54755 3.54647 3.09015 2.43706 2.56448 4.24509 2.26613 1 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 2 2.58942 4.59037 3.02043 2.66787 4.03350 3.29518 3.81941 3.39210 2.56972 3.04854 3.96273 3.09627 3.84643 2.39032 2.90729 2.69240 1.63545 3.07832 5.35625 4.06736 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 3 3.14626 4.48048 4.73442 4.19091 3.26833 4.43888 4.83319 1.67700 4.06588 1.24678 3.07311 4.44796 4.68574 4.26031 4.23986 3.79029 3.38641 1.61334 5.27414 4.14195 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 4 3.17279 4.50750 4.71408 4.20955 3.29668 4.44284 4.85347 1.17993 4.03386 1.54832 3.14540 4.46238 4.71583 4.29254 4.21239 3.82639 3.42393 1.82562 5.30081 4.09893 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 5 2.73292 5.06097 2.55214 1.63967 4.32819 3.31811 2.91709 3.81960 2.46002 3.36816 4.18996 2.82712 3.81800 2.81263 2.91197 2.31593 2.98727 3.45236 5.53227 4.14136 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 6 3.15276 4.52876 4.55294 4.06717 1.49698 4.24775 4.23162 1.89150 3.93328 1.76693 3.12347 4.20748 4.55181 4.07924 4.07184 3.60675 3.39701 2.28108 4.53713 3.03645 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 7 2.83399 5.10313 2.70061 1.44937 4.43411 3.39179 3.67617 3.87078 2.31830 3.40159 4.25316 2.92135 3.8796'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 76 3.05536 5.12666 3.47935 2.82310 4.57029 3.66064 3.61944 3.92283 1.62250 3.37897 4.26199 3.21420 4.03791 2.76099 1.28928 3.06114 3.22570 3.61429 5.42652 4.26456 83 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 77 2.59487 4.48411 3.10940 2.36205 3.75463 3.41722 3.81177 2.93846 2.70046 2.75616 3.67717 3.14189 2.98716 3.05588 3.08157 2.74273 2.86882 1.87039 5.16374 3.89286 84 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 78 2.80034 4.56450 3.49562 3.40884 4.54765 0.58353 4.52194 4.17360 3.60439 3.81432 4.79149 3.66002 3.95899 3.92028 3.82816 2.97540 3.28978 3.68159 5.61422 4.65337 85 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 79 2.88932 5.34755 1.33531 2.15758 4.61478 3.24122 3.74939 4.15513 2.70363 3.67248 4.53298 2.73209 3.83983 2.27984 3.24101 2.80435 3.17480 3.75498 5.81811 4.35384 86 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 80 2.89167 4.40606 4.27034 3.93757 3.62864 3.83191 4.72155 2.04980 3.80695 2.29794 3.57863 4.11023 4.38716 4.15954 4.00915 3.34273 3.25104 0.90183 5.43060 4.16838 87 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 81 3.17279 4.50750 4.71408 4.20955 3.29668 4.44284 4.85347 1.17993 4.03386 1.54832 3.14540 4.46238 4.71583 4.29254 4.21239 3.82639 3.42393 1.82562 5.30081 4.09893 88 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 82 2.74071 5.15534 1.77473 2.22119 4.48257 3.28385 3.66474 3.95149 2.13557 3.48037 4.28799 2.77929 2.82418 2.80733 3.00341 2.69305 3.00172 3.55419 5.65017 4.23726 89 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02821 3.97787 4.70022 0.61958 0.77255 0.48576 0.95510\n- 83 2.79590 4.26610 4.16201 3.60372 2.96753 3.87929 4.07506 2.05130 3.43845 2.00740 3.16972 3.82358 4.23395 3.69323 3.63335 3.18859 3.03622 2.00092 2.24342 3.27630 90 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01908 3.96874 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,275 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx3_I_III_2\n-LENG 84\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:08 2020\n-NSEQ 8\n-EFFN 0.964844\n-CKSUM 236032087\n-GA 50 50;\n-STATS LOCAL MSV -9.0380 0.71850\n-STATS LOCAL VITERBI -9.7404 0.71850\n-STATS LOCAL FORWARD -4.0724 0.71850\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59572 4.38215 3.09682 2.84312 3.47292 2.84736 3.46848 2.58940 2.86179 2.30249 3.76389 3.32873 2.96522 3.21050 3.03215 2.79091 2.91302 2.32368 4.18590 3.53643\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.00000 *\n- 1 2.62061 3.33955 4.14348 3.56076 2.50536 3.72701 4.01479 2.47786 3.42978 2.24237 3.18927 3.73513 4.09952 3.63776 3.58945 3.02182 2.49665 2.05145 4.63611 2.33997 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 2 2.62214 4.58277 3.22972 2.73237 3.89465 3.44742 3.82601 3.17277 2.63996 2.89030 3.79460 3.17663 3.91365 2.21570 3.01644 2.74432 1.87273 2.45698 5.26166 3.98501 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 3 3.30605 4.63783 4.90883 4.35677 2.12402 4.51790 4.69551 2.28140 4.22305 0.97751 2.97176 4.54209 4.73335 4.30042 4.31600 3.86178 3.53039 2.10402 4.97934 3.72647 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 4 3.01210 4.40452 4.53874 3.97445 3.05891 4.17515 4.38031 1.69183 3.81940 1.30470 3.10155 4.16313 4.47230 4.00353 3.96153 3.49134 3.24072 2.26216 4.84055 2.71758 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 5 2.71839 5.06864 2.86189 2.01521 4.37452 3.43667 2.49624 3.81575 2.04633 3.34471 4.13731 2.92860 3.85585 2.76668 2.75643 2.70134 2.43251 3.44332 5.51053 4.15422 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 6 2.31553 4.26092 4.46483 3.90056 2.40709 4.04874 4.42069 1.53876 3.78110 2.10054 3.24507 4.08538 4.39326 3.98561 3.94237 3.36755 3.10245 1.82311 5.00197 3.80452 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 7 2.75443 5.14414 2.62455 1.59638 4.45681 2.72535 2.77353 3.92612 2.51008 3.45773 4.25523 2.86813 3.85567 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 77 3.11747 5.25702 3.53992 2.84804 4.67284 3.75023 2.95159 4.04805 1.72026 3.47943 4.33840 3.25604 4.10267 2.79771 1.21026 3.10585 3.27537 3.72636 5.50854 4.32645 86 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 78 2.64928 4.39698 3.45331 2.63349 3.57386 3.60192 3.89937 2.27717 2.87217 2.56955 3.51110 3.33868 2.40660 3.19983 3.23264 2.86838 2.89364 2.07590 5.03968 3.79663 87 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 79 3.07955 4.81453 3.81345 3.75576 4.87199 0.38858 4.84729 4.55455 3.97697 4.16722 5.15284 3.97911 4.21424 4.27811 4.17031 3.26163 3.58377 4.02507 5.87777 4.98756 88 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 80 2.88783 5.41858 1.74403 2.22448 4.72026 3.33496 3.75653 4.23161 2.64802 3.72001 4.52536 2.24062 3.88525 1.83521 3.18270 2.80408 3.15229 3.80467 5.86534 4.40265 89 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 81 2.73924 4.28510 4.12028 3.60986 3.56062 3.78641 4.36009 2.00434 3.50653 2.42929 3.49383 3.84853 4.25166 3.79705 3.75553 2.43487 3.03613 1.23980 5.17908 3.95687 90 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 82 3.21945 4.51454 4.99017 4.51225 3.64224 4.59133 5.21292 0.94162 4.39211 2.10678 3.43818 4.71127 4.89677 4.65042 4.57256 3.99963 3.48978 1.45591 5.66274 4.46109 91 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 83 2.65974 5.03962 2.20993 2.34980 4.33384 3.40235 3.62505 3.78493 2.17258 2.69049 4.10113 2.89091 3.26687 2.37218 2.85848 2.64232 2.89372 3.40414 5.49990 4.12067 92 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02321 4.17053 4.89288 0.61958 0.77255 0.48576 0.95510\n- 84 2.83904 4.26439 4.37191 3.80593 3.11682 3.97438 4.23397 2.09527 3.64250 2.09430 3.22579 3.98059 4.32485 3.86766 3.80012 3.28863 3.07891 1.47927 2.45705 3.47656 93 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01568 4.16300 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,881 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx3_I_III_3\n-LENG 286\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:08 2020\n-NSEQ 25\n-EFFN 2.267456\n-CKSUM 3949393958\n-GA 100 100;\n-STATS LOCAL MSV -10.9760 0.70168\n-STATS LOCAL VITERBI -11.6191 0.70168\n-STATS LOCAL FORWARD -5.6187 0.70168\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51061 4.18968 2.99616 2.66110 3.52201 2.81141 3.64926 2.74540 2.67940 2.37767 3.72653 3.16990 3.30351 3.00216 2.96133 2.66725 2.87982 2.56500 4.39693 3.75388\n- 2.68653 4.42213 2.77566 2.73168 3.46414 2.40562 3.72438 3.29215 2.67772 2.69370 4.24207 2.90391 2.73757 3.18044 2.89823 2.37830 2.77519 2.98559 4.58537 3.61423\n- 1.06404 1.14070 1.09260 1.72644 0.19591 0.00000 *\n- 1 3.62965 4.92502 5.21919 4.66706 3.16008 4.87847 5.15621 2.36322 4.46704 0.67687 2.14945 4.92876 5.00149 4.54047 4.54005 4.26117 3.84570 2.57626 5.33328 4.29851 8 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31302 5.03536 0.61958 0.77255 1.01748 0.44864\n- 2 2.67436 5.15573 2.67618 1.93696 4.48689 3.42479 3.62982 3.96396 2.24070 3.45354 4.20271 2.64376 3.83114 2.51254 2.63479 2.48473 2.37309 3.53941 5.59386 4.18930 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31302 5.03536 0.61958 0.77255 1.01748 0.44864\n- 3 2.64520 4.39917 3.48872 2.93640 3.56586 2.44494 3.89063 2.86864 2.88556 2.15059 3.31281 2.63448 3.99912 3.20301 3.24487 2.85613 2.88923 2.12285 5.01026 3.76836 10 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31302 5.03536 0.61958 0.77255 1.01748 0.44864\n- 4 2.65579 4.87283 2.21750 2.47352 4.12484 3.46418 3.68837 3.12496 2.49076 2.58136 3.95418 2.53641 3.86731 2.83666 2.95761 2.38381 2.66764 3.20844 5.38282 4.04160 11 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31302 5.03536 0.61958 0.77255 1.01748 0.44864\n- 5 2.66057 4.99558 2.96228 2.15049 4.27850 3.45292 3.28524 3.71933 2.24580 3.27204 4.05593 2.95186 3.84823 2.36917 2.87312 2.29256 2.64833 2.64914 5.46606 4.10139 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31302 5.03536 0.61958 0.77255 1.01748 0.44864\n- 6 2.43798 4.30035 3.70725 3.15537 3.41426 3.66141 3.41313 2.74612 3.05710 1.47117 3.40017 3.50067 3.45194 3.36680 3.35203 2.94077 2.90805 2.35522 4.90651 3.68407 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31302 5.03536 0.61958 0.77255 1.01748 0.44864\n- 7 2.65822 5.08865 2.93486 2.23873 4.40669 3.43945 3.23415 3.86910 2.02424 3.37904 4.13794 2.91972 3.31'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01340 4.71498 5.43732 0.61958 0.77255 0.48576 0.95510\n- 279 1.73704 4.64855 3.44025 2.87727 3.81242 3.24815 3.92394 2.88806 2.67976 2.49388 3.33622 3.33762 4.07537 2.88237 2.68031 2.75237 2.80303 2.56915 5.20800 3.94339 308 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01340 4.71498 5.43732 0.61958 0.77255 0.48576 0.95510\n- 280 2.59483 5.27529 2.35581 2.13982 4.61815 3.26065 3.73056 4.10267 2.26431 3.27478 4.31669 2.80527 3.93644 2.35845 2.55939 2.29812 2.67305 3.66477 5.70910 4.29927 309 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01340 4.71498 5.43732 0.61958 0.77255 0.48576 0.95510\n- 281 2.80097 4.45363 3.80028 3.22247 3.57495 3.80483 4.05852 2.92268 3.10403 1.54038 3.11677 3.59017 4.18012 2.92378 2.34617 2.78690 3.03142 2.20717 5.04044 3.82197 310 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01340 4.71498 5.43732 0.61958 0.77255 0.48576 0.95510\n- 282 3.00638 4.78940 5.39549 4.82184 3.51198 4.82380 5.19569 1.65008 4.67756 0.86061 2.86526 4.95015 5.04104 4.74083 4.71777 4.17478 3.73035 2.13521 5.49278 4.41586 311 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18336 4.71498 1.84154 0.61958 0.77255 0.48576 0.95510\n- 283 2.55677 4.58732 3.03732 2.81576 3.37673 3.63053 3.47240 2.64123 2.62400 2.81131 3.68145 2.93641 3.52769 3.11387 2.91942 2.62447 2.73684 2.08346 3.88951 3.88198 312 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09325 4.54748 2.54537 0.61958 0.77255 0.76870 0.62290\n- 284 2.53994 3.93068 3.00567 2.05042 4.32749 2.66091 3.02620 3.77307 2.44673 3.32144 3.55566 2.98519 3.09501 2.64086 2.71871 2.56098 2.92051 3.40026 5.51229 4.14111 313 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21015 4.47135 1.72538 0.61958 0.77255 0.86316 0.54788\n- 285 2.66968 4.39302 3.60422 3.05704 3.57926 3.59959 3.93628 2.89783 2.85325 1.50186 3.54077 3.42174 4.02851 3.26323 2.75706 2.65662 2.46607 2.67815 5.02801 3.80204 314 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02074 4.28194 5.00429 0.61958 0.77255 1.04267 0.43466\n- 286 2.36917 3.32404 3.24791 2.68911 3.74836 3.51940 3.35456 3.12928 2.50169 2.80309 3.66429 2.83501 3.91479 2.99640 3.07952 2.38237 2.43506 2.50345 5.12363 3.84871 315 a - - -\n- 2.68640 4.42106 2.77531 2.73132 3.46376 2.40502 3.72470 3.29326 2.67749 2.69366 4.24650 2.90322 2.73747 3.18168 2.89807 2.37855 2.77542 2.98518 4.58499 3.61525\n- 0.57783 0.82352 * 0.91340 0.51275 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/csx3_I_III_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,260 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME csx3_I_III_4\n-LENG 79\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:08 2020\n-NSEQ 19\n-EFFN 1.386963\n-CKSUM 2728073869\n-GA 22 22;\n-STATS LOCAL MSV -9.1731 0.71857\n-STATS LOCAL VITERBI -9.6820 0.71857\n-STATS LOCAL FORWARD -4.3321 0.71857\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58807 4.32893 3.13241 2.83206 3.60031 2.75900 3.50589 2.58696 2.83311 2.35350 3.81583 3.31327 2.95821 3.20507 3.04625 2.77245 2.95215 2.31707 4.09907 3.47257\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.00000 *\n- 1 2.37698 4.42569 3.46964 2.43159 3.56159 3.62277 2.86681 2.35151 2.85925 2.06745 3.52406 3.33024 4.00383 3.17554 3.22592 2.86454 2.89478 2.69732 4.99659 3.39074 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 2 2.66000 4.32264 3.12701 3.06623 2.30514 3.66357 3.13775 2.43084 3.01022 2.41264 3.42647 3.44276 4.04131 3.30034 3.33706 2.91703 2.24176 2.48835 4.90299 3.67093 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 3 2.66789 4.99281 2.99496 1.98393 4.27060 3.05827 3.66543 3.22260 2.27428 2.83214 4.05299 2.84550 3.86265 2.79057 2.57262 2.48833 2.59117 3.34692 5.46757 4.10429 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 4 2.65867 4.61264 2.90719 2.68656 3.79266 3.33234 3.77919 2.98537 2.57115 2.00753 3.70315 3.16558 3.19058 2.85579 3.08954 2.68506 2.54979 2.64213 5.16113 3.88068 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 5 2.82603 5.32463 1.79186 1.66397 4.63958 3.43865 3.74447 4.11914 2.20966 3.61634 4.38991 2.90433 3.91290 2.86561 3.06543 2.77050 3.07105 3.08728 5.76685 4.33968 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 6 2.71381 5.01104 3.03598 2.51350 4.39329 2.36449 3.72161 3.83076 2.31907 3.37301 4.16132 3.02740 2.74440 2.84896 2.05397 2.33976 2.96247 3.44741 5.54958 4.20366 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 7 2.66022 4.72318 2.85318 2.40244 3.92569 3.52412 3.73870 2.73373 2.58184 2.56464 3.80483 2.90522 2.61083'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 72 2.32004 4.14133 4.08136 3.49606 3.02181 3.75292 4.05347 2.44112 2.97388 2.23415 2.86770 3.71895 4.12239 3.60823 3.57458 3.03675 2.65114 1.88119 4.75411 2.63326 82 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 73 2.68897 5.14713 2.67248 2.38955 4.47718 3.22888 3.64365 3.94637 2.08946 3.44152 4.19450 2.76996 3.85340 2.56550 1.99225 2.40208 2.91891 3.53031 5.58436 3.75210 83 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 74 2.75817 4.34423 3.85822 3.04473 3.49979 3.80488 4.11731 2.32373 3.22041 2.35384 3.45333 3.64657 2.59940 3.51782 3.51515 3.08379 2.99895 1.43749 5.02722 3.81027 84 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 75 3.41996 5.11425 4.19393 4.16971 5.24493 0.24987 5.22659 4.99970 4.41754 4.57493 5.57573 4.36099 4.51704 4.70227 4.56850 3.61067 3.93872 4.42912 6.17499 5.37410 85 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 76 2.79958 5.29081 1.98426 2.34700 4.62059 3.43357 3.73385 4.10506 2.53983 3.59856 4.36667 2.37540 3.90140 1.91606 3.04959 2.49951 2.68860 3.67984 5.74688 4.32242 86 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 77 2.26354 4.32176 4.15374 3.75730 3.92702 3.49281 4.54005 2.69237 3.68557 2.87283 3.86830 3.84395 4.14403 3.95855 3.91122 2.34380 3.02517 0.98436 5.47578 4.27510 87 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 78 3.20777 3.75378 5.12734 4.58762 3.62764 4.59811 5.08093 1.13349 4.46804 1.69320 3.45421 4.71732 4.87381 4.64811 4.57840 3.96071 3.45372 1.49625 5.50573 4.33597 88 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38120 5.10355 0.61958 0.77255 0.48576 0.95510\n- 79 2.67684 5.13699 2.43444 2.22336 4.46139 3.44685 3.64225 3.93270 2.06612 3.27402 3.75061 2.92215 2.57496 2.46528 2.87200 2.55855 2.90847 3.51672 5.58083 4.18274 89 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01267 4.37511 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cysH_IV-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/cysH_IV-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,755 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME cysH_IV-B_1\n-LENG 244\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:08 2020\n-NSEQ 28\n-EFFN 1.876465\n-CKSUM 2020496759\n-GA 115 115;\n-STATS LOCAL MSV -10.9325 0.70315\n-STATS LOCAL VITERBI -11.5013 0.70315\n-STATS LOCAL FORWARD -5.1530 0.70315\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52135 4.54312 2.90210 2.62620 3.43933 2.92190 3.56424 2.91341 2.74733 2.48821 3.73648 3.17655 3.28644 3.09652 2.73381 2.63839 2.85396 2.65364 3.92204 3.39183\n- 2.68602 4.42233 2.77527 2.73131 3.46362 2.40520 3.72502 3.29362 2.67748 2.69363 4.24509 2.90354 2.73747 3.18154 2.89790 2.37888 2.77519 2.98518 4.58485 3.61471\n- 0.58928 1.15991 2.02677 0.13156 2.09338 0.00000 *\n- 1 2.66695 4.22560 3.92277 3.35229 3.13866 3.16038 4.04589 2.66557 3.26258 2.41851 1.76932 3.63520 3.48379 3.52007 3.51347 2.99799 2.65769 2.11735 4.85515 3.65209 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01826 4.40802 5.13037 0.61958 0.77255 0.57536 0.82669\n- 2 2.71201 4.48160 3.51650 2.94336 3.63126 3.65997 3.88992 2.98935 2.69267 1.59734 3.13148 2.95508 4.04041 3.18609 2.72341 2.90757 2.52552 2.75909 5.05085 3.81248 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.34650 4.45465 1.26863 0.61958 0.77255 0.62696 0.76403\n- 3 2.89517 4.39319 4.09654 3.55002 3.44047 3.98866 4.29097 1.30157 2.81589 2.00567 3.35643 3.86110 4.34300 3.69068 3.51814 3.30872 3.13502 2.06860 5.11562 3.89885 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02413 4.13228 4.85463 0.61958 0.77255 0.95705 0.48455\n- 4 2.41856 4.90922 2.87889 2.24665 4.24399 2.99453 3.64943 3.67924 2.08612 3.24453 4.03977 2.92448 3.81462 2.78464 2.88054 2.11453 2.61117 3.31158 5.44762 4.09173 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02413 4.13228 4.85463 0.61958 0.77255 0.44245 1.02852\n- 5 2.42062 3.57767 3.54705 2.98618 3.59950 3.33866 3.92815 2.81157 2.94286 2.67267 2.83886 3.38286 3.15880 3.24717 3.30221 1.93678 2.40600 2.72288 5.03618 3.79970 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03519 4.43215 3.78581 0.61958 0.77255 0.49215 0.94497\n- 6 2.51602 5.11662 2.19136 2.28459 4.42611 3.27682 3.68175 3.88668 2.43790 3.40862 3.53585 2.73710 2.66748 2.79308 2.92479 2.36378 2.93425 3.23436 5.57613 4.18797 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01692 4.48337 5.20571 0.61958 0.77255 0.54173 0.87165\n- 7 2.78348 5.23630 2.40393 2.28720 4.56404 3.49831 3.72514 4.03247 2.46841 3.53188 4.29585 2.70602 3.922'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10990 4.44515 2.38229 0.61958 0.77255 0.66464 0.72249\n- 237 2.89900 4.42595 4.19466 3.67737 3.38202 2.79750 4.35710 2.25728 3.53632 1.08078 3.32140 3.93472 4.34453 3.81854 3.75523 3.27457 3.16463 2.40064 5.07468 3.87333 295 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06962 4.35453 2.91141 0.61958 0.77255 0.67032 0.71650\n- 238 2.47811 4.91987 2.97206 2.33698 4.31082 3.44724 3.78989 3.73303 2.55856 3.31881 4.13355 3.05274 1.68250 2.94314 2.70417 2.48603 2.98856 3.37216 5.53565 4.20325 296 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01931 4.35253 5.07488 0.61958 0.77255 0.67336 0.71333\n- 239 3.15673 5.39233 3.38356 2.50563 4.83384 3.77381 3.77109 4.20199 2.11688 3.62865 4.47025 3.26597 4.15628 2.10919 1.14185 3.12777 3.33396 3.85406 5.67605 4.46186 297 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01846 4.39738 5.11973 0.61958 0.77255 0.62376 0.76771\n- 240 2.90147 4.43434 4.10804 3.52317 3.10302 3.97172 4.22324 1.57113 3.32314 2.01316 3.35356 3.83247 4.31893 3.65914 1.99244 3.25676 3.13129 2.42930 5.01450 3.79566 298 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15980 4.43934 1.99598 0.61958 0.77255 0.67245 0.71428\n- 241 2.75037 5.01760 2.73842 2.33105 4.28017 3.51236 3.68144 3.72705 2.35548 3.28019 4.08841 3.02153 3.91119 2.81864 1.54630 2.75545 2.97446 3.38183 3.95975 4.11757 299 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02037 4.29991 5.02226 0.61958 0.77255 0.83271 0.57070\n- 242 2.83749 5.26178 2.80020 1.39983 4.58728 3.47907 3.17976 4.05048 2.38078 3.53777 4.32640 2.95248 3.92362 2.31731 2.62102 2.79418 3.06736 3.65283 5.66518 4.29264 300 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02037 4.29991 5.02226 0.61958 0.77255 0.83271 0.57070\n- 243 2.63656 4.13899 4.00196 3.42028 2.40666 3.72027 3.99597 2.59257 3.31244 2.15275 2.93245 3.66062 3.41369 3.54675 3.12236 2.73197 2.86840 2.39572 3.90064 2.48496 301 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02037 4.29991 5.02226 0.61958 0.77255 0.83271 0.57070\n- 244 2.63586 4.21328 3.81095 3.23460 3.33475 3.67763 3.96719 2.54638 3.13030 2.41292 3.32912 3.54670 4.05756 3.41384 3.00591 2.83643 2.20929 1.69795 4.03041 3.61179 302 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.29330 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/gRAMP_III-E_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/gRAMP_III-E_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4852 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME gRAMP_III-E_1\n-LENG 1610\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:09 2020\n-NSEQ 7\n-EFFN 0.816895\n-CKSUM 1412311030\n-STATS LOCAL MSV -13.2878 0.69466\n-STATS LOCAL VITERBI -14.6204 0.69466\n-STATS LOCAL FORWARD -7.4142 0.69466\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63734 4.09950 2.85807 2.57289 3.29826 2.83813 3.67974 2.87563 2.54578 2.49654 3.73386 3.01485 3.35170 3.10029 2.82193 2.70276 2.88350 2.76133 4.45119 3.50779\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10450 4.08476 2.49616 0.61958 0.77255 0.00000 *\n- 1 3.07991 4.60840 4.19662 3.80207 3.27322 3.93596 4.50600 2.46259 3.56219 1.84914 1.14087 4.06233 4.39890 3.93611 3.75128 3.44230 3.38870 2.48399 5.13101 3.90378 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00763 4.72998 0.61958 0.77255 0.56625 0.83852\n- 2 2.58637 4.66490 3.00434 2.50132 3.89641 3.40229 3.07000 3.31538 2.47430 2.56860 3.79016 2.47130 3.82225 2.84516 2.89719 2.40837 2.53258 3.01531 5.20804 3.89448 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11838 4.00763 2.37016 0.61958 0.77255 0.56625 0.83852\n- 3 2.67291 4.73264 3.05436 2.61805 4.17697 3.36892 3.70562 3.48342 1.65672 3.13852 4.02090 3.06135 3.86031 2.87884 2.59081 2.74026 2.13637 3.16598 5.37303 4.10769 3 k - - -\n- 2.68621 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29325 2.67744 2.69358 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77485 2.98522 4.58480 3.61506\n- 0.33100 1.30140 4.64154 0.23258 1.57257 0.39783 1.11406\n- 4 3.28399 4.60040 4.92195 4.35228 3.13531 4.56260 4.87958 1.66762 4.21548 1.15244 2.10385 4.59203 4.74882 4.31759 4.32511 3.90666 3.50545 2.18542 5.19552 4.13465 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08476 4.80711 0.61958 0.77255 0.48576 0.95510\n- 5 2.66446 5.02250 2.48201 2.34177 4.35694 3.36828 3.63277 3.80141 1.75077 3.34012 4.12890 2.87825 3.12880 2.76048 2.84340 2.64878 2.55243 3.41700 5.51686 4.14329 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08476 4.80711 0.61958 0.77255 0.48576 0.95510\n- 6 3.15560 4.45525 4.90780 4.41866 3.61038 4.52687 5.12488 1.11161 4.30635 2.09396 3.40793 4.62639 4.83118 4.56524 4.49512 3.92384 3.42259 1.28720 5.60399 4.40194 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08476 4.80711 0.61958 0.77255 0.48576 0.95510\n- 7 2.67373 5.01432 2.86456 2.16421 4.32109 3.41053 3.04592 3.75936 1.86525 3.29348 4.08470 2.90686 3.82351 2.7357'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02722 4.01312 4.73547 0.61958 0.77255 0.56093 0.84555\n- 1603 2.62849 4.86835 2.69131 2.11105 4.27123 3.29295 3.69417 3.70429 2.51941 3.28689 4.10169 2.44275 3.79833 2.84940 2.98202 1.95376 2.51580 3.32979 5.50020 4.14254 1827 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02722 4.01312 4.73547 0.61958 0.77255 0.56093 0.84555\n- 1604 1.89546 4.29987 3.29978 3.04989 4.23088 3.05880 4.17524 3.54720 3.10790 3.28564 4.19697 3.29668 1.39266 3.44466 3.42193 2.53669 2.82867 3.11458 5.58788 4.36078 1828 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02722 4.01312 4.73547 0.61958 0.77255 0.56093 0.84555\n- 1605 3.57905 4.90198 4.31255 4.05474 2.82336 3.89302 4.08314 3.61058 3.77489 2.98036 4.23757 4.17585 4.42290 4.15523 3.87787 3.78133 3.88700 3.50477 0.64379 2.81842 1829 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02722 4.01312 4.73547 0.61958 0.77255 0.56093 0.84555\n- 1606 2.36242 4.62262 3.09044 2.57898 3.63059 3.45443 3.04264 3.23454 2.52078 2.87270 3.73579 2.25715 3.86251 2.89963 2.92201 2.70797 2.85782 2.95658 3.44397 3.64487 1830 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10996 4.01312 2.45277 0.61958 0.77255 0.56093 0.84555\n- 1607 2.27870 4.74523 2.94455 2.51237 4.19564 3.32467 3.67929 3.57572 1.73671 3.18103 4.02066 2.98485 2.93016 2.84091 2.70583 2.66181 2.89147 3.22486 5.39522 4.09923 1831 k - - -\n- 2.68601 4.42245 2.77539 2.73066 3.46294 2.40533 3.72461 3.29339 2.67743 2.69375 4.24710 2.90366 2.73759 3.18135 2.89821 2.37894 2.77539 2.98489 4.58497 3.61478\n- 0.34450 1.63226 2.34410 1.73098 0.19493 0.63357 0.75651\n- 1608 2.69182 4.99656 2.43305 1.94029 4.34773 3.22959 3.65365 3.80126 2.49527 3.36590 4.19782 2.11311 2.88114 2.81487 2.95921 2.66923 2.96724 3.42654 5.55578 4.17026 1840 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03238 3.84231 4.56466 0.61958 0.77255 0.70337 0.68303\n- 1609 2.71140 5.01466 2.48808 1.82512 4.33167 3.26815 3.63150 3.77762 2.41407 3.33328 4.16706 2.78806 3.78344 2.34861 2.84475 2.30653 2.97075 3.41579 5.52002 4.14862 1841 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03238 3.84231 4.56466 0.61958 0.77255 0.70337 0.68303\n- 1610 2.92720 5.03089 2.47624 1.06906 4.37346 3.25522 3.83998 3.82139 2.71677 3.44357 4.41940 2.91710 3.85851 3.05657 3.12213 2.91296 3.23136 3.50852 5.55075 4.27350 1842 e - - -\n- 2.68670 4.42277 2.77472 2.73100 3.46406 2.40510 3.72547 3.29307 2.67685 2.69407 4.24568 2.90375 2.73772 3.18199 2.89762 2.37898 2.77492 2.98444 4.58529 3.61555\n- 0.24364 1.53140 * 2.61477 0.07600 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/recD_IV-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/recD_IV-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2311 +0,0 @@\n-HMMER3/f [3.2 | June 2018]\n-NAME recD_IV-D_1\n-LENG 763\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 31 16:35:29 2019\n-NSEQ 8\n-EFFN 1.050781\n-CKSUM 2842965544\n-STATS LOCAL MSV -12.1851 0.69634\n-STATS LOCAL VITERBI -13.3411 0.69634\n-STATS LOCAL FORWARD -6.7193 0.69634\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58006 4.58540 2.94107 2.60449 3.41259 2.89896 3.78637 2.63865 2.62033 2.42942 3.67750 3.00017 3.48544 3.06600 2.87806 2.71308 2.85636 2.63063 4.90566 3.42835\n- 2.68625 4.42232 2.77526 2.73130 3.46360 2.40519 3.72501 3.29361 2.67698 2.69361 4.24462 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58483 3.61510\n- 0.61250 1.64580 1.32748 0.67049 0.71633 0.00000 *\n- 1 2.66889 4.72015 1.94243 2.48731 3.85933 3.38082 3.75206 3.16331 2.63995 2.82672 2.54007 2.99459 3.86225 2.95648 3.08102 2.73900 2.93480 2.92788 5.27416 3.93335 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02996 3.91878 4.64113 0.61958 0.77255 0.59883 0.79730\n- 2 2.55303 4.56519 3.06475 2.60923 3.89099 3.34715 3.75398 3.29279 2.59804 2.95828 2.85472 2.14967 3.83133 2.96220 3.00177 2.13781 2.83992 2.98582 5.23511 3.93058 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02665 4.03413 4.75648 0.61958 0.77255 0.38057 1.15033\n- 3 2.65240 4.15388 4.00412 3.42360 3.15889 3.73529 3.29242 2.55724 3.30563 1.93435 2.36442 3.66852 4.10033 3.54690 3.51614 3.01733 2.88369 2.02935 4.69841 2.80080 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21717 4.93951 0.61958 0.77255 0.48576 0.95510\n- 4 2.68126 5.09921 2.17545 2.01263 4.40834 3.39286 3.64844 3.87006 2.43681 3.39569 4.16942 2.60434 3.82754 2.76834 2.93326 2.43187 2.51232 3.01150 5.56797 4.17082 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21717 4.93951 0.61958 0.77255 0.48576 0.95510\n- 5 2.85525 4.24437 4.50398 3.93179 2.64197 4.02070 4.24263 1.53391 3.78645 2.07869 3.20138 4.05468 4.35456 3.95351 3.90076 3.33172 3.08787 1.89904 4.71993 2.52347 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21717 4.93951 0.61958 0.77255 0.48576 0.95510\n- 6 2.52070 4.60321 3.06838 2.71720 4.36339 3.22928 3.95737 3.79746 2.81281 3.41781 4.23105 2.08751 3.84051 3.14110 3.23291 1.59792 2.17776 3.34591 5.63282 4.32548 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21717 4.93951 0.61958 0.77255 0.48576 0.95510\n- 7 3.15224 4.87890 3.89529 3.84500 4.95340 0.35222 4.92983 4.65113 4.07232 4.25616 5.24467 4.06129 4.27957 4.36984 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08620 4.21717 2.69050 0.61958 0.77255 0.48576 0.95510\n- 756 2.77582 5.02926 2.85823 2.48134 4.42914 3.42479 3.71730 3.86378 1.81288 3.40389 4.22387 2.58911 2.01537 2.86215 2.74113 2.77671 3.03136 3.49112 5.55993 4.23298 809 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02359 4.15456 4.87690 0.61958 0.77255 0.56108 0.84535\n- 757 2.17852 4.38665 3.61659 3.06337 3.58576 3.62019 3.95447 1.79777 2.84481 2.54899 3.52362 3.43357 4.04201 3.26773 2.41999 2.91814 2.93382 2.48206 5.06124 3.83366 810 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09016 4.15456 2.65176 0.61958 0.77255 0.56108 0.84535\n- 758 2.78795 4.81625 3.31304 2.70776 4.09644 3.57153 3.68266 3.41249 1.71400 3.04899 3.92298 3.15413 3.95703 2.85307 2.13528 2.85593 3.00229 2.21018 5.29081 4.04522 811 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02519 4.08959 4.81193 0.61958 0.77255 0.62933 0.76131\n- 759 2.60646 4.47062 2.64683 2.72438 3.66625 2.99320 3.80342 2.91374 2.73940 2.08674 3.60044 3.17833 3.91424 3.05916 3.14007 2.76410 2.85749 2.21069 5.08843 3.81819 812 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02519 4.08959 4.81193 0.61958 0.77255 0.40544 1.09867\n- 760 2.78296 4.29045 2.98808 3.46824 3.37716 3.89481 4.20215 1.82720 3.38988 1.89063 2.85106 3.77732 4.24563 3.64737 3.65205 3.17639 3.01737 1.82737 4.98789 3.79114 813 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21717 4.93951 0.61958 0.77255 0.48576 0.95510\n- 761 2.62413 4.68028 3.08419 2.60642 3.99022 3.42594 3.77176 3.37152 2.60107 2.41510 3.87863 2.01813 2.79562 2.96119 3.02225 2.70688 2.58871 3.06523 5.31168 4.00663 814 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21717 4.93951 0.61958 0.77255 0.48576 0.95510\n- 762 2.78036 5.26105 2.40170 2.31594 4.58878 3.40260 3.67742 4.06512 2.03786 3.55050 4.32648 2.30685 3.86588 1.88140 2.89956 2.72743 3.01985 3.64761 5.68730 4.27998 815 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32835 4.21717 1.32748 0.61958 0.77255 0.48576 0.95510\n- 763 2.52742 4.46582 3.03768 2.66160 3.78455 2.34922 3.79000 3.19064 2.66795 2.16796 3.78195 2.60527 3.81907 3.03762 3.03853 2.65611 2.83761 2.89613 5.16961 3.86442 816 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02026 3.90909 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/tm_4_VI-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/tm_4_VI-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,698 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME tm_4_VI-B_1\n-LENG 225\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:09 2020\n-NSEQ 16\n-EFFN 0.917969\n-CKSUM 2383397013\n-GA 137 136;\n-STATS LOCAL MSV -10.7131 0.70398\n-STATS LOCAL VITERBI -11.7425 0.70398\n-STATS LOCAL FORWARD -4.5051 0.70398\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62837 4.31800 3.20822 2.84147 2.90926 3.17454 3.79921 2.51049 2.76111 2.18453 3.42700 3.19606 3.77070 3.19077 3.12181 2.74379 2.96367 2.49725 4.41128 3.03773\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05350 4.14414 3.31774 0.61958 0.77255 0.00000 *\n- 1 3.17815 4.69208 4.31992 3.93860 3.33862 4.02089 4.61771 2.53964 3.69151 1.90234 0.97851 4.18403 4.48866 4.06063 3.86691 3.54945 3.49132 2.57266 5.20777 3.98797 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02455 4.11519 4.83754 0.61958 0.77255 0.51938 0.90359\n- 2 2.97327 5.58946 1.68745 1.40463 4.87540 3.27993 3.79260 4.40483 2.78648 3.87908 4.70921 2.22729 3.88615 2.94854 3.38271 2.85421 3.25402 3.96101 6.02948 4.51404 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02455 4.11519 4.83754 0.61958 0.77255 0.51938 0.90359\n- 3 3.14046 5.24965 3.54884 2.87461 4.72683 3.73598 3.66832 4.07016 1.07149 3.49477 4.36944 3.26878 4.10393 2.80203 1.77506 3.13106 3.30168 3.75039 5.51794 4.36260 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02455 4.11519 4.83754 0.61958 0.77255 0.51938 0.90359\n- 4 3.40185 4.72720 4.83350 4.34774 1.60153 4.50630 4.38074 2.42916 4.19668 1.09844 3.05023 4.46207 4.74086 4.26901 4.28338 3.87651 3.62913 2.55274 4.59595 3.10954 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02455 4.11519 4.83754 0.61958 0.77255 0.51938 0.90359\n- 5 2.45204 4.37195 3.43715 3.27154 4.32883 3.09830 4.37085 3.88804 3.36213 3.59176 4.50172 3.45165 3.85862 3.69326 3.63545 0.77612 2.95166 3.36868 5.68289 4.41577 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02455 4.11519 4.83754 0.61958 0.77255 0.51938 0.90359\n- 6 3.36225 4.66647 4.99431 4.43650 2.68496 4.63347 4.87182 1.80712 4.30843 0.90844 2.92207 4.66046 4.80327 4.37409 4.40104 3.98481 3.58195 2.26866 5.12531 3.97278 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02455 4.11519 4.83754 0.61958 0.77255 0.51938 0.90359\n- 7 3.61648 5.00627 4.20589 3.98685 2.34570 4.12020 3.75996 3.59419 3.83794 2.98366 4.24489 4.03544 4.591'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02384 4.14414 4.86649 0.61958 0.77255 0.48576 0.95510\n- 218 2.43179 5.16357 2.20452 1.89333 4.51023 3.33128 3.71447 3.97690 2.57527 3.50996 4.30694 2.83546 3.84292 2.85338 3.09267 1.84061 3.01750 3.57323 5.69039 4.27413 237 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02384 4.14414 4.86649 0.61958 0.77255 0.48576 0.95510\n- 219 2.90418 4.45645 4.03935 3.45585 3.29726 3.94187 4.18335 2.21174 3.15116 1.24473 3.20850 3.78223 4.28196 3.56347 2.70074 3.24446 3.13446 2.42394 5.00469 3.80922 238 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02384 4.14414 4.86649 0.61958 0.77255 0.48576 0.95510\n- 220 2.88972 4.33341 4.37569 3.84563 3.57075 4.05962 4.57250 1.45611 3.74236 2.28931 3.44165 4.08980 4.45188 4.01817 3.97762 3.40162 2.08781 1.57348 5.29646 4.09247 239 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02384 4.14414 4.86649 0.61958 0.77255 0.48576 0.95510\n- 221 2.91124 5.23212 2.59844 1.63191 4.35849 3.41657 1.82817 3.99567 2.53331 3.51908 4.37027 2.92281 3.93549 2.92950 2.94789 2.86899 3.16344 3.63583 5.58069 4.16381 240 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11580 4.14414 2.36994 0.61958 0.77255 0.48576 0.95510\n- 222 2.77512 5.18166 2.61260 2.08117 4.48023 3.36979 3.26636 3.94963 2.37919 3.45714 4.25959 2.35549 3.84368 1.86482 2.80990 2.73018 3.01335 3.56305 5.60192 4.21777 241 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02611 4.05445 4.77680 0.61958 0.77255 0.58360 0.81618\n- 223 2.75010 5.08155 2.72491 1.72435 4.41357 3.39059 3.65054 3.83099 1.93963 3.37378 4.18644 2.89423 3.85042 2.78686 2.74936 2.72787 2.50768 3.46395 5.54424 4.19195 242 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02611 4.05445 4.77680 0.61958 0.77255 0.58360 0.81618\n- 224 2.85338 5.10685 2.71352 2.44174 4.47657 3.39614 3.72160 3.94810 1.85299 3.48054 4.32771 1.60263 3.90900 2.87894 2.69906 2.83614 3.11285 3.57862 5.59007 4.25451 243 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18212 4.05445 1.90278 0.61958 0.77255 0.58360 0.81618\n- 225 2.62956 4.81470 2.73903 2.40871 4.25079 3.27880 3.67341 3.68796 2.05457 3.26559 4.09558 2.48203 3.79294 2.83626 2.78369 1.94979 2.91377 3.31692 5.45070 4.12160 244 s - - -\n- 2.68625 4.42232 2.77526 2.73130 3.46361 2.40520 3.72501 3.29361 2.67731 2.69326 4.24697 2.90289 2.73747 3.18153 2.89808 2.37894 2.77526 2.98525 4.58484 3.61510\n- 0.33059 1.26763 * 0.67139 0.71538 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/tm_HEPN_VI-B_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/CasFinder/profiles/tm_HEPN_VI-B_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,572 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME tm_HEPN_VI-B_1\n-LENG 183\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 19 17:47:09 2020\n-NSEQ 49\n-EFFN 1.049744\n-CKSUM 341066308\n-GA 250 250;\n-STATS LOCAL MSV -10.1955 0.70646\n-STATS LOCAL VITERBI -11.0588 0.70646\n-STATS LOCAL FORWARD -4.8943 0.70646\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60154 4.48047 3.11519 2.59432 3.15840 3.15679 3.71569 2.68376 2.53692 2.32611 3.60141 3.04883 3.81771 3.02094 2.84566 2.74094 2.92532 2.69707 4.62541 3.16837\n- 2.68625 4.42232 2.77498 2.73117 3.46361 2.40500 3.72501 3.29361 2.67748 2.69362 4.24510 2.90354 2.73746 3.18153 2.89808 2.37894 2.77526 2.98525 4.58484 3.61510\n- 0.67128 1.38881 1.42889 0.51333 0.91255 0.00000 *\n- 1 2.48781 2.50132 3.73216 3.19652 3.39627 3.43426 3.98364 2.63342 3.08452 2.39525 2.64177 3.46471 2.79797 3.38700 3.35918 2.76784 2.79266 2.42288 4.90886 3.69447 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02896 3.95212 4.67446 0.61958 0.77255 0.65991 0.72752\n- 2 2.18605 4.33606 3.36720 2.82831 3.57273 3.44717 3.81520 2.79571 2.77135 2.61343 2.60846 2.88186 3.88615 3.10328 3.13577 2.72490 2.35762 2.61379 5.00290 3.75799 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00761 4.72996 0.61958 0.77255 0.70327 0.68313\n- 3 2.60105 4.75380 2.68543 2.44133 4.00893 3.39543 3.63971 3.40066 2.14238 2.61903 3.85792 2.95233 3.81248 2.80298 2.86896 2.56569 2.29249 3.08795 5.28375 3.96068 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02737 4.00761 4.72996 0.61958 0.77255 0.67336 0.71334\n- 4 2.60803 3.50125 2.83642 3.04796 3.37901 3.62232 3.91423 2.19347 2.99045 2.36555 2.45347 3.42063 4.00429 3.28316 3.31462 2.88702 2.84670 2.34474 4.88723 3.66325 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02689 4.02533 4.74767 0.61958 0.77255 0.68813 0.69819\n- 5 2.57504 4.64297 3.07171 2.57603 4.01932 3.36175 3.71163 3.39587 2.11515 2.90198 3.88240 3.04181 3.82760 2.89121 2.84838 2.11602 2.18828 3.07295 5.29805 4.00520 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08690 4.02533 2.72761 0.61958 0.77255 0.44058 1.03187\n- 6 2.61273 4.37397 3.42035 2.85494 3.51312 3.56519 3.80528 2.29289 2.43883 2.55088 2.59713 3.27406 3.04425 2.98778 3.10017 2.81413 2.84402 2.62960 4.94921 3.71118 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02429 4.12582 4.84816 0.61958 0.77255 0.59176 0.80599\n- 7 2.59585 2.90882 2.84261 2.41921 3.60692 3.51116 3.75023 2.98512 2.68485 2.34884 3.55621 3.16405 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02215 4.21662 4.93896 0.61958 0.77255 0.48576 0.95510\n- 176 2.70950 5.04620 3.00056 2.19035 4.35634 3.47491 3.20774 3.78998 1.72849 3.31583 3.12296 2.96795 3.86566 2.44379 2.68738 2.69970 2.93146 3.42076 5.47796 4.13613 178 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02215 4.21662 4.93896 0.61958 0.77255 0.48576 0.95510\n- 177 2.75269 5.04081 3.08145 2.48875 4.35716 3.05507 3.64145 3.77422 1.86582 2.71372 4.10522 3.01544 3.89932 2.05443 2.42202 2.75040 2.96876 3.41967 5.46298 4.14785 179 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04082 4.21662 3.67908 0.61958 0.77255 0.48576 0.95510\n- 178 3.15636 5.24639 3.52976 2.90650 4.65781 3.75118 3.72724 4.06275 2.00753 3.49466 4.38377 3.30476 4.13787 2.25649 1.07651 3.15670 3.33208 3.75013 5.53470 4.35311 180 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02257 4.19837 4.92071 0.61958 0.77255 0.50879 0.91935\n- 179 2.76883 5.20407 1.75474 2.30122 4.52831 3.37163 3.70415 3.99622 2.16578 3.51631 4.30558 2.65388 3.85955 2.83537 3.02303 2.72490 2.26877 3.59272 5.68375 4.27152 181 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02257 4.19837 4.92071 0.61958 0.77255 0.50879 0.91935\n- 180 2.75553 4.42827 3.83642 3.43105 3.45510 3.63165 4.23110 2.72790 3.28212 1.12454 3.50710 3.69261 4.16188 3.64630 3.52659 2.34728 3.08605 2.59404 5.09636 3.80969 182 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02257 4.19837 4.92071 0.61958 0.77255 0.50879 0.91935\n- 181 2.62984 4.50272 2.93860 2.15012 4.28751 3.42238 3.39929 3.73400 2.13979 2.99506 4.04908 2.36436 3.81367 2.59353 2.62042 2.62144 2.85932 3.35678 5.45329 3.65493 183 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02257 4.19837 4.92071 0.61958 0.77255 0.50879 0.91935\n- 182 2.31853 4.18663 3.99088 3.42665 1.93832 3.74651 4.03459 2.16826 3.32210 2.19427 3.27004 3.29100 4.12431 3.56937 3.54655 3.03680 2.91287 2.31919 4.74737 3.48853 184 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25054 4.19837 1.57697 0.61958 0.77255 0.50879 0.91935\n- 183 2.58160 4.82034 2.35487 2.37435 4.06715 3.37921 3.28123 3.49439 2.31099 2.84293 3.42259 2.81600 3.78181 2.73986 2.84771 2.43377 2.81457 3.16031 5.31226 3.96619 185 k - - -\n- 2.68624 4.42231 2.77498 2.73125 3.46360 2.40519 3.72501 3.29360 2.67734 2.69335 4.24696 2.90337 2.73746 3.18152 2.89807 2.37884 2.77526 2.98524 4.58483 3.61509\n- 0.28751 1.38681 * 0.62112 0.77077 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/.gitignore
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/.gitignore Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,2 +0,0 @@
-*.tar.gz
-Icon*
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/DefenseFinder_rules.tsv
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/DefenseFinder_rules.tsv Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,230 +0,0 @@\n-System\tSubsystem\tMandatory\tAccessory\tNeutral\tForbidden\r\n-Cas\tCAS_Class1-Subtype-I-A\tCas__cas4_I-A_1, Cas__cas4_I-A_2, Cas__cas5_I-A_12, Cas__cas5_I-A_15, Cas__cas5_I-A_4, Cas__cas5a_I-A_1, Cas__cas7_I-A_1, Cas__cas7_I-A_2, Cas__cas8a1_I-A_1, Cas__cas8a1_I-A_2, Cas__cas8a1_I-A_3, Cas__cas8a1_I-A_4, Cas__cas8a1_I-A_5, Cas__cas8a2_I-A_1, Cas__cas8a2_I-A_2, Cas__cas8a2_I-A_3, Cas__cas8a2_I-A_4, Cas__cas8a2_I-A_5, Cas__cas8a2_I-A_6, Cas__cas8a3_I-A_1, Cas__cas8a3_I-A_2, Cas__cas8a3_I-A_3, Cas__cas8a3_I-A_4, Cas__cas8a4_I-A_1, Cas__cas8a5_I-A_1, Cas__cas8a6_I-A_1, Cas__cas8a7_I-A_1, Cas__cas8a8_I-A_1, Cas__cas8a9_I-A_1, Cas__csa5gr11_I-A_10, Cas__csa5gr11_I-A_11, Cas__csa5gr11_I-A_12, Cas__csa5gr11_I-A_13, Cas__csa5gr11_I-A_3, Cas__csa5gr11_I-A_4, Cas__csa5gr11_I-A_5, Cas__csa5gr11_I-A_6, Cas__csa5gr11_I-A_7, Cas__csa5gr11_I-A_8, Cas__csa5gr11_I-A_9\tCas__cas1_I_II_III_IV_V_VI_1, Cas__cas1_I_II_III_IV_V_VI_10, Cas__cas1_I_II_III_IV_V_VI_2, Cas__cas1_I_II_III_IV_V_VI_7, Cas__cas1_I_II_III_IV_V_VI_8, Cas__cas2_I_II_III_IV_V_VI_13, Cas__cas2_I_II_III_IV_V_VI_3, Cas__cas2_I_II_III_IV_V_VI_5, Cas__cas2_I_II_III_IV_V_VI_9, Cas__cas3HD_I_1, Cas__cas3HD_I_2, Cas__cas3HD_I_3, Cas__cas3_I_2, Cas__cas3_I_5, Cas__cas4_I_II_III_IV_V_VI_1, Cas__cas4_I_II_III_IV_V_VI_4, Cas__cas4_I_II_III_IV_V_VI_6, Cas__cas4_I_II_III_IV_V_VI_7, Cas__cas5_I-A_1, Cas__cas5_I_9, Cas__cas6_I-A_III-D_3, Cas__cas6_I_II_III_IV_V_VI_10, Cas__cas6_I_II_III_IV_V_VI_12, Cas__cas6_I_II_III_IV_V_VI_13, Cas__cas6_I_II_III_IV_V_VI_14, Cas__cas6_I_II_III_IV_V_VI_15, Cas__cas6_I_II_III_IV_V_VI_17, Cas__cas6_I_II_III_IV_V_VI_20, Cas__cas6_I_II_III_IV_V_VI_22, Cas__cas6_I_II_III_IV_V_VI_7, Cas__cas7_I_15\tCas__DEDDh_I_II_III_IV_V_VI_1, Cas__PD_DExK_I_II_III_IV_V_VI_4, Cas__PEPT_D_III-A_1, Cas__WYL_I_II_III_IV_V_VI_1, Cas__WYL_I_II_III_IV_V_VI_4, Cas__casR_I_1, Cas__casR_I_2, Cas__csm6_III_6\t\r\n-Cas\tCAS_Class1-Subtype-I-B\tCas__cas5_I-B_1, Cas__cas5_I-B_10, Cas__cas5_I-B_14, Cas__cas5_I-B_17, Cas__cas5_I-B_19, Cas__cas5_I-B_2, Cas__cas5_I-B_20, Cas__cas5_I-B_22, Cas__cas5_I-B_6, Cas__cas5_I-B_7, Cas__cas5_I-B_8, Cas__cas7_I-B_1, Cas__cas7_I-B_10, Cas__cas7_I-B_14, Cas__cas7_I-B_6, Cas__cas7_I-B_8, Cas__cas7b_I-B_1, Cas__cas8b10_I-B_1, Cas__cas8b11_I-B_1, Cas__cas8b12_I-B_1, Cas__cas8b13_I-B_1, Cas__cas8b1_I-B_1, Cas__cas8b1_I-B_10, Cas__cas8b1_I-B_11, Cas__cas8b1_I-B_12, Cas__cas8b1_I-B_13, Cas__cas8b1_I-B_14, Cas__cas8b1_I-B_2, Cas__cas8b1_I-B_3, Cas__cas8b1_I-B_4, Cas__cas8b1_I-B_5, Cas__cas8b1_I-B_7, Cas__cas8b1_I-B_8, Cas__cas8b1_I-B_9, Cas__cas8b2_I-B_1, Cas__cas8b2_I-B_2, Cas__cas8b2_I-B_3, Cas__cas8b2_I-B_4, Cas__cas8b2_I-B_5, Cas__cas8b2_I-B_6, Cas__cas8b2_I-B_7, Cas__cas8b2_I-B_8, Cas__cas8b2_I-B_9, Cas__cas8b3_I-B_1, Cas__cas8b3_I-B_3, Cas__cas8b4_I-B_1, Cas__cas8b5_I-B_1, Cas__cas8b6_I-B_1, Cas__cas8b7_I-B_1, Cas__cas8b8_I-B_1, Cas__cas8b9_I-B_1\tCas__cas11b_I-B_1, Cas__cas11b_I-B_2, Cas__cas11b_I-B_3, Cas__cas1_I_II_III_IV_V_VI_1, Cas__cas1_I_II_III_IV_V_VI_10, Cas__cas1_I_II_III_IV_V_VI_2, Cas__cas1_I_II_III_IV_V_VI_7, Cas__cas1_I_II_III_IV_V_VI_8, Cas__cas2_I_II_III_IV_V_VI_1, Cas__cas2_I_II_III_IV_V_VI_13, Cas__cas2_I_II_III_IV_V_VI_3, Cas__cas2_I_II_III_IV_V_VI_5, Cas__cas2_I_II_III_IV_V_VI_9, Cas__cas3HD_I_1, Cas__cas3HD_I_3, Cas__cas3_I_2, Cas__cas3_I_5, Cas__cas3_I_7, Cas__cas4_I_II_III_IV_V_VI_1, Cas__cas4_I_II_III_IV_V_VI_4, Cas__cas4_I_II_III_IV_V_VI_6, Cas__cas4_I_II_III_IV_V_VI_7, Cas__cas5_I_9, Cas__cas6_I-B_III_1, Cas__cas6_I-B_III_2, Cas__cas6_I_II_III_IV_V_VI_10, Cas__cas6_I_II_III_IV_V_VI_11, Cas__cas6_I_II_III_IV_V_VI_12, Cas__cas6_I_II_III_IV_V_VI_13, Cas__cas6_I_II_III_IV_V_VI_14, Cas__cas6_I_II_III_IV_V_VI_15, Cas__cas6_I_II_III_IV_V_VI_17, Cas__cas6_I_II_III_IV_V_VI_20, Cas__cas6_I_II_III_IV_V_VI_21, Cas__cas6_I_II_III_IV_V_VI_22, Cas__cas6_I_II_III_IV_V_VI_7, Cas__cas7_I_15, Cas__cas7b_I-B_I-C_2\tCas__PD_DExK_I_II_III_IV_V_VI_1, Cas__PD_DExK_I_II_III_IV_V_VI_4, Cas__PrimPol_I_II_III_IV_V_VI_1, Cas__RT_I_II_III_IV_V_VI_1, Cas__TniQ_I-F'..b'TM_new, CBASS__2TM_type_IV, CBASS__4TM_new, CBASS__A_Cyclase_AGS_C, CBASS__Cyclase_II, CBASS__Cyclase_SMODS, CBASS__Cyclase_new, CBASS__Effector_2TM_SUa-2TM, CBASS__Effector_2TM_S_2TMBeta, CBASS__Effector_2TM_Sa_NUDIX, CBASS__Effector_2TM_Saf_2TM, CBASS__Effector_4TM_S_4TM, CBASS__Effector_TIR, CBASS__Endonuc_big, CBASS__Endonuc_small, CBASS__HORMA, CBASS__Phospholipase, CBASS__Sensing_SAVED, CBASS__Sensing_TPALS, CBASS__TRIP13, CBASS__bacHORMA_1, CBASS__bacHORMA_2\t\tCBASS__OGG, CBASS__QueC, CBASS__TGT\t\r\n-CBASS\tCBASS_IV\tCBASS__1TM_new, CBASS__2TM_5, CBASS__2TM_Gros, CBASS__2TM_new, CBASS__2TM_type_IV, CBASS__4TM_new, CBASS__A_Cyclase_AGS_C, CBASS__Cyclase_II, CBASS__Cyclase_SMODS, CBASS__Cyclase_new, CBASS__Effector_2TM_SUa-2TM, CBASS__Effector_2TM_S_2TMBeta, CBASS__Effector_2TM_Sa_NUDIX, CBASS__Effector_2TM_Saf_2TM, CBASS__Effector_4TM_S_4TM, CBASS__Effector_TIR, CBASS__Endonuc_big, CBASS__Endonuc_small, CBASS__OGG, CBASS__Phospholipase, CBASS__QueC, CBASS__Sensing_SAVED, CBASS__Sensing_TPALS, CBASS__TGT\t\t\t\r\n-Dazbog\tDazbog\tDazbog__DzbA, Dazbog__DzbB\t\t\t\r\n-Dynamins\tDynamins\tDynamins__LeoA, Dynamins__LeoA2, Dynamins__LeoB, Dynamins__LeoBC, Dynamins__LeoC\t\t\t\r\n-Olokun\tOlokun\tOlokun__OloA, Olokun__OloB\t\t\t\r\n-PfiAT\tPfiAT\tPfiAT__PfiA, PfiAT__PfiT\t\t\t\r\n-Pycsar\tPycsar\tPycsar__AG_cyclase\tCBASS__1TM_new, CBASS__2TM_5, CBASS__2TM_Gros, CBASS__2TM_new, CBASS__2TM_type_IV, CBASS__4TM_new, CBASS__Effector_2TM_SUa-2TM, CBASS__Effector_2TM_S_2TMBeta, CBASS__Effector_2TM_Sa_NUDIX, CBASS__Effector_2TM_Saf_2TM, CBASS__Effector_4TM_S_4TM, CBASS__Effector_TIR, CBASS__Endonuc_big, CBASS__Endonuc_small, CBASS__Phospholipase, CBASS__Sensing_SAVED, CBASS__Sensing_TPALS\tCBASS__AG_E1_ThiF, CBASS__AG_E2_Prok-E2_B, CBASS__E2, CBASS__E2_II, CBASS__HORMA, CBASS__Jab, CBASS__OGG, CBASS__QueC, CBASS__TGT, CBASS__TRIP13, CBASS__bacHORMA_1, CBASS__bacHORMA_2\t\r\n-Retron\tRetron_II\tRetron_II__NDT, Retron_II__NDT2, Retron__RT_Tot\t\t\t\r\n-Retron\tRetron_III\tRetron_III__PRTase, Retron_III__PRTase_WH, Retron__RT_Tot\tRetron_III__WH\t\t\r\n-Retron\tRetron_IV\tRetron_IV__2TM, Retron__RT_Tot\t\t\t\r\n-Retron\tRetron_IX\tRetron__RT_Tot\tRetron_IX__HEPN, Retron_IX__WHDNAB_E2F_TDP\t\t\r\n-Retron\tRetron_I_A\tRetron__RT_Tot\tRetron_I_A__ATPase_TypeIA, Retron_I_A__HNH_TIGR02646, Septu__PtuA, Septu__PtuB\t\t\r\n-Retron\tRetron_I_B\tRetron__RT_Tot\tRetron_I_B__ATPase_TOPRIM_COG3593\t\t\r\n-Retron\tRetron_I_C\tRetron_I_C__RT_1_C1, Retron_I_C__RT_1_C2, Retron_I_C__RT_1_C3\t\t\t\r\n-Retron\tRetron_V\tRetron_V__CSD, Retron__RT_Tot\t\t\t\r\n-Retron\tRetron_VI\tRetron_VI__HTH, Retron__RT_Tot\t\t\t\r\n-Retron\tRetron_VIII\tRetron_VIII__DUF626, Retron__RT_Tot\t\t\t\r\n-Retron\tRetron_VII_1\tRetron_VII_1__RT_7_A1\t\t\t\r\n-Retron\tRetron_VII_2\tRetron_VII_2__DUF3800, Retron__RT_Tot\t\t\t\r\n-Retron\tRetron_X\tRetron_X__VHL, Retron__RT_Tot\t\t\t\r\n-Retron\tRetron_XI\tRetron_XI__RT_11\t\t\t\r\n-Retron\tRetron_XII\tRetron_XII__RT_12\t\t\t\r\n-Retron\tRetron_XIII\tRetron__RT_Tot\tRetron_XIII__ARM, Retron_XIII__WHSWIM\t\t\r\n-RnlAB\tRnlAB\tRnlAB__RnlA, RnlAB__RnlB\t\t\t\r\n-SEFIR\tSEFIR\tSEFIR__bSEFIR\t\t\t\r\n-SanaTA\tSanaTA\tSanaTA__SanaA, SanaTA__SanaT\t\t\t\r\n-SoFIC\tSoFic\tSoFic__SoFic\t\t\t\r\n-Tiamat\tTiamat\tTiamat__TmtA, Tiamat__TmtA_2505168307, Tiamat__TmtA_2599863134, Tiamat__TmtA_2639564464, Tiamat__TmtA_2660206627, Tiamat__TmtA_2731770353, Tiamat__TmtA_2731874159, Tiamat__TmtA_2734769103, Tiamat__TmtA_2752664533\t\t\t\r\n-Uzume\tUzume\tUzume__UzuA, Uzume__UzuA_2660320622, Uzume__UzuA_2712538620\t\t\t\r\n-pAgo\tpAgo\tpAgo__COG1431_pAgo, pAgo__pAgo_LongA, pAgo__pAgo_LongB, pAgo__pAgo_Short\t\t\t\r\n-PD-Lambda-5\tPD-Lambda-5\tPD-Lambda-5__PD-Lambda-5_A, PD-Lambda-5__PD-Lambda-5_B\t\t\t\r\n-PrrC\tPrrC\tPrrC__EcoprrI, PrrC__PrrC, RM__Type_I_MTases\tRM__Type_I_REases, RM__Type_I_S\t\t\r\n-RM\tRM_Type_I\tRM__Type_I_MTases, RM__Type_I_REases\tRM__Type_I_S\t\t\r\n-RM\tRM_Type_II\tRM_Type_II__Type_II_MTases, RM_Type_II__Type_II_REases\t\t\t\r\n-RM\tRM_Type_IIG\tRM_Type_IIG__Type_IIG\t\t\tBREX__pglZ2, BREX__pglZ3, BREX__pglZA, BREX__pglZB, DISARM__drmB\r\n-RM\tRM_Type_III\tRM_Type_III__Type_III_MTases, RM_Type_III__Type_III_REases\t\t\t\r\n-RM\tRM_Type_IV\tRM_Type_IV__Type_IV_REases\t\t\t\r\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/LICENSE
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/LICENSE Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b"@@ -1,238 +0,0 @@\n-Preamble\n-\n-The GNU General Public License is a free, copyleft license for software and other kinds of works.\n-\n-The licenses for most software and other practical works are designed to take away your freedom to share and change the works. By contrast, the GNU General Public License is intended to guarantee your freedom to share and change all versions of a program--to make sure it remains free software for all its users. We, the Free Software Foundation, use the GNU General Public License for most of our software; it applies also to any other work released this way by its authors. You can apply it to your programs, too.\n-\n-When we speak of free software, we are referring to freedom, not price. Our General Public Licenses are designed to make sure that you have the freedom to distribute copies of free software (and charge for them if you wish), that you receive source code or can get it if you want it, that you can change the software or use pieces of it in new free programs, and that you know you can do these things.\n-\n-To protect your rights, we need to prevent others from denying you these rights or asking you to surrender the rights. Therefore, you have certain responsibilities if you distribute copies of the software, or if you modify it: responsibilities to respect the freedom of others.\n-\n-For example, if you distribute copies of such a program, whether gratis or for a fee, you must pass on to the recipients the same freedoms that you received. You must make sure that they, too, receive or can get the source code. And you must show them these terms so they know their rights.\n-\n-Developers that use the GNU GPL protect your rights with two steps: (1) assert copyright on the software, and (2) offer you this License giving you legal permission to copy, distribute and/or modify it.\n-\n-For the developers' and authors' protection, the GPL clearly explains that there is no warranty for this free software. For both users' and authors' sake, the GPL requires that modified versions be marked as changed, so that their problems will not be attributed erroneously to authors of previous versions.\n-\n-Some devices are designed to deny users access to install or run modified versions of the software inside them, although the manufacturer can do so. This is fundamentally incompatible with the aim of protecting users' freedom to change the software. The systematic pattern of such abuse occurs in the area of products for individuals to use, which is precisely where it is most unacceptable. Therefore, we have designed this version of the GPL to prohibit the practice for those products. If such problems arise substantially in other domains, we stand ready to extend this provision to those domains in future versions of the GPL, as needed to protect the freedom of users.\n-\n-Finally, every program is threatened constantly by software patents. States should not allow patents to restrict development and use of software on general-purpose computers, but in those that do, we wish to avoid the special danger that patents applied to a free program could make it effectively proprietary. To prevent this, the GPL assures that patents cannot be used to render the program non-free.\n-\n-The precise terms and conditions for copying, distribution and modification follow.\n-\n-TERMS AND CONDITIONS\n-0. Definitions.\n-\n-\xe2\x80\x9cThis License\xe2\x80\x9d refers to version 3 of the GNU General Public License.\n-\n-\xe2\x80\x9cCopyright\xe2\x80\x9d also means copyright-like laws that apply to other kinds of works, such as semiconductor masks.\n-\n-\xe2\x80\x9cThe Program\xe2\x80\x9d refers to any copyrightable work licensed under this License. Each licensee is addressed as \xe2\x80\x9cyou\xe2\x80\x9d. \xe2\x80\x9cLicensees\xe2\x80\x9d and \xe2\x80\x9crecipients\xe2\x80\x9d may be individuals or organizations.\n-\n-To \xe2\x80\x9cmodify\xe2\x80\x9d a work means to copy from or adapt all or part of the work in a fashion requiring copyright permission, other than the making of an exact copy. The resulting work is called a \xe2\x80\x9cmodified version\xe2\x80\x9d of the earlier work or a work \xe2\x80\x9cb"..b" PARTICULAR PURPOSE. THE ENTIRE RISK AS TO THE QUALITY AND PERFORMANCE OF THE PROGRAM IS WITH YOU. SHOULD THE PROGRAM PROVE DEFECTIVE, YOU ASSUME THE COST OF ALL NECESSARY SERVICING, REPAIR OR CORRECTION.\n-\n-16. Limitation of Liability.\n-\n-IN NO EVENT UNLESS REQUIRED BY APPLICABLE LAW OR AGREED TO IN WRITING WILL ANY COPYRIGHT HOLDER, OR ANY OTHER PARTY WHO MODIFIES AND/OR CONVEYS THE PROGRAM AS PERMITTED ABOVE, BE LIABLE TO YOU FOR DAMAGES, INCLUDING ANY GENERAL, SPECIAL, INCIDENTAL OR CONSEQUENTIAL DAMAGES ARISING OUT OF THE USE OR INABILITY TO USE THE PROGRAM (INCLUDING BUT NOT LIMITED TO LOSS OF DATA OR DATA BEING RENDERED INACCURATE OR LOSSES SUSTAINED BY YOU OR THIRD PARTIES OR A FAILURE OF THE PROGRAM TO OPERATE WITH ANY OTHER PROGRAMS), EVEN IF SUCH HOLDER OR OTHER PARTY HAS BEEN ADVISED OF THE POSSIBILITY OF SUCH DAMAGES.\n-\n-17. Interpretation of Sections 15 and 16.\n-\n-If the disclaimer of warranty and limitation of liability provided above cannot be given local legal effect according to their terms, reviewing courts shall apply local law that most closely approximates an absolute waiver of all civil liability in connection with the Program, unless a warranty or assumption of liability accompanies a copy of the Program in return for a fee.\n-\n-END OF TERMS AND CONDITIONS\n-\n-How to Apply These Terms to Your New Programs\n-\n-If you develop a new program, and you want it to be of the greatest possible use to the public, the best way to achieve this is to make it free software which everyone can redistribute and change under these terms.\n-\n-To do so, attach the following notices to the program. It is safest to attach them to the start of each source file to most effectively state the exclusion of warranty; and each file should have at least the \xe2\x80\x9ccopyright\xe2\x80\x9d line and a pointer to where the full notice is found.\n-\n- <one line to give the program's name and a brief idea of what it does.>\n- Copyright (C) <year> <name of author>\n-\n- This program is free software: you can redistribute it and/or modify\n- it under the terms of the GNU General Public License as published by\n- the Free Software Foundation, either version 3 of the License, or\n- (at your option) any later version.\n-\n- This program is distributed in the hope that it will be useful,\n- but WITHOUT ANY WARRANTY; without even the implied warranty of\n- MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\n- GNU General Public License for more details.\n-\n- You should have received a copy of the GNU General Public License\n- along with this program. If not, see <http://www.gnu.org/licenses/>.\n-\n-Also add information on how to contact you by electronic and paper mail.\n-\n-If the program does terminal interaction, make it output a short notice like this when it starts in an interactive mode:\n-\n- <program> Copyright (C) <year> <name of author>\n-\n- This program comes with ABSOLUTELY NO WARRANTY; for details type `show w'.\n- This is free software, and you are welcome to redistribute it\n- under certain conditions; type `show c' for details.\n-\n-The hypothetical commands `show w' and `show c' should show the appropriate parts of the General Public License. Of course, your program's commands might be different; for a GUI interface, you would use an \xe2\x80\x9cabout box\xe2\x80\x9d.\n-\n-You should also get your employer (if you work as a programmer) or school, if any, to sign a \xe2\x80\x9ccopyright disclaimer\xe2\x80\x9d for the program, if necessary. For more information on this, and how to apply and follow the GNU GPL, see <http://www.gnu.org/licenses/>.\n-\n-The GNU General Public License does not permit incorporating your program into proprietary programs. If your program is a subroutine library, you may consider it more useful to permit linking proprietary applications with the library. If this is what you want to do, use the GNU Lesser General Public License instead of this License. But first, please read <http://www.gnu.org/philosophy/why-not-lgpl.html>.\n"

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/List_system_article.md
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/List_system_article.md Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

b'@@ -1,154 +0,0 @@\n-|System |Article |\n-|-------------------|-------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------------|\n-|Abi2 |Chopin, M.-C., Chopin, A., Bidnenko, E., 2005. Phage abortive infection in lactococci: variations on a theme. Curr Opin Microbiol 8, 473\xe2\x80\x93479. https://doi.org/10.1016/j.mib.2005.06.006 |\n-|AbiA |Chopin, M.-C., Chopin, A., Bidnenko, E., 2005. Phage abortive infection in lactococci: variations on a theme. Curr Opin Microbiol 8, 473\xe2\x80\x93479. https://doi.org/10.1016/j.mib.2005.06.006 |\n-|AbiB |Chopin, M.-C., Chopin, A., Bidnenko, E., 2005. Phage abortive infection in lactococci: variations on a theme. Curr Opin Microbiol 8, 473\xe2\x80\x93479. https://doi.org/10.1016/j.mib.2005.06.006 '..b'oron, S., Bernheim, A., H\xc3\xb6r, J., Lopatina, A., Ofir, G., Hochhauser, D., Stokar-Avihail, A., Tal, N., Sharir, S., Voichek, M., Erez, Z., Ferrer, J.L.M., Dar, D., Kacen, A., Amitai, G., Sorek, R., 2022. An expanding arsenal of immune systems that protect bacteria from phages. bioRxiv. https://doi.org/10.1101/2022.05.11.491447 |\n-|Uzume |Millman, A., Melamed, S., Leavitt, A., Doron, S., Bernheim, A., H\xc3\xb6r, J., Lopatina, A., Ofir, G., Hochhauser, D., Stokar-Avihail, A., Tal, N., Sharir, S., Voichek, M., Erez, Z., Ferrer, J.L.M., Dar, D., Kacen, A., Amitai, G., Sorek, R., 2022. An expanding arsenal of immune systems that protect bacteria from phages. bioRxiv. https://doi.org/10.1101/2022.05.11.491447 |\n-|Viperin |Bernheim, A., Millman, A., Ofir, G., Meitav, G., Avraham, C., Shomar, H., Rosenberg, M.M., Tal, N., Melamed, S., Amitai, G., Sorek, R., 2021. Prokaryotic viperins produce diverse antiviral molecules. Nature 589, 120\xe2\x80\x93124. https://doi.org/10.1038/s41586-020-2762-2 |\n-|Wadjet |Doron, S., Melamed, S., Ofir, G., Leavitt, A., Lopatina, A., Keren, M., Amitai, G., Sorek, R., 2018. Systematic discovery of antiphage defense systems in the microbial pangenome. Science 359. https://doi.org/10.1126/science.aar4120 |\n-|Zorya |Doron, S., Melamed, S., Ofir, G., Leavitt, A., Lopatina, A., Keren, M., Amitai, G., Sorek, R., 2018. Systematic discovery of antiphage defense systems in the microbial pangenome. Science 359. https://doi.org/10.1126/science.aar4120 |\n-\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/AG_Jab_Prok-JAB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/AG_Jab_Prok-JAB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,389 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Prok-JAB\n-ACC PF14464.7\n-DESC Prokaryotic homologs of the JAB domain\n-LENG 120\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 23 03:35:58 2020\n-NSEQ 67\n-EFFN 8.755310\n-CKSUM 2713074647\n-GA 25.00 25.00;\n-TC 25.00 25.00;\n-NC 24.90 24.90;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.7687 0.71348\n-STATS LOCAL VITERBI -10.8595 0.71348\n-STATS LOCAL FORWARD -4.5164 0.71348\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43388 4.21929 2.86849 2.56846 3.50681 2.83775 3.14742 2.99636 2.90089 2.58367 3.82456 3.21520 3.04901 3.13918 2.83584 2.53606 2.89700 2.72487 4.20194 3.65159\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11076 5.84349 2.28328 0.61958 0.77255 0.00000 *\n- 1 2.54906 4.80352 2.90513 2.50606 4.03927 3.46399 2.65421 3.86035 2.78881 2.92581 4.03507 3.24469 2.05395 3.19848 3.29355 2.00594 2.62456 3.19046 6.13447 4.74403 1 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00480 5.73753 6.45988 0.61958 0.77255 0.32414 1.28427\n- 2 1.86678 5.81308 3.27244 1.89823 4.58568 3.65751 4.26768 3.34885 2.19130 3.33685 4.85414 2.97093 3.21724 2.49819 2.77622 2.56543 3.24487 2.94053 6.24669 4.83668 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00437 5.83206 6.55440 0.61958 0.77255 0.55764 0.84994\n- 3 2.34159 5.81785 2.51663 2.41311 5.16348 3.11897 3.63131 4.05641 2.49749 4.12337 4.85836 3.35748 2.67677 2.91900 2.23340 1.95389 3.28850 2.68519 6.25019 4.09271 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00437 5.83206 6.55440 0.61958 0.77255 0.44330 1.02698\n- 4 2.17672 4.49267 4.26632 3.42062 3.99213 3.92862 2.43590 2.73133 4.12011 1.92984 3.21801 3.22157 4.86386 4.03572 4.31453 3.05244 2.51079 1.68768 3.97693 3.66351 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00432 5.84349 6.56584 0.61958 0.77255 0.48576 0.95510\n- 5 2.75785 5.24307 3.21326 2.49320 2.87748 4.27276 3.56156 2.68778 3.12161 1.68577 3.47828 2.94195 4.04003 2.94417 2.98872 3.49870 3.34887 2.55509 4.14425 3.01055 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00432 5.84349 6.56584 0.61958 0.77255 0.48576 0.95510\n- 6 2.17827 5.81956 2.24325 2.22304 5.16280 3.33315 3.86198 3.60677 2.83585 2.73840 4.86070 3.40631 4.48113 2.56665 2.29534 2.13017 2.87790 3.17330 6.25335 4.84350 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07577 5.42741 2.67981 0.61958 0.77255 0.14472 2.00445\n- 113 2.60631 5.79244 2.23039 2.04935 5.13812 2.50741 3.50269 4.62451 2.84156 3.22722 3.48179 2.56260 2.75012 2.85992 2.76862 2.75069 2.77972 3.38952 6.22476 4.81345 194 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00455 5.79058 6.51292 0.61958 0.77255 0.77680 0.61595\n- 114 2.63967 4.14259 2.56151 2.79613 3.38262 3.27987 4.53725 2.54377 2.75522 2.28155 2.75379 3.99514 3.54070 3.84076 2.61003 2.88765 2.70008 2.52589 3.95672 3.92201 195 l - - -\n- 2.68536 4.42296 2.77539 2.73163 3.46425 2.40498 3.72428 3.29316 2.67709 2.69304 4.24628 2.90418 2.73785 3.18218 2.89779 2.37934 2.77591 2.98371 4.58548 3.61454\n- 0.78722 1.49450 1.13778 1.23128 0.34519 0.77680 0.61595\n- 115 2.89829 5.54930 3.12321 2.44241 3.57702 3.02677 3.51629 3.93611 2.48436 3.21753 4.05393 2.66826 3.50937 2.59775 1.69114 2.83324 2.84944 2.88025 5.98861 4.58437 204 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00669 5.40632 6.12866 0.61958 0.77255 0.14050 2.03200\n- 116 1.91990 3.74804 3.01349 2.32858 2.60416 4.09843 3.36825 3.82000 2.52082 2.90561 4.79479 3.29106 4.10424 3.29599 2.75733 1.90285 3.02416 3.80662 6.19754 4.09066 205 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00435 5.83575 6.55810 0.61958 0.77255 0.53508 0.88098\n- 117 2.75090 4.80686 5.20346 4.59889 2.36170 4.55525 4.87968 3.24270 4.41876 2.41001 3.02310 4.66163 3.87294 2.71799 3.09622 3.85906 3.41303 2.39886 1.29566 2.98757 206 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01592 5.83575 4.35233 0.61958 0.77255 0.53508 0.88098\n- 118 2.93981 5.64978 2.85339 2.64301 3.40382 4.11333 4.30876 4.37306 2.61520 2.58636 3.16859 3.28689 3.70330 3.00213 1.91855 2.58648 2.86436 2.87114 2.55018 3.76705 207 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02649 5.82423 3.76422 0.61958 0.77255 0.60361 0.79149\n- 119 2.29836 3.32292 4.05932 3.54115 3.09907 3.81399 3.77259 2.13582 3.88623 1.75508 3.39169 2.98761 3.32338 3.53062 2.61365 2.83930 3.23839 2.69471 4.23847 4.32365 208 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00450 5.80224 6.52458 0.61958 0.77255 0.72077 0.66627\n- 120 2.51153 4.70573 2.71614 2.57801 4.60152 2.74904 3.22267 3.25834 2.08550 3.09162 4.77879 2.81497 3.43442 3.15048 3.18679 2.87184 3.10942 2.30192 4.49005 3.02503 209 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 5.80077 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/DUF4238.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/DUF4238.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,845 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME DUF4238\n-ACC PF14022.8\n-DESC Protein of unknown function (DUF4238)\n-LENG 272\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Feb 25 04:27:52 2021\n-NSEQ 53\n-EFFN 6.692932\n-CKSUM 2834371121\n-GA 27.00 27.00;\n-TC 27.10 27.00;\n-NC 26.90 26.90;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.9399 0.70212\n-STATS LOCAL VITERBI -11.7311 0.70212\n-STATS LOCAL FORWARD -5.1097 0.70212\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66584 4.47874 2.86462 2.59243 3.14732 3.04299 3.49531 2.87577 2.64623 2.50855 3.74992 2.92852 3.12534 3.08487 2.82663 2.61723 2.86395 2.81635 4.70882 3.41610\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11481 5.60137 2.25598 0.61958 0.77255 0.00000 *\n- 1 3.89765 6.12761 4.31388 3.59562 5.55286 4.53477 4.43587 4.96673 1.44788 4.34966 5.18984 1.87064 4.87825 3.55686 1.49275 3.86422 4.05324 4.61543 6.33277 1.68850 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00613 5.49269 6.21504 0.61958 0.77255 0.28970 1.38025\n- 2 4.18675 6.64488 3.47719 3.12394 5.92985 4.45928 1.01359 5.50174 3.42529 4.90212 5.78061 3.40234 5.03176 0.96499 3.75243 4.07066 4.42948 5.10019 6.90768 5.52307 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 3 6.11313 7.16888 6.13528 6.15720 5.92171 5.75188 0.03359 7.15978 6.14308 6.31123 7.60164 6.45305 6.39542 6.60778 6.16859 6.28702 6.52288 6.82865 7.13386 5.88822 3 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 4 3.47713 4.85626 5.27223 4.69243 1.47764 4.61010 4.74935 3.27223 3.70089 1.99848 3.94783 4.69337 4.96653 4.62817 4.53653 3.92159 2.66450 2.95160 5.16389 1.20812 4 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 5 4.37248 5.51360 6.58092 6.17870 5.04801 6.20541 7.28209 0.93451 6.20708 3.03002 4.70056 6.38161 6.35064 6.53936 6.44765 5.71392 4.63866 0.70041 7.42070 6.14518 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 6 3.71104 5.61565 5.22649 5.27060 6.29282 4.34832 6.26822 5.97382 5.52640 5.60974 6.40741 5.07606 0.19133 5.68890 5.62431 2.63458 4.29753 5.05410 7.52768 6.49078 6 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.6150'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 265 2.93046 5.19461 3.74524 2.64676 2.22949 3.47609 3.85503 3.33042 2.79078 2.21449 3.65230 3.05971 4.46528 2.83848 2.62817 2.87197 2.68511 3.49787 2.66638 3.19661 676 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 266 3.16813 5.39188 6.33109 5.85299 4.07739 5.80614 6.49375 0.94235 5.78685 2.14680 4.49923 5.97514 6.02362 6.00895 5.91455 5.22812 4.45087 0.98212 6.80321 5.59681 677 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 267 2.30863 4.69672 5.30500 4.69383 1.87483 4.51537 4.85316 1.41107 4.48185 2.65992 3.31150 4.67910 4.87254 4.61121 4.49003 3.82988 3.56400 1.85405 5.33581 2.36373 678 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 268 1.99319 5.19146 3.74907 3.03540 2.08256 2.25242 3.17899 3.55589 3.17123 3.42659 4.27799 3.67633 4.46694 3.32116 3.29389 1.81020 3.26942 3.49434 5.73200 2.93665 679 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00550 5.60137 6.32371 0.61958 0.77255 0.48576 0.95510\n- 269 2.73846 4.07235 3.25166 2.86522 5.01652 3.07332 2.44962 4.50061 2.23645 3.44600 4.71545 2.30632 4.33793 2.89640 1.96896 2.02275 3.01493 4.06331 6.10835 4.11341 680 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 5.60137 4.40447 0.61958 0.77255 0.48576 0.95510\n- 270 3.16406 5.67117 1.94099 2.70250 5.01475 3.93822 4.12552 3.82581 2.31736 3.97581 4.71224 2.40191 2.08054 3.22235 2.81411 2.08158 2.63963 3.72928 6.10473 4.15068 681 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02298 5.59088 3.96428 0.61958 0.77255 0.53803 0.87682\n- 271 2.16781 5.66836 2.35494 2.38362 5.01464 2.80602 3.78293 4.50149 1.64365 3.97414 4.70874 2.93953 3.97607 3.06726 2.40716 2.34382 3.21742 4.05965 6.10028 4.68853 682 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08686 5.57356 2.53324 0.61958 0.77255 0.61773 0.77472\n- 272 2.83194 5.62201 1.87129 2.41074 4.30850 3.33986 2.65318 4.45367 2.16098 3.92743 4.66261 3.07197 3.89319 3.16723 3.12687 1.91335 2.42840 4.01283 6.05446 4.64322 683 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00413 5.49083 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/DprA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/DprA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1004 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DprA\n-LENG 327\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:44 2021\n-NSEQ 17\n-EFFN 0.410889\n-CKSUM 1049989887\n-GA 60 60;\n-STATS LOCAL MSV -11.2252 0.70062\n-STATS LOCAL VITERBI -11.8541 0.70062\n-STATS LOCAL FORWARD -5.6076 0.70062\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50358 4.31755 3.01086 2.82427 3.32173 2.78838 3.73155 2.74615 2.77110 2.33725 3.73764 3.07204 3.34655 3.15826 3.01570 2.59361 2.83192 2.59163 4.46926 3.36707\n- 2.68619 4.42168 2.77520 2.73146 3.46346 2.40536 3.72507 3.29300 2.67718 2.69353 4.24611 2.90348 2.73759 3.18146 2.89819 2.37881 2.77512 2.98536 4.58500 3.61473\n- 0.11642 2.31195 4.52507 2.33579 0.10174 0.00000 *\n- 1 2.91650 4.47702 3.97528 3.56488 3.18074 3.78202 4.31626 2.34952 3.33621 1.78733 1.51861 3.85056 4.24350 3.72350 3.54945 3.25767 3.22111 2.34717 5.01141 3.76618 35 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 2 2.37824 4.22258 3.36907 3.11986 3.91002 3.06363 4.14212 3.02878 3.06142 2.89466 3.95112 3.33930 3.76252 3.46021 3.32245 2.57892 1.29601 2.73124 5.35410 4.12716 36 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 3 2.91736 5.03007 1.02354 2.29737 4.39845 3.16021 3.87395 3.97134 2.94560 3.59295 4.57119 2.84950 3.80830 3.11422 3.45092 2.88883 3.25506 3.61857 5.58050 4.28505 37 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 4 2.67952 4.27419 3.87356 3.41623 3.47669 3.66623 4.27809 1.59754 3.27946 2.18945 3.37760 3.70030 4.15299 3.63678 3.54769 3.04545 2.33892 1.94530 5.18417 3.95063 38 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 5 2.89544 4.98748 2.46359 1.12906 4.32548 3.23129 3.81433 3.76557 2.68626 3.39478 4.37372 2.89849 3.83311 3.03265 3.08645 2.88613 3.19976 3.45733 5.51040 4.23461 39 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 6 2.37824 4.22258 3.36907 3.11986 3.91002 3.06363 4.14212 3.02878 3.06142 2.89466 3.95112 3.33930 3.76252 3.46021 3.32245 2.57892 1.29601 2.73124 5.35410 4.12716 40 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 7 1.11928 4.16023 3.39404 3.18403 3.98496 2.98622 4.21401 3.10029 3.19852 2.98485 4.02590 3.35056 3.71902 3.54'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 320 2.82882 4.80916 2.86048 2.61604 3.96790 3.32177 3.77307 3.58965 2.44219 3.09879 4.13050 3.07444 3.87544 1.36368 2.72696 2.88041 3.12674 3.32426 5.25330 3.94296 354 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 321 3.07851 4.56244 4.07658 3.71788 3.11204 3.89190 4.39554 2.31444 3.48623 0.96627 3.15999 3.99989 4.34047 3.87134 3.67301 3.45713 3.37664 2.33331 4.96425 3.67091 355 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 322 2.28359 4.20214 3.14856 2.96279 4.00759 2.93344 4.07376 3.52153 3.03175 3.24783 4.18100 3.19770 3.66685 3.38696 3.31879 1.20136 2.75881 3.07202 5.38608 4.09114 356 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 323 3.07851 4.56244 4.07658 3.71788 3.11204 3.89190 4.39554 2.31444 3.48623 0.96627 3.15999 3.99989 4.34047 3.87134 3.67301 3.45713 3.37664 2.33331 4.96425 3.67091 357 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 324 3.07851 4.56244 4.07658 3.71788 3.11204 3.89190 4.39554 2.31444 3.48623 0.96627 3.15999 3.99989 4.34047 3.87134 3.67301 3.45713 3.37664 2.33331 4.96425 3.67091 358 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 325 2.58288 4.36329 3.24216 3.13370 4.27364 0.84536 4.25669 3.85771 3.30526 3.52032 4.49683 3.40689 3.75218 3.63525 3.54744 2.75310 3.05877 3.39968 5.38566 4.37376 359 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 326 2.91736 5.03007 1.02354 2.29737 4.39845 3.16021 3.87395 3.97134 2.94560 3.59295 4.57119 2.84950 3.80830 3.11422 3.45092 2.88883 3.25506 3.61857 5.58050 4.28505 360 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 3.80273 4.52508 0.61958 0.77255 0.48576 0.95510\n- 327 2.89544 4.98748 2.46359 1.12906 4.32548 3.23129 3.81433 3.76557 2.68626 3.39478 4.37372 2.89849 3.83311 3.03265 3.08645 2.88613 3.19976 3.45733 5.51040 4.23461 361 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02281 3.79184 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/E1_E2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/E1_E2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1871 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME E1_E2\n-LENG 616\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 13:47:54 2021\n-NSEQ 990\n-EFFN 20.434914\n-CKSUM 2128859876\n-GA 20 20;\n-STATS LOCAL MSV -12.1977 0.69711\n-STATS LOCAL VITERBI -13.3620 0.69711\n-STATS LOCAL FORWARD -5.8996 0.69711\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54025 4.12438 2.85782 2.70301 3.33433 2.73893 3.66575 2.86765 2.77567 2.39568 3.97156 3.05095 3.08593 3.19306 2.89139 2.60345 2.89181 2.74999 4.26947 3.55202\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04888 3.43854 4.16088 0.61958 0.77255 0.00000 *\n- 1 2.57819 4.25254 3.41283 3.10983 3.12405 3.27249 3.94536 2.36371 2.88195 2.01043 2.86911 3.39552 3.84752 3.35816 3.10773 2.82966 2.94131 2.26428 4.79550 3.44403 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04888 3.43854 4.16088 0.61958 0.77255 0.48576 0.95510\n- 2 2.38415 4.17714 2.77003 2.64142 3.42997 2.85719 3.71981 3.08319 2.66231 2.83640 3.91682 2.50774 3.52619 3.11117 2.91363 2.53399 2.80070 2.78837 4.80379 3.47867 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04888 3.43854 4.16088 0.61958 0.77255 0.48576 0.95510\n- 3 2.42279 4.20306 3.08639 2.84366 3.39031 3.04028 3.82885 2.75971 2.72832 2.25074 3.62193 3.15859 3.04013 3.19017 2.98111 2.61098 2.81417 2.55820 4.89016 3.57712 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04740 3.46847 4.19082 0.61958 0.77255 0.48576 0.95510\n- 4 2.60271 4.30765 3.80709 3.26449 3.32984 3.68419 4.06789 2.44408 3.07516 2.09361 1.89760 3.58734 4.09666 3.43739 3.15286 3.00045 2.95610 2.14745 4.96817 3.76602 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02924 3.94266 4.66501 0.61958 0.77255 0.48576 0.95510\n- 5 2.10772 4.63214 2.85439 2.44330 3.86186 3.40588 3.64663 3.23621 2.34860 2.89410 3.48177 2.98962 3.80964 2.82948 2.91773 2.63638 2.53512 2.80837 5.18136 3.87629 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02837 3.97242 4.69476 0.61958 0.77255 0.48576 0.95510\n- 6 3.06481 4.45090 4.56872 3.99443 3.13183 4.26473 4.56069 2.02229 3.87016 1.10608 2.74885 4.24406 4.52444 4.03727 4.03141 3.58043 3.29032 1.98586 5.03893 3.60324 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13067 4.05733 2.25195 0.61958 0.77255 0.48576 0.95510\n- 7 2.48056 4.77766 2.31435 2.33712 4.02811 3.19863 3.46180 3.44211 2.43137 2.70249 3.86921 2.90411 3.78412 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04000 3.63467 4.35702 0.61958 0.77255 0.48576 0.95510\n- 609 2.89444 4.43738 3.78812 3.44750 3.07022 3.65040 4.17827 2.28978 3.21736 1.24490 3.20448 3.74217 4.14136 3.64525 3.42480 3.22073 3.20826 2.26073 4.84329 3.50720 1933 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04000 3.63467 4.35702 0.61958 0.77255 0.48576 0.95510\n- 610 2.71838 4.50547 3.15513 2.78114 2.91326 3.45425 3.58788 3.00790 2.40142 2.62628 3.65125 3.16938 3.91209 3.05638 2.86084 2.85036 2.97629 2.80196 4.46286 2.12712 1934 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04000 3.63467 4.35702 0.61958 0.77255 0.48576 0.95510\n- 611 2.69356 4.75647 2.75094 2.45827 4.09620 3.25829 3.59961 3.54729 1.68705 3.15984 4.06192 2.70252 3.78179 2.79088 2.43904 2.73216 2.96829 3.22723 5.27588 3.97959 1935 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04000 3.63467 4.35702 0.61958 0.77255 0.48576 0.95510\n- 612 3.02300 4.49910 3.92317 3.50525 1.70842 3.87744 3.49974 2.74700 3.39077 2.17436 3.41755 3.64551 4.24434 3.59420 3.59578 3.23174 3.26816 2.67483 3.80325 1.89770 1936 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04000 3.63467 4.35702 0.61958 0.77255 0.48576 0.95510\n- 613 2.21634 4.11149 2.97066 2.80026 3.74368 2.84849 3.90115 3.23618 2.84321 2.99657 3.98344 3.06352 3.56536 3.23200 3.11881 1.70376 2.67654 2.85387 5.15309 3.83062 1937 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04308 3.56196 4.28431 0.61958 0.77255 0.48576 0.95510\n- 614 2.42203 4.19161 2.99937 2.82259 3.77260 2.89800 3.90102 3.25989 2.85408 2.91507 3.98086 3.14453 1.70961 3.25789 3.10881 2.58851 2.84809 2.94448 5.02423 3.90168 1938 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04308 3.56196 4.28431 0.61958 0.77255 0.48576 0.95510\n- 615 2.56310 3.55833 3.55460 3.09292 2.81225 3.40511 3.71503 2.63312 2.92315 2.34228 3.42887 3.36575 3.89938 3.28733 3.18877 2.79290 2.86989 2.45228 4.41112 2.31107 1939 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04308 3.56196 4.28431 0.61958 0.77255 0.48576 0.95510\n- 616 2.55841 4.67078 2.17446 2.22008 4.00725 3.03172 3.65969 3.56736 2.59615 3.23246 4.13754 2.15908 3.65707 2.88945 3.02476 2.58727 2.90082 3.20663 5.32805 3.93206 1940 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02920 3.54808 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/E2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/E2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,740 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME E2\n-LENG 239\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 13:48:01 2021\n-NSEQ 524\n-EFFN 21.040436\n-CKSUM 2059152909\n-GA 20 20;\n-STATS LOCAL MSV -10.8731 0.70336\n-STATS LOCAL VITERBI -12.3892 0.70336\n-STATS LOCAL FORWARD -5.0296 0.70336\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69504 4.13023 2.97570 2.65668 3.33183 2.84637 3.52320 2.94287 2.61748 2.50022 3.80681 3.09977 2.97467 3.12217 2.77723 2.62618 2.88501 2.87226 3.94624 3.34071\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04361 3.55001 4.27236 0.61958 0.77255 0.00000 *\n- 1 2.79138 4.36909 3.61596 3.30148 3.05889 3.49164 4.06107 2.31313 3.07570 1.44231 3.26311 3.59839 4.01611 3.52755 3.28830 3.08514 3.12093 2.25530 4.77628 3.42016 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04361 3.55001 4.27236 0.61958 0.77255 0.48576 0.95510\n- 2 2.41265 4.17963 2.98870 2.81334 3.75553 2.88677 3.88995 3.24166 2.84350 2.89783 3.96679 3.13487 1.76451 3.24856 3.09682 2.57975 2.83871 2.92861 5.00876 3.88586 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04361 3.55001 4.27236 0.61958 0.77255 0.48576 0.95510\n- 3 1.63312 4.08559 3.15155 2.96513 3.72462 2.90752 4.01865 2.82538 2.96886 2.70244 3.81276 3.19371 3.61628 3.35661 3.22175 2.46146 2.71562 2.54864 5.18920 3.95484 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04361 3.55001 4.27236 0.61958 0.77255 0.48576 0.95510\n- 4 2.66230 4.45726 3.12145 2.76459 3.72533 3.16150 3.67894 3.27385 2.26979 2.85447 3.90641 3.13123 3.71636 2.95484 1.66554 2.78369 2.97699 3.02210 4.96568 3.75833 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04361 3.55001 4.27236 0.61958 0.77255 0.48576 0.95510\n- 5 2.68586 4.56392 2.85331 2.58656 3.87183 3.17271 3.65789 3.28975 1.64102 2.94921 3.97087 3.01041 3.72965 2.90192 2.50919 2.77359 2.98891 3.02811 5.09495 3.86969 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04361 3.55001 4.27236 0.61958 0.77255 0.48576 0.95510\n- 6 2.87807 4.35802 3.63381 3.28289 2.48303 3.39116 3.60598 2.91264 3.01557 2.35127 3.56362 3.50716 3.89560 3.43168 3.19430 3.08220 3.17127 2.79613 1.95132 2.51105 6 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04361 3.55001 4.27236 0.61958 0.77255 0.48576 0.95510\n- 7 2.29531 4.12261 3.16648 2.94674 3.69447 2.95907 3.98300 2.79693 2.88333 2.66006 3.77173 3.19490 3.64774 3.307'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04584 3.50131 4.22366 0.61958 0.77255 0.48576 0.95510\n- 232 2.22351 4.09916 2.93369 2.77444 3.63997 2.83896 3.86054 3.13056 2.80101 2.90593 3.92962 3.04490 3.54973 3.20753 3.06630 1.89288 2.67886 2.78004 5.06379 3.72996 898 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04584 3.50131 4.22366 0.61958 0.77255 0.48576 0.95510\n- 233 2.45103 4.35317 2.46579 2.55618 3.61790 3.09619 3.77767 2.82960 2.72191 2.69672 3.75251 2.97956 3.70388 3.06171 3.08320 2.59118 2.81107 2.35675 5.09754 3.73781 899 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04584 3.50131 4.22366 0.61958 0.77255 0.48576 0.95510\n- 234 2.55060 4.31624 2.80392 2.61713 3.59195 2.98894 3.68895 3.02701 2.06643 2.73378 3.84128 3.00966 3.60014 3.01031 2.69319 2.68636 2.90687 2.78971 4.89550 3.67501 900 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04828 3.45069 4.17303 0.61958 0.77255 0.48576 0.95510\n- 235 2.39263 4.21485 2.73861 2.60849 3.47828 2.87868 3.71817 3.13844 2.64591 2.88498 3.94349 2.41299 3.54585 3.09040 2.90954 2.53329 2.80498 2.83283 4.85308 3.51585 901 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04828 3.45069 4.17303 0.61958 0.77255 0.48576 0.95510\n- 236 2.58250 4.34226 2.62608 2.06348 3.65289 2.94929 3.69822 3.03503 2.56337 2.76472 3.87881 2.93891 3.56941 3.02151 2.83734 2.70223 2.93629 2.80075 4.92553 3.74478 902 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04828 3.45069 4.17303 0.61958 0.77255 0.48576 0.95510\n- 237 2.39263 4.21485 2.73861 2.60849 3.47828 2.87868 3.71817 3.13844 2.64591 2.88498 3.94349 2.41299 3.54585 3.09040 2.90954 2.53329 2.80498 2.83283 4.85308 3.51585 903 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04828 3.45069 4.17303 0.61958 0.77255 0.48576 0.95510\n- 238 2.59501 4.24262 3.44925 3.16635 3.13073 3.29949 3.99951 2.02965 2.98190 2.02989 3.34058 3.44474 3.87850 3.43376 3.20698 2.86841 2.96132 2.15779 4.81217 3.45106 904 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04828 3.45069 4.17303 0.61958 0.77255 0.48576 0.95510\n- 239 2.58250 4.34226 2.62608 2.06348 3.65289 2.94929 3.69822 3.03503 2.56337 2.76472 3.87881 2.93891 3.56941 3.02151 2.83734 2.70223 2.93629 2.80075 4.92553 3.74478 905 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03275 3.43516 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/LmuA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/LmuA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1133 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME LmuA\n-LENG 370\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 1 10:32:00 2021\n-NSEQ 54\n-EFFN 5.454712\n-CKSUM 146383651\n-GA 20 20;\n-STATS LOCAL MSV -11.3051 0.69975\n-STATS LOCAL VITERBI -12.1264 0.69975\n-STATS LOCAL FORWARD -5.3355 0.69975\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54456 4.44550 2.87826 2.54170 3.26807 3.10967 3.72832 2.78566 2.46937 2.40727 3.73317 2.99331 3.67991 3.00087 3.02226 2.54674 2.84465 2.79280 4.70792 3.60388\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31723 5.42167 1.31894 0.61958 0.77255 0.00000 *\n- 1 4.56608 5.95599 5.74873 5.59060 4.56909 5.05559 6.06516 3.93976 5.34388 3.10438 0.17566 5.69515 5.62856 5.67165 5.36893 4.95462 4.95766 4.06679 6.39954 5.27697 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11023 5.11341 2.31917 0.61958 0.77255 0.97086 0.47603\n- 2 2.20063 5.12762 3.30968 2.50906 4.36887 3.74482 3.94801 3.37466 2.32098 2.54887 3.12929 2.24881 4.13482 3.09565 3.21027 2.37506 2.23755 3.46112 5.62815 4.29046 2 a - - -\n- 2.68633 4.42398 2.77544 2.72986 3.46470 2.40507 3.72576 3.29384 2.67777 2.69384 4.24783 2.90237 2.73776 3.18027 2.89854 2.37835 2.77629 2.98350 4.58435 3.61677\n- 1.03693 0.58846 2.40484 1.91288 0.15976 1.29506 0.32004\n- 3 2.96717 4.40088 4.56804 2.67522 2.52450 4.09941 4.41281 1.37815 3.83911 1.71889 3.47790 4.13425 4.46143 4.03514 3.97239 2.90038 3.19964 2.57208 5.01986 3.83108 26 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98798 5.71032 0.61958 0.77255 1.40711 0.28084\n- 4 2.24814 4.48956 4.01999 2.85676 3.01096 3.93541 4.21145 2.29543 2.17324 1.72910 3.59834 3.77695 4.30997 3.64370 3.65819 3.19890 2.75306 2.46310 5.08942 3.87802 27 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98798 5.71032 0.61958 0.77255 1.40711 0.28084\n- 5 2.91315 5.40654 1.85081 1.81647 4.73974 3.10245 2.59437 4.22111 2.62288 3.16009 4.45313 3.13000 4.06899 2.97358 3.11874 2.58831 2.48668 3.79136 5.84543 4.43520 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98798 5.71032 0.61958 0.77255 1.03053 0.44132\n- 6 3.00524 4.44080 1.97586 4.01255 2.91753 4.14079 4.45852 2.20142 3.87454 2.28811 2.55738 4.17110 4.50362 4.07357 4.01450 3.43640 2.44664 1.69791 5.07849 3.89261 29 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00924 5.08418 5.80652 0.61958 0.77255 0.93914 0.49587\n- 7 2.44390 4.59485 4.05840 2.33907 2.78849 4.00921 4.28115 3.06736 2.95218 1.43964 2.33673 3.83188 4.38492 3.695'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 363 2.65432 5.55264 2.62084 1.24533 4.88722 3.28890 4.03362 4.36575 2.77278 3.85358 4.59643 3.31660 4.23845 3.13354 2.50594 2.39531 2.78458 3.27117 3.95038 4.58752 499 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 364 2.19260 4.54972 5.12984 4.51593 3.06345 4.34844 4.68107 1.67383 4.30446 1.40930 2.41642 4.50742 4.70703 4.43318 4.31535 3.66034 2.91853 2.77389 5.16920 2.74421 500 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 365 3.11738 4.65989 3.42478 3.79115 3.77140 4.18202 4.46869 2.05684 2.66442 1.99405 3.17167 2.87398 4.55468 3.95440 3.94927 2.62383 3.34933 1.84289 5.26391 2.41672 501 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 366 3.06625 3.96158 2.90408 1.73224 4.92465 3.15813 4.02652 4.41115 2.11011 3.88434 4.61923 2.96592 4.23306 2.53762 2.10556 2.26457 2.67110 3.96984 6.01088 4.59948 502 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15120 5.40908 1.99619 0.61958 0.77255 0.53812 0.87670\n- 367 3.00289 3.90851 3.29764 2.28471 4.70854 1.87385 3.98351 3.34738 1.80095 3.69131 4.45684 3.27969 4.18558 2.77213 2.44137 2.98712 2.75649 3.77307 3.78098 4.47977 503 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00770 5.26558 5.98793 0.61958 0.77255 0.96894 0.47720\n- 368 3.03249 2.15274 3.74445 2.37172 4.02688 3.96431 4.19918 2.12405 2.29848 2.10404 3.96566 2.40170 4.34725 3.46702 3.52353 3.19800 3.26375 3.14674 5.43440 4.17869 504 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15596 5.26558 1.97158 0.61958 0.77255 0.96894 0.47720\n- 369 2.01150 5.28593 2.80211 1.99433 4.57066 3.73249 2.83267 4.01578 2.69608 2.99935 4.34418 3.22900 4.12623 3.05134 3.17636 2.08132 3.16671 2.34721 5.75759 4.38621 505 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14448 5.11856 2.05146 0.61958 0.77255 0.98886 0.46521\n- 370 2.61795 5.39956 2.34763 2.01926 3.48664 3.66962 3.16696 4.22588 2.59328 3.70364 4.44099 2.58340 4.06329 2.40747 2.69622 2.09664 3.12655 3.78869 5.83388 3.58804 506 e - - -\n- 2.68640 4.42312 2.77489 2.73109 3.46441 2.40576 3.72506 3.29441 2.67738 2.69349 4.24777 2.90339 2.73667 3.18074 2.89888 2.37791 2.77505 2.98475 4.58522 3.61591\n- 1.02922 0.44205 * 1.14031 0.38525 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/LmuB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/LmuB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1718 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME LmuB\n-LENG 565\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 15:52:45 2021\n-NSEQ 50\n-EFFN 3.378296\n-CKSUM 3680983211\n-GA 20 20;\n-STATS LOCAL MSV -12.2051 0.69747\n-STATS LOCAL VITERBI -12.8015 0.69747\n-STATS LOCAL FORWARD -6.3873 0.69747\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58659 4.43274 2.93023 2.53908 3.22251 3.10382 3.75036 2.82940 2.53758 2.39473 3.79157 2.99122 3.52569 2.89776 2.92137 2.57431 2.85522 2.83578 4.81989 3.46546\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40518 3.72499 3.29359 2.67746 2.69360 4.24344 2.90352 2.73744 3.18151 2.89806 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.53329 1.99098 1.28457 0.18426 1.78214 0.00000 *\n- 1 2.87359 4.77881 3.42303 2.94120 4.01583 3.70373 3.99357 3.39170 2.41766 3.06257 1.28468 2.87709 4.13946 3.22922 3.12774 2.55422 3.12461 3.12662 5.36845 4.10848 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.67951 4.37687 0.61958 0.77255 1.03137 0.44086\n- 2 2.78839 5.23088 3.06376 2.15898 4.56166 3.56362 3.28481 4.02499 1.84724 3.52228 4.27879 3.04097 3.95446 2.84280 2.03091 2.48871 2.64742 3.03134 5.66521 4.28178 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67142 5.39376 0.61958 0.77255 1.04088 0.43563\n- 3 2.77612 5.14268 3.07958 2.52657 4.44745 3.56415 3.75634 3.36028 2.10859 3.43105 4.20610 1.86535 3.95921 2.87382 2.72412 2.21064 2.45735 3.51374 5.60874 4.23876 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67142 5.39376 0.61958 0.77255 0.44863 1.01750\n- 4 4.24710 5.43225 6.14479 5.55802 2.30110 5.62187 5.78043 2.77944 5.42011 0.63776 1.70741 5.76949 5.56679 5.18710 5.31416 5.02384 4.43363 3.12990 5.69068 4.69363 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01123 4.89046 5.61281 0.61958 0.77255 0.70490 0.68153\n- 5 2.83961 5.28969 2.75875 2.55552 4.61248 3.62123 3.80819 3.08234 1.69601 3.58401 4.33688 2.67921 4.01382 2.63297 2.20053 2.81344 2.72197 2.89639 5.73465 4.34089 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01123 4.89046 5.61281 0.61958 0.77255 0.70490 0.68153\n- 6 4.09643 5.30887 5.87025 5.36170 0.74512 5.35680 5.18636 2.35091 5.20335 1.46283 3.40002 5.39270 5.45122 5.07756 5.14802 4.74297 4.30366 2.98943 5.25026 3.83931 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01123 4.89046 5.61281 0.61958 0.77255 0.70490 0.68153\n- 7 2.85575 5.33622 2.71684 1.78803 4.66757 3.61867 3.81687 2.91701 1.71576 3.63490 4.38198 2.31432 4.01936 2.91'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15319 4.71471 2.01687 0.61958 0.77255 0.92012 0.50828\n- 558 2.80071 5.16374 2.54949 2.49802 4.53269 3.50621 3.81406 3.99103 2.60992 3.52772 4.30832 3.03593 1.73666 2.55595 3.09863 2.20668 2.59898 3.59052 5.70727 4.32097 684 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 559 2.92660 4.29225 4.77116 4.18870 1.94312 4.07180 4.21316 2.28127 3.99150 1.79493 2.74335 4.17149 4.41663 4.09814 4.01186 3.38611 3.15609 2.52022 3.33820 2.05333 685 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 560 2.80066 4.50393 3.67291 2.33740 3.58809 3.78265 4.03523 2.58663 3.04381 1.44173 3.52676 3.52011 4.15645 2.88657 3.38471 3.03664 3.03171 2.39734 5.08860 3.86447 686 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 561 1.94693 4.86781 2.85760 2.13436 4.09310 3.56650 3.77752 2.59038 2.59418 3.12024 3.94535 3.11390 3.95730 2.94103 2.78986 2.77543 2.65844 2.79857 5.38442 4.06219 687 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 562 2.72800 4.88297 3.15861 2.59846 4.11087 3.56804 3.77139 2.96353 2.13148 2.78824 3.95767 3.11102 3.95670 2.49775 2.74320 2.08449 2.59779 2.79880 5.39240 4.06951 688 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 563 2.17851 4.33548 3.84147 2.76711 3.45679 3.77185 4.04749 2.06048 3.18881 2.52358 2.17637 3.60555 4.14653 3.46931 2.97290 3.03555 2.96861 2.31011 4.94061 3.72820 689 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06430 4.57692 2.95676 0.61958 0.77255 1.08287 0.41343\n- 564 2.71465 4.79114 3.19491 2.20322 2.45419 3.57252 3.26687 3.39662 2.61334 3.03384 3.87183 3.13847 3.96053 2.71402 2.68310 2.78569 2.58574 3.10599 5.30301 2.77457 690 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09039 4.52878 2.58188 0.61958 0.77255 0.76244 0.62834\n- 565 2.34830 4.81596 2.88014 2.15593 2.68491 3.56809 3.78261 3.42739 2.42779 3.06283 3.89601 3.12794 3.95840 2.95774 3.06479 2.78036 2.39084 2.52868 5.33928 4.02682 691 e - - -\n- 2.68639 4.42410 2.77444 2.73048 3.46410 2.40563 3.72679 3.29264 2.67828 2.69433 4.24621 2.90352 2.73737 3.18079 2.89845 2.37655 2.77622 2.98530 4.58662 3.61538\n- 0.88290 0.53372 * 2.42384 0.09275 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/Phosphoribosyltransferase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/Phosphoribosyltransferase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1304 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Phosphoribosyltransferase\n-LENG 427\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:49 2021\n-NSEQ 57\n-EFFN 0.427917\n-CKSUM 4156250903\n-GA 16 16;\n-STATS LOCAL MSV -11.3917 0.69887\n-STATS LOCAL VITERBI -12.4583 0.69887\n-STATS LOCAL FORWARD -5.9135 0.69887\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51335 4.27407 2.93447 2.75376 3.19788 2.88819 3.73663 2.73114 2.70609 2.42744 3.71949 2.98095 3.41574 3.16848 2.96524 2.69512 2.85092 2.62534 4.35807 3.33362\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13315 3.81630 2.27634 0.61958 0.77255 0.00000 *\n- 1 2.85666 4.43300 3.88668 3.47463 3.15502 3.71817 4.24555 2.31611 3.24852 1.77943 1.70789 3.76913 4.18357 3.64426 3.47061 3.18694 3.16194 2.30261 4.97160 3.71589 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03667 3.71982 4.44217 0.61958 0.77255 0.56216 0.84391\n- 2 2.60615 4.58596 2.64530 2.51879 3.92608 3.08831 3.81597 3.60980 2.71040 3.27683 4.23854 1.46213 3.73604 3.09446 3.05458 2.68312 2.98662 3.24781 5.25109 3.88991 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03667 3.71982 4.44217 0.61958 0.77255 0.56216 0.84391\n- 3 2.61771 4.77230 2.60339 2.34549 4.18296 3.21038 3.63391 3.62949 2.09523 3.22235 4.07464 2.22998 3.75024 2.81206 2.71532 2.42190 2.90809 3.27081 5.39629 4.06521 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03667 3.71982 4.44217 0.61958 0.77255 0.44744 1.01960\n- 4 2.92258 4.48164 3.98400 3.57395 3.18366 3.78819 4.32340 2.35324 3.34494 1.78872 1.50124 3.85870 4.24947 3.73153 3.55726 3.26473 3.22722 2.35191 5.01559 3.77127 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03342 3.81095 4.53330 0.61958 0.77255 0.49036 0.94780\n- 5 2.97376 4.70132 3.42024 3.01356 2.38425 3.70911 2.21464 3.30632 2.85319 2.79569 3.84553 3.33897 4.11436 3.24096 3.14181 3.05410 3.20958 3.10172 4.00233 1.76931 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03342 3.81095 4.53330 0.61958 0.77255 0.49036 0.94780\n- 6 3.08749 4.56878 4.09000 3.73099 3.11463 3.90271 4.40606 2.31705 3.49928 0.95495 3.15939 4.01225 4.34962 3.88240 3.68485 3.46841 3.38510 2.33812 4.97017 3.67883 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03342 3.81095 4.53330 0.61958 0.77255 0.49036 0.94780\n- 7 2.91779 4.87635 3.08954 2.72431 4.24867 3.41243 3.72863 3.67440 1.12590 3.25366 4.21973 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 420 3.15332 4.66942 3.74059 3.45882 2.30029 3.75305 3.59189 3.17213 3.31826 2.64300 3.85459 3.64306 4.22919 3.64040 3.51512 3.29619 3.44010 3.03974 3.94099 1.08489 420 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 421 2.92019 5.03367 1.01909 2.29871 4.40238 3.16218 3.87613 3.97587 2.94826 3.59692 4.57510 2.85103 3.81045 3.11632 3.45405 2.89127 3.25792 3.62275 5.58389 4.28837 421 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 422 2.68734 4.99976 2.28934 2.20908 4.19605 3.24143 2.71564 3.75785 2.47588 3.31521 4.14769 2.16095 3.76251 2.78847 2.94785 2.60524 2.95017 3.39490 5.45124 4.03262 422 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 423 3.22915 4.62686 3.99182 3.68245 2.60446 3.65761 3.82277 3.25126 3.40662 2.65706 3.88802 3.84535 4.17016 3.79787 3.54630 3.43338 3.52652 3.13975 1.03197 2.61032 423 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 424 2.82534 5.08990 1.20648 2.17159 4.41179 3.12961 3.78135 3.98231 2.82862 3.60261 4.52409 2.66671 3.77711 2.99397 3.36477 2.77840 3.15774 3.59993 5.66670 4.24452 424 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 425 3.22915 4.62686 3.99182 3.68245 2.60446 3.65761 3.82277 3.25126 3.40662 2.65706 3.88802 3.84535 4.17016 3.79787 3.54630 3.43338 3.52652 3.13975 1.03197 2.61032 425 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 426 2.44327 4.33583 3.09590 2.90454 4.01205 3.04218 4.04112 3.49099 2.95654 3.17696 4.15859 3.21312 1.34049 3.34481 3.24815 2.53887 2.88449 3.11014 5.34612 4.10147 426 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03361 3.80553 4.52787 0.61958 0.77255 0.49497 0.94055\n- 427 2.79726 4.98674 2.59201 2.19129 4.25336 3.31345 3.64740 3.71267 2.30771 3.26118 4.16387 2.87074 3.83235 1.72275 2.64367 2.78824 3.05252 3.39506 5.43664 4.10775 427 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02275 3.79466 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/RT_7_A2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/RT_7_A2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1028 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME RT_7_A2\n-LENG 335\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:34 2021\n-NSEQ 8\n-EFFN 0.832031\n-CKSUM 529483793\n-GA 20 20;\n-STATS LOCAL MSV -11.1819 0.70043\n-STATS LOCAL VITERBI -12.1012 0.70043\n-STATS LOCAL FORWARD -5.6562 0.70043\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67374 4.49176 2.96966 2.69296 3.22279 3.02439 3.67570 2.66529 2.48924 2.43112 3.67861 3.00058 3.58163 3.06696 2.89859 2.68757 2.84872 2.63223 4.82826 3.31983\n- 2.68645 4.42185 2.77545 2.73166 3.46331 2.40556 3.72452 3.29229 2.67769 2.69352 4.24500 2.90315 2.73713 3.18165 2.89824 2.37885 2.77562 2.98561 4.58520 3.61275\n- 0.25467 1.52908 4.81623 2.23772 0.11283 0.00000 *\n- 1 3.15791 4.67465 4.29498 3.91080 3.32470 4.00370 4.59483 2.52335 3.66517 1.89069 1.00908 4.15924 4.47034 4.03516 3.84333 3.52755 3.47012 2.55409 5.19175 3.97053 25 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 2 2.72804 4.97491 3.07175 2.50330 4.28966 3.48704 3.61720 3.70059 1.70841 2.82983 4.05318 2.67203 3.87592 2.75045 2.29284 2.48867 2.94516 3.35673 5.40762 4.10394 26 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 3 2.66628 4.36907 3.52501 2.97758 2.71792 3.62375 2.60101 2.83641 2.89996 1.93606 3.44010 3.36110 3.26718 3.21634 3.23266 2.88464 2.90016 2.63615 4.69735 3.30871 27 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 4 2.62492 4.73920 3.00500 2.30185 3.99002 3.43191 3.66959 3.38103 2.27811 2.70473 3.84665 3.00140 3.84489 2.84059 2.87365 2.40965 2.10306 3.07656 5.27358 3.96365 28 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 5 2.94676 5.31615 2.49421 1.17661 4.64467 3.37773 3.76485 4.08812 2.21225 3.61637 4.47257 2.87705 3.92427 2.92193 2.91941 2.88509 3.20482 3.71619 5.75665 4.38145 29 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 6 3.25975 4.56595 4.88894 4.38210 3.35155 4.57379 4.99635 1.08619 4.21264 1.52482 3.18154 4.61823 4.82335 4.44219 4.37089 3.96271 3.50809 1.85290 5.38628 4.20460 30 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 7 2.68911 5.10059 2.19890 2.06882 4.40531 3.34442 3.64577 3.86693 2.46438 3.39942 4.18528 2.31895 3.80879 2.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 328 2.68768 4.24371 3.84596 3.28983 3.03964 3.71792 3.90070 2.36890 3.17479 1.95609 3.31290 3.57754 4.09231 3.45268 3.42943 2.64579 2.92355 2.43085 4.60407 2.10346 364 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 329 2.39860 4.96800 2.26894 2.34394 4.30691 3.35331 3.64171 3.75093 2.13312 3.30458 4.09356 2.87958 3.80103 2.77278 2.91307 2.39610 2.38909 3.36923 5.49718 4.12170 365 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 330 2.67768 4.86646 2.98671 2.10882 4.12933 3.45357 3.64574 3.51111 1.93347 2.52725 3.94681 2.98466 3.85783 2.79652 2.74390 2.70555 2.56451 3.19489 5.35060 4.03459 366 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09388 4.81623 0.61958 0.77255 0.48576 0.95510\n- 331 2.76081 4.40049 3.67734 3.13525 3.19990 3.72019 3.88026 2.74324 2.56400 1.49290 3.39309 3.48659 4.09431 3.30554 3.15089 3.01392 2.98995 2.58951 4.75649 2.80381 367 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08797 4.09388 2.69512 0.61958 0.77255 0.48576 0.95510\n- 332 2.61811 4.83633 2.81567 2.42302 4.25657 3.32005 3.68736 3.68483 2.22107 3.26330 4.07582 2.13725 3.80766 2.83879 2.88150 2.14493 2.55360 3.31108 5.46767 4.12823 368 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03261 4.75495 0.61958 0.77255 0.55129 0.85850\n- 333 2.38093 5.11770 2.26617 2.08678 4.42422 3.34084 3.06669 3.89134 2.03181 3.40358 4.18126 2.81563 3.79104 2.73056 2.87480 2.63663 2.91515 3.49023 5.56480 4.16278 369 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09877 4.03261 2.57279 0.61958 0.77255 0.55129 0.85850\n- 334 2.63757 4.38630 3.46302 2.88370 3.54363 3.57659 3.79652 2.06141 2.37128 2.53297 3.47648 3.28871 3.95835 3.08204 2.60369 2.84585 2.86781 2.33571 4.97696 3.74459 370 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02866 3.96249 4.68484 0.61958 0.77255 0.61705 0.77551\n- 335 2.78796 5.30045 1.91539 1.73062 4.60061 2.79546 3.66435 4.09033 2.25399 3.59022 4.39427 2.72076 3.79774 2.80555 3.08356 2.71023 3.04842 3.67400 5.75079 4.29971 371 e - - -\n- 2.68617 4.42292 2.77555 2.73127 3.46421 2.40580 3.72561 3.29239 2.67715 2.69269 4.24695 2.90218 2.73757 3.18128 2.89816 2.37904 2.77540 2.98546 4.58418 3.61537\n- 0.60129 0.79430 * 2.18935 0.11877 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsA_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsA_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,848 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME ThsA_Petit\n-LENG 275\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Apr 9 16:39:46 2021\n-NSEQ 74\n-EFFN 4.864380\n-CKSUM 1306219653\n-GA 1 1;\n-STATS LOCAL MSV -10.8853 0.70202\n-STATS LOCAL VITERBI -11.5581 0.70202\n-STATS LOCAL FORWARD -5.0611 0.70202\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61968 4.43487 2.95571 2.73555 3.13228 2.99393 3.81488 2.50699 2.60005 2.37805 3.62347 3.00485 3.60526 3.16413 3.05995 2.63305 2.81582 2.66227 4.68021 3.47969\n- 2.68619 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29356 2.67742 2.69356 4.24573 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.31875 3.36682 1.43363 0.34422 1.23365 0.00000 *\n- 1 4.46365 5.86245 5.65582 5.48274 4.46591 4.98383 5.96572 3.82256 5.22853 2.99781 0.19739 5.59282 5.54997 5.55971 5.26312 4.85435 4.84987 3.94549 6.30945 5.17705 2 M - - -\n- 2.68743 4.42485 2.77649 2.73156 3.46124 2.40632 3.72661 3.29283 2.67397 2.69395 4.24714 2.90235 2.73872 3.18148 2.89776 2.37927 2.77609 2.98340 4.58169 3.61335\n- 1.20452 0.39681 3.58616 2.15360 0.12337 0.97507 0.47347\n- 2 2.41459 4.47016 4.20102 3.07809 2.63676 4.00058 4.28822 2.18465 2.77673 1.52824 3.08433 3.90280 4.37295 3.77996 2.99724 2.86662 3.16500 2.72791 5.07468 3.87290 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16737 5.06571 1.91186 0.61958 0.77255 0.66357 0.72362\n- 3 2.92475 3.56021 4.66158 4.06064 2.05794 3.38014 3.87173 2.38903 3.89275 1.80338 2.52616 4.15172 4.43335 2.63201 3.58120 3.36806 2.80687 2.58757 4.95608 3.05079 26 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00968 5.03851 5.76085 0.61958 0.77255 1.04819 0.43166\n- 4 2.79356 3.93574 1.97658 3.24894 3.42975 3.90730 4.16215 2.08957 2.97032 2.31286 3.33746 3.00312 3.83695 3.50182 3.55194 2.46174 2.98955 2.90753 3.66824 3.98561 27 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06331 5.78565 0.61958 0.77255 0.93426 0.49902\n- 5 2.92283 5.34999 2.80208 2.64961 4.11133 3.70996 3.90053 3.42296 1.24722 3.64087 3.49295 3.01186 3.86107 2.47640 2.88776 2.81974 3.00458 3.26637 5.80291 4.41325 28 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00905 5.10497 5.82731 0.61958 0.77255 1.05303 0.42906\n- 6 2.92101 5.39469 1.89096 2.34566 4.07896 3.51336 3.72149 3.60318 2.21185 2.75079 4.43939 2.90632 4.09372 2.43272 2.65204 2.89054 2.98992 3.31596 5.83661 3.30171 29 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00905 5.10497 5.82731 0.61958 0.77255 0.97351 0.47442\n- 7 2.34193 4.38181 4.94075 4.32930 2.30688 4.17856 4.51309 1.99172 4.12305 1.62607 2.79695 4.33078 4.53886 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00727 5.32311 6.04546 0.61958 0.77255 0.48576 0.95510\n- 268 3.36357 4.70544 5.34382 4.74382 3.03705 4.58865 4.94509 1.27376 4.54651 1.52918 3.10943 4.75089 4.92091 4.66809 4.56050 3.02770 3.59680 1.63359 5.39613 4.23408 385 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05249 5.32311 3.07341 0.61958 0.77255 0.48576 0.95510\n- 269 2.85979 5.51595 3.25863 2.33007 4.86130 2.73462 3.96754 4.34508 1.32252 3.81987 4.55728 2.87919 4.17604 2.45577 2.66679 2.46407 3.24108 3.34618 5.94712 4.53934 386 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00761 5.27822 6.00057 0.61958 0.77255 0.64361 0.74527\n- 270 2.23068 5.49341 2.25212 1.88554 3.63222 3.03860 3.38251 4.31153 2.41719 3.27852 4.53608 3.06883 4.17074 3.06414 3.19459 2.14458 2.83818 3.39741 5.93067 4.52432 387 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00761 5.27822 6.00057 0.61958 0.77255 0.64361 0.74527\n- 271 2.31561 4.70454 3.75318 3.43097 2.42213 4.03682 3.07055 2.97018 2.97536 2.12525 3.81039 2.42836 4.41447 3.66750 3.70695 2.58626 2.81366 2.30760 5.29311 3.00361 388 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 5.27822 4.00594 0.61958 0.77255 0.64361 0.74527\n- 272 3.02556 4.71472 3.95598 2.26050 3.17135 4.01855 4.27687 2.85210 2.11172 2.02388 2.96561 3.60643 4.39686 3.63157 2.78659 3.04192 3.25732 2.72959 2.82317 3.11530 389 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26481 5.26237 1.48075 0.61958 0.77255 0.69242 0.69387\n- 273 2.89315 5.34306 3.16672 2.60871 4.66805 3.67371 3.85823 4.13582 2.18385 3.12618 4.39046 1.95160 4.06592 2.70572 2.14521 2.22354 2.54588 3.26545 5.78604 4.39385 390 n - - -\n- 2.68639 4.42246 2.77541 2.73144 3.46313 2.40534 3.72445 3.29375 2.67713 2.69376 4.24711 2.90313 2.73761 3.18135 2.89822 2.37832 2.77541 2.98540 4.58498 3.61415\n- 0.96054 0.65038 2.34897 0.05634 2.90445 1.20563 0.35596\n- 274 2.52108 4.88969 3.36475 2.81260 4.09715 1.68389 3.94680 3.49081 2.61757 2.32267 3.98376 2.88302 4.11165 3.13973 3.23654 2.43619 2.93060 3.20684 5.43237 3.34792 392 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11411 4.91079 2.29784 0.61958 0.77255 0.85505 0.55384\n- 275 2.46054 4.37563 4.42842 2.76996 3.48046 4.03397 4.34345 1.76316 3.21864 1.55508 3.11833 4.03224 4.40014 3.92790 3.87959 3.32403 3.14894 2.11208 5.00334 3.81369 393 l - - -\n- 2.68542 4.42294 2.77493 2.73111 3.46361 2.40570 3.72436 3.29266 2.67701 2.69293 4.24759 2.90397 2.73733 3.18169 2.89799 2.37931 2.77558 2.98549 4.58546 3.61500\n- 0.57399 0.82845 * 1.36747 0.29404 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsA_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsA_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1463 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME ThsA_Grand\n-LENG 480\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Apr 9 16:39:47 2021\n-NSEQ 60\n-EFFN 2.420654\n-CKSUM 860330106\n-GA 1 1;\n-STATS LOCAL MSV -11.6237 0.69823\n-STATS LOCAL VITERBI -12.3505 0.69823\n-STATS LOCAL FORWARD -6.2143 0.69823\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51417 4.54413 2.94447 2.61123 3.26723 2.92454 3.71011 2.71520 2.62126 2.40936 3.69803 3.04459 3.55681 3.02742 2.95004 2.65963 2.86282 2.69143 4.72461 3.44580\n- 2.68618 4.42283 2.77548 2.73135 3.46374 2.40553 3.72552 3.29326 2.67739 2.69370 4.23583 2.90336 2.73789 3.18191 2.89829 2.37898 2.77534 2.98496 4.58462 3.61512\n- 1.12893 0.66825 1.80778 1.21779 0.35081 0.00000 *\n- 1 2.58845 4.54529 3.46110 2.89675 2.62215 3.66528 3.90440 3.06838 2.60171 2.50326 2.68316 2.74290 3.31767 3.18149 2.74938 2.89818 2.49845 2.68957 5.11317 3.85986 17 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08993 4.58897 2.57914 0.61958 0.77255 0.79011 0.60476\n- 2 2.52875 4.89310 3.10921 2.40725 4.12939 3.53584 3.74039 2.96375 2.26730 3.15067 3.34199 2.73000 3.92587 2.89280 2.92546 2.25698 2.15833 3.22388 5.39790 4.06566 18 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01638 4.51543 5.23778 0.61958 0.77255 0.88339 0.53338\n- 3 2.25871 4.88580 3.11448 2.31369 4.11961 3.53774 3.74193 2.67054 2.47698 3.00844 3.95813 3.07327 3.21545 2.66634 2.42854 2.65371 2.74457 2.92966 5.39142 4.06090 19 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01638 4.51543 5.23778 0.61958 0.77255 0.88339 0.53338\n- 4 2.35985 5.24096 2.04899 1.97653 4.57758 3.21010 3.69113 4.06198 2.26189 3.54271 4.28634 2.73968 3.59871 2.71374 2.85925 2.60938 2.81319 3.62754 5.67678 4.26351 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01638 4.51543 5.23778 0.61958 0.77255 0.88339 0.53338\n- 5 2.70926 4.61816 3.34479 2.68898 3.78925 3.61695 3.84009 2.29696 2.16646 2.38901 3.24647 3.24689 4.00047 2.45817 3.00045 2.84271 2.71217 2.80590 5.17026 3.90086 21 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01638 4.51543 5.23778 0.61958 0.77255 0.88339 0.53338\n- 6 2.78225 5.29760 2.62954 1.83086 4.63541 3.10441 3.71934 4.12250 1.76803 3.59755 4.34580 2.38988 3.91331 2.70022 2.88424 2.66916 3.01806 3.68544 5.72784 4.31000 22 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01638 4.51543 5.23778 0.61958 0.77255 0.88339 0.53338\n- 7 2.46038 5.01985 3.05734 2.25230 4.29363 3.52126 3.71137 3.29299 2.04349 2.63365 4.08143 2.82982 3.91153 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01408 4.66565 5.38799 0.61958 0.77255 0.67371 0.71297\n- 473 2.62750 5.11552 2.78241 2.17664 3.99312 3.55149 3.54564 2.67944 2.29621 3.39593 4.17171 3.04543 3.94350 2.86358 1.87896 2.66286 2.98488 3.30763 5.58286 4.20991 632 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01408 4.66565 5.38799 0.61958 0.77255 0.67371 0.71297\n- 474 2.71215 4.22520 4.67888 4.07661 2.73092 3.53570 4.34061 1.50583 3.89343 1.59563 3.29069 4.12896 4.36557 4.04517 3.94855 3.31992 3.07273 2.17325 4.85835 3.39418 633 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01408 4.66565 5.38799 0.61958 0.77255 0.67371 0.71297\n- 475 2.31427 5.25456 2.78942 2.28744 4.59584 3.52610 3.71461 4.07909 2.24166 3.55808 4.29646 2.63790 3.22787 2.27083 2.52924 2.36915 2.62116 3.64322 5.68930 4.28065 634 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03219 4.66565 3.80481 0.61958 0.77255 0.67371 0.71297\n- 476 2.75191 5.24524 2.89602 2.37680 4.58531 3.34634 3.43712 4.06554 1.70560 3.42753 4.28788 2.38270 3.91909 2.60553 2.51702 2.44882 2.85171 3.44052 5.67946 4.27471 635 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01434 4.64780 5.37014 0.61958 0.77255 0.70287 0.68352\n- 477 2.54722 5.15422 2.65261 2.43886 3.75666 3.20483 3.72626 3.55903 2.14882 2.99619 4.20558 2.97425 3.68046 2.66977 2.43059 2.18518 2.85052 3.26697 5.61149 4.22596 636 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08048 4.64780 2.69198 0.61958 0.77255 0.70287 0.68352\n- 478 2.54876 5.20441 2.80484 2.16883 4.53715 3.24689 3.69005 4.01450 2.21099 3.09122 4.24838 2.26004 3.20237 2.61389 2.75944 2.63391 2.66838 3.45115 5.64448 3.83706 637 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26968 4.58263 1.48658 0.61958 0.77255 0.79880 0.59760\n- 479 2.51439 4.70930 3.00056 2.36102 3.13906 3.26859 3.72399 3.08143 2.28674 2.95160 3.79091 3.08050 2.98922 2.90894 3.01150 2.72160 2.87685 2.90617 5.23771 2.88136 638 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01970 4.33265 5.05500 0.61958 0.77255 0.89218 0.52723\n- 480 2.53487 3.86743 2.89396 2.63313 3.56917 3.21602 3.75928 2.74536 2.54024 2.92925 3.77546 2.98631 3.92860 2.82833 2.34645 2.38427 2.89784 2.99775 3.92266 3.93094 639 r - - -\n- 2.68541 4.42122 2.77542 2.73100 3.46346 2.40531 3.72538 3.29406 2.67725 2.69327 4.24728 2.90366 2.73753 3.18198 2.89785 2.37932 2.77533 2.98515 4.58346 3.61417\n- 0.66919 0.71769 * 1.49344 0.25437 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsB_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsB_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,542 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME ThsB_Petit\n-LENG 173\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Apr 9 16:39:47 2021\n-NSEQ 71\n-EFFN 2.665100\n-CKSUM 3352999533\n-GA 1 1;\n-STATS LOCAL MSV -10.1801 0.70725\n-STATS LOCAL VITERBI -11.1291 0.70725\n-STATS LOCAL FORWARD -4.5982 0.70725\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56907 4.54718 2.87260 2.64336 3.39411 3.15439 3.65458 2.80867 2.50873 2.56070 3.62049 2.88547 3.56016 3.06398 2.91900 2.56293 2.82838 2.73108 4.30209 3.28313\n- 2.68614 4.42165 2.77526 2.73118 3.46360 2.40519 3.72501 3.29341 2.67747 2.69361 4.24590 2.90326 2.73746 3.18153 2.89794 2.37893 2.77526 2.98525 4.58484 3.61510\n- 0.06452 2.97025 4.49237 1.14803 0.38164 0.00000 *\n- 1 3.93188 5.29801 5.43581 5.00064 3.57635 4.97654 5.42597 2.80813 4.65141 1.87035 0.54123 5.17490 5.28423 4.89559 4.73108 4.46894 4.20974 2.97481 5.67283 4.48964 6 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01196 4.82820 5.55055 0.61958 0.77255 0.50316 0.92789\n- 2 1.54843 4.73415 3.44829 2.79701 3.92034 3.01283 3.96160 2.99049 2.72572 2.89208 3.83974 3.35663 3.89601 3.19522 3.28066 2.18971 2.94403 2.47740 5.30095 4.02817 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15034 4.82820 2.02812 0.61958 0.77255 0.50316 0.92789\n- 3 2.93466 4.82764 3.44478 2.94797 3.72295 3.77858 3.94140 3.08197 2.61397 3.04159 3.93002 2.66635 4.17772 2.98101 3.15071 3.05497 3.16310 3.13830 5.15321 1.25675 8 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03736 4.69159 3.59351 0.61958 0.77255 0.36328 1.18872\n- 4 3.87541 5.88127 4.52323 3.56726 5.53812 4.36433 4.07360 4.75951 1.76897 4.05972 4.96412 3.86029 4.66821 2.88433 0.59394 3.83926 3.95003 4.46441 5.98435 4.94751 9 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01220 4.80789 5.53024 0.61958 0.77255 0.47428 0.97374\n- 5 2.86959 5.23225 3.14233 2.60649 4.54216 3.64222 3.83468 3.74642 2.44814 3.51993 4.29857 1.50120 4.04216 2.63731 2.82925 2.73701 2.04194 3.60729 5.69297 4.32792 10 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13183 4.82820 2.15844 0.61958 0.77255 0.50316 0.92789\n- 6 2.63482 5.27604 3.21935 2.72284 4.71317 1.66122 3.89404 4.14176 1.45585 3.64551 4.44072 3.06933 4.11235 3.01878 2.66561 2.96538 3.21344 3.74779 5.77824 4.45791 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01347 4.70985 5.43219 0.61958 0.77255 0.37641 1.15939\n- 7 2.83485 3.87852 3.93482 3.36693 3.60968 3.85233 4.16962 2.74619 3.29804 2.48440 3.59119 2.42585 4.24723 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08738 4.62694 2.60517 0.61958 0.77255 0.85765 0.55192\n- 166 2.50085 4.15602 2.74942 2.01701 4.25540 3.52868 3.72893 2.62518 2.37970 3.26303 4.05848 2.72407 3.92038 2.86286 2.98258 2.27616 2.94658 3.02616 5.48110 4.12743 261 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05582 4.55529 3.12858 0.61958 0.77255 0.94617 0.49139\n- 167 2.20379 4.86284 2.95290 2.57052 4.09110 3.38816 3.74947 3.21574 2.32402 3.11695 3.93780 3.08469 3.93212 2.61958 2.76103 2.60289 2.69925 2.18404 5.37382 4.04838 262 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06265 4.51585 2.99981 0.61958 0.77255 0.98934 0.46493\n- 168 2.46347 5.01843 2.77711 2.47930 4.26862 3.50426 3.53760 3.71535 2.51772 3.28833 4.08740 2.63852 3.91447 2.31657 2.99113 2.60436 2.96385 3.36612 5.49573 2.07525 263 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01715 4.47034 5.19269 0.61958 0.77255 1.03499 0.43886\n- 169 2.68992 5.16561 2.77228 2.06392 4.49653 3.19663 3.49041 3.71590 2.09001 3.46460 4.21015 2.40360 3.86170 2.70752 2.62215 2.34313 2.92103 3.41588 4.44016 4.20477 264 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03332 4.47034 3.84784 0.61958 0.77255 1.03499 0.43886\n- 170 2.62783 5.00113 3.02113 2.22075 3.98732 3.02556 3.68913 2.61292 2.24240 3.27452 4.06207 2.91766 3.88499 2.58714 2.62289 2.25169 2.91852 3.35267 5.47881 4.11784 265 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04615 4.45445 3.39702 0.61958 0.77255 1.05000 0.43069\n- 171 2.70549 4.21715 4.03448 2.38924 2.56586 3.78638 4.06852 2.48809 3.35127 1.74919 3.13460 3.71238 4.15251 3.58986 3.57228 3.06517 2.85733 2.45417 3.13731 3.58946 266 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01793 4.42623 5.14858 0.61958 0.77255 1.07553 0.41721\n- 172 2.77082 5.11038 2.75414 2.44360 4.40919 1.67866 3.74678 3.85475 2.38690 3.08481 4.20042 2.59092 3.92129 2.69115 3.00744 2.59678 3.01299 3.48394 5.60021 4.22600 267 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01793 4.42623 5.14858 0.61958 0.77255 1.03386 0.43948\n- 173 2.74265 4.13896 4.51762 3.92182 2.96120 3.88838 4.15165 1.96463 3.74342 1.57772 3.21384 3.97945 4.24657 3.89659 3.80960 3.04917 2.97396 2.30229 3.06326 2.66359 268 l - - -\n- 2.68620 4.42182 2.77517 2.73087 3.46412 2.40553 3.72537 3.29050 2.67712 2.69408 4.24748 2.90311 2.73750 3.18185 2.89775 2.37920 2.77538 2.98576 4.58454 3.61477\n- 0.57311 0.82959 * 1.66870 0.20886 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsB_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/ThsB_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,881 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME ThsB_Grand\n-LENG 286\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Apr 9 16:39:48 2021\n-NSEQ 38\n-EFFN 3.390869\n-CKSUM 2405123538\n-GA 1 1;\n-STATS LOCAL MSV -10.9524 0.70168\n-STATS LOCAL VITERBI -12.2985 0.70168\n-STATS LOCAL FORWARD -5.1882 0.70168\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60007 4.46936 2.85334 2.65194 3.31616 2.88859 3.67544 2.84685 2.64436 2.49895 3.81263 2.99262 3.16029 3.06695 2.90215 2.53990 2.88543 2.75724 4.44613 3.45603\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01633 4.51865 5.24100 0.61958 0.77255 0.00000 *\n- 1 3.63974 5.10509 4.84526 4.53789 3.69879 4.38721 5.12407 2.95273 4.26682 2.23147 0.52294 4.72164 4.88932 4.62185 4.38529 4.03279 3.97865 3.02782 5.59106 4.39860 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14030 4.51865 2.12028 0.61958 0.77255 0.48576 0.95510\n- 2 2.72776 4.96291 2.27999 2.48753 4.22386 2.58660 3.74027 2.28689 2.09378 3.23584 4.05129 3.01558 3.91394 2.88917 3.00754 2.74631 2.96662 3.29639 5.47207 4.12445 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01847 4.39682 5.11917 0.61958 0.77255 0.66798 0.71897\n- 3 2.07812 5.00144 3.07294 2.51760 4.34467 3.49501 3.70685 3.77542 2.01061 3.32600 4.11726 3.03233 3.90361 2.83469 2.27543 2.16713 2.70031 3.40612 5.51092 4.16925 3 k - - -\n- 2.68653 4.42309 2.77455 2.73156 3.46438 2.40462 3.72578 3.29269 2.67781 2.69254 4.24774 2.90430 2.73772 3.18230 2.89885 2.37971 2.77355 2.98355 4.58561 3.61477\n- 0.55754 1.23921 1.98217 2.40914 0.09419 0.66798 0.71897\n- 4 2.75218 4.50279 3.50370 2.97766 3.29696 3.66928 3.83707 2.96049 2.85531 2.63382 3.58837 3.37789 4.06195 2.28815 3.18603 2.94276 2.98823 2.12590 4.80909 2.06665 19 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02130 4.25550 4.97785 0.61958 0.77255 0.53898 0.87549\n- 5 2.97115 5.49964 1.87563 1.31569 4.81751 3.43123 3.85737 4.30832 2.76290 3.80903 4.61099 2.89829 3.97970 2.99786 3.31289 2.89090 2.27297 3.88152 5.96777 4.50437 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01847 4.39682 5.11917 0.61958 0.77255 0.48004 0.96432\n- 6 2.22468 4.85295 3.11753 2.58314 4.11661 3.52343 3.76588 2.65290 2.28071 3.14077 3.96358 2.16992 3.93258 2.92727 3.01765 2.21364 2.94314 3.20292 5.39589 4.07321 21 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01705 4.47606 5.19840 0.61958 0.77255 0.55591 0.85226\n- 7 2.74763 4.90782 3.17051 2.16107 4.14803 3.57027 3.74559 2.32528 2.04182 3.15692 3.98116 3.10747 3.95587 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16318 4.49091 1.97076 0.61958 0.77255 0.30397 1.33897\n- 279 2.50612 5.25105 2.72397 2.26921 4.58778 3.52973 3.06761 4.06336 2.44866 3.54887 4.29681 3.00098 3.92975 2.37217 1.72900 2.54020 3.00152 3.63784 5.68433 4.28453 980 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62386 5.34621 0.61958 0.77255 0.50923 0.91869\n- 280 2.53441 5.28765 2.63739 2.48860 4.63007 3.56065 3.75203 4.10428 2.13061 3.58656 4.33622 2.43113 3.40853 2.85490 1.64680 2.77349 3.03964 3.67842 5.71840 4.32184 981 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01381 4.68504 5.40738 0.61958 0.77255 0.58545 0.81385\n- 281 3.08582 4.91979 3.58374 3.08023 4.29232 3.56010 3.87646 3.83902 2.26722 3.34209 4.34053 3.43452 4.05933 3.09336 0.87556 3.16664 3.34701 3.55993 5.34673 4.20440 982 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02922 3.94325 4.66560 0.61958 0.77255 0.58545 0.81385\n- 282 1.70893 4.07016 3.18782 2.94182 4.05003 2.85202 4.03897 3.35688 2.99527 3.14226 4.02847 3.14280 3.58647 3.32040 3.29791 1.72733 2.61532 2.90430 5.43200 4.18673 983 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72831 4.45066 0.61958 0.77255 0.58545 0.81385\n- 283 2.70380 4.59366 2.96331 2.14534 3.63435 3.43022 3.76601 2.85381 2.56650 2.00991 3.63257 3.09738 3.90050 3.01106 2.90319 2.82928 2.96294 2.67526 5.11360 3.80117 984 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72831 4.45066 0.61958 0.77255 0.42812 1.05479\n- 284 1.75540 4.07762 3.31634 3.02352 3.93639 2.93692 4.06495 2.97038 2.99958 2.89832 3.87048 3.21918 3.64690 3.35166 3.28833 2.39340 1.99117 2.63098 5.38137 4.15624 985 a - - -\n- 2.68634 4.42241 2.77512 2.73139 3.46369 2.40512 3.72510 3.29331 2.67756 2.69328 4.24705 2.90362 2.73711 3.18162 2.89790 2.37871 2.77535 2.98506 4.58492 3.61519\n- 0.17763 1.89168 4.42854 1.83114 0.17463 0.48576 0.95510\n- 285 2.76588 4.31994 3.79891 3.43764 3.18769 3.63648 4.23861 1.60955 3.25314 1.90160 3.23273 3.72181 4.13505 3.65785 3.48298 3.13536 3.08910 1.95569 4.97810 3.66059 997 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04314 3.56051 4.28286 0.61958 0.77255 0.48576 0.95510\n- 286 2.21629 4.11111 2.96970 2.79951 3.74161 2.84816 3.90019 3.23403 2.84217 2.99474 3.98226 3.06294 3.56492 3.23131 3.11759 1.70776 2.67639 2.85233 5.15131 3.82859 998 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.54661 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/Tin.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/Tin.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,770 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Tin\n-LENG 249\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 10 13:54:02 2021\n-NSEQ 73\n-EFFN 1.341125\n-CKSUM 434066870\n-GA 20 20;\n-STATS LOCAL MSV -10.9001 0.70294\n-STATS LOCAL VITERBI -11.6020 0.70294\n-STATS LOCAL FORWARD -5.4037 0.70294\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58913 4.18867 2.94177 2.59766 3.32028 3.08739 3.70580 2.68312 2.55165 2.54057 3.68307 2.97087 3.48769 3.11487 2.93879 2.64029 2.75644 2.63214 5.11702 3.38157\n- 2.68626 4.42233 2.77518 2.73132 3.46362 2.40521 3.72503 3.29345 2.67704 2.69363 4.24401 2.90355 2.73748 3.18155 2.89809 2.37895 2.77528 2.98527 4.58485 3.61511\n- 0.38538 1.56852 2.19413 0.68194 0.70448 0.00000 *\n- 1 2.47803 4.06892 3.42387 2.86733 3.59352 3.41317 3.84175 2.95560 2.52748 2.66050 1.97517 3.14297 3.94889 3.13534 3.16868 2.56188 2.71923 2.71253 5.01391 3.77076 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02144 4.24914 4.97149 0.61958 0.77255 0.63121 0.75918\n- 2 2.62977 4.92712 2.52450 2.41331 3.59582 3.43646 3.19931 3.14487 2.39112 3.19854 3.99022 2.35903 3.82981 2.76798 2.75219 2.38782 2.77419 3.27531 5.40944 4.05099 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02144 4.24914 4.97149 0.61958 0.77255 0.63121 0.75918\n- 3 2.64756 4.88143 3.00705 2.24219 4.13512 3.45918 3.65626 2.79135 2.25094 2.95962 3.95080 2.22587 3.85203 2.79893 2.73795 2.56358 2.79967 3.22148 5.37084 4.03230 9 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02144 4.24914 4.97149 0.61958 0.77255 0.48812 0.95135\n- 4 2.63499 4.39965 3.32321 2.88083 3.54411 3.10495 3.84424 2.75007 2.84142 2.39120 2.41409 2.93997 3.59882 3.15115 3.21212 2.45318 2.86702 2.49348 4.97630 3.51299 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31784 5.04019 0.61958 0.77255 0.54583 0.86598\n- 5 2.82946 5.35858 1.76695 1.83781 4.67474 3.40353 3.73848 4.16896 2.57638 3.65368 4.42683 2.53683 3.89581 2.66755 3.10381 2.52054 2.56843 3.73741 5.79941 4.35624 11 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31784 5.04019 0.61958 0.77255 0.54583 0.86598\n- 6 3.39411 4.67775 5.09938 4.63893 3.57589 4.73566 5.26115 0.77684 4.45590 1.91041 3.41580 4.84358 5.01295 4.72153 4.60842 4.16778 3.65791 1.85430 5.62743 4.40335 12 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31784 5.04019 0.61958 0.77255 0.54583 0.86598\n- 7 2.66311 4.35452 3.57736 2.60748 3.48916 3.65148 3.90385 2.06308 2.92264 2.39687 3.45245 3.40292 4.02880 2.89450'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02001 4.31741 5.03975 0.61958 0.77255 0.54642 0.86517\n- 242 3.32029 4.56733 5.24098 4.76489 3.83082 4.80517 5.47588 1.07487 4.67414 2.28884 3.59842 4.94264 5.07554 4.92700 4.84763 4.22153 3.58541 1.06974 5.87800 4.66886 281 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02001 4.31741 5.03975 0.61958 0.77255 0.54642 0.86517\n- 243 2.50068 3.88000 3.48144 2.91422 3.55274 3.59886 3.86082 2.04699 2.43292 2.62017 3.50951 3.32765 3.98730 3.17154 2.94530 2.69864 2.30484 2.67086 4.98509 3.74660 282 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02001 4.31741 5.03975 0.61958 0.77255 0.54642 0.86517\n- 244 3.04995 4.49349 4.35647 3.84327 1.18343 4.07283 3.96323 2.78183 3.70722 2.18326 3.46285 3.97058 4.42683 3.89056 3.87129 3.38602 2.66828 2.66866 4.34131 2.56643 283 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02001 4.31741 5.03975 0.61958 0.77255 0.54642 0.86517\n- 245 2.40829 5.05024 2.91801 1.66351 4.35251 3.44624 3.65533 3.80078 2.21722 3.33800 3.88349 2.94032 3.85213 2.69872 2.87617 2.46862 2.70133 3.41945 5.51741 4.14292 284 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02001 4.31741 5.03975 0.61958 0.77255 0.54642 0.86517\n- 246 2.78555 5.06522 3.15274 2.55714 4.38466 3.55607 3.67184 3.58579 1.80142 3.32719 3.65720 2.71014 3.93533 2.79799 1.76948 2.78586 2.80850 3.44440 5.48655 4.17675 285 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14468 4.31741 2.10895 0.61958 0.77255 0.54642 0.86517\n- 247 2.65214 5.07429 2.55603 2.25459 4.38551 3.40665 3.42113 3.19972 1.81149 3.36131 4.12749 2.66667 3.81322 2.60275 2.82933 2.59005 2.88397 3.44741 5.52218 4.13523 286 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06441 4.19536 3.05104 0.61958 0.77255 0.68971 0.69660\n- 248 2.37177 4.48221 3.25062 2.69175 3.39516 3.49858 3.74864 2.85563 2.66552 2.49040 3.59003 2.63916 3.21086 2.99300 3.07349 2.31537 2.82569 2.67693 5.05402 3.78595 287 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13500 4.15455 2.20193 0.61958 0.77255 0.73002 0.65759\n- 249 2.56787 4.41862 2.82768 2.70248 3.30051 3.22462 3.73761 2.40198 2.67901 2.44885 3.52049 2.98027 3.88028 3.00050 3.07706 2.68344 2.58532 2.69376 4.98883 3.72778 288 i - - -\n- 2.68631 4.42181 2.77564 2.73149 3.46375 2.40526 3.72509 3.29343 2.67754 2.69325 4.24715 2.90274 2.73749 3.18109 2.89803 2.37884 2.77518 2.98491 4.58521 3.61507\n- 0.51831 0.90517 * 1.82071 0.17663 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/cas13gr13_VI_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/cas13gr13_VI_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/casR_III-A_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/casR_III-A_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/cmr5gr11_IV-A_10.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/cmr5gr11_IV-A_10.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/csa3_I_II_III_IV_V_VI_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/csa3_I_II_III_IV_V_VI_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/csx1_III_18.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/csx1_III_18.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/csx23_III-D_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/Profiles_removed/csx23_III-D_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/README.md
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/README.md Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

@@ -1,76 +0,0 @@
-# Defense Finder Models
-
-This repository contains MacSyFinder models allowing for a systematic search of anti-phage systems.
-
-The repo is formatted according to [MacSyData guidelines](https://macsyfinder.readthedocs.io/en/latest/modeler_guide/index.html) and synchronized with [macsy-models repository](https://github.com/macsy-models) to be available in macsydata.
-
-## Contributing
-
-### Modifying the models
-
-To change the models, first create a new remove git branch from master:
-
-```
-git push origin master:<your-branch-name>
-```
-
-Then checkout (= "go to") your branch locally:
-
-```
-git checkout <your-branch-name>
-```
-
-Bring your modifications, then don't forget to check validity of the models:
-
-```
-macsydata check
-```
-
-You can now commit and push:
-
-```
-git status # Visualize which files have changed
-git add <the files you want to commit>
-git diff --cached # control what you're going to commit
-git commit -m 'Fixed the ... model'
-git push
-```
-
-The next step is to go to [the defense-finder-models Github repository](https://github.com/mdmparis/defense-finder-models) and submit a pull request.
-
-### Releasing
-
-Once your pull request has been validated and merged, you need to create a release.
-
-Decide of a new version number according to [semantic versionning](https://semver.org/).
-
-Then update the version number in `metadata.yml`, and merge it to master.
-
-Once you've done this, create a tarball with the following command (don't forget to replace <your-version> with your version).
-
-```
-tar -czf defense-finder-models-<your-version>.tar.gz \
-  ./defense-finder-models/LICENSE \
-  ./defense-finder-models/README.md \
-  ./defense-finder-models/definitions \
-  ./defense-finder-models/metadata.yml \
-  ./defense-finder-models/profiles/
-```
-
-Then go to [Github](https://github.com/mdmparis/defense-finder-models/releases).
-From there, create a new release with the correct version number and the tarball you've just created as attached file.
-
-One you've done this, your new version is discoverable through:
-
-```
-macsydata available --org mdmparis
-```
-
-And you can install it following those lines:
-
-```
-macsydata download --org mdmparis defense-finder-models
-macsydata install defense-finder-models-<version>.tar.gz
-```
-
-Or if you're using the `mdmparis-defense-finder` python package, just run `defense-finder update`.

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Abi2/Abi2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Abi2/Abi2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Abi2__Abi_2" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiB/AbiB.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiB/AbiB.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiB__AbiB" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiC/AbiC.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiC/AbiC.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiC__AbiC" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiD/AbiD.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiD/AbiD.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiD__AbiD" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiE/AbiE.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiE/AbiE.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,12 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="AbiEii__AbiEii" presence="mandatory"/>
-<gene name="AbiEii__AbiEi_1" presence="mandatory">
-<exchangeables>
-<gene name="AbiEii__AbiEi_2"/>
-<gene name="AbiEii__AbiEi_3"/>
-<gene name="AbiEii__AbiEi_4"/>
-</exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiG/AbiG.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiG/AbiG.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="AbiG__AbiGi" presence="mandatory"/>
-<gene name="AbiG__AbiGii" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiH/AbiH.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiH/AbiH.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="AbiH__AbiH" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiI/AbiI.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiI/AbiI.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiI__AbiI" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiJ/AbiJ.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiJ/AbiJ.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiJ__AbiJ" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiL/AbiL.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiL/AbiL.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,13 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="AbiL__AbiLi" presence="mandatory">
-<exchangeables>
-<gene name="AbiL__AbiLi2"/>
-</exchangeables>
-</gene>
-<gene name="AbiL__AbiLii" presence="mandatory">
-<exchangeables>
-<gene name="AbiL__AbiLii2"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiN/AbiN.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiN/AbiN.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiN__AbiN" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiO/AbiO.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiO/AbiO.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiO__AbiO" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiQ/AbiQ.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiQ/AbiQ.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiQ__AbiQ" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiR/AbiR.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiR/AbiR.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-<gene name="AbiR__AbiRa" presence="mandatory"/>
-<gene name="AbiR__AbiRb" presence="mandatory"/>
-<gene name="AbiR__AbiRc" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiT/AbiT.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiT/AbiT.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="AbiT__AbiTi" presence="mandatory"/>
-<gene name="AbiT__AbiTii" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiU/AbiU.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiU/AbiU.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiU__AbiU" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiV/AbiV.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiV/AbiV.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiV__AbiV" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiZ/AbiZ.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/AbiZ/AbiZ.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiZ__AbiZ" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/BstA/BstA.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/BstA/BstA.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="BstA__BstA" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_Endonuclease.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_Endonuclease.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,40 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="CARD_NLR__CARD_Protease" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__CARD_Protease_supposed" />
- <gene name="CARD_NLR__CARD_Protease_new" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Trypsin" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__Trypsin_new"/>
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__NLR_new" presence="accessory" >
-<exchangeables>
- <gene name="CARD_NLR__NLR_IMG" />
-</exchangeables>
-</gene>
-
-
-<gene name="GasderMIN__bGSDM" presence='forbidden'/>
-
-
-
-<gene name="CARD_NLR__Endonuclease" presence="mandatory">
-<exchangeables>
-<gene name="CARD_NLR__Endonuclease_new"/>
-<gene name="CARD_NLR__Trypsine_Endonuclease_new"/>
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Subtilase_long_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase_small_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase" presence="forbidden"/>
-<gene name="CARD_NLR__Trypsin_Phospho" presence="forbidden"/>
-<gene name="CARD_NLR__Phospho" presence="forbidden"/>
-<gene name="CARD_NLR__Phospho_Trypsin" presence="forbidden"/>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_GasderMIN.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_GasderMIN.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,36 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="CARD_NLR__CARD_Protease" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__CARD_Protease_supposed" />
- <gene name="CARD_NLR__CARD_Protease_new" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Trypsin" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__Trypsin_new"/>
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__NLR_new" presence="accessory" >
-<exchangeables>
- <gene name="CARD_NLR__NLR_IMG" />
-</exchangeables>
-</gene>
-
-
-<gene name="GasderMIN__bGSDM" presence='mandatory'/>
-
-
-
-<gene name="CARD_NLR__Endonuclease" presence="forbidden"/>
-<gene name="CARD_NLR__Endonuclease_new" presence="forbidden"/>
-<gene name="CARD_NLR__Trypsine_Endonuclease_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase_long_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase_small_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase" presence="forbidden"/>
-<gene name="CARD_NLR__Trypsin_Phospho" presence="forbidden"/>
-<gene name="CARD_NLR__Phospho" presence="forbidden"/>
-<gene name="CARD_NLR__Phospho_Trypsin" presence="forbidden"/>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_Phospho.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_Phospho.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,42 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="CARD_NLR__CARD_Protease" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__CARD_Protease_supposed" />
- <gene name="CARD_NLR__CARD_Protease_new" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Trypsin" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__Trypsin_new"/>
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__NLR_new" presence="accessory" >
-<exchangeables>
- <gene name="CARD_NLR__NLR_IMG" />
-</exchangeables>
-</gene>
-
-
-<gene name="GasderMIN__bGSDM" presence='forbidden'/>
-
-
-
-<gene name="CARD_NLR__Endonuclease" presence="forbidden"/>
-<gene name="CARD_NLR__Endonuclease_new" presence="forbidden"/>
-<gene name="CARD_NLR__Trypsine_Endonuclease_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase_long_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase_small_new" presence="forbidden"/>
-<gene name="CARD_NLR__Subtilase" presence="forbidden"/>
-
-<gene name="CARD_NLR__Trypsin_Phospho" presence="mandatory">
-<exchangeables>
-<gene name="CARD_NLR__Phospho" />
-<gene name="CARD_NLR__Phospho_Trypsin" />
-</exchangeables>
-</gene>
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_Subtilase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_Subtilase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,41 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="CARD_NLR__CARD_Protease" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__CARD_Protease_supposed" />
- <gene name="CARD_NLR__CARD_Protease_new" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Trypsin" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__Trypsin_new"/>
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__NLR_new" presence="accessory" >
-<exchangeables>
- <gene name="CARD_NLR__NLR_IMG" />
-</exchangeables>
-</gene>
-
-
-<gene name="GasderMIN__bGSDM" presence='forbidden'/>
-
-
-
-<gene name="CARD_NLR__Endonuclease" presence="forbidden"/>
-<gene name="CARD_NLR__Endonuclease_new" presence="forbidden"/>
-<gene name="CARD_NLR__Trypsine_Endonuclease_new" presence="forbidden"/>
-
-<gene name="CARD_NLR__Subtilase_long_new" presence='mandatory'>
-<exchangeables>
-<gene name="CARD_NLR__Subtilase_small_new" />
-<gene name="CARD_NLR__Subtilase" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Trypsin_Phospho" presence="forbidden"/>
-<gene name="CARD_NLR__Phospho" presence="forbidden"/>
-<gene name="CARD_NLR__Phospho_Trypsin" presence="forbidden"/>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_like.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/CARD_NLR/CARD_NLR_like.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,51 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="4" vers="2.0">
-
-<gene name="CARD_NLR__CARD_Protease" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__CARD_Protease_supposed" />
- <gene name="CARD_NLR__CARD_Protease_new" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Trypsin" presence="accessory">
-<exchangeables>
- <gene name="CARD_NLR__Trypsin_new"/>
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__NLR_new" presence="accessory" >
-<exchangeables>
- <gene name="CARD_NLR__NLR_IMG" />
-</exchangeables>
-</gene>
-
-
-
-<gene name="CARD_NLR__Phospho_Trypsin" presence="mandatory">
-<exchangeables>
-<gene name="CARD_NLR__Phospho" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Endonuclease" presence="mandatory">
-<exchangeables>
-<gene name="CARD_NLR__Endonuclease_new" />
-<gene name="CARD_NLR__Trypsine_Endonuclease_new" />
-</exchangeables>
-</gene>
-
-<gene name="CARD_NLR__Subtilase_long_new" presence="mandatory" >
-<exchangeables>
-<gene name="CARD_NLR__Subtilase_small_new" />
-<gene name="CARD_NLR__Subtilase" />
-</exchangeables>
-</gene>
-
-
-<gene name="CARD_NLR__Trypsin_Phospho" presence="mandatory" >
-<exchangeables>
-<gene name="GasderMIN__bGSDM" />
-</exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/DISARM/DISARM_1.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/DISARM/DISARM_1.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="4" min_genes_required="4" vers="2.0">
-
-<gene name="DISARM__drmA" presence="mandatory"/>
-<gene name="DISARM__drmB" presence="mandatory"/>
-<gene name="DISARM__drmC" presence="mandatory"/>
-<gene name="DISARM_1__drmD" presence="mandatory"/>
-<gene name="DISARM_1__drmMI" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/DISARM/DISARM_2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/DISARM/DISARM_2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="4" min_genes_required="4" vers="2.0">
-
-<gene name="DISARM__drmA" presence="mandatory"/>
-<gene name="DISARM__drmB" presence="mandatory"/>
-<gene name="DISARM__drmC" presence="mandatory"/>
-<gene name="DISARM_2__drmE" presence="mandatory"/>
-<gene name="DISARM_2__drmMII" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/GAPS4/GAPS4.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/GAPS4/GAPS4.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="GAPS4__GAPS4a" presence="mandatory"/>
-<gene name="GAPS4__GAPS4b" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gabija/Gabija.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gabija/Gabija.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,11 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Gabija__GajA" presence="mandatory"/>
-<gene name="Gabija__GajB_1" presence="mandatory">
-<exchangeables>
-<gene name="Gabija__GajB_2"/>
-<gene name="Gabija__GajB_3"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Ape/Gao_Ape.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Ape/Gao_Ape.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Gao_Ape__ApeA" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Hhe/Gao_Hhe.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Hhe/Gao_Hhe.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Gao_Hhe__HheA" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Iet/Gao_Iet.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Iet/Gao_Iet.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Gao_Iet__IetA" presence="mandatory"/>
-<gene name="Gao_Iet__IetS" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Mza/Gao_Mza.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Mza/Gao_Mza.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="5" min_genes_required="5" vers="2.0">
-
-<gene name="Gao_Mza__MzaA" presence="mandatory"/>
-<gene name="Gao_Mza__MzaB" presence="mandatory"/>
-<gene name="Gao_Mza__MzaC" presence="mandatory"/>
-<gene name="Gao_Mza__MzaD" presence="mandatory"/>
-<gene name="Gao_Mza__MzaE" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Ppl/Gao_Ppl.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Ppl/Gao_Ppl.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Gao_Ppl__PplA" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_TerY/Gao_TerY.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_TerY/Gao_TerY.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="Gao_TerY__TerYA" presence="mandatory"/>
-<gene name="Gao_TerY__TerYB" presence="mandatory"/>
-<gene name="Gao_TerY__TerYC" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Tmn/Gao_Tmn.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Tmn/Gao_Tmn.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Gao_Tmn__TmnA" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Upx/Gao_Upx.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Gao_Upx/Gao_Upx.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Gao_Upx__UpxA" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/GasderMIN/GasderMIN.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/GasderMIN/GasderMIN.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="GasderMIN__bGSDM" presence="mandatory"/>
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Kiwa/Kiwa.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Kiwa/Kiwa.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,10 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Kiwa__KwaA" presence="mandatory"/>
-<gene name="Kiwa__KwaB" presence="mandatory">
-<exchangeables>
-<gene name="Kiwa__KwaB_2"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/.DS_Store.gz

Binary file test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/.DS_Store.gz has changed

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Amidase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Amidase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,46 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="mandatory"/>
-
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-</exchangeables>
-</gene>
-
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Cap4_nuclease.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Cap4_nuclease.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,49 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease"/>
-</exchangeables>
-</gene>
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-FMO.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-FMO.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,45 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="mandatory"/>
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Fam.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Fam.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,53 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="accessory"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="accessory"/>
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="neutral">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-
-</model>
-
-
-
-
-
-
-
-
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Hydrolase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Hydrolase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,46 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="mandatory"/>
-
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Hydrolase_Protease.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Hydrolase_Protease.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,45 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="mandatory"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="mandatory"/>
-
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Hypothetical.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Hypothetical.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,46 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="mandatory"/>
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Lipase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Lipase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,46 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="mandatory"/>
-
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Mrr.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Mrr.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,46 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="mandatory"/>
-
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-PDDEXK.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-PDDEXK.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,46 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="mandatory"/>
-
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Protease.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Protease.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,46 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="mandatory"/>
-
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Sir2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lamassu-Fam/Lamassu-Sir2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,45 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Lamassu-Fam__LmuA_effector_Sir2" presence="mandatory"/>
-
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II" presence="mandatory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuB_SMC_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Amidase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Lipase"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Mrr"/>
-<gene name="Lamassu-Fam__LmuB_SMC_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuB_SMC_Sir2"/>
-<gene name="Lamassu-Fam__LmuB_SMC_hypothetical"/>
-<gene name="Lamassu-Fam__LmuB_SMC_FMO"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Lamassu-Fam__LmuC_acc_Lipase" presence="accessory">
-<exchangeables>
-<gene name="Lamassu-Fam__LmuC_acc_Cap4_nuclease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Mrr"/>
-<gene name="Lamassu-Fam__LmuC_acc_PDDEXK"/>
-<gene name="Lamassu-Fam__LmuC_acc_hydrolase_protease"/>
-<gene name="Lamassu-Fam__LmuC_acc_Sir2"/>
-<gene name="Lamassu-Fam__LmuC_acc_hypothetical"/>
-<gene name="Lamassu-Fam__LmuC_acc_FMO"/>
-
-</exchangeables>
-</gene>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease_II" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Cap4_nuclease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Amidase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Lipase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Mrr" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_PDDEXK" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Hydrolase" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_Protease" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_hypothetical" presence="forbidden"/>
-<gene name="Lamassu-Fam__LmuA_effector_FMO" presence="forbidden"/>
-
-</model>
-
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lit/Lit.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Lit/Lit.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Lit__Lit" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Nhi/Nhi.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Nhi/Nhi.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-
-<gene name="Nhi__Nhi" presence="mandatory">
-<exchangeables>
-<gene name="Nhi__Nhi"/>
-</exchangeables>
-</gene>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/NixI/NixI.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/NixI/NixI.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="NixI__NixI" presence="mandatory"/>
-<gene name="NixI__Stix" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/PD-T4-8/PD-T4-8.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/PD-T4-8/PD-T4-8.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T4-8__PD-T4-8" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Pif/Pif.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Pif/Pif.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Pif__PifA" presence="mandatory"/>
-<gene name="Pif__PifC" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RADAR/radar_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RADAR/radar_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="radar_I__rdrA_I" presence="mandatory"/>
-<gene name="radar_I__rdrB_I" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RADAR/radar_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RADAR/radar_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="radar_II__rdrA_II" presence="mandatory"/>
-<gene name="radar_II__rdrB_II" presence="mandatory"/>
-<gene name="radar_II__rdrD_II" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RexAB/RexAB.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RexAB/RexAB.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="RexAB__RexA" presence="mandatory"/>
-<gene name="RexAB__RexB" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RloC/RloC.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/RloC/RloC.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="RloC__RloC" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_3HP/Rst_3HP.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_3HP/Rst_3HP.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-<gene name="Rst_3HP__Hp1" presence="mandatory"/>
-<gene name="Rst_3HP__Hp2" presence="mandatory"/>
-<gene name="Rst_3HP__Hp3" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_DUF4238/Rst_DUF4238.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_DUF4238/Rst_DUF4238.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Rst_DUF4238__DUF4238_Pers" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_HelicaseDUF2290/Rst_HelicaseDUF2290.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_HelicaseDUF2290/Rst_HelicaseDUF2290.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Rst_HelicaseDUF2290__Helicase" presence="mandatory"/>
-<gene name="Rst_HelicaseDUF2290__DUF2290" presence="mandatory">
-<exchangeables>
-<gene name="Rst_HelicaseDUF2290__DUF2290_Pers"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_Hydrolase-3Tm/Rst_Hydrolase-Tm.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_Hydrolase-3Tm/Rst_Hydrolase-Tm.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Rst_Hydrolase-Tm__Hydrolase" presence="mandatory"/>
-<gene name="Rst_Hydrolase-Tm__Hydrolase-Tm" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_RT-nitrilase-Tm/Rst_RT-Tm.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_RT-nitrilase-Tm/Rst_RT-Tm.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Rst_RT-Tm__RT" presence="mandatory"/>
-<gene name="Rst_RT-Tm__RT-Tm" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_TIR-NLR/Rst_TIR-NLR.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Rst_TIR-NLR/Rst_TIR-NLR.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Rst_TIR-NLR__TIR" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Shedu/Shedu.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Shedu/Shedu.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Shedu__SduA" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Stk2/Stk2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Stk2/Stk2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Stk2__Stk2" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Viperin/Viperin.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/Viperin/Viperin.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Viperin__pVip" presence="mandatory" />
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/dCTPdeaminase/dCTPdeaminase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/dCTPdeaminase/dCTPdeaminase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="dCTPdeaminase__dCTPdeaminase" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/dGTPase/dGTPase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_1/dGTPase/dGTPase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="dGTPase__Sp_dGTPase" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiA/AbiA_large.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiA/AbiA_large.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiA_large__AbiA_large" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiA/AbiA_small.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiA/AbiA_small.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="AbiA_small__AbiA_small" presence="mandatory"/>
-<gene name="AbiA_small__AbiA_SLATT" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiK/AbiK.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiK/AbiK.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiK__AbiK" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiP2/AbiP2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/AbiP2/AbiP2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="AbiP2__AbiP2" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Avs_I__Avs1A" presence="mandatory"/>
-<gene name="Avs_I__Avs1B" presence="mandatory"/>
-<gene name="Avs_I__Avs1C" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Avs_II__Avs2A" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Avs_III__Avs3A" presence="mandatory"/>
-<gene name="Avs_III__Avs3B" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_IV.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_IV.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Avs_IV__Avs4A" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_V.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Avs/Avs_V.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Avs_V__Avs5A" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT6.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT6.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="DRT6__DRT6" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT7.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT7.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="DRT7__DRT7" presence="mandatory"/>
-<gene name="DRT7__DRT7_small" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT8.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT8.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="DRT8__DRT8" presence="mandatory"/>
-<gene name="DRT8__DRT8b" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT9.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT9.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="DRT9__DRT9" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_1.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_1.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="DRT_1__drt1a" presence="mandatory"/>
-<gene name="DRT_1__drt1b" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="DRT_2__drt2" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_3.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_3.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="DRT_3__drt3a" presence="mandatory"/>
-<gene name="DRT_3__drt3b" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_4.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_4.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="DRT_4__drt4" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_5.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DRT/DRT_5.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="DRT_5__drt5" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DarTG/DarTG.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/DarTG/DarTG.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="DarTG__DarT" presence="mandatory"/>
-<gene name="DarTG__DarG" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Dsr/Dsr_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Dsr/Dsr_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Dsr_I__Dsr1" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Dsr/Dsr_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Dsr/Dsr_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Dsr_II__Dsr2" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_GIY_YIG/FS_GIY_YIG.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_GIY_YIG/FS_GIY_YIG.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="FS_GIY_YIG__GIY_YIG" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HEPN_TM/FS_HEPN_TM.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HEPN_TM/FS_HEPN_TM.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="FS_HEPN_TM__TM" presence="mandatory"/>
-<gene name="FS_HEPN_TM__HEPN" presence="mandatory"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HP/FS_HP.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HP/FS_HP.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="FS_HP__HP" presence="mandatory"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HP_SDH_sah/FS_HP_SDH_sah.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HP_SDH_sah/FS_HP_SDH_sah.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="FS_HP_SDH_sah__HP" presence="mandatory"/>
-<gene name="FS_HP_SDH_sah__SDH_sah" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HsdR_like/FS_HsdR_like.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_HsdR_like/FS_HsdR_like.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="FS_HsdR_like__HdrR" presence="mandatory"/>
-<gene name="FS_HsdR_like__DUF6731" presence="mandatory"/>
-<gene name="FS_HsdR_like__HP" presence="mandatory"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_Sma/FS_Sma.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/FS_Sma/FS_Sma.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="FS_Sma__Sma" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Gao_RL/Gao_RL.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Gao_RL/Gao_RL.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="4" min_genes_required="4" vers="2.0">
-
-<gene name="Gao_RL__RL_A" presence="mandatory"/>
-<gene name="Gao_RL__RL_B" presence="mandatory"/>
-<gene name="Gao_RL__RL_C" presence="mandatory"/>
-<gene name="Gao_RL__RL_D" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/MqsRAC/MqsRAC.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/MqsRAC/MqsRAC.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="MqsRAC__mqsC" presence="mandatory"/>
-<gene name="MqsRAC__mqsR" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/NLR/NLR_like_bNACHT01.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/NLR/NLR_like_bNACHT01.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="NLR_like_bNACHT01__NLR_like_bNACHT01" presence="mandatory"/>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/NLR/NLR_like_bNACHT09.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/NLR/NLR_like_bNACHT09.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="NLR_like_bNACHT09__NLR_like_bNACHT09" presence="mandatory"/>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Old_exonuclease/Old_exonuclease.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Old_exonuclease/Old_exonuclease.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Old_exonuclease__Old_exonuclease" presence="mandatory"/>
-
-
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-1/PD-Lambda-1.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-1/PD-Lambda-1.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-Lambda-1__PD-Lambda-1" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-2/PD-Lambda-2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-2/PD-Lambda-2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-Lambda-2__PD-Lambda-2_A" presence="mandatory"/>
-<gene name="PD-Lambda-2__PD-Lambda-2_B" presence="mandatory"/>
-<gene name="PD-Lambda-2__PD-Lambda-2_C" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-3/PD-Lambda-3.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-3/PD-Lambda-3.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-Lambda-3__PD-Lambda-3_A" presence="mandatory"/>
-<gene name="PD-Lambda-3__PD-Lambda-3_B" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-4/PD-Lambda-4.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-4/PD-Lambda-4.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-Lambda-4__PD-Lambda-4_A" presence="mandatory"/>
-<gene name="PD-Lambda-4__PD-Lambda-4_B" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-6/PD-Lambda-6.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PD-Lambda-6/PD-Lambda-6.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-Lambda-6__PD-Lambda-6" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PsyrTA/PsyrTA.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/PsyrTA/PsyrTA.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="PsyrTA__PsyrA" presence="mandatory"/>
-<gene name="PsyrTA__PsyrT" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Rst_2TM_1TM_TIR/Rst_2TM_1TM_TIR.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Rst_2TM_1TM_TIR/Rst_2TM_1TM_TIR.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="4" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="Rst_2TM_1TM_TIR__Rst_2TM_TIR" presence="mandatory"/>
-<gene name="Rst_2TM_1TM_TIR__Rst_TIR_tm" presence="mandatory"/>
-<gene name="Rst_2TM_1TM_TIR__Rst_1TM_TIR" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Rst_gop_beta_cll/Rst_gop_beta_cll.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Rst_gop_beta_cll/Rst_gop_beta_cll.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,10 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="Rst_gop_beta_cll__beta" presence="mandatory"/>
-
-<gene name="Rst_gop_beta_cll__cll" presence="mandatory"/>
-
-<gene name="Rst_gop_beta_cll__gop" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Septu/Septu.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Septu/Septu.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,15 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0" >
-<gene name="Septu__PtuA" presence="mandatory">
-<exchangeables>
-<gene name="Septu__PtuA_2"/>
-
-</exchangeables>
-</gene>
-<gene name="Septu__PtuB" presence="mandatory">
-<exchangeables>
-<gene name="Retron_I_A__HNH_TIGR02646"/>
-<gene name="Septu__PtuB_2"/>
-</exchangeables>
-</gene>
-<gene name="Retron__RT_Tot" presence="forbidden"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/ShosTA/.DS_Store.gz

Binary file test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/ShosTA/.DS_Store.gz has changed

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/ShosTA/ShosTA.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/ShosTA/ShosTA.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="ShosTA__ShosA" presence="mandatory"/>
-<gene name="ShosTA__ShosT" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,31 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="Wadjet__JetA_I" presence="mandatory">
-<exchangeables>
-<gene name="Wadjet__JetA_II"/>
-<gene name="Wadjet__JetA_III"/>
-</exchangeables>
-</gene>
-
-<gene name="Wadjet__JetB_I" presence="accessory">
-<exchangeables>
-<gene name="Wadjet__JetB_II"/>
-<gene name="Wadjet__JetB_III"/>
-</exchangeables>
-</gene>
-
-<gene name="Wadjet__JetC_I" presence="accessory">
-<exchangeables>
-<gene name="Wadjet__JetC_II"/>
-<gene name="Wadjet__JetC_III"/>
-</exchangeables>
-</gene>
-<gene name="Wadjet__JetD_I" presence="accessory">
-<exchangeables>
-<gene name="Wadjet__JetD_II"/>
-<gene name="Wadjet__JetD_III"/>
-</exchangeables>
-</gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="Wadjet__JetA_I" presence="mandatory"/>
-<gene name="Wadjet__JetB_I" presence="mandatory"/>
-<gene name="Wadjet__JetC_I" presence="mandatory"/>
-<gene name="Wadjet__JetD_I" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="Wadjet__JetA_II" presence="mandatory"/>
-<gene name="Wadjet__JetB_II" presence="mandatory"/>
-<gene name="Wadjet__JetC_II" presence="mandatory"/>
-<gene name="Wadjet__JetD_II" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet_III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_2/Wadjet/Wadjet_III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="Wadjet__JetA_III" presence="mandatory"/>
-<gene name="Wadjet__JetB_III" presence="mandatory"/>
-<gene name="Wadjet__JetC_III" presence="mandatory"/>
-<gene name="Wadjet__JetD_III" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Azaca/Azaca.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Azaca/Azaca.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="3" vers="2.0">
-
-<gene name="Azaca__ZacA" presence="mandatory"/>
-<gene name="Azaca__ZacB" presence="mandatory"/>
-<gene name="Azaca__ZacC" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Butters_gp30_gp31/Butters_gp30_gp31.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Butters_gp30_gp31/Butters_gp30_gp31.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,19 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Butters_gp30_gp31__Butters_gp30" presence="mandatory">
-<exchangeables>
-<gene name="Butters_gp30_gp31__Sbash_gp30"/>
-<gene name="Butters_gp30_gp31__CarolAnn_gp44"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Butters_gp30_gp31__Butters_gp31" presence="mandatory">
-<exchangeables>
-<gene name="Butters_gp30_gp31__Sbash_gp31"/>
-<gene name="Butters_gp30_gp31__CarolAnn_gp43"/>
-</exchangeables>
-</gene>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Butters_gp57r/Butters_gp57r.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Butters_gp57r/Butters_gp57r.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Butters_gp57r__gp57r" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/CapRel/CapRel.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/CapRel/CapRel.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="CapRel__CapRel" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Charlie_gp32/Charlie_gp32.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Charlie_gp32/Charlie_gp32.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Charlie_gp32__gp32" presence="mandatory"/>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/DmdDE/DdmDE.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/DmdDE/DdmDE.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="DdmDE__DdmE" presence="mandatory"/>
-<gene name="DmdDE__DdmD" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Druantia/Druantia_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Druantia/Druantia_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,14 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="Druantia_I__DruA" presence="accessory"/>
-<gene name="Druantia_I__DruB" presence="accessory"/>
-<gene name="Druantia_I__DruC" presence="accessory"/>
-<gene name="Druantia_I__DruD" presence="accessory"/>
-<gene name="Druantia__DruE_1" presence="mandatory">
-<exchangeables>
-<gene name="Druantia__DruE_2"/>
-<gene name="Druantia__DruE_3"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Druantia/Druantia_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Druantia/Druantia_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,13 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="Druantia_II__DruM" presence="accessory"/>
-<gene name="Druantia_II__DruF" presence="accessory"/>
-<gene name="Druantia_II__DruG" presence="accessory"/>
-<gene name="Druantia__DruE_1" presence="mandatory">
-<exchangeables>
-<gene name="Druantia__DruE_2"/>
-<gene name="Druantia__DruE_3"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Druantia/Druantia_III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Druantia/Druantia_III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,11 +0,0 @@
-<model inter_gene_max_space="1" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Druantia_III__DruH" presence="mandatory"/>
-<gene name="Druantia__DruE_1" presence="mandatory">
-<exchangeables>
-<gene name="Druantia__DruE_2"/>
-<gene name="Druantia__DruE_3"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Gao_Her/Gao_Her_DUF.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Gao_Her/Gao_Her_DUF.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Gao_Her_DUF__HerA_DUF" presence="mandatory"/>
-<gene name="Gao_Her_DUF__DUF4297" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Gao_Her/Gao_Her_SIR.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Gao_Her/Gao_Her_SIR.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Gao_Her_SIR__HerA_SIR2" presence="mandatory"/>
-<gene name="Gao_Her_SIR__SIR2" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Gao_Qat/Gao_Qat.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Gao_Qat/Gao_Qat.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="4" min_genes_required="4" vers="2.0">
-
-<gene name="Gao_Qat__QatA" presence="mandatory"/>
-<gene name="Gao_Qat__QatB" presence="mandatory"/>
-<gene name="Gao_Qat__QatC" presence="mandatory"/>
-<gene name="Gao_Qat__QatD" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/MMB_gp29_gp30/MMB_gp29_gp30.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/MMB_gp29_gp30/MMB_gp29_gp30.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="MMB_gp29_gp30__gp29" presence="mandatory"/>
-<gene name="MMB_gp29_gp30__gp30" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-1/PD-T4-1.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-1/PD-T4-1.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T4-1__PD-T4-1" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-10/PD-T4-10.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-10/PD-T4-10.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-T4-10__PD-T4-10_A" presence="mandatory"/>
-<gene name="PD-T4-10__PD-T4-10_B" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-2/PD-T4-2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-2/PD-T4-2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-T4-2__PD-T4-2_A" presence="mandatory"/>
-<gene name="PD-T4-2__PD-T4-2_B" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-3/PD-T4-3.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-3/PD-T4-3.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T4-3__PD-T4-3" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-4/PD-T4-4.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-4/PD-T4-4.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-T4-4__PD-T4-4_A" presence="mandatory"/>
-<gene name="PD-T4-4__PD-T4-4_B" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-5/PD-T4-5.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-5/PD-T4-5.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T4-5__PD-T4-5" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-7/PD-T4-7.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-7/PD-T4-7.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T4-7__PD-T4-7" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-9/PD-T4-9.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T4-9/PD-T4-9.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-T4-9__PD-T4-9_A" presence="mandatory"/>
-<gene name="PD-T4-9__PD-T4-9_B" presence="accessory"/>
-<gene name="PD-T4-9__PD-T4-9_C" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T7-2/PD-T7-2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/PD-T7-2/PD-T7-2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-T7-2__PD-T7-2_A" presence="mandatory"/>
-<gene name="PD-T7-2__PD-T7-2_B" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Panchino_gp28/Panchino_gp28.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Panchino_gp28/Panchino_gp28.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Panchino_gp28__gp28" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,14 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Paris_I__AriA_AAA15" presence="mandatory">
-<exchangeables>
-<gene name="Paris_I__AAA_15"/>
-</exchangeables>
-</gene>
-
-<gene name="Paris_I__AriB_DUF4435_I" presence="mandatory">
-<exchangeables>
-<gene name="Paris__DUF4435"/>
-</exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,13 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Paris_II__AriA_AAA21" presence="mandatory">
-<exchangeables>
-<gene name="Paris_II__AAA_21"/>
-</exchangeables>
-</gene>
-
-<gene name="Paris_II__AriB_DUF4435_II" presence="mandatory">
-<exchangeables>
-<gene name="Paris__DUF4435"/>
-</exchangeables>
-</gene>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_II_merge.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_II_merge.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Paris_II_merge__AAA_21_DUF4435" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_I_merge.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Paris/PARIS_I_merge.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Paris_I_merge__AAA_15_DUF4435" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Phrann_gp29_gp30/Phrann_gp29_gp30.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Phrann_gp29_gp30/Phrann_gp29_gp30.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Phrann_gp29_gp30__gp29" presence="mandatory"/>
-<gene name="Phrann_gp29_gp30__gp30" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/SpbK/SpbK.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/SpbK/SpbK.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="SpbK__SpbK" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Thoeris/Thoeris_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Thoeris/Thoeris_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-
-<gene name="Thoeris_I__ThsA_new_grand" presence="mandatory"/>
-<gene name="Thoeris__ThsB_Global" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Thoeris/Thoeris_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_3/Thoeris/Thoeris_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Thoeris_II__ThsA_new_petit" presence="mandatory"/>
-
-<gene name="Thoeris__ThsB_Global" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="1" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0" >
-<gene name="Detocs__dtcA" presence="mandatory"/>
-<gene name="Detocs__dtcB" presence="mandatory"/>
-<gene name="Detocs__dtcC" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs_REase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs_REase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="1" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0" >
-<gene name="Detocs__dtcA" presence="mandatory"/>
-<gene name="Detocs__dtcB" presence="mandatory"/>
-<gene name="Detocs__dtcC_REase" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs_TOPRIM.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs_TOPRIM.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="1" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0" >
-<gene name="Detocs__dtcA" presence="mandatory"/>
-<gene name="Detocs__dtcB" presence="mandatory"/>
-<gene name="Detocs__dtcC_TOPRIM" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs_hydrolase.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Detocs/Detocs_hydrolase.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="1" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0" >
-<gene name="Detocs__dtcA" presence="mandatory"/>
-<gene name="Detocs__dtcB" presence="mandatory"/>
-<gene name="Detocs__dtcC_hydrolase" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dnd/Dnd_ABCDE.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dnd/Dnd_ABCDE.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="4" min_genes_required="4" vers="2.0">
-
-<gene name="Dnd__DndB" presence="mandatory"/>
-<gene name="Dnd__DndC" presence="mandatory"/>
-<gene name="Dnd__DndE" presence="mandatory"/>
-<gene name="Dnd__DndD" presence="mandatory"/>
-<gene name="Dnd__DndA" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dnd/Dnd_ABCDEFGH.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dnd/Dnd_ABCDEFGH.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,13 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="7" min_genes_required="7" vers="2.0">
-
-<gene name="Dnd__DndB" presence="mandatory"/>
-<gene name="Dnd__DndE" presence="mandatory"/>
-<gene name="Dnd__DndC" presence="mandatory"/>
-<gene name="Dnd__DndD" presence="mandatory"/>
-<gene name="Dnd__DndA" presence="accessory"/>
-<gene name="Dnd_ABCDEFGH__DptF" presence="mandatory"/>
-<gene name="Dnd_ABCDEFGH__DptG" presence="mandatory"/>
-<gene name="Dnd_ABCDEFGH__DptH" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dodola/Dodola.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dodola/Dodola.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Dodola__DolA" presence="mandatory"/>
-<gene name="Dodola__DolB" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dpd/Dpd.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Dpd/Dpd.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,17 +0,0 @@
-<model inter_gene_max_space="10" min_mandatory_genes_required="4" min_genes_required="4" vers="2.0">
-<gene name="Dpd__DpdA" presence="mandatory"/>
-<gene name="Dpd__DpdB" presence="mandatory"/>
-<gene name="Dpd__DpdC" presence="mandatory"/>
-<gene name="Dpd__DpdD" presence="mandatory"/>
-<gene name="Dpd__DpdE" presence="mandatory"/>
-<gene name="Dpd__DpdF" presence="mandatory"/>
-<gene name="Dpd__DpdG" presence="mandatory"/>
-<gene name="Dpd__DpdH" presence="mandatory"/>
-<gene name="Dpd__DpdI" presence="mandatory"/>
-<gene name="Dpd__DpdJ" presence="mandatory"/>
-<gene name="Dpd__DpdK" presence="mandatory"/>
-<gene name="Dpd__QueC" presence="accessory"/>
-<gene name="Dpd__QueD" presence="accessory"/>
-<gene name="Dpd__QueE" presence="accessory"/>
-<gene name="Dpd__FolE" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/GAPS1/GAPS1.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/GAPS1/GAPS1.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="GAPS1__GAPS1" presence="mandatory"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/GAPS2/GAPS2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/GAPS2/GAPS2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="GAPS2__GAPS2" presence="mandatory"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/GAPS6/GAPS6.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/GAPS6/GAPS6.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="GAPS6__GAPS6a" presence="mandatory"/>
-<gene name="GAPS6__GAPS6b" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Hachiman/Hachiman.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Hachiman/Hachiman.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Hachiman__HamA_1" presence="mandatory">
-<exchangeables>
-<gene name="Hachiman__HamA_2"/>
-</exchangeables>
-</gene>
-<gene name="Hachiman__HamB" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Hna/Hna.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Hna/Hna.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Hna__Hna" presence="mandatory"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/ISG15-like/ISG15-like.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/ISG15-like/ISG15-like.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="4" vers="2.0">
-
-<gene name="ISG15-like__BilA" presence="mandatory"/>
-<gene name="ISG15-like__BilB" presence="mandatory"/>
-<gene name="ISG15-like__BilC" presence="mandatory"/>
-<gene name="ISG15-like__BilD" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/JukAB/JukAB.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/JukAB/JukAB.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="JukAB__JukA" presence="mandatory"/>
-<gene name="JukAB__JukB" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Menshen/Menshen.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Menshen/Menshen.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,51 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Menshen__NsnA" presence="mandatory"/>
-<gene name="Menshen__NsnB" presence="mandatory"/>
-
-<gene name="Menshen__NsnC_2507451963" presence="mandatory">
-<exchangeables>
-<gene name="Menshen__NsnC_2512525018"/>
-<gene name="Menshen__NsnC_2512642389"/>
-<gene name="Menshen__NsnC_2515675032"/>
-<gene name="Menshen__NsnC_2518623264"/>
-<gene name="Menshen__NsnC_2524775996"/>
-<gene name="Menshen__NsnC_2525400098"/>
-<gene name="Menshen__NsnC_2525488910"/>
-<gene name="Menshen__NsnC_2583135648"/>
-<gene name="Menshen__NsnC_2596897843"/>
-<gene name="Menshen__NsnC_2597471359"/>
-<gene name="Menshen__NsnC_2598643479"/>
-<gene name="Menshen__NsnC_2601090942"/>
-<gene name="Menshen__NsnC_2602479687"/>
-<gene name="Menshen__NsnC_2602512313"/>
-<gene name="Menshen__NsnC_2617187710"/>
-<gene name="Menshen__NsnC_2619923329"/>
-<gene name="Menshen__NsnC_2623244837"/>
-<gene name="Menshen__NsnC_2631934571"/>
-<gene name="Menshen__NsnC_2632405575"/>
-<gene name="Menshen__NsnC_2635923458"/>
-<gene name="Menshen__NsnC_2637376592"/>
-<gene name="Menshen__NsnC_2639140027"/>
-<gene name="Menshen__NsnC_2641324761"/>
-<gene name="Menshen__NsnC_2646843772"/>
-<gene name="Menshen__NsnC_2656189766"/>
-<gene name="Menshen__NsnC_2656976156"/>
-<gene name="Menshen__NsnC_2660358384"/>
-<gene name="Menshen__NsnC_2661990395"/>
-<gene name="Menshen__NsnC_2670026569"/>
-<gene name="Menshen__NsnC_2676918070"/>
-<gene name="Menshen__NsnC_2696122707"/>
-<gene name="Menshen__NsnC_2701621510"/>
-<gene name="Menshen__NsnC_2705968471"/>
-<gene name="Menshen__NsnC_2710200711"/>
-<gene name="Menshen__NsnC_2723509649"/>
-<gene name="Menshen__NsnC_2726213746"/>
-<gene name="Menshen__NsnC_2726216653"/>
-<gene name="Menshen__NsnC_2729199380"/>
-<gene name="Menshen__NsnC_2730555401"/>
-<gene name="Menshen__NsnC_2745856126"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mok_Hok_Sok/Mok_Hok_Sok.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mok_Hok_Sok/Mok_Hok_Sok.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Mok_Hok_Sok__Mok" presence="mandatory"/>
-<gene name="Mok_Hok_Sok__Hok" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_TypeII.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_TypeII.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Mokosh_TypeII__MkoC" presence="mandatory" />
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,23 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="2" vers="2.0">
-
-<gene name="Mokosh_type_I__MkoA_A" presence="accessory">
-<exchangeables>
-<gene name="Mokosh_type_I__MkoA_B"/>
-<gene name="Mokosh_type_I__MkoA_C"/>
-<gene name="Mokosh_type_I__MkoA_D"/>
-<gene name="Mokosh_type_I__MkoA_E"/>
-</exchangeables>
-</gene>
-
-
-<gene name="Mokosh_type_I__MkoB_A" presence="mandatory">
-<exchangeables>
-<gene name="Mokosh_type_I__MkoB_B"/>
-<gene name="Mokosh_type_I__MkoB_C"/>
-<gene name="Mokosh_type_I__MkoB_D"/>
-<gene name="Mokosh_type_I__MkoB_E"/>
-</exchangeables>
-</gene>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Mokosh_type_I__MkoA_A" presence="mandatory"/>
-
-<gene name="Mokosh_type_I__MkoB_A" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Mokosh_type_I__MkoA_B" presence="mandatory"/>
-
-<gene name="Mokosh_type_I__MkoB_B" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Mokosh_type_I__MkoA_C" presence="mandatory"/>
-
-<gene name="Mokosh_type_I__MkoB_C" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_D.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_D.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Mokosh_type_I__MkoA_D" presence="mandatory"/>
-
-<gene name="Mokosh_type_I__MkoB_D" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_E.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Mokosh/Mokosh_Type_I_E.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Mokosh_type_I__MkoA_E" presence="mandatory"/>
-
-<gene name="Mokosh_type_I__MkoB_E" presence="mandatory"/>
-
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T4-6/PD-T4-6.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T4-6/PD-T4-6.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T4-6__PD-T4-6" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-1/PD-T7-1.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-1/PD-T7-1.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T7-1__PD-T7-1" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-3/PD-T7-3.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-3/PD-T7-3.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T7-3__PD-T7-3" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-4/PD-T7-4.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-4/PD-T7-4.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T7-4__PD-T7-4" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-5/PD-T7-5.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/PD-T7-5/PD-T7-5.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="PD-T7-5__PD-T7-5" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/RosmerTA/RosmerTA.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/RosmerTA/RosmerTA.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,40 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="RosmerTA__RmrT_2585209417" presence="mandatory">
-<exchangeables>
-<gene name="RosmerTA__RmrT_2600853143"/>
-<gene name="RosmerTA__RmrT_2603008502"/>
-<gene name="RosmerTA__RmrT_2617826694"/>
-<gene name="RosmerTA__RmrT_2623274509"/>
-<gene name="RosmerTA__RmrT_2634882613"/>
-<gene name="RosmerTA__RmrT_2634932349"/>
-<gene name="RosmerTA__RmrT_2641389401"/>
-<gene name="RosmerTA__RmrT_2662548665"/>
-<gene name="RosmerTA__RmrT_2664250653"/>
-<gene name="RosmerTA__RmrT_2676476075"/>
-<gene name="RosmerTA__RmrT_2677172838"/>
-<gene name="RosmerTA__RmrT_2734955840"/>
-<gene name="RosmerTA__RmrT_2753529055"/>
-</exchangeables>
-</gene>
-
-<gene name="RosmerTA__RmrA_2585209417" presence="mandatory">
-<exchangeables>
-<gene name="RosmerTA__RmrA_2600853143"/>
-<gene name="RosmerTA__RmrA_2603008502"/>
-<gene name="RosmerTA__RmrA_2617826694"/>
-<gene name="RosmerTA__RmrA_2623274509"/>
-<gene name="RosmerTA__RmrA_2634882613"/>
-<gene name="RosmerTA__RmrA_2634932349"/>
-<gene name="RosmerTA__RmrA_2641389401"/>
-<gene name="RosmerTA__RmrA_2662548665"/>
-<gene name="RosmerTA__RmrA_2664250653"/>
-<gene name="RosmerTA__RmrA_2676476075"/>
-<gene name="RosmerTA__RmrA_2677172838"/>
-<gene name="RosmerTA__RmrA_2734955840"/>
-<gene name="RosmerTA__RmrA_2753529055"/>
-</exchangeables>
-</gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Shango/Shango.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Shango/Shango.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="2" vers="2.0">
-
-<gene name="Shango__SngA" presence="mandatory"/>
-<gene name="Shango__SngB" presence="accessory"/>
-<gene name="Shango__SngC" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/SspBCDE/SspBCDE.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/SspBCDE/SspBCDE.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,12 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="SspBCDE__SspB" presence="mandatory"/>
-<gene name="SspBCDE__SspC" presence="mandatory"/>
-<gene name="SspBCDE__SspD" presence="mandatory"/>
-<gene name="SspBCDE__SspE" presence="accessory"/>
-
-<gene name="SspBCDE__SspF" presence="accessory"/>
-<gene name="SspBCDE__SspG" presence="accessory"/>
-<gene name="SspBCDE__SspH" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Zorya/Zorya_TypeI.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Zorya/Zorya_TypeI.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,13 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-
-<gene name="Zorya__ZorA" presence="mandatory">
-<exchangeables>
-<gene name="Zorya__ZorA2"/>
-</exchangeables>
-</gene>
-<gene name="Zorya__ZorB" presence="mandatory"/>
-<gene name="Zorya_TypeI__ZorC" presence="mandatory"/>
-<gene name="Zorya_TypeI__ZorD" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Zorya/Zorya_TypeII.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_4/Zorya/Zorya_TypeII.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,13 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-
-<gene name="Zorya__ZorA2" presence="mandatory">
-<exchangeables>
-<gene name="Zorya__ZorA"/>
-</exchangeables>
-</gene>
-
-<gene name="Zorya__ZorB" presence="mandatory"/>
-<gene name="Zorya_TypeII__ZorE" presence="mandatory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Aditi/Aditi.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Aditi/Aditi.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Aditi__DitA" presence="mandatory"/>
-<gene name="Aditi__DitB" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,35 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="BREX__pglZB" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-</exchangeables>
-</gene>
-<gene name="BREX__brxC" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglY"/>
-<gene name="BREX__brxC4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__pglX1" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglX2"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__brxA_DUF1819" presence="accessory"/>
-<gene name="BREX__brxB_DUF1788" presence="accessory"/>
-<gene name="BREX__brxD" presence="accessory"/>
-<gene name="BREX__brxE" presence="accessory"/>
-<gene name="BREX__brxF" presence="accessory"/>
-<gene name="BREX__brxHI" presence="accessory"/>
-<gene name="BREX__brxHII" presence="accessory"/>
-<gene name="BREX__brxL" presence="accessory"/>
-<gene name="BREX__brxP" presence="accessory"/>
-<gene name="BREX__pglW" presence="accessory"/>
-<gene name="BREX__pglXI" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,41 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="3" vers="2.0">
-
-<gene name="BREX__brxC" presence="accessory">
-<exchangeables>
-<gene name="BREX__brxC4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__pglZB" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-<gene name="BREX__pglZ4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__pglX1" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglX2"/>
-</exchangeables>
-</gene>
-
-
-<gene name="BREX__brxA_DUF1819" presence="mandatory"/>
-<gene name="BREX__brxB_DUF1788" presence="mandatory"/>
-<gene name="BREX__brxL" presence="mandatory"/>
-
-
-
-<gene name="BREX__pglW" presence="forbidden"/>
-<gene name="BREX__pglY" presence="forbidden"/>
-<gene name="BREX__brxF" presence="forbidden"/>
-<gene name="BREX__brxP" presence="forbidden"/>
-<gene name="BREX__pglXI" presence="forbidden"/>
-<gene name="BREX__brxHII" presence="forbidden"/>
-<gene name="BREX__brxE" presence="forbidden"/>
-<gene name="BREX__brxHI" presence="forbidden"/>
-<gene name="BREX__brxD" presence="forbidden"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,37 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-
-
-<gene name="BREX__pglY" presence="mandatory"/>
-<gene name="BREX__brxD" presence="mandatory"/>
-<gene name="BREX__pglW" presence="mandatory"/>
-<gene name="BREX__brxHI" presence="mandatory"/>
-
-
-<gene name="BREX__pglZB" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-<gene name="BREX__pglZ4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__pglX1" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglX2"/>
-</exchangeables>
-</gene>
-
-
-
-<gene name="BREX__brxP" presence="forbidden"/>
-<gene name="BREX__brxF" presence="forbidden"/>
-<gene name="BREX__pglXI" presence="forbidden"/>
-<gene name="BREX__brxHII" presence="forbidden"/>
-<gene name="BREX__brxB_DUF1788" presence="forbidden"/>
-<gene name="BREX__brxA_DUF1819" presence="forbidden"/>
-<gene name="BREX__brxC" presence="forbidden"/>
-<gene name="BREX__brxE" presence="forbidden"/>
-<gene name="BREX__brxL" presence="forbidden"/>
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,35 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-
-<gene name="BREX__brxA_DUF1819" presence="accessory"/>
-<gene name="BREX__brxF" presence="mandatory"/>
-<gene name="BREX__brxHII" presence="mandatory"/>
-<gene name="BREX__pglXI" presence="mandatory"/>
-
-<gene name="BREX__pglZB" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-<gene name="BREX__pglZ4"/>
-</exchangeables>
-</gene>
-<gene name="BREX__brxC" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglY"/>
-<gene name="BREX__brxC4"/>
-</exchangeables>
-</gene>
-
-
-<gene name="BREX__brxB_DUF1788" presence="forbidden"/>
-<gene name="BREX__pglW" presence="forbidden"/>
-<gene name="BREX__brxP" presence="forbidden"/>
-<gene name="BREX__brxL" presence="forbidden"/>
-<gene name="BREX__brxE" presence="forbidden"/>
-<gene name="BREX__brxHI" presence="accessory"/>
-<gene name="BREX__pglX1" presence="accessory"/>
-<gene name="BREX__pglX2" presence="accessory"/>
-<gene name="BREX__brxD" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_IV.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_IV.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,34 +0,0 @@
-<model inter_gene_max_space="10" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-
-<gene name="BREX__brxC" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglY"/>
-<gene name="BREX__brxC4"/>
-</exchangeables>
-</gene>
-<gene name="BREX__brxL" presence="mandatory"/>
-<gene name="BREX__brxP" presence="mandatory"/>
-
-<gene name="BREX__pglZB" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-<gene name="BREX__pglZ4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__brxA_DUF1819" presence="forbidden"/>
-<gene name="BREX__brxB_DUF1788" presence="forbidden"/>
-<gene name="BREX__pglW" presence="forbidden"/>
-<gene name="BREX__brxF" presence="forbidden"/>
-<gene name="BREX__brxE" presence="forbidden"/>
-<gene name="BREX__brxHI" presence="forbidden"/>
-<gene name="BREX__pglX1" presence="forbidden"/>
-<gene name="BREX__pglX2" presence="forbidden"/>
-<gene name="BREX__brxD" presence="forbidden"/>
-<gene name="BREX__pglXI" presence="forbidden"/>
-<gene name="BREX__brxHII" presence="forbidden"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_V.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_V.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,39 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="4" vers="2.0">
-
-<gene name="BREX__pglZB" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-<gene name="BREX__pglZ4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__pglX1" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglX2"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__brxC" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglY"/>
-<gene name="BREX__brxC4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__brxA_DUF1819" presence="accessory"/>
-<gene name="BREX__brxB_DUF1788" presence="accessory"/>
-<gene name="BREX__brxHII" presence="mandatory"/>
-
-
-<gene name="BREX__pglXI" presence="forbidden"/>
-<gene name="BREX__brxF" presence="forbidden"/>
-<gene name="BREX__pglW" presence="forbidden"/>
-<gene name="BREX__brxE" presence="forbidden"/>
-<gene name="BREX__brxL" presence="forbidden"/>
-<gene name="BREX__brxHI" presence="forbidden"/>
-<gene name="BREX__brxD" presence="forbidden"/>
-<gene name="BREX__brxP" presence="forbidden"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_VI.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/BREX/BREX_VI.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,36 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="4" vers="2.0">
-
-<gene name="BREX__pglZB" presence="mandatory">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-<gene name="BREX__pglZ4"/>
-</exchangeables>
-</gene>
-<gene name="BREX__pglX1" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglX2"/>
-</exchangeables>
-</gene>
-<gene name="BREX__brxC" presence="accessory">
-<exchangeables>
-<gene name="BREX__pglY"/>
-<gene name="BREX__brxC4"/>
-</exchangeables>
-</gene>
-
-<gene name="BREX__brxA_DUF1819" presence="accessory"/>
-<gene name="BREX__brxB_DUF1788" presence="accessory"/>
-<gene name="BREX__brxD" presence="accessory"/>
-<gene name="BREX__brxE" presence="mandatory"/>
-<gene name="BREX__brxHI" presence="accessory"/>
-
-<gene name="BREX__pglXI" presence="forbidden"/>
-<gene name="BREX__brxF" presence="forbidden"/>
-<gene name="BREX__brxL" presence="forbidden"/>
-<gene name="BREX__pglW" presence="forbidden"/>
-<gene name="BREX__brxP" presence="forbidden"/>
-<gene name="BREX__brxHII" presence="forbidden"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Borvo/Borvo.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Borvo/Borvo.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,9 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Borvo__BovA" presence="mandatory">
-<exchangeables>
-<gene name="Borvo__BovA_addition"/>
-</exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Bunzi/Bunzi.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Bunzi/Bunzi.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Bunzi__BnzA" presence="mandatory"/>
-<gene name="Bunzi__BnzB" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,55 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="1" min_genes_required="2" vers="2.0">
-
-<gene name="CBASS__Cyclase_SMODS" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__A_Cyclase_AGS_C"/>
-<gene name="CBASS__Cyclase_II"/>
-<gene name="CBASS__Cyclase_new"/>
-</exchangeables>
-</gene>
-<gene name="CBASS__Effector_2TM_S_2TMBeta" presence="accessory">
-<exchangeables>
-<gene name="CBASS__Effector_2TM_Sa_NUDIX"/>
-<gene name="CBASS__Effector_2TM_Saf_2TM"/>
-<gene name="CBASS__2TM_new"/>
-<gene name="CBASS__2TM_5"/>
-<gene name="CBASS__1TM_new"/>
-<gene name="CBASS__4TM_new"/>
-<gene name="CBASS__2TM_Gros"/>
-<gene name="CBASS__2TM_type_IV"/>
-<gene name="CBASS__Effector_2TM_SUa-2TM"/>
-<gene name="CBASS__Effector_4TM_S_4TM"/>
-<gene name="CBASS__Endonuc_small"/>
-<gene name="CBASS__Endonuc_big"/>
-<gene name="CBASS__Effector_TIR"/>
-<gene name="CBASS__Phospholipase"/>
-<gene name="CBASS__Sensing_TPALS"/>
-<gene name="CBASS__Sensing_SAVED"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__E2" presence="neutral">
-<exchangeables>
-<gene name="CBASS__AG_E1_ThiF" />
-<gene name="CBASS__AG_E2_Prok-E2_B"/>
-<gene name="CBASS__E2_II"/>
-<gene name="CBASS__Jab"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__HORMA" presence="neutral">
-<exchangeables>
-<gene name="CBASS__TRIP13"/>
-<gene name="CBASS__bacHORMA_2"/>
-<gene name="CBASS__bacHORMA_1"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__TGT" presence="neutral">
-<exchangeables>
-<gene name="CBASS__QueC"/>
-<gene name="CBASS__OGG"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,30 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="CBASS__Cyclase_SMODS" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__A_Cyclase_AGS_C"/>
-<gene name="CBASS__Cyclase_II"/>
-<gene name="CBASS__Cyclase_new"/>
-</exchangeables>
-</gene>
-<gene name="CBASS__Effector_2TM_S_2TMBeta" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__Effector_2TM_Sa_NUDIX"/>
-<gene name="CBASS__Effector_2TM_Saf_2TM"/>
-<gene name="CBASS__2TM_new"/>
-<gene name="CBASS__2TM_5"/>
-<gene name="CBASS__1TM_new"/>
-<gene name="CBASS__4TM_new"/>
-<gene name="CBASS__2TM_Gros"/>
-<gene name="CBASS__2TM_type_IV"/>
-<gene name="CBASS__Effector_2TM_SUa-2TM"/>
-<gene name="CBASS__Effector_4TM_S_4TM"/>
-<gene name="CBASS__Endonuc_small"/>
-<gene name="CBASS__Endonuc_big"/>
-<gene name="CBASS__Effector_TIR"/>
-<gene name="CBASS__Phospholipase"/>
-<gene name="CBASS__Sensing_TPALS"/>
-<gene name="CBASS__Sensing_SAVED"/>
-</exchangeables>
-</gene>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,39 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="CBASS__Cyclase_SMODS" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__A_Cyclase_AGS_C"/>
-<gene name="CBASS__Cyclase_II"/>
-<gene name="CBASS__Cyclase_new"/>
-</exchangeables>
-</gene>
-<gene name="CBASS__Effector_2TM_S_2TMBeta" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__Effector_2TM_Sa_NUDIX"/>
-<gene name="CBASS__Effector_2TM_Saf_2TM"/>
-<gene name="CBASS__2TM_new"/>
-<gene name="CBASS__2TM_5"/>
-<gene name="CBASS__1TM_new"/>
-<gene name="CBASS__4TM_new"/>
-<gene name="CBASS__2TM_Gros"/>
-<gene name="CBASS__2TM_type_IV"/>
-<gene name="CBASS__Effector_2TM_SUa-2TM"/>
-<gene name="CBASS__Effector_4TM_S_4TM"/>
-<gene name="CBASS__Endonuc_small"/>
-<gene name="CBASS__Endonuc_big"/>
-<gene name="CBASS__Effector_TIR"/>
-<gene name="CBASS__Phospholipase"/>
-<gene name="CBASS__Sensing_TPALS"/>
-<gene name="CBASS__Sensing_SAVED"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__E2" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__AG_E1_ThiF" />
-<gene name="CBASS__AG_E2_Prok-E2_B"/>
-<gene name="CBASS__E2_II"/>
-<gene name="CBASS__Jab"/>
-</exchangeables>
-</gene>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,48 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="CBASS__Cyclase_SMODS" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__A_Cyclase_AGS_C"/>
-<gene name="CBASS__Cyclase_II"/>
-<gene name="CBASS__Cyclase_new"/>
-</exchangeables>
-</gene>
-<gene name="CBASS__Effector_2TM_S_2TMBeta" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__Effector_2TM_Sa_NUDIX"/>
-<gene name="CBASS__Effector_2TM_Saf_2TM"/>
-<gene name="CBASS__2TM_new"/>
-<gene name="CBASS__2TM_5"/>
-<gene name="CBASS__1TM_new"/>
-<gene name="CBASS__4TM_new"/>
-<gene name="CBASS__2TM_Gros"/>
-<gene name="CBASS__2TM_type_IV"/>
-<gene name="CBASS__Effector_2TM_SUa-2TM"/>
-<gene name="CBASS__Effector_4TM_S_4TM"/>
-<gene name="CBASS__Endonuc_small"/>
-<gene name="CBASS__Endonuc_big"/>
-<gene name="CBASS__Effector_TIR"/>
-<gene name="CBASS__Phospholipase"/>
-<gene name="CBASS__Sensing_TPALS"/>
-<gene name="CBASS__Sensing_SAVED"/>
-</exchangeables>
-</gene>
-
-
-<gene name="CBASS__HORMA" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__TRIP13"/>
-<gene name="CBASS__bacHORMA_2"/>
-<gene name="CBASS__bacHORMA_1"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__TGT" presence="neutral">
-<exchangeables>
-<gene name="CBASS__QueC"/>
-<gene name="CBASS__OGG"/>
-</exchangeables>
-</gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_IV.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/CBASS/CBASS_IV.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,40 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-<gene name="CBASS__Cyclase_SMODS" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__A_Cyclase_AGS_C"/>
-<gene name="CBASS__Cyclase_II"/>
-<gene name="CBASS__Cyclase_new"/>
-</exchangeables>
-</gene>
-<gene name="CBASS__Effector_2TM_S_2TMBeta" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__Effector_2TM_Sa_NUDIX"/>
-<gene name="CBASS__Effector_2TM_Saf_2TM"/>
-<gene name="CBASS__2TM_new"/>
-<gene name="CBASS__2TM_5"/>
-<gene name="CBASS__1TM_new"/>
-<gene name="CBASS__4TM_new"/>
-<gene name="CBASS__2TM_Gros"/>
-<gene name="CBASS__2TM_type_IV"/>
-<gene name="CBASS__Effector_2TM_SUa-2TM"/>
-<gene name="CBASS__Effector_4TM_S_4TM"/>
-<gene name="CBASS__Endonuc_small"/>
-<gene name="CBASS__Endonuc_big"/>
-<gene name="CBASS__Effector_TIR"/>
-<gene name="CBASS__Phospholipase"/>
-<gene name="CBASS__Sensing_TPALS"/>
-<gene name="CBASS__Sensing_SAVED"/>
-</exchangeables>
-</gene>
-
-
-<gene name="CBASS__TGT" presence="mandatory">
-<exchangeables>
-<gene name="CBASS__QueC"/>
-<gene name="CBASS__OGG"/>
-</exchangeables>
-</gene>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Dazbog/Dazbog.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Dazbog/Dazbog.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Dazbog__DzbA" presence="mandatory"/>
-<gene name="Dazbog__DzbB" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Eleos/Eleos.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Eleos/Eleos.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,16 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Eleos__LeoA" presence="mandatory">
-<exchangeables>
-<gene name="Eleos__LeoA2"/>
-</exchangeables>
-</gene>
-
-<gene name="Eleos__LeoBC" presence="mandatory"/>
-
-
-<gene name="Eleos__LeoB" presence="mandatory"/>
-
-<gene name="Eleos__LeoC" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/MADS/MADS.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/MADS/MADS.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,14 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="3" min_genes_required="3" vers="2.0">
-
-
-<gene name="MADS__mad1" presence="mandatory"/>
-<gene name="MADS__mad2" presence="mandatory"/>
-<gene name="MADS__mad3" presence="mandatory"/>
-<gene name="MADS__mad4" presence="mandatory"/>
-<gene name="MADS__mad5" presence="mandatory"/>
-<gene name="MADS__mad6" presence="mandatory"/>
-<gene name="MADS__mad7" presence="mandatory"/>
-<gene name="MADS__mad8" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/MazEF/MazEF.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/MazEF/MazEF.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="MazEF__MazE" presence="mandatory"/>
-<gene name="MazEF__MazF" presence="mandatory"/>
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Olokun/Olokun.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Olokun/Olokun.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="Olokun__OloA" presence="mandatory"/>
-<gene name="Olokun__OloB" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/PfiAT/PfiAT.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/PfiAT/PfiAT.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PfiAT__PfiA" presence="mandatory"/>
-<gene name="PfiAT__PfiT" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Pycsar/Pycsar.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Pycsar/Pycsar.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,49 +0,0 @@
-<model inter_gene_max_space="6" min_mandatory_genes_required="1" min_genes_required="2" vers="2.0">
-
-<gene name="Pycsar__AG_cyclase" presence="mandatory"/>
-<gene name="CBASS__Effector_2TM_S_2TMBeta" presence="accessory">
-<exchangeables>
-<gene name="CBASS__Effector_2TM_Sa_NUDIX"/>
-<gene name="CBASS__Effector_2TM_Saf_2TM"/>
-<gene name="CBASS__2TM_new"/>
-<gene name="CBASS__2TM_5"/>
-<gene name="CBASS__1TM_new"/>
-<gene name="CBASS__4TM_new"/>
-<gene name="CBASS__2TM_Gros"/>
-<gene name="CBASS__2TM_type_IV"/>
-<gene name="CBASS__Effector_2TM_SUa-2TM"/>
-<gene name="CBASS__Effector_4TM_S_4TM"/>
-<gene name="CBASS__Endonuc_small"/>
-<gene name="CBASS__Endonuc_big"/>
-<gene name="CBASS__Effector_TIR"/>
-<gene name="CBASS__Phospholipase"/>
-<gene name="CBASS__Sensing_TPALS"/>
-<gene name="CBASS__Sensing_SAVED"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__E2" presence="neutral">
-<exchangeables>
-<gene name="CBASS__AG_E1_ThiF" />
-<gene name="CBASS__AG_E2_Prok-E2_B"/>
-<gene name="CBASS__E2_II"/>
-<gene name="CBASS__Jab"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__HORMA" presence="neutral">
-<exchangeables>
-<gene name="CBASS__TRIP13"/>
-<gene name="CBASS__bacHORMA_2"/>
-<gene name="CBASS__bacHORMA_1"/>
-</exchangeables>
-</gene>
-
-<gene name="CBASS__TGT" presence="neutral">
-<exchangeables>
-<gene name="CBASS__QueC"/>
-<gene name="CBASS__OGG"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_II__NDT" presence="mandatory">
-<exchangeables>
-<gene name="Retron_II__NDT2"/>
-</exchangeables>
-</gene>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,7 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_III__PRTase" presence="mandatory"/>
-<gene name="Retron_III__PRTase_WH" presence="mandatory"/>
-<gene name="Retron_III__WH" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_IV.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_IV.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_IV__2TM" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_IX.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_IX.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_IX__HEPN" presence="accessory"/>
-<gene name="Retron_IX__WHDNAB_E2F_TDP" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_I_A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_I_A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,17 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-
-
-<gene name="Retron_I_A__HNH_TIGR02646" presence="accessory">
-<exchangeables>
-<gene name="Septu__PtuB"/>
-</exchangeables>
-</gene>
-
-<gene name="Retron_I_A__ATPase_TypeIA" presence="accessory">
-<exchangeables>
-<gene name="Septu__PtuA"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_I_B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_I_B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_I_B__ATPase_TOPRIM_COG3593" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_I_C.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_I_C.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Retron_I_C__RT_1_C1" presence="mandatory">
-<exchangeables>
-<gene name="Retron_I_C__RT_1_C2"/>
-<gene name="Retron_I_C__RT_1_C3"/>
-</exchangeables>
-</gene>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_V.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_V.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_V__CSD" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VI.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VI.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_VI__HTH" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VIII.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VIII.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_VIII__DUF626" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VII_1.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VII_1.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Retron_VII_1__RT_7_A1" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VII_2.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_VII_2.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_VII_2__DUF3800" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_X.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_X.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_X__VHL" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_XI.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_XI.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Retron_XI__RT_11" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_XII.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_XII.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,3 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-<gene name="Retron_XII__RT_12" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_XIII.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Retron/Retron_XIII.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,5 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="2" vers="2.0">
-<gene name="Retron__RT_Tot" presence="mandatory"/>
-<gene name="Retron_XIII__ARM" presence="accessory"/>
-<gene name="Retron_XIII__WHSWIM" presence="accessory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/RnlAB/RnlAB.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/RnlAB/RnlAB.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="RnlAB__RnlA" presence="mandatory"/>
-<gene name="RnlAB__RnlB" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/SEFIR/SEFIR.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/SEFIR/SEFIR.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="SEFIR__bSEFIR" presence="mandatory" />
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/SanaTA/SanaTA.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/SanaTA/SanaTA.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="SanaTA__SanaA" presence="mandatory"/>
-<gene name="SanaTA__SanaT" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/SoFIC/SoFic.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/SoFIC/SoFic.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="SoFic__SoFic" presence="mandatory" />
-
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Tiamat/Tiamat.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Tiamat/Tiamat.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,16 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Tiamat__TmtA" presence="mandatory">
-<exchangeables>
-<gene name="Tiamat__TmtA_2505168307"/>
-<gene name="Tiamat__TmtA_2599863134"/>
-<gene name="Tiamat__TmtA_2639564464"/>
-<gene name="Tiamat__TmtA_2660206627"/>
-<gene name="Tiamat__TmtA_2731770353"/>
-<gene name="Tiamat__TmtA_2731874159"/>
-<gene name="Tiamat__TmtA_2734769103"/>
-<gene name="Tiamat__TmtA_2752664533"/>
-</exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Uzume/Uzume.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/Uzume/Uzume.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,10 +0,0 @@
-<model inter_gene_max_space="2" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="Uzume__UzuA" presence="mandatory">
-<exchangeables>
-<gene name="Uzume__UzuA_2660320622"/>
-<gene name="Uzume__UzuA_2712538620"/>
-</exchangeables>
-</gene>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,17 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="3" vers="2.0">
-
-<gene name="pAgo__pAgo_LongA" presence="mandatory"/>
-<gene name="pAgo__pAgo_LongB" presence="mandatory"/>
-<gene name="pAgo__pAgo_SPARTA" presence="mandatory"/>
-<gene name="pAgo__pAgo_S1A" presence="mandatory"/>
-<gene name="pAgo__pAgo_S2B" presence="mandatory"/>
-
-<gene name="pAgo__SIR2APAZ" presence="accessory"/>
-<gene name="pAgo__TIRAPAZ" presence="accessory"/>
-<gene name="pAgo__XAPAZ" presence="accessory"/>
-<gene name="pAgo__EabAgaM" presence="accessory"/>
-<gene name="pAgo__GbbAgaS" presence="accessory"/>
-<gene name="pAgo__EcAgaN" presence="accessory"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_LongA.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_LongA.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,16 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="pAgo__pAgo_LongA" presence="mandatory"/>
-<gene name="pAgo__SIR2APAZ" presence="forbidden"/>
-<gene name="pAgo__TIRAPAZ" presence="forbidden"/>
-<gene name="pAgo__XAPAZ" presence="forbidden"/>
-<gene name="pAgo__EabAgaM" presence="forbidden"/>
-<gene name="pAgo__GbbAgaS" presence="forbidden"/>
-<gene name="pAgo__EcAgaN" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongB" presence="forbidden"/>
-<gene name="pAgo__pAgo_SPARTA" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1A" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1B" presence="forbidden"/>
-<gene name="pAgo__pAgo_S2B" presence="forbidden"/>
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_LongB.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_LongB.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,21 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="pAgo__pAgo_LongB" presence="mandatory"/>
-
-<gene name="pAgo__EabAgaM" presence="accessory">
-<exchangeables>
-<gene name="pAgo__EabAgaM"/>
-<gene name="pAgo__GbbAgaS"/>
-<gene name="pAgo__EcAgaN"/>
-</exchangeables>
-</gene>
-<gene name="pAgo__SIR2APAZ" presence="forbidden"/>
-<gene name="pAgo__TIRAPAZ" presence="forbidden"/>
-<gene name="pAgo__XAPAZ" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongA" presence="forbidden"/>
-<gene name="pAgo__pAgo_SPARTA" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1A" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1B" presence="forbidden"/>
-<gene name="pAgo__pAgo_S2B" presence="forbidden"/>
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_S1A.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_S1A.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,17 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="pAgo__pAgo_S1A" presence="mandatory"/>
-
-<gene name="pAgo__SIR2APAZ" presence="forbidden"/>
-<gene name="pAgo__TIRAPAZ" presence="forbidden"/>
-<gene name="pAgo__XAPAZ" presence="forbidden"/>
-<gene name="pAgo__EabAgaM" presence="forbidden"/>
-<gene name="pAgo__GbbAgaS" presence="forbidden"/>
-<gene name="pAgo__EcAgaN" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongA" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongB" presence="forbidden"/>
-<gene name="pAgo__pAgo_SPARTA" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1B" presence="forbidden"/>
-<gene name="pAgo__pAgo_S2B" presence="forbidden"/>
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_S1B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_S1B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,18 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="pAgo__pAgo_S1B" presence="mandatory"/>
-
-<gene name="pAgo__SIR2APAZ" presence="accessory"/>
-
-<gene name="pAgo__TIRAPAZ" presence="forbidden"/>
-<gene name="pAgo__XAPAZ" presence="forbidden"/>
-<gene name="pAgo__EabAgaM" presence="forbidden"/>
-<gene name="pAgo__GbbAgaS" presence="forbidden"/>
-<gene name="pAgo__EcAgaN" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongA" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongB" presence="forbidden"/>
-<gene name="pAgo__pAgo_SPARTA" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1A" presence="forbidden"/>
-<gene name="pAgo__pAgo_S2B" presence="forbidden"/>
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_S2B.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_S2B.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,21 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="pAgo__pAgo_S2B" presence="mandatory"/>
-
-
-<gene name="pAgo__XAPAZ" presence="accessory"/>
-
-
-<gene name="pAgo__SIR2APAZ" presence="forbidden"/>
-<gene name="pAgo__TIRAPAZ" presence="forbidden"/>
-<gene name="pAgo__EabAgaM" presence="forbidden"/>
-<gene name="pAgo__GbbAgaS" presence="forbidden"/>
-<gene name="pAgo__EcAgaN" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongA" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongB" presence="forbidden"/>
-<gene name="pAgo__pAgo_SPARTA" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1A" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1B" presence="forbidden"/>
-
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_SPARTA.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/DefenseFinder_5/pAgo/pAgo_SPARTA.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,18 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="pAgo__pAgo_SPARTA" presence="mandatory"/>
-
-<gene name="pAgo__TIRAPAZ" presence="accessory"/>
-
-<gene name="pAgo__SIR2APAZ" presence="forbidden"/>
-<gene name="pAgo__XAPAZ" presence="forbidden"/>
-<gene name="pAgo__EabAgaM" presence="forbidden"/>
-<gene name="pAgo__GbbAgaS" presence="forbidden"/>
-<gene name="pAgo__EcAgaN" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongA" presence="forbidden"/>
-<gene name="pAgo__pAgo_LongB" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1A" presence="forbidden"/>
-<gene name="pAgo__pAgo_S1B" presence="forbidden"/>
-<gene name="pAgo__pAgo_S2B" presence="forbidden"/>
-</model>
-

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/PD-Lambda-5/PD-Lambda-5.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/PD-Lambda-5/PD-Lambda-5.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,4 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-<gene name="PD-Lambda-5__PD-Lambda-5_A" presence="mandatory"/>
-<gene name="PD-Lambda-5__PD-Lambda-5_B" presence="mandatory"/>
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/PrrC/PrrC.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/PrrC/PrrC.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,12 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="PrrC__PrrC" presence="mandatory" />
-<gene name="PrrC__EcoprrI" presence="mandatory">
-<exchangeables>
-<gene name="RM__Type_I_MTases"/>
-</exchangeables>
-</gene>
-<gene name="RM__Type_I_REases" presence="accessory"/>
-<gene name="RM__Type_I_S" presence="accessory"/>
-
-</model>

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_I.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_I.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,12 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="RM__Type_I_MTases" presence="mandatory">
-<exchangeables>
-<gene name ="PrrC__EcoprrI"/>
-</exchangeables>
-</gene>
-
-<gene name="RM__Type_I_REases" presence="mandatory"/>
-<gene name="RM__Type_I_S" presence="accessory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_II.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_II.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="RM_Type_II__Type_II_MTases" presence="mandatory"/>
-<gene name="RM_Type_II__Type_II_REases" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_IIG.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_IIG.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,13 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="RM_Type_IIG__Type_IIG" presence="mandatory"/>
-<gene name="DISARM__drmB" presence="forbidden"/>
-<gene name="BREX__pglZB" presence="forbidden">
-<exchangeables>
-<gene name="BREX__pglZA"/>
-<gene name="BREX__pglZ2"/>
-<gene name="BREX__pglZ3"/>
-</exchangeables>
-</gene>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_III.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_III.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="2" min_genes_required="2" vers="2.0">
-
-<gene name="RM_Type_III__Type_III_MTases" presence="mandatory"/>
-<gene name="RM_Type_III__Type_III_REases" presence="mandatory"/>
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_IV.xml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/definitions/RM/RM/RM_Type_IV.xml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,6 +0,0 @@
-<model inter_gene_max_space="5" min_mandatory_genes_required="1" min_genes_required="1" vers="2.0">
-
-<gene name="RM_Type_IV__Type_IV_REases" presence="mandatory"/>
-
-
-</model>
\ No newline at end of file

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/metadata.yml
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/metadata.yml Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

@@ -1,8 +0,0 @@
----
-maintainer:
- name: Alexandre Hervé
- email: alexandreherve@protonmail.com
-short_desc: Allow for a systematic search of all known anti-phage systems
-vers: 1.2.3
-license: GPL-3.0
-doc: ./README.md

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Abi2__Abi_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Abi2__Abi_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,564 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Abi2__Abi_2\n-ACC PF07751.12\n-DESC Abi-like protein\n-LENG 179\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Apr 17 22:37:55 2020\n-NSEQ 153\n-EFFN 4.300323\n-CKSUM 3753038531\n-GA 60 60;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.5769 0.70678\n-STATS LOCAL VITERBI -11.4294 0.70678\n-STATS LOCAL FORWARD -4.2216 0.70678\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64928 4.42510 2.99451 2.66836 3.13554 3.11400 3.44179 2.81918 2.63136 2.41968 3.71440 2.86889 3.48556 3.11390 2.83078 2.62543 2.88052 2.85821 4.38088 3.12714\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.36013 5.21890 1.21403 0.61958 0.77255 0.00000 *\n- 1 2.48336 5.33372 2.91124 1.87800 4.67798 3.59871 2.97101 4.16316 2.28876 3.63846 4.37470 2.53507 3.99246 2.44214 2.30131 2.67764 2.85874 3.72394 5.76666 3.79354 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01146 4.87024 5.59258 0.61958 0.77255 0.47588 0.97111\n- 2 2.62268 3.97738 4.80140 4.19410 2.10397 4.11428 3.67240 1.94401 3.16529 2.16286 3.32123 4.23609 4.47920 3.32802 3.93226 3.36998 2.72654 2.24205 3.53323 2.67892 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10268 5.82502 0.61958 0.77255 0.52416 0.89662\n- 3 4.23628 5.45723 6.17381 5.58977 2.95880 5.60098 5.88470 2.38231 5.44762 0.38776 3.45939 5.76316 5.64802 5.31204 5.38593 4.98580 3.66804 2.95801 5.90432 4.92767 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00851 5.16617 5.88852 0.61958 0.77255 0.41163 1.08639\n- 4 2.82197 5.07774 3.20410 1.86708 3.60825 3.57562 3.86979 3.67419 2.03761 3.03002 4.03765 2.78855 4.14499 2.56528 2.55285 2.33974 2.71354 3.52706 5.88189 4.23101 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00811 5.21505 5.93740 0.61958 0.77255 0.47747 0.96850\n- 5 2.75005 4.00862 2.77600 2.35821 4.58755 3.74738 3.14585 3.61551 2.36560 3.73318 4.51551 1.99920 4.14076 2.56786 2.39415 2.35710 2.71494 3.71332 5.50772 3.91484 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00807 5.21890 5.94125 0.61958 0.77255 0.48576 0.95510\n- 6 2.86858 3.83515 4.78176 3.58766 3.32578 4.16561 3.85601 1.68459 3.94208 2.32856 3.04489 3.40551 4.53140 4.17530 3.44304 3.21525 2.71511 1.74770 5.04694 2.46799 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00807 5.21890 5.94125 0.61958 0.77255 0.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00807 5.21890 5.94125 0.61958 0.77255 0.48576 0.95510\n- 172 0.62177 4.19141 4.47718 4.02075 3.77995 3.80819 4.93195 4.13319 3.97647 3.83674 4.68694 3.29232 4.50440 4.24921 4.28123 1.83746 3.46177 3.71050 6.13586 4.92844 432 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00807 5.21890 5.94125 0.61958 0.77255 0.48576 0.95510\n- 173 5.38919 6.64051 5.40533 5.38835 5.19898 5.22140 0.07005 6.37830 5.30344 5.59957 6.84666 5.69909 5.86180 5.81836 5.39909 5.51942 5.78600 6.06553 6.51736 5.15074 433 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 5.21890 4.03885 0.61958 0.77255 0.48576 0.95510\n- 174 2.81209 4.92823 2.99944 2.65887 4.70536 2.60985 1.64455 4.16579 2.72070 3.68856 4.45247 1.99481 4.16240 3.03527 3.20721 2.73699 3.21755 3.76941 5.85669 3.03116 434 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00820 5.20380 5.92614 0.61958 0.77255 0.53703 0.87822\n- 175 2.36199 4.74664 2.34207 2.15532 4.80845 2.68978 3.56902 4.29177 2.66436 3.42679 4.25061 2.55571 4.13398 2.80882 3.07870 1.75617 3.19670 3.75881 5.90216 4.49347 435 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01827 5.20380 4.37310 0.61958 0.77255 0.53703 0.87822\n- 176 2.97938 3.88584 3.38993 2.96218 4.17474 3.85956 4.07749 3.07925 2.81621 3.22060 3.16151 2.92255 3.12218 3.21827 1.22476 3.03445 3.21063 2.76402 5.52256 4.23177 436 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01626 5.19381 4.54888 0.61958 0.77255 0.56917 0.83470\n- 177 3.78559 5.06684 5.78111 5.19170 2.83748 5.09044 5.44107 1.80665 5.02081 0.86429 2.91224 5.25912 5.30651 5.03741 5.00395 4.43970 3.69733 1.75002 5.70284 4.63261 437 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02084 5.18589 4.19771 0.61958 0.77255 0.59369 0.80360\n- 178 3.65981 4.96934 5.41690 4.92165 2.07457 4.73672 4.44629 2.17479 4.71017 2.30889 3.98958 4.73989 5.06367 4.72434 4.67621 4.06673 3.88566 3.01380 1.30793 1.72278 438 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21281 5.17350 1.68186 0.61958 0.77255 0.63054 0.75994\n- 179 2.82245 5.32594 2.42615 2.59211 4.64267 3.28838 3.39104 4.10944 2.61417 3.62069 3.79989 1.35489 4.05792 2.96850 3.10354 2.63234 2.71535 3.70227 5.77916 4.15708 439 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00698 4.96767 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiA_large__AbiA_large.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiA_large__AbiA_large.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1910 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiA_large__AbiA_large\n-LENG 629\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 10:21:17 2022\n-NSEQ 15\n-EFFN 1.776123\n-CKSUM 2412824870\n-GA 150 150;\n-STATS LOCAL MSV -12.3130 0.69702\n-STATS LOCAL VITERBI -13.0855 0.69702\n-STATS LOCAL FORWARD -6.4322 0.69702\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71257 4.46308 2.92834 2.63206 3.03821 3.31274 3.69289 2.70723 2.56342 2.37428 3.66723 2.85231 3.70476 3.05973 3.03212 2.64769 2.89153 2.77751 4.79806 2.97812\n- 2.68663 4.42168 2.77565 2.73150 3.46281 2.40544 3.72540 3.29300 2.67673 2.69303 4.24250 2.90340 2.73785 3.18132 2.89801 2.37901 2.77545 2.98564 4.58522 3.61503\n- 0.92507 1.28478 1.11845 1.74101 0.19279 0.00000 *\n- 1 2.60347 4.67804 2.73605 2.52586 3.89498 3.00070 3.68383 3.28847 2.52520 2.63749 2.83504 2.62371 3.85031 2.86662 2.97007 2.67585 2.49200 2.99661 5.21609 3.90883 26 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02359 4.15454 4.87688 0.61958 0.77255 0.93937 0.49573\n- 2 2.63291 4.92570 2.91317 2.21013 4.19635 3.41715 3.10698 3.62925 2.39065 3.19758 3.99375 2.63148 3.81994 2.43385 2.85136 2.63910 2.31049 2.90069 5.40558 4.05054 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02359 4.15454 4.87688 0.61958 0.77255 0.93937 0.49573\n- 3 2.60194 4.46540 3.27226 2.27944 2.96459 3.52187 3.76091 2.97688 2.69041 2.37279 3.56095 2.80124 3.90877 3.01742 3.09034 2.75579 2.56117 2.48224 5.02907 3.76385 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02359 4.15454 4.87688 0.61958 0.77255 0.93937 0.49573\n- 4 2.52183 4.61819 2.97267 2.64995 4.35251 3.21232 3.91691 3.78845 2.77074 3.40670 4.22301 1.75277 3.82060 3.09919 3.19375 1.90086 2.31673 3.34204 5.61717 4.30083 29 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02359 4.15454 4.87688 0.61958 0.77255 0.93937 0.49573\n- 5 2.61038 4.46456 2.87187 2.73159 2.62622 3.53015 3.75066 2.99701 2.70684 2.36775 3.55987 3.18408 3.91558 2.69986 3.10478 2.49751 2.84236 2.75260 4.96299 3.11053 30 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02359 4.15454 4.87688 0.61958 0.77255 0.28032 1.40871\n- 6 2.89072 4.30756 4.53045 3.93986 2.82505 3.09033 4.35077 2.53716 3.79238 1.55231 1.70200 4.08642 4.37786 3.96435 3.90943 3.33948 3.12210 2.22397 4.90348 3.73518 31 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54258 5.26492 0.61958 0.77255 0.48576 0.95510\n- 7 2.73472 4.23753 3.19399 3.51139 2.10162 3.81644 4.08245 1.81326 3.40671 2.24338 3.34687 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01594 4.54258 5.26492 0.61958 0.77255 0.48576 0.95510\n- 622 2.70710 3.43360 4.08244 2.72229 2.54140 3.79451 4.09043 2.13606 3.39197 1.98788 3.32239 3.74062 4.16525 3.62614 3.17713 2.55523 2.93910 2.46351 4.81681 3.11881 782 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12239 4.54258 2.25809 0.61958 0.77255 0.48576 0.95510\n- 623 2.48783 5.02403 2.99821 2.28279 4.30958 3.48211 3.68142 3.75188 2.15646 3.00455 4.08646 2.32353 3.87687 2.80426 2.92063 2.16567 2.67909 3.05786 5.49962 4.13191 783 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01772 4.43790 5.16025 0.61958 0.77255 0.64904 0.73929\n- 624 2.67457 4.42615 3.50357 2.65569 3.08570 3.18591 3.88813 2.27123 2.44411 2.12992 3.52731 3.35605 4.02087 2.86625 3.25596 2.88181 2.90610 2.70204 5.00271 3.21274 784 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05903 4.43790 3.09011 0.61958 0.77255 0.64904 0.73929\n- 625 2.46884 4.49915 3.38113 2.60410 3.65526 3.59873 3.83459 2.16889 2.54118 2.31411 3.59575 3.26573 3.18544 2.83177 3.16787 2.83157 2.89636 2.78298 5.06413 3.23967 785 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09477 4.39734 2.54970 0.61958 0.77255 0.70189 0.68448\n- 626 2.65642 4.81273 3.06372 2.33722 4.04361 3.48836 3.69938 2.71955 2.50419 3.06667 3.89053 2.50086 3.88191 2.26924 2.95571 2.70249 2.47444 2.84003 5.32549 4.00140 786 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32247 5.04482 0.61958 0.77255 0.78778 0.60670\n- 627 2.67029 5.11223 2.41357 2.22923 4.42762 3.43217 3.63697 3.01811 2.09033 3.40388 4.16279 2.44849 3.83605 2.54274 2.87588 2.64345 2.63644 3.48708 5.56104 4.16616 787 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07825 4.32247 2.78070 0.61958 0.77255 0.78778 0.60670\n- 628 2.46393 5.15310 2.81482 2.17681 4.48820 3.43587 3.67106 3.94464 1.67761 3.45289 4.23077 2.38484 3.87010 2.79027 2.84156 2.48011 2.97714 3.54519 5.60493 4.22495 788 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14851 4.26532 2.08780 0.61958 0.77255 0.67733 0.70922\n- 629 2.63199 4.91201 2.97986 2.15153 4.17748 3.44103 3.63629 3.60695 2.25234 2.74796 3.97670 2.69085 3.27066 2.76961 2.60735 2.64407 2.60558 2.89031 5.39459 4.04351 789 e - - -\n- 2.68649 4.42017 2.77490 2.73070 3.46400 2.40535 3.72541 3.29259 2.67681 2.69355 4.24736 2.90303 2.73786 3.18169 2.89808 2.37911 2.77550 2.98545 4.58523 3.61504\n- 0.72849 0.65901 * 1.49635 0.25353 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiA_small__AbiA_SLATT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiA_small__AbiA_SLATT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,647 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiA_small__AbiA_SLATT\n-LENG 208\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 10:38:59 2022\n-NSEQ 10\n-EFFN 0.903320\n-CKSUM 3091960694\n-GA 20 20;\n-STATS LOCAL MSV -10.5639 0.70491\n-STATS LOCAL VITERBI -11.5453 0.70491\n-STATS LOCAL FORWARD -4.9453 0.70491\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70223 4.55876 3.01572 2.68053 3.23584 3.37895 3.66065 2.53357 2.61248 2.26772 3.50548 2.91624 3.86403 3.09213 2.93045 2.69850 2.91716 2.58675 4.64174 3.23651\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.00000 *\n- 1 3.19804 4.70931 4.34425 3.96579 3.35251 4.03765 4.64014 2.55584 3.71729 1.91410 0.94974 4.20828 4.50659 4.08558 3.88999 3.57090 3.51219 2.59106 5.22362 4.00517 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07641 4.13575 2.85474 0.61958 0.77255 0.48576 0.95510\n- 2 2.77263 5.17450 2.57746 1.88784 4.49392 3.35598 3.67463 3.94746 2.24983 3.47062 4.27435 1.89149 3.84569 2.81144 2.90571 2.72998 2.73791 3.55941 5.63633 4.24517 2 e - - -\n- 2.68642 4.42249 2.77527 2.73100 3.46378 2.40537 3.72473 3.29326 2.67765 2.69379 4.24640 2.90312 2.73764 3.18092 2.89825 2.37840 2.77491 2.98543 4.58501 3.61528\n- 0.31604 1.60345 2.66261 1.78921 0.18283 0.45142 1.01259\n- 3 2.22475 4.76079 3.07767 2.52165 4.03841 3.44324 3.65137 3.10571 1.89652 3.04407 3.87458 3.01481 3.84668 2.81267 2.58102 2.44012 2.86683 3.11729 5.28620 3.98401 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09455 4.07544 2.61409 0.61958 0.77255 0.55299 0.85620\n- 4 2.63592 5.03639 2.17082 2.14856 4.33039 3.34149 3.59570 3.32796 2.23211 3.31997 4.10100 2.63401 3.18930 2.71969 2.87372 2.61037 2.87406 3.40045 5.49899 4.10760 17 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02736 4.00825 4.73060 0.61958 0.77255 0.61875 0.77353\n- 5 2.69022 4.69006 2.49720 2.54676 3.47793 3.41338 3.70369 3.33035 2.70210 2.96693 3.85958 3.03244 3.89177 3.00436 3.13038 2.43353 2.95365 3.05028 4.94494 1.95009 18 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02736 4.00825 4.73060 0.61958 0.77255 0.61875 0.77353\n- 6 2.86606 5.08089 3.20187 2.60462 4.46849 3.55702 3.59563 3.84567 1.46084 3.33194 4.16409 3.06644 3.93623 2.45443 2.06581 2.86055 2.73752 3.50625 5.43698 4.19517 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02736 4.00825 4.73060 0.61958 0.77255 0.61875 0.77353\n- 7 2.85736 5.42400 1.66795 1.90369 4.71415 3.25471 3.70509 4.22359 2.63508 3.70787 4.52002 2.18819 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 201 2.24083 4.23001 3.58701 3.01918 2.95001 3.17393 3.86240 2.72271 2.95857 2.27455 3.34858 3.38342 3.96450 3.24647 3.27752 2.43136 2.48363 2.50543 3.81389 3.60478 259 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 202 2.57907 4.27293 4.21684 3.65469 3.38118 3.95497 4.32970 1.89075 3.55181 1.60402 3.28761 3.91674 4.31440 3.80327 3.77940 3.26111 2.44572 1.86963 5.04376 3.85631 260 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 203 2.86234 4.25786 4.45957 3.88449 3.23209 4.05458 4.37978 1.46904 3.75141 1.99503 2.72371 4.07266 4.37844 3.94996 3.90311 3.36555 3.09648 1.77740 4.93953 3.05822 261 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13575 4.85810 0.61958 0.77255 0.48576 0.95510\n- 204 2.57997 2.95484 3.87557 3.29532 3.22171 3.64998 3.94489 2.08756 3.18966 2.18706 3.22452 3.56617 4.02472 3.44450 3.07778 2.68890 2.63102 2.35381 4.71944 3.12566 262 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07710 4.13575 2.84363 0.61958 0.77255 0.48576 0.95510\n- 205 2.57845 4.26927 3.50393 2.93357 2.73455 3.56741 3.81542 2.58931 2.60061 2.22215 3.37185 3.32324 3.94515 3.17164 2.83643 2.57683 2.80963 2.53819 4.83675 3.20621 263 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02534 4.08399 4.80633 0.61958 0.77255 0.54398 0.86854\n- 206 2.94190 4.34532 4.47145 3.89223 3.08514 4.10865 4.37744 1.80745 3.75499 1.32626 2.69369 4.10245 4.40274 3.92963 3.90293 3.41674 3.16833 2.25585 4.88112 2.97051 264 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15304 4.08399 2.07894 0.61958 0.77255 0.54398 0.86854\n- 207 2.55632 4.35074 4.00368 3.48140 2.12089 3.84940 3.74514 2.69165 3.37410 2.09673 3.36744 3.68259 4.20709 3.59007 3.59407 3.14556 3.08544 2.55178 4.18722 1.83706 265 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95969 4.68203 0.61958 0.77255 0.66124 0.72611\n- 208 2.55380 4.29755 3.38507 2.45952 2.97566 3.51999 3.75961 2.52701 2.77511 2.49316 3.08800 2.97242 3.90006 3.08576 3.13604 2.76391 2.78548 2.56089 4.84602 3.11308 266 e - - -\n- 2.68624 4.42231 2.77526 2.73130 3.46360 2.40510 3.72501 3.29338 2.67747 2.69345 4.24588 2.90353 2.73746 3.18153 2.89794 2.37893 2.77526 2.98525 4.58332 3.61509\n- 0.29195 1.37359 * 0.64960 0.73868 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiA_small__AbiA_small.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiA_small__AbiA_small.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1457 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiA_small__AbiA_small\n-LENG 478\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 10:21:43 2022\n-NSEQ 10\n-EFFN 1.030273\n-CKSUM 2757713324\n-GA 200 200;\n-STATS LOCAL MSV -11.5641 0.69825\n-STATS LOCAL VITERBI -12.6808 0.69825\n-STATS LOCAL FORWARD -5.9823 0.69825\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74868 4.57698 2.94626 2.68482 3.01433 3.32287 3.79572 2.66659 2.54977 2.34786 3.63733 2.88955 3.66466 3.03589 3.02283 2.64799 2.91709 2.67676 4.78814 3.03765\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.33132 4.20623 1.32004 0.61958 0.77255 0.00000 *\n- 1 2.99485 4.53842 4.08452 3.68034 3.22188 3.85851 4.40789 2.40075 3.44667 1.81153 1.31647 3.95382 4.31920 3.82633 3.64816 3.34744 3.30075 2.41069 5.06714 3.83186 1 m - - -\n- 2.68635 4.42242 2.77522 2.73140 3.46331 2.40529 3.72511 3.29306 2.67757 2.69353 4.24620 2.90341 2.73756 3.18104 2.89795 2.37864 2.77516 2.98535 4.58494 3.61520\n- 0.43938 1.06193 4.62763 1.18031 0.36699 0.59401 0.80321\n- 2 2.57162 4.30413 3.42611 2.85769 3.42836 3.54204 3.78449 2.50790 2.51426 2.32374 2.78274 2.84359 3.92077 3.10852 3.13078 2.78830 2.80251 2.56347 4.87424 3.20261 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02690 4.02482 4.74717 0.61958 0.77255 0.38213 1.14698\n- 3 2.61933 4.36904 3.44760 2.88075 3.51089 3.58186 3.82550 2.57449 2.60711 2.57022 2.33441 2.96152 3.96218 2.77271 3.15742 2.82723 2.85049 2.30918 4.94686 3.70861 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 4 2.68887 5.11689 2.28550 2.02460 4.42200 2.75592 3.64818 3.88653 2.43982 2.93386 4.18243 2.46743 3.82726 2.76829 2.93831 2.65778 2.62451 3.48821 5.57882 4.17820 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 5 2.69140 5.16831 2.57314 2.15026 4.50012 3.40160 3.62430 3.97431 1.95178 3.46200 4.22056 2.26220 3.82495 2.73337 2.54913 2.45669 2.92511 3.55349 5.60026 4.19870 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 6 2.61724 4.63299 3.14131 2.43564 3.25430 3.49040 3.70877 2.92201 2.40800 2.65166 3.71864 2.23171 3.87870 2.90797 2.99356 2.70963 2.58573 2.93346 5.16894 3.87505 14 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 7 2.66660 5.02195 2.29305 2.39013 3.40831 3.43010 3.62891 3.76008 1.80310 3.29898 4.08397 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 471 3.90960 5.07004 4.89341 4.64033 0.89001 4.60745 3.57095 3.54153 4.46769 2.82402 4.12221 4.26442 4.90228 4.35371 4.43617 3.99145 4.12684 3.48255 3.68552 1.36597 531 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 472 3.14292 4.45661 4.95333 4.37770 2.63754 4.42752 4.77847 1.46157 4.24079 1.51520 2.65540 4.52135 4.67399 4.33937 4.31223 3.76499 3.37114 1.77341 5.14520 4.03532 532 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 473 2.62938 5.00652 2.64129 1.90363 3.49594 3.41203 3.61288 3.75026 2.24105 3.28840 4.06243 2.70405 3.81033 2.73087 2.66763 2.61764 2.86122 3.36901 5.46895 3.38812 533 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 474 2.62942 4.90330 2.98563 2.42681 4.16975 3.43929 3.63116 3.59780 2.25648 3.17184 3.43524 2.68090 3.82992 2.32352 2.58568 2.35127 2.67085 2.97194 5.38530 4.03746 534 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 475 3.95208 5.09550 4.91114 4.66987 1.15197 4.62807 3.55490 3.59672 4.49584 2.87311 4.17266 4.26866 4.91978 4.36609 4.45571 4.01249 4.16713 3.53275 3.66562 1.02433 535 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.48576 0.95510\n- 476 3.24512 4.53094 5.04427 4.56714 3.67536 4.63612 5.26712 0.92085 4.45100 2.13532 3.46593 4.76152 4.93514 4.70646 4.62863 4.04665 3.51468 1.43656 5.70401 4.50289 536 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12595 4.20623 2.26877 0.61958 0.77255 0.48576 0.95510\n- 477 2.60101 4.22627 3.65140 3.08524 2.84334 3.61707 3.89337 2.64290 2.73289 1.90924 3.31895 3.43602 3.99817 3.29668 3.30193 2.44010 2.83681 2.23010 4.81506 3.58505 537 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10148 4.10508 2.52556 0.61958 0.77255 0.60146 0.79410\n- 478 2.31433 4.78957 1.99762 2.40928 4.12983 3.32406 3.70323 3.51110 2.55524 2.67103 3.99090 2.92458 3.80979 2.86930 3.02429 2.35592 2.88332 3.17478 5.41145 4.06387 538 d - - -\n- 2.68634 4.42260 2.77515 2.73140 3.46360 2.40496 3.72478 3.29389 2.67703 2.69371 4.24638 2.90320 2.73755 3.18123 2.89819 2.37882 2.77534 2.98528 4.58511 3.61472\n- 0.41939 1.07134 * 1.74200 0.19258 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiB__AbiB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiB__AbiB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,761 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiB__AbiB\n-LENG 246\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:50:51 2022\n-NSEQ 33\n-EFFN 0.793579\n-GA 20 20;\n-CKSUM 3454226917\n-STATS LOCAL MSV -10.7456 0.70308\n-STATS LOCAL VITERBI -11.7096 0.70308\n-STATS LOCAL FORWARD -5.3130 0.70308\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69840 4.43579 2.89570 2.55998 3.28587 3.31095 3.77292 2.59926 2.51022 2.38216 3.54744 2.86165 3.60552 3.03459 3.08110 2.76679 2.83480 2.60281 4.88949 3.40710\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16222 4.06294 2.02084 0.61958 0.77255 0.00000 *\n- 1 3.01498 4.55471 4.11158 3.70947 3.23349 3.87726 4.43122 2.41488 3.47436 1.81954 1.27133 3.97980 4.33825 3.85248 3.67288 3.37009 3.32145 2.42769 5.08198 3.84881 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17241 3.93033 1.97523 0.61958 0.77255 0.61433 0.77871\n- 2 2.67942 4.97374 1.99741 2.00027 4.12189 3.25578 3.61331 3.64817 2.50195 3.23370 4.07559 2.75654 3.76190 2.78572 2.99553 2.65798 2.93294 3.30964 5.40497 3.10977 2 d - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40514 3.72495 3.29355 2.67727 2.69356 4.24691 2.90347 2.73740 3.18147 2.89802 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.12145 2.26904 4.51435 0.42029 1.06961 0.55309 0.85606\n- 3 2.42383 4.18993 3.70633 3.25634 3.54436 3.19284 4.11263 1.56103 3.16363 2.48174 3.48777 3.52347 3.99065 3.49282 3.43700 2.76636 2.70490 2.18000 5.08621 3.86529 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03006 3.91550 4.63784 0.61958 0.77255 0.62678 0.76423\n- 4 2.80074 5.14518 2.69182 1.94167 4.48486 3.38728 3.59891 3.91050 1.82573 3.40502 4.22672 2.87042 3.84486 2.25473 2.54810 2.76117 3.02435 3.54257 5.53311 4.20505 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03006 3.91550 4.63784 0.61958 0.77255 0.62678 0.76423\n- 5 2.76509 4.27392 4.12323 3.60531 3.52089 3.86666 4.41442 1.78943 3.50071 2.23189 3.39068 3.88098 4.29397 3.80593 3.76789 3.21286 2.39807 1.40680 5.23736 4.02348 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03006 3.91550 4.63784 0.61958 0.77255 0.62678 0.76423\n- 6 2.79102 5.21544 1.69531 2.14954 4.44330 3.22394 3.68995 4.00406 2.63120 3.54550 4.38319 1.95602 3.79584 2.85681 3.16792 2.72590 3.06954 3.61058 5.68015 3.95172 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03006 3.91550 4.63784 0.61958 0.77255 0.62678 0.76423\n- 7 2.25863 4.17737 3.33915 3.04702 4.08834 2.98634 4.10706 3.37890 3.03840 3.16735 4.05739 3.25485 3.70180 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01364 4.73599 0.61958 0.77255 0.54552 0.86641\n- 239 2.75480 4.91224 3.03115 2.29657 4.19345 3.48622 3.64081 2.99182 1.54172 3.14004 3.99873 3.02033 3.89349 2.79270 2.55909 2.78071 2.97432 3.22195 5.36516 4.07638 263 k - - -\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40489 3.72500 3.29359 2.67708 2.69360 4.24695 2.90352 2.73745 3.18151 2.89806 2.37892 2.77525 2.98523 4.58482 3.61508\n- 0.21933 1.67041 4.73599 0.66640 0.72063 0.54552 0.86641\n- 240 3.10425 4.44391 4.74527 4.17868 2.31302 4.35116 4.63953 1.78038 4.05817 1.31922 2.97025 4.37971 4.59356 4.17899 4.17712 3.68257 3.33144 1.88782 5.02296 3.85444 266 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01364 4.73599 0.61958 0.77255 0.54552 0.86641\n- 241 2.91093 5.48442 1.42948 1.78484 4.76368 3.24553 3.73724 4.27834 2.70289 3.76652 4.59845 2.69993 3.84031 2.47190 3.27366 2.80227 3.18684 3.85179 5.92402 4.43062 267 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01364 4.73599 0.61958 0.77255 0.54552 0.86641\n- 242 2.63998 4.79946 3.01894 2.48572 4.07778 3.42915 3.63023 3.46695 1.83915 3.07400 3.27835 2.53135 3.83554 2.78549 2.71335 2.67886 2.59885 3.15021 5.30573 3.99735 268 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01364 4.73599 0.61958 0.77255 0.54552 0.86641\n- 243 2.90171 4.36717 4.20735 3.65798 3.03548 4.00012 4.20886 2.30794 3.51218 1.32601 3.11975 3.91700 4.32953 3.76234 3.72110 3.30985 3.13750 1.92325 4.78093 2.87274 269 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01364 4.73599 0.61958 0.77255 0.54552 0.86641\n- 244 2.75628 5.11255 2.69668 2.12455 4.45213 3.37976 3.63141 3.89110 1.67582 3.40479 4.21141 2.55126 3.84079 2.76489 2.70279 2.43697 2.99243 3.51255 5.55396 4.20068 270 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01364 4.73599 0.61958 0.77255 0.54552 0.86641\n- 245 2.82030 5.27090 1.60812 2.17029 4.64642 3.23034 3.74921 4.15827 2.70851 3.67876 4.50454 1.97418 3.82396 2.90897 3.26545 2.38294 3.11494 3.72845 5.84095 4.37553 271 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01364 4.73599 0.61958 0.77255 0.54552 0.86641\n- 246 2.79957 4.43132 3.78549 3.24109 3.48707 3.74324 4.04018 1.50562 2.84239 2.32863 3.44876 3.58017 4.15061 3.37094 2.42853 3.08824 3.05188 2.33408 5.06086 3.81842 272 i - - -\n- 2.68629 4.42236 2.77531 2.73135 3.46365 2.40524 3.72506 3.29365 2.67709 2.69366 4.24701 2.90328 2.73751 3.18119 2.89812 2.37864 2.77515 2.98530 4.58488 3.61475\n- 0.29604 1.36164 * 1.02363 0.44517 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiC__AbiC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiC__AbiC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1058 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiC__AbiC\n-LENG 345\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:50:56 2022\n-NSEQ 100\n-EFFN 1.266479\n-GA 20 20;\n-CKSUM 3886432764\n-STATS LOCAL MSV -11.5079 0.70022\n-STATS LOCAL VITERBI -12.3160 0.70022\n-STATS LOCAL FORWARD -5.5235 0.70022\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.75023 4.62547 2.93949 2.59657 3.10868 3.08699 3.74259 2.64194 2.52449 2.37714 3.66488 2.93914 3.67479 2.99571 2.96949 2.68594 2.86880 2.66888 5.04067 3.35785\n- 2.68626 4.42242 2.77553 2.73128 3.46319 2.40553 3.72539 3.29268 2.67708 2.69359 4.24090 2.90378 2.73773 3.18179 2.89736 2.37902 2.77562 2.98554 4.58488 3.61467\n- 0.96308 1.14080 1.20825 1.83451 0.17399 0.00000 *\n- 1 2.72974 5.15019 2.30448 2.08386 4.46414 3.32234 3.62357 3.92017 1.71915 3.43531 4.23358 2.74064 3.80319 2.75627 2.84459 2.68382 2.81654 3.52851 5.59490 4.20188 33 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96937 4.69171 0.61958 0.77255 0.83316 0.57035\n- 2 2.61003 4.84630 2.70621 2.17744 3.98416 2.52098 3.66028 3.62618 2.48943 3.21419 4.02949 2.22238 3.78422 2.81536 2.95822 2.53157 2.74191 3.26720 5.43600 4.08010 34 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96937 4.69171 0.61958 0.77255 0.83316 0.57035\n- 3 2.84457 4.99527 3.05475 2.59229 4.39244 3.48609 3.64090 3.76058 1.33621 3.29413 4.15829 3.05198 3.92448 2.63495 2.36939 2.85761 2.75574 3.43387 5.43919 4.18824 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96937 4.69171 0.61958 0.77255 0.83316 0.57035\n- 4 2.75663 5.08581 2.71905 2.16863 4.41702 3.38354 3.61783 3.84549 1.73324 3.36807 4.18273 2.26722 3.83908 2.75403 2.64507 2.73006 2.98889 3.36108 5.51778 4.17687 36 k - - -\n- 2.68618 4.42225 2.77520 2.73124 3.46354 2.40513 3.72495 3.29354 2.67741 2.69353 4.24690 2.90347 2.73740 3.18147 2.89801 2.37885 2.77520 2.98519 4.58477 3.61497\n- 0.04040 3.49238 4.69171 0.67849 0.70802 0.80819 0.58998\n- 5 2.56819 4.65279 2.80996 2.41917 3.86580 3.14780 3.63673 2.65007 2.41030 2.85459 3.66728 2.66604 3.80911 2.81669 2.91597 2.63630 2.60547 2.93317 5.18154 3.87257 40 k - - -\n- 2.68643 4.42250 2.77531 2.73124 3.46308 2.40535 3.72520 3.29242 2.67728 2.69367 4.24715 2.90354 2.73755 3.18141 2.89819 2.37873 2.77545 2.98515 4.58296 3.61477\n- 0.63279 0.77684 4.70705 1.24159 0.34098 0.58811 0.81052\n- 6 2.58357 4.14167 3.79242 3.21423 3.24070 3.63750 3.91424 2.59992 2.80609 2.33407 2.43023 3.51454 4.01067 3.38416 3.37136 2.68032 2.81539 2.02766 3.80496 3.16139 49 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15685 4.13207 2.04706 0.61958 0.77255 0.69896 0.68737\n- 7 2.82814 5.03805 3.08982 2.56791 4.43757 3.50211 3.61678 3.83305 1.41961 3.33575 4.16714 2.87858 3.9145'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02861 4.21807 4.30695 0.61958 0.77255 0.62226 0.76944\n- 338 2.67337 5.10259 2.69202 2.10145 4.42987 3.42896 3.61041 3.88856 1.88324 2.85880 4.15346 2.90708 3.82813 2.42958 2.56046 2.64621 2.90119 3.48482 5.53442 4.15620 438 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02226 4.21172 4.93407 0.61958 0.77255 0.62936 0.76129\n- 339 2.73662 5.01673 2.86938 2.29325 4.33656 3.44149 3.69184 3.76703 1.99635 3.32273 4.13168 2.96708 3.76317 2.83178 2.82085 1.65698 2.97755 3.40872 5.51015 4.02070 439 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02226 4.21172 4.93407 0.61958 0.77255 0.62936 0.76129\n- 340 3.38453 4.68998 5.04666 4.48706 1.83105 4.62169 4.76648 2.10579 4.34965 1.01254 2.95680 4.65651 4.80379 4.38607 4.41184 3.96748 3.60164 2.38469 4.99989 3.75645 440 l - - -\n- 2.68623 4.42230 2.77525 2.73116 3.46359 2.40518 3.72500 3.29333 2.67746 2.69351 4.24695 2.90352 2.73745 3.18152 2.89785 2.37886 2.77515 2.98524 4.58482 3.61485\n- 0.13233 2.14773 4.93407 0.87483 0.53945 0.62936 0.76129\n- 341 2.51708 4.11276 3.93204 3.35030 2.91483 3.67798 3.85189 2.27701 3.24565 1.95422 3.22319 3.60671 4.04901 3.48834 3.11750 2.84259 2.74709 2.31045 4.71121 2.59690 447 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09974 4.20000 2.52661 0.61958 0.77255 0.62936 0.76129\n- 342 2.72627 5.13348 2.47889 2.35245 4.46469 3.40810 3.62939 3.91759 1.60729 3.42026 4.20364 2.89029 3.84147 2.58185 2.66307 2.43236 2.95820 3.52289 5.56510 4.19406 448 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10203 4.12458 2.51549 0.61958 0.77255 0.70607 0.68039\n- 343 2.53725 4.89858 2.72486 2.18645 4.16742 3.38844 3.59720 3.43807 2.09549 2.64279 3.96404 2.68561 3.59198 2.72989 2.83419 2.60747 2.83384 3.24711 5.37851 4.02145 449 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02992 4.04881 4.41974 0.61958 0.77255 0.77259 0.61955\n- 344 2.51360 4.57228 2.99319 2.42393 2.96299 3.18462 3.26374 2.80182 2.54710 2.80883 3.66067 2.81175 3.84023 2.88239 2.97930 2.51778 2.80720 2.87644 5.11229 3.82121 450 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10436 4.04524 2.50601 0.61958 0.77255 0.77550 0.61706\n- 345 2.67132 4.98908 2.23064 2.27021 4.33753 3.26850 3.67728 3.80672 2.54040 3.16857 4.18647 1.97523 3.78872 2.83051 3.03606 2.24804 2.94635 3.42226 5.56097 4.16351 451 n - - -\n- 2.68621 4.42252 2.77547 2.73107 3.46371 2.40531 3.72486 3.29298 2.67692 2.69349 4.24717 2.90335 2.73767 3.18174 2.89807 2.37894 2.77498 2.98503 4.58504 3.61530\n- 0.52970 0.88863 * 1.42889 0.27388 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiD__AbiD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiD__AbiD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,992 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME AbiD__AbiD\n-LENG 323\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Sep 7 14:20:52 2022\n-NSEQ 48\n-EFFN 5.979492\n-CKSUM 3979300493\n-GA 90 90;\n-STATS LOCAL MSV -11.2966 0.70070\n-STATS LOCAL VITERBI -12.0078 0.70070\n-STATS LOCAL FORWARD -5.3258 0.70070\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66525 4.44127 2.95585 2.62948 3.21005 2.98539 3.58831 2.90144 2.55201 2.42604 3.69647 2.93654 3.33648 3.07964 2.82731 2.60767 2.86842 2.89908 4.45458 3.24551\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11428 3.97531 2.41670 0.61958 0.77255 0.00000 *\n- 1 2.98422 4.52988 4.07007 3.66486 3.21590 3.84847 4.39551 2.39342 3.43193 1.80755 1.34135 3.94000 4.30906 3.81246 3.63500 3.33541 3.28984 2.40181 5.05938 3.82292 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03079 3.89182 4.61417 0.61958 0.77255 0.56371 0.84187\n- 2 2.33529 4.22434 4.12540 3.57270 2.74829 3.88446 4.26472 1.86883 3.48244 2.05798 3.21063 3.84344 4.24975 3.73191 3.72127 3.19545 3.00271 1.67146 4.97397 3.75979 2 v - - -\n- 2.68545 4.42049 2.77548 2.73148 3.46297 2.40541 3.72544 3.29072 2.67790 2.69395 4.24874 2.90334 2.73786 3.17940 2.89946 2.37919 2.77478 2.98553 4.58237 3.61567\n- 0.40821 1.12315 4.61417 3.49473 0.03083 0.56371 0.84187\n- 3 2.71553 4.30284 3.91417 3.39595 3.40224 3.73445 4.22751 2.19661 3.26613 1.67900 3.29586 3.70220 4.17081 3.59319 3.54248 3.07215 2.34504 1.85214 5.10282 3.89105 168 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13821 3.89182 2.21936 0.61958 0.77255 0.56371 0.84187\n- 4 3.06230 4.55103 4.05218 3.69413 3.10747 3.87219 4.37648 2.30998 3.46260 0.98721 3.16140 3.97749 4.32382 3.85134 3.65154 3.43668 3.36139 2.32483 4.95357 3.65657 169 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03422 3.78783 4.51017 0.61958 0.77255 0.64534 0.74335\n- 5 2.54777 4.56248 3.08984 2.65577 4.05701 3.24582 3.69755 3.50392 2.29788 3.11427 3.98805 3.05558 3.78330 2.89246 1.92259 2.06749 2.86531 3.15069 5.28416 4.00836 170 r - - -\n- 2.68473 4.42133 2.77579 2.73209 3.46208 2.40541 3.72404 3.29156 2.67852 2.69271 4.24580 2.90240 2.73857 3.18024 2.89833 2.38003 2.77527 2.98594 4.58427 3.61490\n- 0.13004 2.19872 4.51017 4.63588 0.00974 0.64534 0.74335\n- 6 2.77747 5.01263 2.83929 2.00881 4.35596 3.40606 3.55561 3.75077 1.86652 3.26799 4.10737 2.91352 3.83694 2.69722 2.11105 2.76431 2.99050 3.41296 5.40320 4.12277 419 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03422 3.78783 4.51017 0.61958 0.77255 0.39753 1.11468\n- 7 4.51113 5.68991 6.41194 5.84889 3.77496 5.93240 6.20484 2.59857 5.66643 1.72034 0.47776 6.09742 5.8795'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12552 4.36568 2.25138 0.61958 0.77255 0.77101 0.62091\n- 316 2.63152 4.85758 2.72396 2.29262 3.43274 3.45451 3.65718 3.03265 2.44989 3.11874 3.92636 2.45493 3.84578 2.80236 2.41148 2.65839 2.86284 3.19343 5.35218 3.35251 1389 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26134 4.98369 0.61958 0.77255 0.87663 0.53817\n- 317 2.65966 5.09282 2.40477 2.19265 4.40599 3.41618 3.62623 3.30483 2.38093 3.38410 4.14639 2.38896 3.82351 2.73729 2.36478 2.37675 2.89287 3.46700 5.54450 4.15144 1390 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26134 4.98369 0.61958 0.77255 0.87663 0.53817\n- 318 3.07567 5.62458 1.97669 0.96378 4.92268 3.33595 3.89109 4.44509 2.90677 3.95006 4.81254 2.80864 3.96243 3.06114 3.49299 2.95904 3.36740 4.02030 6.08794 4.59586 1391 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19585 4.91819 0.61958 0.77255 0.56650 0.83820\n- 319 2.69152 4.80796 2.83875 1.98143 3.98732 3.40788 3.65232 3.37610 2.39059 2.34077 3.87278 2.95441 3.84738 2.48153 2.77227 2.73119 2.92630 3.10264 5.28364 3.96515 1392 e - - -\n- 2.68560 4.41999 2.77541 2.73145 3.46299 2.40571 3.72459 3.29320 2.67766 2.69310 4.24665 2.90342 2.73713 3.18205 2.89755 2.37921 2.77521 2.98554 4.58535 3.61520\n- 0.55948 0.87042 4.63375 2.15952 0.12260 0.71255 0.67412\n- 320 2.71326 4.48506 3.39503 3.29926 4.44127 0.67148 4.41735 4.05018 3.48585 3.69947 4.67538 3.55927 3.87745 3.80690 3.71781 2.88626 3.19752 3.57097 5.52633 4.54441 1419 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03018 3.91141 4.63375 0.61958 0.77255 0.71255 0.67412\n- 321 2.71389 5.09221 1.92234 1.83398 4.41453 3.14855 3.63822 3.87589 2.57921 3.44220 4.28484 2.65735 3.72790 2.80607 3.10734 2.30449 2.99795 3.49303 5.63899 4.20773 1420 e - - -\n- 2.68597 4.42235 2.77530 2.73115 3.46364 2.40523 3.72505 3.29270 2.67734 2.69348 4.24700 2.90336 2.73750 3.18156 2.89811 2.37897 2.77530 2.98529 4.58487 3.61513\n- 0.38427 1.17938 4.45853 0.99949 0.45897 0.55724 0.85047\n- 322 2.75107 5.00282 2.66003 2.34080 4.32286 3.33473 3.58211 3.76142 1.94373 3.29199 4.13366 2.31408 3.81004 2.33037 2.53068 2.73403 2.98623 3.41439 5.43446 4.11448 1427 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03440 3.78281 4.50516 0.61958 0.77255 0.50849 0.91981\n- 323 2.95058 5.04492 3.29906 2.70946 4.45720 3.56688 3.58298 3.82614 1.32149 3.30675 4.18550 3.12411 3.96156 2.72762 1.85480 2.95849 3.13701 3.51383 5.37867 4.18826 1428 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02127 3.86099 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,455 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AbiEii__AbiEi_1\n-ACC PF09407.12\n-DESC AbiEi antitoxin C-terminal domain\n-LENG 142\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Feb 16 16:42:09 2021\n-NSEQ 7\n-EFFN 1.650879\n-CKSUM 3852371203\n-GA 22.20 22.20;\n-TC 22.20 22.20;\n-NC 22.10 22.10;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.7228 0.71032\n-STATS LOCAL VITERBI -10.5682 0.71032\n-STATS LOCAL FORWARD -4.2115 0.71032\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.31842 4.41146 3.04536 2.77643 3.50080 2.89859 3.56038 2.90620 2.83678 2.26764 3.75414 3.21726 3.12422 3.06912 2.83057 2.72726 2.85436 2.61104 4.60495 3.51698\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.00000 *\n- 1 2.71039 2.38375 4.10280 3.51806 3.29897 3.79974 4.09354 2.62354 2.66275 2.05734 3.31641 3.75218 4.17049 3.63485 3.58917 3.08402 2.94319 2.02341 4.81014 2.51328 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 2 3.55792 4.85547 5.29898 4.78725 3.43652 4.84586 5.29863 2.24977 4.62128 0.76345 3.23005 4.98022 5.06977 4.73778 4.70831 4.24837 3.80613 1.60203 5.54730 4.45384 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 3 2.66810 4.58884 3.76974 3.55797 4.68380 3.34907 4.63986 4.03643 3.58917 3.76196 4.66337 3.71622 0.78189 3.93127 3.86196 2.84946 2.14471 3.53926 6.02321 4.83137 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 4 2.17195 4.53999 2.59748 2.87240 3.70345 3.64002 3.89941 2.48950 2.85212 1.90496 3.63965 3.31891 3.14567 3.16998 3.24484 2.88306 2.94811 2.78005 5.12606 3.87031 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 5 2.44499 5.24566 2.52805 2.09451 4.58317 3.48097 3.69315 4.06461 2.43554 3.54508 4.29257 2.58927 3.89405 2.29508 2.00700 2.70703 2.98100 3.63310 5.67808 4.26913 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 6 1.91455 4.78343 3.20346 2.67923 4.08366 3.52735 3.83242 3.47798 2.64751 2.51859 3.95483 3.16369 3.96309 2.06394 3.07418 2.15283 2.96439 3.16772 5.39083 4.08574 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 135 3.86830 5.57365 4.43367 3.86293 5.09944 4.17516 4.48637 4.72858 2.76227 4.12908 5.14655 4.15687 4.67873 3.70658 0.34410 3.94555 4.11158 4.43222 5.94525 4.93420 165 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 136 1.71973 4.46587 4.48120 3.92959 2.46085 4.10008 4.43804 2.54847 3.80834 1.28186 3.27231 4.12834 4.46426 4.00379 3.97732 3.42199 3.25461 2.48839 4.99883 3.76347 166 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 137 2.69552 4.77720 3.33164 2.92316 4.57679 1.35537 4.08601 4.01991 2.81927 3.60632 4.41617 3.31979 4.00708 3.25963 2.22322 1.94803 3.06845 3.55470 5.78591 4.50291 167 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 138 3.37024 4.99256 4.06057 3.57148 2.09067 4.19628 2.50796 3.57375 3.47797 3.06936 4.12302 3.82065 4.54969 2.34452 3.77104 3.47599 3.59363 3.38144 4.16435 1.16332 168 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 139 3.86091 5.11457 5.52973 4.98000 3.25115 5.14917 5.41941 2.47378 4.77268 0.52662 2.36187 5.23932 5.21180 4.77702 4.79990 4.55575 4.07101 2.73124 5.48349 4.48230 169 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 140 3.87069 5.11372 5.49278 4.99350 2.38432 5.08821 5.08167 2.55941 4.83799 0.53843 3.08924 5.14243 5.19024 4.77662 4.83691 4.50184 4.08316 2.80983 5.15355 3.83826 170 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 141 3.12809 5.76067 1.78282 1.28019 5.06035 2.47213 3.96017 4.59250 2.93029 4.05300 4.86510 2.23104 4.06354 3.10721 3.52335 3.01318 3.40336 4.13657 6.19547 4.68216 171 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49343 5.21577 0.61958 0.77255 0.48576 0.95510\n- 142 2.38652 4.78652 3.14232 1.95408 4.03536 3.54906 3.83974 3.40740 2.68846 1.95464 3.91923 3.15869 3.97945 3.03075 3.12318 2.17095 2.98355 3.11714 5.36585 4.06252 172 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01131 4.48798 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,458 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AbiEii__AbiEi_2\n-ACC PF09952.11\n-DESC Transcriptional regulator, AbiEi antitoxin, Type IV TA system\n-LENG 143\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Feb 16 16:42:27 2021\n-NSEQ 8\n-EFFN 1.574219\n-CKSUM 3097893150\n-GA 20.10 20.10;\n-TC 20.10 20.20;\n-NC 20.00 20.00;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.9573 0.71023\n-STATS LOCAL VITERBI -10.7647 0.71023\n-STATS LOCAL FORWARD -4.1743 0.71023\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.38412 4.66227 2.93841 2.63797 3.43889 2.98159 3.82573 2.85165 2.71555 2.34703 3.70643 3.15220 3.38923 3.04707 2.79828 2.74858 2.88091 2.69347 4.03122 3.35888\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.00000 *\n- 1 3.38977 5.52463 3.84970 3.08716 5.06125 3.97325 3.81533 4.36331 1.79212 3.73168 4.59927 3.46598 4.30854 2.14254 0.97421 3.36066 3.52119 4.03855 5.71884 4.59319 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.48576 0.95510\n- 2 3.60049 4.85426 5.42289 4.87389 3.39553 4.97971 5.36722 1.92811 4.74209 0.73723 3.15764 5.08372 5.12008 4.78588 4.80356 4.36204 3.82786 1.86743 5.54719 4.50816 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.48576 0.95510\n- 3 2.73069 4.20564 4.17148 3.58851 3.31273 3.84176 4.15075 2.19181 3.47367 1.94484 2.53592 2.92889 4.20728 3.70129 3.66631 3.12904 2.35465 1.91599 4.84424 3.65184 3 v - - -\n- 2.68591 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.10471 2.36643 5.18445 0.31968 1.29601 0.48576 0.95510\n- 4 2.74472 5.22521 2.26244 2.40553 4.56374 3.48077 3.68613 4.03912 1.80129 3.52336 4.27542 2.36235 3.89160 2.79106 2.55398 2.70703 2.54345 3.61397 5.65780 4.25752 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.48576 0.95510\n- 5 2.39632 4.81029 3.15893 2.60644 4.09455 2.68928 3.77183 3.50128 2.57720 2.71262 3.94546 3.10539 2.83797 2.93675 2.33654 2.73843 2.26278 3.18215 5.37969 4.06335 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.48576 0.95510\n- 6 2.43796 5.11577 2.23039 2.21336 3.04549 3.47971 3.67833 3.88084 2.23906 3.40328 4.16861 2.96351 3.87853 2.79059 2.24854 2.68461 2.93581 3.48570 5.57069 4.18486 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.48576 0.95510\n- 136 2.23847 4.25801 4.43276 3.84889 3.32649 3.99022 4.32489 1.79070 3.71429 1.81517 2.33315 4.02012 4.34210 3.91474 3.86090 3.29272 2.51805 2.23495 4.93082 3.75351 178 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.48576 0.95510\n- 137 3.39295 4.64191 5.32040 4.79933 3.70731 4.84972 5.37622 0.90429 4.69355 2.15376 2.69651 4.96565 5.08047 4.86791 4.81622 4.23489 3.64002 1.48757 5.72579 4.57923 179 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46210 5.18445 0.61958 0.77255 0.48576 0.95510\n- 138 2.88086 4.88112 3.44149 2.82499 4.02153 3.70364 3.79940 3.48530 1.81871 2.38867 3.96202 3.27746 4.07371 2.99408 2.12113 2.95971 3.09102 3.21324 5.29485 2.21505 180 k - - -\n- 2.68629 4.42236 2.77531 2.73134 3.46365 2.40524 3.72506 3.29292 2.67752 2.69366 4.24701 2.90358 2.73751 3.18053 2.89783 2.37898 2.77487 2.98530 4.58488 3.61514\n- 0.30601 1.65410 2.62619 0.88612 0.53146 0.48576 0.95510\n- 139 3.07436 5.69692 1.49997 1.43544 4.99056 3.42611 3.90167 4.51849 2.85525 3.98128 4.79501 2.87373 4.01129 2.19483 3.43344 2.96114 3.34683 4.06882 6.12258 4.61756 184 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09411 4.39302 2.55802 0.61958 0.77255 0.59005 0.80811\n- 140 2.91284 5.28490 3.14052 2.06369 4.68681 3.60329 3.67933 4.10261 1.93418 3.54600 4.33979 3.07884 3.98934 1.96144 1.84110 2.87704 3.11493 3.71247 5.62416 4.32795 185 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01998 4.31889 5.04123 0.61958 0.77255 0.52001 0.90267\n- 141 1.95978 3.03526 4.06772 3.49364 3.27345 3.73808 4.07497 2.62015 3.37758 2.37620 2.77340 3.71970 4.13296 3.61738 3.58411 3.03325 2.91720 2.42515 4.79151 2.05026 186 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01854 4.39309 5.11544 0.61958 0.77255 0.58995 0.80823\n- 142 2.77950 4.33406 3.93372 2.79323 3.43719 3.84285 4.14182 1.85853 3.28269 1.68328 3.38744 3.70172 4.21173 3.56941 3.55515 3.12347 2.35053 2.33815 4.99080 3.78655 187 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01854 4.39309 5.11544 0.61958 0.77255 0.58995 0.80823\n- 143 2.09283 4.75809 2.29783 2.58796 3.96756 3.52521 3.74741 2.86283 2.58378 2.99366 2.82388 3.09186 3.91901 2.58629 3.03047 2.74428 2.90805 3.05907 5.28901 3.97989 188 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01252 4.38707 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,506 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AbiEii__AbiEi_3\n-ACC PF11459.10\n-DESC Transcriptional regulator, AbiEi antitoxin, Type IV TA system\n-LENG 159\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Feb 16 16:43:42 2021\n-NSEQ 18\n-EFFN 2.017090\n-CKSUM 2675955566\n-GA 26.00 26.00;\n-TC 27.50 26.80;\n-NC 24.10 22.70;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.9696 0.70851\n-STATS LOCAL VITERBI -10.6809 0.70851\n-STATS LOCAL FORWARD -4.7908 0.70851\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54525 4.33813 3.09520 2.59533 3.38466 3.05623 3.68737 2.97263 2.63156 2.24995 3.68249 3.15714 3.30165 3.00474 2.88025 2.64850 2.87493 2.61490 4.17063 3.57306\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.00000 *\n- 1 2.25302 5.24053 3.03373 2.35379 4.58072 3.54254 3.36945 4.05146 1.84810 3.53642 4.28559 3.01539 3.93414 2.28807 2.35439 2.45349 2.80974 3.62924 5.66948 4.27850 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 2 2.81550 5.31727 2.89500 1.51491 4.65171 3.06977 3.75973 4.13541 2.26574 3.61775 4.36812 2.55929 2.84365 2.71320 3.01525 2.49506 3.05155 3.70369 5.75387 4.33915 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 3 2.51404 5.16942 3.03935 2.48129 4.48444 3.11604 3.72323 3.94401 1.89423 3.46006 4.22174 3.02057 3.21460 2.49550 2.32160 2.73202 2.44046 3.07048 5.62091 4.23714 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 4 2.86151 3.45920 5.13749 4.58467 3.72373 4.53482 4.99464 1.74877 4.44539 1.78929 3.60521 4.66993 4.84813 4.63103 4.53599 3.88398 3.43858 1.00724 5.46832 4.27918 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 5 2.74613 4.26171 4.07489 3.49375 2.87616 3.82445 2.81757 2.71738 3.39310 2.45788 2.91181 3.75106 4.19565 2.83616 3.61569 3.10210 2.51457 2.07796 2.78387 2.81627 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 6 3.74197 4.96777 5.66135 5.11520 3.51564 5.17332 5.58013 1.79879 4.99260 0.70734 3.26563 5.30796 5.28430 4.99459 5.02267 4.56767 3.96776 1.88439 5.69742 4.67638 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45100 5.17334 0.61958 0.77255 0.76405 0.62694\n- 152 2.39330 5.17153 2.73881 2.16452 4.50281 3.46578 3.66091 3.97770 2.11730 3.47040 4.21869 2.93940 3.04112 2.76377 2.44076 2.12573 2.93025 3.55534 5.61271 4.21162 163 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45100 5.17334 0.61958 0.77255 0.76405 0.62694\n- 153 2.28071 5.16276 3.00982 2.33071 4.49584 3.50533 3.67318 3.95325 1.84429 3.45137 4.21346 2.98487 3.89649 2.41248 2.32763 2.57398 2.60770 3.54841 5.59324 4.21905 164 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45100 5.17334 0.61958 0.77255 0.76405 0.62694\n- 154 3.54039 5.03769 4.27753 3.83926 2.15825 4.33593 3.07909 3.61968 3.70618 3.07187 4.17897 3.97233 4.67986 2.90702 3.93250 3.64673 3.76140 3.45116 4.02794 0.82029 165 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45100 5.17334 0.61958 0.77255 0.76405 0.62694\n- 155 2.33149 5.12994 3.09044 2.51583 4.45312 3.24005 3.69345 3.88932 1.91778 2.90800 4.18762 3.03717 3.93224 2.17593 2.16318 2.76065 2.99516 3.51110 5.55932 4.21459 166 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45100 5.17334 0.61958 0.77255 0.34433 1.23338\n- 156 3.65408 4.86971 5.63541 5.11759 3.69839 5.15571 5.66538 0.91573 5.01288 1.34118 3.44917 5.29494 5.30974 5.10131 5.08858 4.56213 3.89374 1.84338 5.84981 4.76591 167 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 157 2.29056 4.67245 3.49354 2.98906 4.24861 3.47619 4.10158 3.63954 2.98268 3.30261 4.13677 2.55691 4.03095 3.30924 3.39429 2.08451 1.40299 2.74289 5.58126 4.30627 168 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 158 3.10753 4.49230 4.73285 4.15859 3.49560 4.31451 4.66086 2.05091 4.00641 1.58375 3.39478 4.34301 4.63435 3.06327 4.15211 3.63084 3.34235 1.16741 5.22017 4.05511 169 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63084 5.35319 0.61958 0.77255 0.48576 0.95510\n- 159 3.14067 5.46392 2.92244 2.25174 4.85116 3.67149 3.98378 4.28487 2.05029 3.79381 4.62553 3.18824 1.13653 3.12970 3.00770 3.10385 3.38958 3.90648 5.92838 4.58999 170 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00984 4.62610 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEi_4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,176 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AbiEii__AbiEi_4\n-ACC PF13338.8\n-DESC Transcriptional regulator, AbiEi antitoxin\n-LENG 49\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sun Feb 21 11:11:26 2021\n-NSEQ 76\n-EFFN 67.905518\n-CKSUM 2902841593\n-GA 25.00 25.00;\n-TC 25.00 25.00;\n-NC 24.90 24.90;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -8.0370 0.71921\n-STATS LOCAL VITERBI -8.1731 0.71921\n-STATS LOCAL FORWARD -4.0481 0.71921\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43863 4.75871 3.19085 2.79014 3.49496 2.55420 3.87673 2.71147 2.90211 2.21632 4.15994 3.64711 3.37836 3.28829 2.24658 2.83425 3.05878 2.70642 4.39340 3.25150\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.00000 *\n- 1 3.45170 7.40289 2.14243 1.85532 6.74936 4.44561 3.91331 6.23632 3.00001 3.86845 2.95687 2.23870 4.23485 2.06782 1.66798 2.91618 4.11029 4.15531 7.83474 4.29424 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 2 2.87297 7.32119 3.08770 2.55838 2.81474 5.68659 4.52692 2.85106 2.25837 2.50563 4.51135 5.16905 4.20359 2.58464 1.44890 3.79312 3.03020 2.87079 7.77547 3.44371 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 3 2.88581 6.45577 7.05929 3.74721 5.54757 6.25352 6.58774 1.18232 6.22499 1.10581 3.41936 6.42012 3.49124 4.51098 6.22861 4.40451 4.30511 2.09103 7.07780 3.13315 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 4 2.41183 7.32400 2.40282 2.71567 3.06983 5.68570 5.87666 3.30956 2.41284 1.81811 3.94360 3.32168 1.99348 3.84705 2.80034 3.61228 3.38051 2.70089 7.77753 4.64532 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 5 2.74470 7.40234 2.50005 1.57306 3.80715 5.66239 3.40801 3.88343 2.94106 3.62889 3.54534 3.16424 3.96545 3.00824 2.69535 2.47243 1.87505 5.79359 7.83435 3.25006 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01118 7.81306 4.53632 0.61958 0.77255 0.48576 0.95510\n- 6 3.06769 4.59932 7.01609 2.69216 2.46616 6.23863 4.45867 2.91415 4.17559 0.99217 4.02571 3.75480 6.60252 6.32591 3.13218 3.78107 4.27886 2.72935 2.06164 3.97580 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 42 1.98077 3.49125 3.90765 3.29208 3.61187 1.95569 2.95573 3.41011 2.88403 4.48875 6.43860 5.13160 2.08188 3.21191 1.89056 2.87806 3.02029 5.78772 7.83098 3.83238 62 r - - -\n- 2.68742 4.42349 2.77644 2.73035 3.46478 2.40637 3.72619 3.29478 2.67865 2.69479 4.24814 2.90471 2.73864 3.17802 2.89925 2.38011 2.77644 2.96852 4.58601 3.61627\n- 0.20076 1.70544 8.53541 0.01049 4.56219 0.48576 0.95510\n- 43 4.93237 7.43486 3.87424 4.62587 4.63953 5.70299 2.12355 4.58853 1.47852 5.73734 6.47613 4.12640 2.71504 3.46214 0.83590 4.11533 5.16166 4.20449 7.86092 6.45791 64 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 44 6.38272 8.88700 5.34078 3.99901 8.71064 0.14696 3.46897 8.36740 6.68200 7.79960 8.76070 4.05350 7.22990 6.56362 7.47059 2.87478 6.80617 7.71381 9.93410 8.27598 65 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 45 3.07364 4.60345 7.06228 6.44581 2.42396 6.25380 4.47160 1.92296 3.25993 1.65093 3.62497 6.42138 6.61735 6.35526 6.22962 5.56575 1.78478 1.56690 7.07735 3.02804 66 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 46 8.07705 8.81242 8.68223 8.75749 3.24297 8.34674 3.97592 7.57802 8.51127 4.25345 8.05026 7.79233 8.57347 8.00925 8.20762 7.77225 8.24477 4.32526 2.01923 0.25098 67 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 47 1.26052 3.20215 6.53917 3.27045 5.63250 3.79179 4.41848 2.99828 5.82856 1.93198 4.03014 4.00581 6.53257 3.06432 1.96943 4.06105 2.86511 2.65594 4.52660 3.83488 68 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 48 3.54718 6.46068 4.45958 3.82457 1.65797 6.24647 6.57828 2.01350 6.19034 1.42126 4.61739 3.23820 3.48057 6.32784 3.08965 2.63695 4.19078 2.24385 4.47722 3.37939 69 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00060 7.81306 8.53541 0.61958 0.77255 0.48576 0.95510\n- 49 2.01995 7.32848 3.95126 4.62293 6.64154 3.58821 3.98200 1.69241 3.27206 4.22493 6.37769 3.21289 1.85831 3.27258 3.34142 3.43867 2.46967 1.92131 7.78082 3.98065 70 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00040 7.81286 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEii.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiEii__AbiEii.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,746 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AbiEii__AbiEii\n-ACC PF08843.12\n-DESC Nucleotidyl transferase AbiEii__AbiEii toxin, Type IV TA system\n-LENG 239\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 22 20:33:10 2020\n-NSEQ 168\n-EFFN 18.849243\n-CKSUM 2353609642\n-GA 22.50 22.50;\n-TC 22.50 22.50;\n-NC 22.40 22.40;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.6122 0.70336\n-STATS LOCAL VITERBI -11.5695 0.70336\n-STATS LOCAL FORWARD -4.6290 0.70336\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48761 4.62216 2.67923 2.62205 3.14694 2.88295 3.73043 2.89950 2.74972 2.32321 3.87485 3.30220 3.15987 3.18998 2.73288 2.73117 2.91258 2.80321 4.59819 3.52192\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01600 6.56255 4.23621 0.61958 0.77255 0.00000 *\n- 1 2.81282 5.24035 2.46459 2.60818 5.65848 3.55893 3.73802 3.05463 2.51411 2.96417 5.35535 3.54443 3.92570 2.49446 1.47561 2.83227 3.25241 3.55407 3.72845 3.65724 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00213 6.54868 7.27102 0.61958 0.77255 0.57342 0.82919\n- 2 1.97343 4.76072 3.24428 4.47003 2.32504 4.62646 5.43813 1.89004 4.17333 1.28500 3.95967 5.23701 5.47505 4.35648 3.62334 3.37608 3.60282 2.42787 5.96473 3.62419 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00212 6.55265 7.27500 0.61958 0.77255 0.61020 0.78360\n- 3 4.25166 6.06050 6.72645 6.11353 3.45254 5.97305 6.28041 2.91717 5.91536 0.34992 2.63264 6.14616 6.21879 5.92579 5.87945 5.30554 4.96423 2.71426 4.46606 4.49003 3 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00212 6.55265 7.27500 0.61958 0.77255 0.61020 0.78360\n- 4 2.22399 3.52805 2.72229 2.55091 2.09198 3.26548 4.80293 4.21953 2.69503 3.22938 4.44362 3.54980 4.38345 2.98486 2.61987 2.66012 3.15967 2.76689 5.32297 2.65028 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00212 6.55265 7.27500 0.61958 0.77255 0.61020 0.78360\n- 5 1.85238 4.39675 2.42998 2.48670 5.66760 2.51694 2.72424 3.99725 3.11104 4.13423 4.62790 3.14910 4.33091 2.89822 1.94773 2.55558 2.89745 3.79963 6.75379 4.50940 5 a - - -\n- 2.68680 4.42195 2.77582 2.73186 3.46356 2.40575 3.72557 3.28557 2.67803 2.69190 4.24642 2.90409 2.73802 3.18209 2.89863 2.37932 2.77569 2.98432 4.58539 3.61537\n- 1.26177 1.22923 0.85724 0.11729 2.20114 0.41514 1.07954\n- 6 2.32170 4.97545 3.96218 3.25466 2.37221 4.08502 4.95959 2.06470 4.00455 1.23632 3.32371 3.45775 5.01673 4.57640 3.02456 3.62584 3.40243 2.94784 4.13111 3.76076 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.3788'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00389 5.94730 6.66965 0.61958 0.77255 1.16924 0.37194\n- 232 1.88348 6.02613 1.97510 2.28811 5.37232 2.97424 4.10964 4.85909 2.80604 3.56128 5.06650 3.30165 3.05594 3.37640 2.57166 1.98423 2.76899 4.11056 6.45814 4.03932 412 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00318 6.14792 6.87026 0.61958 0.77255 0.83901 0.56588\n- 233 2.81776 5.20083 4.43613 4.36545 1.16612 4.89618 4.33934 2.53706 3.51026 2.17426 4.31746 4.48669 4.39529 4.10955 3.69602 3.04130 3.60056 2.22627 2.92517 3.20410 413 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00265 6.33143 7.05378 0.61958 0.77255 1.71644 0.19809\n- 234 2.67521 4.62802 1.36618 1.88024 4.77323 2.76733 4.60829 4.98992 2.80726 3.26587 4.50597 3.42250 3.97505 2.62737 2.54589 2.96149 3.70437 3.90495 4.43458 5.18011 414 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00263 6.33735 7.05970 0.61958 0.77255 1.62499 0.21929\n- 235 1.96225 6.15861 2.36876 2.06494 3.71348 3.73721 3.99491 4.05653 2.69781 3.20307 4.60291 3.28629 4.82436 2.58626 2.88578 2.73813 2.39878 3.71712 2.88548 3.78155 415 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00260 6.34808 7.07043 0.61958 0.77255 1.67127 0.20827\n- 236 1.70416 3.96289 4.67982 5.07967 3.02129 3.41435 5.28539 2.01121 2.52386 1.89580 4.00948 5.09568 5.31971 3.93271 3.92066 3.95787 3.14136 2.22531 4.15027 2.55121 416 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00259 6.35368 7.07603 0.61958 0.77255 1.60361 0.22460\n- 237 2.66586 5.19825 3.58672 4.28577 2.47208 4.14594 4.45004 2.63340 3.69816 1.06431 2.96996 5.05715 4.33601 3.96170 3.78305 4.01976 4.02956 2.09257 4.44717 3.06537 417 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00257 6.36244 7.08479 0.61958 0.77255 1.72117 0.19706\n- 238 1.83096 6.17903 2.18274 1.72567 4.32255 3.33741 3.96744 4.22276 2.49916 3.75917 4.19123 2.78071 4.83261 2.54330 2.93282 2.87431 2.81125 3.98141 6.61105 5.19942 418 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00257 6.36244 7.08479 0.61958 0.77255 1.72117 0.19706\n- 239 2.01647 3.96766 3.26460 2.56475 4.59523 3.73311 3.79680 3.87937 2.39675 3.34373 4.55409 2.25629 3.98229 3.25986 2.04697 2.57616 3.12631 2.41923 5.39535 4.23589 419 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00173 6.36161 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiG__AbiGi.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiG__AbiGi.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,887 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiG__AbiGi\n-LENG 288\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:37:06 2022\n-NSEQ 100\n-EFFN 1.144409\n-GA 20 20;\n-CKSUM 1165359057\n-STATS LOCAL MSV -10.9055 0.70161\n-STATS LOCAL VITERBI -11.9554 0.70161\n-STATS LOCAL FORWARD -5.3716 0.70161\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69431 4.27280 2.93149 2.55735 3.21114 3.17156 3.66443 2.71224 2.54284 2.43622 3.48246 2.95529 3.42186 3.01385 2.97704 2.70375 2.92659 2.76867 4.54575 3.27367\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08005 4.24189 2.77184 0.61958 0.77255 0.00000 *\n- 1 3.24695 4.75199 4.40322 4.03200 3.38743 4.07834 4.69502 2.59642 3.78013 1.94421 0.88388 4.26738 4.55037 4.14655 3.94632 3.62333 3.56358 2.63683 5.26294 4.04767 1 m - - -\n- 2.68626 4.42244 2.77515 2.73083 3.46368 2.40521 3.72507 3.29310 2.67745 2.69361 4.24709 2.90334 2.73755 3.18140 2.89810 2.37898 2.77491 2.98530 4.58496 3.61522\n- 0.58418 1.43095 1.59280 1.37267 0.29226 0.54045 0.87343\n- 2 2.40447 4.83731 2.71559 2.25309 4.09532 3.29640 3.58433 3.52334 2.34450 3.10506 3.80292 2.65173 3.77281 2.60858 2.84095 2.57406 2.57707 2.99497 5.32755 3.73254 30 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04837 3.97655 3.55902 0.61958 0.77255 0.68418 0.70220\n- 3 2.45057 4.81482 2.87411 2.19054 4.06653 3.24932 3.58949 3.34987 2.26271 3.01770 3.70862 2.73188 3.64481 2.66033 2.84316 2.55066 2.68302 3.06776 5.30783 3.73230 31 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02756 4.00092 4.72327 0.61958 0.77255 0.66851 0.71841\n- 4 2.55094 4.83318 2.87977 2.26995 4.08774 3.14756 3.59701 3.17876 2.20930 3.09895 3.74721 2.66859 3.41175 2.73607 2.85035 2.45620 2.72399 3.17442 5.32489 3.71768 32 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02647 4.04079 4.76314 0.61958 0.77255 0.64722 0.74129\n- 5 2.58840 4.77724 2.90114 2.36748 4.01460 3.38553 3.38781 3.02062 2.12145 2.84777 3.73966 2.86232 3.80851 2.67437 2.70805 2.62525 2.76355 2.86646 5.27856 3.94854 33 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02565 4.07201 4.79436 0.61958 0.77255 0.63647 0.75323\n- 6 2.53678 4.50184 3.04379 2.51422 3.67524 3.48606 3.71553 2.52011 2.61645 2.65130 3.11799 2.56904 3.87219 2.88500 3.03091 2.67844 2.81414 2.61333 5.05651 3.78299 34 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02512 4.09257 4.81492 0.61958 0.77255 0.65403 0.73385\n- 7 2.45502 4.38357 3.32581 2.56479 3.41899 3.51959 3.76027 2.68526 2.67883 2.39206 3.48216 3.02256 3.9017'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02125 4.25769 4.98003 0.61958 0.77255 0.49640 0.93833\n- 281 3.86886 5.03068 4.96420 4.68316 1.61351 4.61253 3.57482 3.60198 4.49929 2.74091 4.17846 4.27470 4.90143 4.36684 4.45093 3.80609 4.07910 3.49179 2.53729 0.89992 347 y - - -\n- 2.68629 4.42239 2.77531 2.73111 3.46324 2.40519 3.72508 3.29335 2.67742 2.69351 4.24667 2.90351 2.73745 3.18152 2.89799 2.37889 2.77517 2.98512 4.58491 3.61491\n- 0.03530 3.77563 4.44272 2.27896 0.10802 0.49640 0.93833\n- 282 2.87087 5.40410 1.50657 1.98606 4.71217 3.36971 3.76069 4.20923 2.57563 3.69945 4.49003 2.44425 3.89765 2.89491 3.18594 2.53531 2.72666 3.78130 5.85356 4.39707 429 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25278 4.97513 0.61958 0.77255 0.50287 0.92834\n- 283 2.71823 5.19182 2.47092 1.62980 4.50834 3.39998 3.65927 3.76595 2.44142 3.48477 4.24989 2.70909 3.84220 2.25028 2.93998 2.59623 2.95724 3.45061 5.63662 4.22467 430 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25278 4.97513 0.61958 0.77255 0.50287 0.92834\n- 284 2.82215 4.30857 4.58363 4.00061 3.09417 4.11965 4.45025 1.69846 3.86198 1.36485 2.60864 3.95455 4.43256 4.02921 3.98406 3.43210 3.15540 2.11237 4.96882 3.81791 431 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25278 4.97513 0.61958 0.77255 0.50287 0.92834\n- 285 2.61378 4.95979 3.01400 2.21113 4.24029 3.46822 3.64371 3.66683 1.77240 3.22756 3.76609 2.89934 3.85776 2.72792 2.62333 2.63454 2.89892 2.67579 5.42509 4.08259 432 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25278 4.97513 0.61958 0.77255 0.50287 0.92834\n- 286 2.84407 5.25298 2.80296 1.50195 4.60466 3.15786 3.69548 4.05092 1.82821 3.53553 4.32903 2.95348 3.92192 2.81875 2.60409 2.80159 3.07334 3.65514 5.66057 4.30252 433 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25278 4.97513 0.61958 0.77255 0.50287 0.92834\n- 287 3.26618 5.68319 0.68073 2.29406 5.03723 3.40770 4.09447 4.61479 3.22351 4.15741 5.09635 2.94509 4.08567 3.30054 3.83805 3.15160 3.59657 4.19758 6.20917 4.76401 434 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25278 4.97513 0.61958 0.77255 0.50287 0.92834\n- 288 3.11211 4.50891 4.51725 3.98238 2.39545 4.18052 4.04648 2.49840 3.82965 1.92305 3.05639 4.09040 4.48878 3.97516 3.96096 3.49216 3.33709 2.62081 1.46319 2.84973 435 w - - -\n- 2.68624 4.42234 2.77495 2.73129 3.46335 2.40520 3.72503 3.29344 2.67745 2.69346 4.24674 2.90352 2.73746 3.18151 2.89806 2.37883 2.77523 2.98520 4.58486 3.61499\n- 0.02405 3.73958 * 1.92697 0.15734 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiG__AbiGii.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiG__AbiGii.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1217 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiG__AbiGii\n-LENG 398\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:37:10 2022\n-NSEQ 75\n-EFFN 3.327942\n-GA 20 20;\n-CKSUM 4035533621\n-STATS LOCAL MSV -11.5700 0.69928\n-STATS LOCAL VITERBI -12.3746 0.69928\n-STATS LOCAL FORWARD -5.6214 0.69928\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.75529 4.76117 2.93793 2.47765 2.98307 3.29789 3.84813 2.66509 2.45681 2.44131 3.59191 2.88492 3.40665 2.99877 3.09047 2.65698 2.88844 2.78358 5.12584 3.37536\n- 2.68627 4.42234 2.77528 2.73132 3.46363 2.40512 3.72503 3.29363 2.67739 2.69364 4.24590 2.90324 2.73748 3.18155 2.89766 2.37895 2.77515 2.98527 4.58486 3.61480\n- 0.06080 3.04093 4.49202 1.33431 0.30563 0.00000 *\n- 1 4.33312 5.74282 5.53527 5.34239 4.33661 4.89188 5.83737 3.67584 5.08024 2.86523 0.22920 5.46072 5.44884 5.41565 5.12719 4.72619 4.71230 3.79298 6.19467 5.05062 9 M - - -\n- 2.68591 4.42241 2.77508 2.73139 3.46370 2.40529 3.72510 3.29323 2.67757 2.69371 4.24706 2.90363 2.73755 3.18162 2.89817 2.37903 2.77489 2.98399 4.58493 3.61519\n- 0.75440 0.90476 2.07889 0.07298 2.65382 0.50561 0.92417\n- 2 2.82729 4.49980 3.19169 3.21756 1.83147 3.82760 4.08865 2.38854 2.89366 2.53984 3.04502 2.49576 4.20534 3.45523 3.11614 3.07869 2.98364 2.53608 5.08800 3.86247 11 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01174 4.84671 5.56905 0.61958 0.77255 0.65142 0.73669\n- 3 2.07031 5.08578 3.24525 2.70508 4.47296 3.14915 3.92337 3.90982 2.43883 3.48188 4.27131 2.69770 4.06136 3.05789 3.17389 1.43701 2.77375 3.08258 5.68974 4.33903 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01131 4.88375 5.60610 0.61958 0.77255 0.38606 1.13860\n- 4 2.65968 5.42879 3.23651 2.69510 4.80391 3.73768 3.91065 4.26212 1.33630 3.73955 4.50132 1.94595 4.13959 3.01701 2.68290 2.26682 3.22308 3.84430 5.86024 4.49322 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01030 4.97649 5.69884 0.61958 0.77255 0.50561 0.92417\n- 5 4.98353 6.07005 5.79594 5.77236 0.16778 5.19683 4.85006 4.55914 5.70376 3.70551 5.15336 5.45025 5.69114 5.60866 5.56304 5.12439 5.31173 4.60353 4.95090 3.25814 14 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01030 4.97649 5.69884 0.61958 0.77255 0.50561 0.92417\n- 6 2.87627 5.38770 2.63323 2.21315 4.73270 3.26976 3.83428 4.21878 1.77213 3.69251 4.42891 1.93694 4.04005 2.42319 2.84426 2.83762 2.88375 3.77841 5.81960 3.96082 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05340 4.97649 3.09878 0.61958 0.77255 0.50561 0.92417\n- 7 2.40118 5.38264 2.83798 2.21034 4.72149 3.63499 3.84170 4.20440 1.95329 3.68637 4.42967 2.68767 4.041'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01079 4.93026 5.65260 0.61958 0.77255 0.53929 0.87506\n- 391 3.64384 4.93583 5.54234 4.96344 2.95650 4.89959 5.10649 1.05520 4.79054 1.11705 3.37955 5.02330 5.11765 4.80170 4.78158 4.24334 3.86371 2.74269 5.35147 3.24797 517 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08278 4.93026 2.62799 0.61958 0.77255 0.53929 0.87506\n- 392 2.83003 5.33888 2.16133 1.80113 3.55715 3.33790 3.78921 4.16733 2.33271 3.64319 4.38061 2.66568 3.99378 2.31936 2.80198 2.47308 3.06177 3.72849 5.77222 4.36085 518 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01159 4.85907 5.58141 0.61958 0.77255 0.69739 0.68892\n- 393 2.56898 5.27365 2.25904 1.82634 4.59545 3.54202 3.79258 3.22108 2.18766 3.26346 4.32050 2.91920 3.99586 2.89692 2.83093 2.42778 3.05131 3.29165 4.19363 4.32404 519 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07108 4.85907 2.79923 0.61958 0.77255 0.69739 0.68892\n- 394 2.82199 3.50343 4.66506 3.63503 2.73572 3.97993 4.30770 1.44108 3.86964 2.25579 3.33155 4.10138 4.34402 4.02420 3.23227 3.28629 3.05426 1.85612 4.83818 3.12529 520 i - - -\n- 2.68621 4.42228 2.77523 2.73126 3.46300 2.40516 3.72497 3.29320 2.67744 2.69358 4.24693 2.90350 2.73743 3.18149 2.89804 2.37890 2.77523 2.98521 4.58480 3.61506\n- 0.27642 2.28953 1.96475 0.24952 1.51038 0.80459 0.59289\n- 395 3.39296 6.10986 0.86741 1.83249 5.37344 3.57935 3.77175 4.94036 3.23747 4.38441 5.24177 2.21370 4.22809 3.32653 3.89041 3.23893 3.68849 4.47096 6.52795 4.95448 522 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06286 4.65387 2.96818 0.61958 0.77255 1.01051 0.45261\n- 396 2.95054 4.53634 3.91035 3.03735 1.15100 3.92699 4.08822 2.92225 2.91235 2.28623 3.58325 3.73479 4.30978 3.60302 3.50260 3.23271 3.18307 2.75186 4.84841 3.46220 523 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01496 4.60597 5.32832 0.61958 0.77255 1.06424 0.42310\n- 397 2.79306 5.27784 2.52358 2.27539 4.60623 3.51616 3.74608 4.08554 2.50984 3.57724 4.33030 2.31100 3.93783 2.70468 2.87005 1.67518 2.57334 3.66099 5.72099 4.31029 524 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12059 4.60597 2.26714 0.61958 0.77255 1.06424 0.42310\n- 398 2.68908 4.90851 2.75819 2.30732 4.15353 3.51369 3.71677 2.93011 1.85754 2.96406 3.97831 3.03948 3.90474 2.86263 2.97260 2.59083 2.79792 2.54613 5.40782 4.06857 525 k - - -\n- 2.68629 4.42262 2.77524 2.73137 3.46367 2.40505 3.72443 3.29391 2.67702 2.69267 4.24726 2.90331 2.73776 3.18183 2.89790 2.37874 2.77556 2.98535 4.58513 3.61540\n- 0.64564 0.74302 * 1.14170 0.38460 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiH__AbiH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiH__AbiH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,818 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AbiH__AbiH\n-ACC PF14253.7\n-DESC Bacteriophage abortive infection AbiH__AbiH\n-LENG 263\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sun Apr 19 08:20:59 2020\n-NSEQ 31\n-EFFN 2.788940\n-CKSUM 4170110112\n-GA 30.90 30.90;\n-TC 31.90 31.60;\n-NC 30.80 30.80;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.9133 0.70243\n-STATS LOCAL VITERBI -12.1594 0.70243\n-STATS LOCAL FORWARD -4.6890 0.70243\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73606 4.48585 2.81581 2.59221 3.12426 2.87128 3.54032 2.78754 2.60513 2.50877 3.78922 2.87620 3.53278 3.08550 3.06097 2.62820 2.80764 2.85407 4.40633 3.22734\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10225 4.87034 2.41328 0.61958 0.77255 0.00000 *\n- 1 3.92165 5.12234 5.89359 5.35226 3.61032 5.39648 5.80984 1.48144 5.23592 0.70195 3.34730 5.55143 5.46189 5.18953 5.23832 4.80771 4.14449 2.16302 5.84446 4.85003 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01254 4.78063 5.50298 0.61958 0.77255 0.38175 1.14779\n- 2 3.65281 4.94809 5.21350 4.76710 1.68187 4.65876 3.62794 2.74223 4.57319 1.77811 4.00109 4.56308 4.97979 4.57112 4.55991 3.99197 3.87618 3.24668 4.35061 1.07925 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01146 4.87034 5.59268 0.61958 0.77255 0.48576 0.95510\n- 3 3.76060 4.96627 5.82025 5.30729 3.92333 5.29848 5.84586 0.87217 5.21624 1.57217 3.26717 5.45551 5.46350 5.31502 5.28675 4.70600 4.00223 1.56200 6.04661 4.94681 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01146 4.87034 5.59268 0.61958 0.77255 0.48576 0.95510\n- 4 3.41162 3.02557 5.42473 4.87279 3.33765 4.78495 5.23964 0.82819 4.72861 2.04316 3.68701 4.93933 5.06988 4.88093 4.78920 4.14173 3.65404 1.76717 5.64440 4.47253 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01146 4.87034 5.59268 0.61958 0.77255 0.48576 0.95510\n- 5 4.27956 5.85467 5.12073 5.16086 6.10480 0.09387 6.10185 6.04410 5.44973 5.50740 6.55887 5.28926 5.24989 5.70032 5.48431 4.49132 4.81954 5.39501 6.84894 6.26964 5 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01146 4.87034 5.59268 0.61958 0.77255 0.48576 0.95510\n- 6 3.99312 5.83811 3.85130 3.87043 5.41726 4.23900 5.26871 5.47506 4.34708 4.99188 6.01681 0.20068 4.95946 4.63189 4.66281 4.07181 4.44759 4.97160 6.55714 5.36204 6 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.5847'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01165 4.85425 5.57660 0.61958 0.77255 0.46227 0.99386\n- 256 2.75622 5.33240 2.38683 2.27285 4.67622 3.40493 3.41097 3.55335 2.30494 3.63713 4.37344 2.26246 2.77640 2.53949 2.81935 2.33044 3.05573 3.72238 5.76578 4.05833 670 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01146 4.87034 5.59268 0.61958 0.77255 0.48576 0.95510\n- 257 2.09788 3.22703 3.62531 2.47995 3.76124 3.79061 4.03595 2.55641 3.02237 2.72433 3.71485 3.05438 4.17199 3.33439 2.62217 2.87493 2.68506 2.06322 5.18884 3.94339 671 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06544 4.87034 2.88817 0.61958 0.77255 0.48576 0.95510\n- 258 2.81113 5.16367 3.02102 2.49326 4.45044 3.61034 3.40807 3.42051 2.00374 2.82651 4.22062 3.10598 4.00168 2.84397 2.02004 2.71020 2.22898 3.12931 5.63178 4.26197 672 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01209 4.81699 5.53933 0.61958 0.77255 0.60681 0.78765\n- 259 2.64032 4.33339 4.27005 3.68324 3.42716 3.93585 4.23741 2.37853 3.53895 2.23155 3.43853 3.90420 4.30814 3.78726 3.37983 3.22356 2.21309 2.56858 1.56567 3.74369 673 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02381 4.81699 4.17078 0.61958 0.77255 0.60681 0.78765\n- 260 2.81135 4.36440 4.03517 2.93723 2.84239 3.87028 4.15453 2.55221 2.76825 2.45792 3.47588 3.47185 4.24340 3.62858 3.62802 2.85612 2.15205 1.92256 4.14266 2.65915 674 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80541 5.52775 0.61958 0.77255 0.63048 0.76001\n- 261 3.09337 4.43875 5.01068 4.42228 2.00291 4.30441 4.59018 1.64638 4.23380 2.22982 3.43560 4.43719 4.63661 4.35763 4.26192 3.62675 3.32635 1.41513 5.01946 2.84537 675 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03275 4.80541 3.72844 0.61958 0.77255 0.63048 0.76001\n- 262 2.73126 4.49771 3.74059 3.17402 2.33999 3.80203 3.58734 2.62495 3.12269 2.70600 3.60371 2.63702 4.18092 3.41749 3.46099 1.92506 2.93060 2.76959 5.05662 2.50127 676 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15369 4.78515 2.00912 0.61958 0.77255 0.66997 0.71688\n- 263 2.76199 4.64279 3.03585 2.86018 3.51325 3.67795 3.27905 2.86330 2.30855 2.86441 3.73718 3.31944 3.68851 3.15708 3.23537 2.90536 2.99332 2.93475 3.32492 1.86561 677 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00969 4.64115 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiI__AbiI.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiI__AbiI.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1025 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiI__AbiI\n-LENG 334\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 16:00:25 2022\n-NSEQ 36\n-EFFN 0.804199\n-GA 20 20;\n-CKSUM 1808147642\n-STATS LOCAL MSV -11.0097 0.70044\n-STATS LOCAL VITERBI -12.0393 0.70044\n-STATS LOCAL FORWARD -5.1489 0.70044\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66885 4.33764 2.81136 2.55531 3.06237 3.09991 3.62056 2.82838 2.52807 2.39556 3.62899 3.07536 3.62978 3.13400 2.92399 2.69711 2.88270 2.74273 4.79978 3.25295\n- 2.68619 4.42226 2.77520 2.73122 3.46355 2.40512 3.72495 3.29351 2.67742 2.69356 4.24661 2.90347 2.73740 3.18147 2.89802 2.37888 2.77520 2.98516 4.58478 3.61504\n- 0.16968 3.10948 2.19424 0.67257 0.71416 0.00000 *\n- 1 3.04619 4.52449 4.30162 3.78014 3.12405 4.12217 4.47349 2.12483 3.55841 1.60031 1.56851 4.07692 4.45256 3.87058 3.76925 3.47824 3.30237 2.22562 5.06221 3.86235 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03003 3.91636 4.63870 0.61958 0.77255 0.58947 0.80882\n- 2 2.25126 4.67042 2.70488 2.43458 3.78156 3.37679 3.34210 3.09661 2.44578 2.93893 3.76898 2.78933 3.78330 2.78835 2.89786 2.49495 2.63443 3.00454 5.20583 3.88694 7 a - - -\n- 2.68621 4.42228 2.77514 2.73126 3.46357 2.40516 3.72498 3.29357 2.67736 2.69358 4.24693 2.90333 2.73743 3.18149 2.89782 2.37890 2.77523 2.98521 4.58480 3.61506\n- 0.46648 1.39095 2.08782 0.24717 1.51872 0.58947 0.80882\n- 3 2.66984 5.03465 2.06139 2.13025 4.30027 3.25298 3.00305 3.76281 2.42971 3.31215 4.12682 2.74072 3.74913 2.55831 2.91545 2.63496 2.70394 3.39521 5.50227 4.10564 9 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79500 4.51734 0.61958 0.77255 0.53583 0.87992\n- 4 2.79558 5.27929 2.04019 1.63383 4.58931 2.49613 3.67895 4.07957 2.61918 3.59637 4.41942 2.48174 3.78365 2.83350 3.17154 2.71669 3.07041 3.66909 5.77163 4.31298 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03040 3.90442 4.62676 0.61958 0.77255 0.59963 0.79632\n- 5 2.55805 4.52705 3.02176 2.44148 3.82463 3.35717 3.72597 2.88846 2.56219 2.85590 3.73445 2.82619 3.82563 2.94253 2.94946 2.67035 1.95612 2.84230 5.17941 3.89481 11 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03040 3.90442 4.62676 0.61958 0.77255 0.58139 0.81898\n- 6 3.21593 4.60960 4.56660 4.02163 2.90023 4.37998 4.62075 2.17318 3.85824 0.94723 2.56752 4.31866 4.60757 4.05302 4.03622 3.72251 3.44473 2.27941 5.02575 3.84245 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03003 3.91636 4.63870 0.61958 0.77255 0.58947 0.80882\n- 7 3.45769 4.75989 4.42806 4.07416 1.42946 4.24287 3.44650 3.17608 3.93446 2.54027 3.78800 3.94529 4.56559'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02725 4.01203 4.73438 0.61958 0.77255 0.55392 0.85494\n- 327 2.50051 4.87813 2.97370 2.43293 4.15618 3.42404 3.30700 3.32559 1.86528 3.14413 3.95527 2.94470 3.82047 2.47496 2.68696 2.43026 2.86877 3.23745 5.34630 4.02209 435 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02725 4.01203 4.73438 0.61958 0.77255 0.55392 0.85494\n- 328 2.23058 4.36559 3.14675 2.83371 4.13083 3.12240 3.99132 3.44696 2.87779 3.18964 4.05461 2.61573 3.77439 3.22776 3.23314 2.54674 1.45676 3.05058 5.47591 4.21153 436 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02725 4.01203 4.73438 0.61958 0.77255 0.55392 0.85494\n- 329 2.94926 4.36212 4.41979 3.87913 3.36861 4.14352 4.56489 1.28460 3.73691 1.95437 2.67866 4.13686 4.47835 4.00591 3.94747 3.48037 2.85640 1.87059 5.19658 4.02435 437 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02725 4.01203 4.73438 0.61958 0.77255 0.55392 0.85494\n- 330 2.57389 3.56103 3.18034 2.40676 3.68574 3.45635 3.73268 2.53158 2.62178 2.73087 3.60954 2.31813 3.86760 2.96953 3.02088 2.71075 2.81863 2.74242 5.07307 3.79939 438 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02725 4.01203 4.73438 0.61958 0.77255 0.55392 0.85494\n- 331 2.60912 4.81913 2.46493 2.22673 3.59566 3.39046 3.61722 3.47496 2.43885 3.07231 3.89336 2.91412 3.80337 2.51454 2.90460 2.63387 2.84359 3.15185 5.27415 2.77428 439 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02725 4.01203 4.73438 0.61958 0.77255 0.55392 0.85494\n- 332 2.64598 4.26524 3.65286 2.74837 3.23719 3.65920 3.89247 2.33258 2.99578 1.81811 3.28865 3.45401 4.02862 3.30606 3.29339 2.92859 2.87724 2.42011 4.77901 2.76966 440 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02725 4.01203 4.73438 0.61958 0.77255 0.55392 0.85494\n- 333 2.65566 5.02250 2.74667 2.15026 4.32204 3.36413 3.03817 3.76956 2.16037 3.30380 4.09297 2.36266 3.79502 2.72681 2.79918 2.37750 2.73263 3.39274 5.48006 4.10782 441 e - - -\n- 2.68618 4.42225 2.77520 2.73115 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.14931 2.92703 2.46346 0.49170 0.94568 0.55392 0.85494\n- 334 2.96655 4.46889 4.03047 3.52220 2.55593 3.94271 3.79562 2.41137 3.35073 1.93525 3.36221 3.74171 4.29045 3.62485 3.57490 3.25374 3.20091 2.52124 4.22940 1.60885 443 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01998 3.92305 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiJ__AbiJ.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiJ__AbiJ.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,929 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiJ__AbiJ\n-LENG 302\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 16:00:30 2022\n-NSEQ 59\n-EFFN 0.947083\n-GA 20 20;\n-CKSUM 2496497002\n-STATS LOCAL MSV -10.8245 0.70123\n-STATS LOCAL VITERBI -11.8136 0.70123\n-STATS LOCAL FORWARD -5.3196 0.70123\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65903 4.65878 2.85764 2.61860 3.40867 3.14102 3.80939 2.56121 2.60926 2.38763 3.60587 2.80756 3.80648 3.10928 2.94559 2.62054 2.90836 2.57051 4.81634 3.49999\n- 2.68625 4.42232 2.77511 2.73130 3.46361 2.40514 3.72502 3.29334 2.67740 2.69358 4.24550 2.90354 2.73747 3.18154 2.89798 2.37880 2.77527 2.98526 4.58484 3.61510\n- 0.36941 2.11631 1.66929 1.10689 0.40135 0.00000 *\n- 1 2.74151 4.45095 3.56941 3.02903 3.44577 3.65907 3.90208 2.67470 2.39909 2.21127 1.91434 3.41284 4.05169 3.20142 2.97588 2.97026 2.98076 2.54230 4.99938 3.76185 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02901 3.95032 4.67267 0.61958 0.77255 0.68142 0.70501\n- 2 2.68305 4.85199 2.69516 1.64759 4.12754 2.89853 3.69377 3.50642 2.50506 2.66448 4.01561 2.90827 3.82852 2.86858 2.93334 2.70817 2.94544 3.19311 5.40401 4.05990 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02901 3.95032 4.67267 0.61958 0.77255 0.68142 0.70501\n- 3 2.72054 5.17573 1.93458 2.19775 4.48196 3.28496 3.62858 3.95677 2.20040 3.46880 4.26333 2.57826 3.78467 2.50809 2.95747 2.38224 2.97146 3.55376 5.63313 4.21388 9 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02901 3.95032 4.67267 0.61958 0.77255 0.68142 0.70501\n- 4 2.78741 5.28971 2.11376 1.59976 4.58684 3.26757 3.65244 4.07146 2.34707 3.56894 4.37412 2.72903 3.79889 2.41546 3.01443 2.71166 3.04289 3.66043 5.72501 4.28556 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02901 3.95032 4.67267 0.61958 0.77255 0.68142 0.70501\n- 5 2.55389 4.66677 2.45236 2.45740 3.97411 3.33600 3.67178 3.28182 2.51117 2.67818 3.84648 2.95617 3.79124 2.84727 2.95979 2.11704 2.58937 3.02838 5.28005 3.95645 11 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02901 3.95032 4.67267 0.61958 0.77255 0.68142 0.70501\n- 6 3.50956 4.79999 4.46642 4.12258 1.49608 4.27993 3.45437 3.22862 3.98066 2.58563 3.83809 3.97434 4.60135 4.00785 4.06048 3.64317 3.73610 3.14723 3.61710 1.12254 12 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02901 3.95032 4.67267 0.61958 0.77255 0.68142 0.70501\n- 7 2.50860 4.30278 3.49376 3.01693 3.57367 3.37181 3.96283 2.76962 2.92136 2.08225 3.57809 3.34712 3.90525 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02453 4.11601 4.83836 0.61958 0.77255 0.52133 0.90074\n- 295 2.45889 5.23329 1.72555 2.19898 4.61537 2.15043 3.75937 4.09725 2.68014 3.62346 4.43427 2.51495 3.85151 2.90972 3.22301 2.75251 3.08944 3.67751 5.80245 4.36260 321 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02453 4.11601 4.83836 0.61958 0.77255 0.52133 0.90074\n- 296 3.30105 5.10932 3.81853 3.28708 4.52685 3.73306 4.03052 4.09158 2.37563 3.56336 4.56309 3.62502 4.22915 3.24392 0.66276 3.37717 3.55380 3.80642 5.51418 4.40779 322 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02453 4.11601 4.83836 0.61958 0.77255 0.52133 0.90074\n- 297 2.87035 5.13971 2.98052 2.52670 4.42197 3.51863 2.25381 3.91147 1.55777 3.40645 4.23375 2.70533 3.94055 2.79311 2.49145 2.85199 3.08396 3.55774 5.48849 4.17334 323 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02453 4.11601 4.83836 0.61958 0.77255 0.52133 0.90074\n- 298 2.66269 5.04101 2.79556 1.84657 4.35131 3.18669 3.62006 3.80011 2.06327 3.33228 4.11465 2.59669 3.81293 2.74303 2.83113 2.64355 2.65050 3.20169 5.50635 4.12997 324 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05342 4.11601 3.33240 0.61958 0.77255 0.52133 0.90074\n- 299 2.75712 4.94939 3.11202 2.54786 4.24305 3.51148 3.63028 3.64573 1.73993 2.54815 4.02985 2.41988 3.89988 2.77330 2.34826 2.77480 2.97076 3.32082 5.37668 4.08793 325 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09630 4.08783 2.58978 0.61958 0.77255 0.55209 0.85742\n- 300 2.61447 4.89149 2.87693 2.38698 4.18369 3.01637 3.59961 3.43096 2.17659 3.17691 3.97672 2.27985 3.79763 2.73435 2.53636 2.62332 2.64276 3.25908 5.37915 4.03460 326 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15029 4.01860 2.10730 0.61958 0.77255 0.62059 0.77139\n- 301 2.51520 4.52968 3.16153 2.67532 4.01026 3.27338 3.73694 3.41297 2.42276 3.05318 3.91564 3.08388 3.79593 2.93209 2.14321 1.88092 2.83041 2.90034 5.28533 4.00530 327 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03057 3.89887 4.62122 0.61958 0.77255 0.71971 0.66727\n- 302 2.61449 4.51082 3.25752 2.68961 3.71963 3.47947 3.68547 3.03317 2.21534 2.63872 3.62481 3.13026 3.66517 2.91094 2.47080 2.74726 2.84657 2.16201 5.06519 3.81327 328 v - - -\n- 2.68642 4.42233 2.77544 2.73147 3.46372 2.40539 3.72499 3.29283 2.67712 2.69363 4.24718 2.90307 2.73759 3.18171 2.89816 2.37883 2.77443 2.98502 4.58505 3.61513\n- 0.41207 1.08553 * 1.68667 0.20473 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiK__AbiK.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiK__AbiK.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1802 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiK__AbiK\n-LENG 593\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 10:14:40 2022\n-NSEQ 15\n-EFFN 1.219482\n-CKSUM 2243091179\n-GA 250 250;\n-STATS LOCAL MSV -12.0518 0.69726\n-STATS LOCAL VITERBI -13.1067 0.69726\n-STATS LOCAL FORWARD -5.9783 0.69726\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74678 4.45938 2.94732 2.61765 3.01621 3.23794 3.71921 2.73653 2.50453 2.39320 3.61282 2.87893 3.68037 3.05129 3.02586 2.65637 2.88281 2.80155 4.66444 3.03665\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02031 4.30284 5.02519 0.61958 0.77255 0.00000 *\n- 1 3.37396 4.86452 4.55171 4.20030 3.48269 4.18122 4.83594 2.70619 3.94056 2.02919 0.73951 4.41791 4.66223 4.30283 4.09049 3.75774 3.69747 2.75903 5.36699 4.15935 1 m - - -\n- 2.68642 4.42180 2.77515 2.73136 3.46326 2.40528 3.72519 3.29300 2.67685 2.69332 4.24714 2.90341 2.73752 3.18171 2.89796 2.37903 2.77530 2.98514 4.58501 3.61527\n- 0.71070 1.06450 1.80911 1.18172 0.36637 0.48576 0.95510\n- 2 2.70673 5.08207 2.86263 2.02152 4.39812 3.42836 3.61789 3.84104 1.88669 2.86846 4.14255 2.50644 3.84124 2.54763 2.71499 2.68428 2.93336 3.45985 5.51140 4.15328 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12922 4.13178 2.25221 0.61958 0.77255 0.51533 0.90958\n- 3 2.66217 5.02399 2.85546 2.12049 4.32875 3.40719 3.61577 3.77231 1.95328 3.03878 4.09108 2.38477 3.81980 2.73846 2.79133 2.50205 2.69564 3.39512 5.48169 4.11528 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02417 4.13070 4.85305 0.61958 0.77255 0.59954 0.79643\n- 4 2.61271 4.69718 3.09182 2.53100 3.90884 3.46818 3.67561 3.05177 2.27008 2.58373 3.77815 2.79932 3.85601 2.69011 2.76282 2.44495 2.48990 2.83014 5.21916 3.91295 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02306 4.17679 4.89914 0.61958 0.77255 0.63960 0.74972\n- 5 3.30710 4.60225 5.04755 4.48307 2.81878 4.61682 4.94177 1.59463 4.36154 1.06034 3.00372 4.68176 4.80783 4.43446 4.44577 3.96695 3.53162 1.99070 5.22916 4.13069 17 l - - -\n- 2.68624 4.42231 2.77525 2.73129 3.46359 2.40518 3.72500 3.29337 2.67734 2.69348 4.24695 2.90323 2.73745 3.18152 2.89791 2.37883 2.77525 2.98524 4.58483 3.61509\n- 0.11643 2.27831 4.89914 1.01447 0.45035 0.63960 0.74972\n- 6 2.71524 5.04702 3.01077 2.00550 4.37027 3.47462 3.62118 3.79575 1.94554 3.31884 4.11000 2.96963 3.86513 2.74206 2.12103 2.70503 2.74099 3.05576 5.47513 4.14109 24 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02306 4.17679 4.89914 0.61958 0.77255 0.63960 0.74972\n- 7 2.63893 5.06491 2.48447 2.11254 3.69925 3.39124 3.60842 3.83553 2.16744 3.35439 4.11957 2.43626 3.802'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02031 4.30284 5.02519 0.61958 0.77255 0.48576 0.95510\n- 586 3.59477 4.88121 5.08856 4.61767 1.32575 4.70548 4.48812 2.55635 4.45759 1.09853 3.14406 4.67130 4.91384 4.47033 4.49782 4.08776 3.81768 2.71080 4.64920 3.14013 726 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02031 4.30284 5.02519 0.61958 0.77255 0.48576 0.95510\n- 587 2.79352 4.19225 4.47570 3.89135 2.62569 3.97076 4.30618 1.94750 3.74701 1.85184 3.22922 4.02869 4.31803 3.93285 3.86764 2.78644 3.02861 1.56105 4.87071 3.68219 727 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02031 4.30284 5.02519 0.61958 0.77255 0.48576 0.95510\n- 588 2.64546 5.04742 2.48489 2.21350 3.78744 3.43289 3.62735 3.38506 2.10257 3.33390 4.09997 2.57190 3.82720 2.49397 2.86561 2.62942 2.87685 3.41482 5.50589 3.29409 728 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21926 4.30284 1.69631 0.61958 0.77255 0.48576 0.95510\n- 589 2.57588 2.86770 4.05496 3.46776 2.65124 3.68259 3.98608 2.33951 3.03982 2.11585 3.15660 3.66957 4.05109 3.56272 3.51947 2.97016 2.62910 2.14726 4.65884 3.07129 729 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02472 4.10830 4.83064 0.61958 0.77255 0.70751 0.67899\n- 590 2.70531 5.11955 2.44373 2.29971 4.44036 2.25590 3.64591 3.90289 2.25185 3.42218 4.20659 2.31154 3.82087 2.77230 2.65199 2.67119 2.94926 3.50589 5.58820 4.19319 730 k - - -\n- 2.68640 4.42247 2.77469 2.73112 3.46348 2.40527 3.72487 3.29376 2.67722 2.69334 4.24712 2.90288 2.73761 3.18150 2.89809 2.37899 2.77541 2.98540 4.58499 3.61499\n- 0.64778 1.00328 2.20619 1.20634 0.35566 0.62074 0.77120\n- 591 2.90027 4.42771 3.96843 3.48886 1.52806 3.86271 3.82954 2.72150 3.37471 1.95699 3.42894 3.10586 4.24775 3.62630 3.60233 3.18383 3.14775 2.59225 4.30256 2.74111 736 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12668 4.05289 2.28662 0.61958 0.77255 0.75622 0.63382\n- 592 2.64910 4.99407 2.53129 1.94753 4.27986 3.34968 3.59564 3.25512 1.97010 3.26596 4.06548 2.84241 3.78623 2.72804 2.80935 2.63294 2.88488 3.34484 5.45704 4.08698 737 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02887 3.95509 4.67743 0.61958 0.77255 0.83110 0.57194\n- 593 3.02372 4.61113 3.76620 3.32836 2.09860 3.86127 3.53803 3.14439 3.25748 2.69048 3.74911 2.84414 4.24456 3.50128 3.52652 3.17546 3.26323 2.96021 3.93535 1.37332 738 y - - -\n- 2.68631 4.42238 2.77532 2.73136 3.46343 2.40516 3.72507 3.29345 2.67733 2.69304 4.24703 2.90359 2.73742 3.18159 2.89801 2.37892 2.77518 2.98513 4.58490 3.61482\n- 0.48812 0.95134 * 0.84307 0.56280 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLi.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLi.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1385 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiL__AbiLi\n-LENG 454\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:30:58 2022\n-NSEQ 26\n-EFFN 0.764893\n-GA 20 20;\n-CKSUM 1217424201\n-STATS LOCAL MSV -11.7011 0.69851\n-STATS LOCAL VITERBI -12.7671 0.69851\n-STATS LOCAL FORWARD -5.7092 0.69851\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71528 4.65444 2.84171 2.55122 3.10167 3.08377 3.71824 2.72795 2.60303 2.37823 3.66450 2.92155 3.72930 3.10905 2.96342 2.64951 2.89400 2.68315 4.64103 3.29601\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14746 4.05278 2.12253 0.61958 0.77255 0.00000 *\n- 1 3.01861 4.55767 4.11642 3.71470 3.23562 3.88061 4.43542 2.41747 3.47933 1.82105 1.26345 3.98446 4.34168 3.85718 3.67731 3.37416 3.32519 2.43077 5.08468 3.85186 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93480 4.65714 0.61958 0.77255 0.60061 0.79513\n- 2 3.22527 4.66908 4.28948 3.92965 3.15975 4.06119 4.56583 2.36725 3.69678 0.80214 3.16331 4.19908 4.48586 4.05021 3.86265 3.63936 3.51670 2.42075 5.06162 3.79932 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93480 4.65714 0.61958 0.77255 0.60061 0.79513\n- 3 3.01892 4.38163 4.61126 4.12117 3.51523 4.28580 4.86460 1.52408 3.99823 2.04560 3.34343 4.35646 4.63758 4.28536 4.21545 3.67200 3.29449 1.11459 5.44841 4.22912 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93480 4.65714 0.61958 0.77255 0.60061 0.79513\n- 4 2.77538 4.77393 2.74339 2.63516 4.14724 3.22598 3.97177 3.87106 2.88069 3.51088 4.46578 1.05231 3.88091 3.24466 3.23744 2.84021 3.15931 3.48697 5.44601 4.09111 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93480 4.65714 0.61958 0.77255 0.60061 0.79513\n- 5 3.33794 4.72144 4.32412 4.05051 0.91502 4.01303 3.90537 2.85400 3.95598 2.20973 3.57499 4.08954 4.47026 4.10680 4.06031 3.60464 3.63912 2.84926 4.13608 2.49533 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93480 4.65714 0.61958 0.77255 0.60061 0.79513\n- 6 3.07599 4.91077 3.57302 3.07112 4.28114 3.55204 3.86987 3.82716 2.26316 3.33177 4.33032 3.42611 4.05158 3.08709 0.88732 3.15715 3.33770 3.54842 5.33893 4.19496 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02947 3.93480 4.65714 0.61958 0.77255 0.60061 0.79513\n- 7 3.05681 4.47590 4.41334 3.91357 1.59252 4.13306 4.17861 2.28661 3.78431 1.71987 3.12407 4.08570 4.4619'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06439 4.05278 3.10131 0.61958 0.77255 0.48576 0.95510\n- 447 2.66110 4.53918 3.13371 2.68629 2.12495 3.49451 3.71689 3.09562 2.43899 2.75656 3.65473 2.59541 3.91512 2.87376 2.98688 2.79117 2.90031 2.84834 4.92361 3.55028 478 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05696 4.01554 3.28794 0.61958 0.77255 0.52496 0.89546\n- 448 2.54649 4.73354 2.67006 2.41650 4.20125 3.25560 3.70654 3.63276 2.54689 3.22809 4.04014 2.35280 3.42276 2.86664 3.01096 2.18031 2.22626 3.24997 5.45247 4.10952 479 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08168 3.98655 2.81554 0.61958 0.77255 0.55350 0.85552\n- 449 2.55624 4.57377 2.91166 2.30819 3.77384 3.41762 3.65066 2.87748 2.50889 2.63054 3.66692 2.84620 3.81436 2.85002 2.94183 2.44165 2.79064 2.59929 5.11843 3.82304 480 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93436 4.65670 0.61958 0.77255 0.60099 0.79466\n- 450 2.55684 4.32345 3.34709 2.45567 2.93584 3.51028 3.74350 2.69406 2.74403 2.31999 3.41604 3.21350 3.89249 3.06080 3.11183 2.47129 2.78912 2.58339 4.85132 3.28989 481 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93436 4.65670 0.61958 0.77255 0.60099 0.79466\n- 451 2.36609 4.43179 2.78258 2.65388 3.38565 3.44334 3.72044 2.70174 2.63822 2.67337 3.55594 3.11221 3.84871 2.96381 3.04683 2.37916 2.78522 2.44532 5.03073 3.75938 482 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93436 4.65670 0.61958 0.77255 0.60099 0.79466\n- 452 2.67352 5.00561 2.74436 2.09178 4.31895 3.36032 3.59097 3.75482 2.13050 3.28887 4.09019 2.56543 3.79764 2.72343 2.51320 2.21089 2.90712 3.38684 5.46035 4.10805 483 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93436 4.65670 0.61958 0.77255 0.60099 0.79466\n- 453 2.74424 5.21515 1.94079 1.78196 4.50276 3.26474 3.64010 3.98007 2.43601 3.20103 4.30041 2.46522 3.78397 2.77999 3.02778 2.68087 2.99907 3.57924 5.66813 4.23465 484 e - - -\n- 2.68629 4.42236 2.77530 2.73092 3.46347 2.40495 3.72505 3.29365 2.67744 2.69366 4.24614 2.90358 2.73750 3.18157 2.89812 2.37898 2.77523 2.98529 4.58488 3.61402\n- 0.45285 1.39654 2.14786 1.06900 0.42061 0.51978 0.90301\n- 454 2.67534 4.92496 2.93501 2.09433 4.21472 3.41577 3.56329 3.63306 1.98483 3.17870 3.99425 2.92239 3.81427 2.59956 2.31273 2.67899 2.89310 3.29350 5.35142 3.42221 491 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02110 3.86912 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLi2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLi2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1388 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiL__AbiLi2\n-LENG 455\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 30 13:33:49 2022\n-NSEQ 100\n-EFFN 0.942993\n-CKSUM 3652575228\n-GA 20 20;\n-STATS LOCAL MSV -11.5527 0.69852\n-STATS LOCAL VITERBI -12.8265 0.69852\n-STATS LOCAL FORWARD -5.5247 0.69852\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67891 4.58117 2.89483 2.54629 3.11861 3.11032 3.70689 2.73774 2.57187 2.38869 3.61575 2.96252 3.71119 3.08134 2.95152 2.66104 2.88330 2.68906 4.60254 3.31775\n- 2.68618 4.42226 2.77519 2.73124 3.46355 2.40512 3.72491 3.29353 2.67738 2.69356 4.24679 2.90347 2.73741 3.18147 2.89802 2.37887 2.77519 2.98519 4.58478 3.61504\n- 0.08162 3.69910 2.92561 0.85207 0.55605 0.00000 *\n- 1 3.17431 4.68877 4.31521 3.93334 3.33596 4.01764 4.61337 2.53653 3.68653 1.90011 0.98421 4.17934 4.48519 4.05580 3.86244 3.54530 3.48730 2.56913 5.20473 3.98466 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02465 4.11118 4.83353 0.61958 0.77255 0.54021 0.87378\n- 2 3.40863 4.76232 4.82921 4.32387 2.94054 4.57662 4.80929 2.19668 4.13498 0.74457 2.96011 4.57783 4.79718 4.30284 4.27067 3.96067 3.64665 2.36795 5.10109 3.86345 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02465 4.11118 4.83353 0.61958 0.77255 0.54021 0.87378\n- 3 2.70951 4.26464 4.25533 3.69932 3.43504 3.98752 4.36586 1.41306 3.41628 2.20666 3.34719 3.95278 4.34631 3.84346 3.61875 3.30226 3.06888 1.58418 5.08678 3.88595 10 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02465 4.11118 4.83353 0.61958 0.77255 0.54021 0.87378\n- 4 2.90653 5.10293 3.10320 2.62626 4.49840 3.54327 3.67916 3.92115 2.09561 3.41824 4.26053 2.10705 3.97436 2.82115 1.50522 2.90498 3.12589 3.57189 5.50905 4.24613 11 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02465 4.11118 4.83353 0.61958 0.77255 0.54021 0.87378\n- 5 3.35936 4.76661 4.54478 4.21768 0.91243 4.20806 3.97564 2.78006 4.08546 2.14093 3.51288 4.19925 4.62358 4.19932 4.18480 3.65473 3.65547 2.67709 4.18759 2.53496 12 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02465 4.11118 4.83353 0.61958 0.77255 0.54021 0.87378\n- 6 2.80223 5.05958 2.96530 2.51085 4.43779 3.47345 3.66302 3.86056 2.15399 3.37704 4.19640 1.88448 3.90920 2.79968 1.93284 2.65082 3.03281 3.49818 5.51060 4.20824 13 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02465 4.11118 4.83353 0.61958 0.77255 0.54021 0.87378\n- 7 3.02526 4.37660 4.67838 4.12919 2.39400 4.28008 4.62821 1.84942 4.01206 1.93283 3.21714 4.31652 4.58'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02350 4.15832 4.88066 0.61958 0.77255 0.48576 0.95510\n- 448 2.72682 4.15187 4.29798 3.71690 2.63811 3.88260 4.20547 1.95532 3.58724 1.80877 3.19188 3.50333 4.23330 3.79355 3.74340 3.18357 2.88525 1.73200 4.81769 3.62318 521 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06586 4.15832 3.03444 0.61958 0.77255 0.48576 0.95510\n- 449 2.66528 4.47803 3.06853 2.76180 1.84932 3.52851 3.77886 3.01052 2.71095 2.69688 3.59699 2.75426 3.95091 3.05492 3.16200 2.82747 2.85918 2.77301 4.89657 3.48971 522 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 4.11696 4.03636 0.61958 0.77255 0.53382 0.88276\n- 450 2.57999 4.74142 2.83620 2.47999 4.12659 3.34195 3.71200 3.41385 2.53276 3.15382 3.97129 2.63894 2.16138 2.87392 2.95742 2.40458 2.58807 3.19317 5.39315 4.06337 523 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06813 4.10717 3.00760 0.61958 0.77255 0.54460 0.86768\n- 451 2.57338 3.94508 3.47827 2.80829 3.35092 3.58819 3.86288 2.12649 2.95857 2.34296 3.28560 3.21440 3.96736 3.24831 3.27508 2.69479 2.78705 2.08218 4.82309 3.60193 524 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04183 4.06487 3.73812 0.61958 0.77255 0.58870 0.80978\n- 452 2.55728 4.72846 3.01082 2.17367 3.64053 3.16476 3.62477 3.21326 2.18853 2.86288 3.63809 2.96427 3.80879 2.78640 2.72840 2.53122 2.76850 3.02343 5.23924 3.78069 525 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02624 4.04928 4.77163 0.61958 0.77255 0.60403 0.79099\n- 453 2.51596 4.86100 2.79459 1.96813 3.96115 3.18914 3.59504 3.40959 2.28154 3.01943 3.92704 2.90403 3.78621 2.72991 2.76704 2.50015 2.81593 3.02503 5.34828 3.99528 526 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03777 4.04928 3.93069 0.61958 0.77255 0.60403 0.79099\n- 454 2.52739 5.00739 2.65503 1.98620 4.30375 3.26608 3.58820 3.75814 2.27274 3.29204 4.06887 2.57496 3.77771 2.66666 2.77416 2.41622 2.85225 3.05580 5.47107 4.08657 527 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20441 4.03805 1.78831 0.61958 0.77255 0.58907 0.80932\n- 455 2.59289 4.94956 2.38988 2.05301 4.22930 3.32651 3.56358 3.67663 2.26708 3.14358 3.88855 2.59420 3.75042 2.67920 2.82236 2.57929 2.82839 3.23181 5.41656 3.83428 528 e - - -\n- 2.68627 4.42216 2.77520 2.73102 3.46356 2.40505 3.72503 3.29363 2.67737 2.69358 4.24663 2.90347 2.73748 3.18152 2.89801 2.37894 2.77525 2.98527 4.58486 3.61459\n- 0.25228 1.50069 * 1.01918 0.44768 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLii.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLii.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,914 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiL__AbiLii\n-LENG 297\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:30:54 2022\n-NSEQ 18\n-EFFN 0.795410\n-GA 20 20;\n-CKSUM 1138027990\n-STATS LOCAL MSV -11.0605 0.70140\n-STATS LOCAL VITERBI -12.0034 0.70140\n-STATS LOCAL FORWARD -5.6016 0.70140\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74896 4.37150 2.86765 2.50379 3.10970 3.16511 3.80235 2.74039 2.52283 2.43742 3.66495 2.87276 3.69861 3.07404 2.87218 2.67762 2.87465 2.69191 4.92309 3.39455\n- 2.68632 4.42239 2.77503 2.73137 3.46368 2.40521 3.72508 3.29355 2.67741 2.69348 4.24446 2.90361 2.73753 3.18160 2.89780 2.37890 2.77533 2.98523 4.58445 3.61464\n- 0.49614 1.53807 1.73540 1.26661 0.33099 0.00000 *\n- 1 2.91098 4.37662 4.28533 3.76408 3.26980 4.02815 4.48740 2.03701 3.61316 1.81820 2.15626 4.03518 4.39605 3.89615 3.83641 3.38101 3.17939 1.50990 5.13660 3.95345 25 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03092 3.88769 4.61004 0.61958 0.77255 0.65743 0.73019\n- 2 2.25125 4.18823 3.23762 2.97803 4.17771 1.78551 4.09681 3.51845 3.04309 3.26063 4.12840 3.20993 3.67528 3.36549 3.36067 2.42187 1.77570 3.05224 5.52059 4.29782 26 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03092 3.88769 4.61004 0.61958 0.77255 0.65743 0.73019\n- 3 2.68350 4.45763 3.36041 3.26164 4.40405 0.70601 4.38116 4.00721 3.44500 3.65947 4.63519 3.52466 3.84926 3.76792 3.67954 2.85581 3.16591 3.53258 5.49536 4.50640 27 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03092 3.88769 4.61004 0.61958 0.77255 0.65743 0.73019\n- 4 3.26879 4.75162 3.86056 3.59264 2.29336 3.84775 3.62522 3.27585 3.44972 2.72589 3.94926 3.74199 4.32116 3.75212 3.63038 3.40403 3.55549 3.14710 3.93776 0.94086 28 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03092 3.88769 4.61004 0.61958 0.77255 0.65743 0.73019\n- 5 2.83276 4.99729 2.86385 2.51189 4.37876 3.40384 3.64180 3.81957 1.37952 3.35515 4.22089 2.58149 3.88687 2.80115 2.42499 2.83545 3.07623 3.47540 5.44659 4.16451 29 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03092 3.88769 4.61004 0.61958 0.77255 0.65743 0.73019\n- 6 1.48921 4.11550 3.34313 3.07047 4.16789 2.90415 4.14378 3.50137 3.11846 3.26163 4.12345 3.23935 3.64640 3.42380 3.42324 1.63550 2.66487 3.01467 5.53778 4.30987 30 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03092 3.88769 4.61004 0.61958 0.77255 0.65743 0.73019\n- 7 2.56272 4.28866 3.65493 3.21001 3.60404 3.44677 4.13878 2.13757 3.08585 2.42301 3.53862 3.50209 3.9972'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03982 4.76217 0.61958 0.77255 0.52011 0.90253\n- 290 3.19508 4.49876 4.87451 4.33874 3.34560 4.53891 4.96518 1.29936 4.21377 1.42597 3.14290 4.57590 4.77551 4.40338 4.37393 3.90267 3.43720 1.66967 5.36934 4.23267 357 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03982 4.76217 0.61958 0.77255 0.52011 0.90253\n- 291 2.74868 5.21607 2.12880 2.25190 4.53499 3.33859 3.63677 4.00904 1.98175 3.50243 4.28929 2.64395 3.81780 2.11039 2.87160 2.69370 2.99121 3.59954 5.64588 4.23845 358 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03982 4.76217 0.61958 0.77255 0.52011 0.90253\n- 292 3.10550 5.24175 2.57073 0.80883 4.61039 3.38866 3.99400 4.09804 2.89634 3.68960 4.65949 3.04037 4.00216 3.20822 3.32018 3.07275 3.41207 3.76580 5.75038 4.47657 359 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03982 4.76217 0.61958 0.77255 0.52011 0.90253\n- 293 3.14496 4.52441 4.63434 4.09298 3.19876 4.34637 4.71107 1.64303 3.92637 1.64455 1.66076 4.35112 4.61835 4.14278 4.09542 3.69711 3.38611 2.09038 5.17736 4.04453 360 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03982 4.76217 0.61958 0.77255 0.52011 0.90253\n- 294 2.67285 4.43022 3.49040 2.89493 3.55859 3.60551 3.79294 2.29496 2.35052 2.07803 3.49071 3.30055 3.97739 3.07318 2.43713 2.87095 2.89598 2.63211 4.98499 3.75585 361 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02650 4.03982 4.76217 0.61958 0.77255 0.52011 0.90253\n- 295 2.69200 5.16205 2.33592 2.09670 4.48783 3.35095 3.60319 3.95931 2.00008 3.44983 4.22111 2.38165 3.79757 2.71983 2.52965 2.64581 2.92847 3.54507 5.59095 4.18943 362 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18403 4.03982 1.89389 0.61958 0.77255 0.52011 0.90253\n- 296 2.46360 4.53840 2.72790 2.52480 4.21679 3.08236 3.84763 3.73706 2.72874 3.36624 4.21233 1.92212 3.72939 3.05914 3.12874 1.81421 2.85436 3.28938 5.51651 4.16645 363 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03095 3.88674 4.60909 0.61958 0.77255 0.65817 0.72939\n- 297 2.67418 4.98893 2.70620 2.11034 4.29723 3.34481 3.58802 3.72887 1.99503 3.26993 4.07869 2.84661 2.94829 2.56638 2.70474 2.51714 2.90925 3.36771 5.44785 4.09896 364 k - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18149 2.89803 2.37878 2.77522 2.98521 4.58479 3.61453\n- 0.22829 1.58910 * 0.28651 1.38981 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLii2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiL__AbiLii2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,929 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiL__AbiLii2\n-LENG 302\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 30 13:33:45 2022\n-NSEQ 100\n-EFFN 1.986694\n-CKSUM 1213442737\n-GA 20 20;\n-STATS LOCAL MSV -11.3315 0.70123\n-STATS LOCAL VITERBI -11.9734 0.70123\n-STATS LOCAL FORWARD -5.2860 0.70123\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74591 4.29272 2.87452 2.44607 3.24132 3.21694 3.71432 2.75502 2.48881 2.44717 3.69560 2.89119 3.64398 3.00653 2.88603 2.65312 2.87056 2.77478 4.92346 3.38544\n- 2.68642 4.42268 2.77547 2.73153 3.46362 2.40493 3.72537 3.29362 2.67748 2.69366 4.24082 2.90357 2.73780 3.18185 2.89810 2.37869 2.77511 2.98515 4.58504 3.61446\n- 0.46290 1.08796 3.39194 1.47718 0.25914 0.00000 *\n- 1 3.32281 4.66875 4.99188 4.42991 2.13541 4.47647 4.52015 2.67092 4.26644 1.68509 1.18990 4.50514 4.74490 4.33839 4.31955 3.80012 3.54351 2.72644 4.82289 2.96399 44 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02836 4.58008 4.03355 0.61958 0.77255 0.53758 0.87745\n- 2 3.99250 5.67209 4.56677 3.99139 5.22053 4.27076 4.59210 4.86603 2.85910 4.25211 5.27439 4.27643 4.77724 3.81539 0.30070 4.07138 4.23499 4.56737 6.03943 5.04956 45 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01555 4.56727 5.28962 0.61958 0.77255 0.54292 0.87001\n- 3 2.74114 4.43446 3.65798 1.98515 3.56208 3.73317 3.98996 2.45723 3.00491 1.85395 3.21448 3.48519 4.10985 3.33541 3.15134 2.98218 2.84883 2.35740 5.02643 3.79798 46 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01546 4.57296 5.29530 0.61958 0.77255 0.55000 0.86027\n- 4 2.48968 5.16656 2.93878 2.36576 4.48544 3.27939 3.69654 3.95220 1.89920 3.30821 4.21504 2.78518 3.89999 2.68200 2.74368 1.97451 2.83726 3.21580 5.61516 4.22216 47 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01546 4.57296 5.29530 0.61958 0.77255 0.55000 0.86027\n- 5 2.76592 5.23201 3.02536 2.46650 4.57628 3.39958 3.49431 4.04481 1.89379 3.52677 4.27777 2.46825 3.75802 2.59373 2.05181 2.33687 2.79899 3.62331 5.65619 4.26974 48 k - - -\n- 2.68619 4.42240 2.77530 2.73126 3.46369 2.40521 3.72500 3.29359 2.67714 2.69363 4.24689 2.90320 2.73755 3.18116 2.89793 2.37884 2.77526 2.98518 4.58492 3.61518\n- 0.35107 1.23426 5.29530 0.69158 0.69472 0.55000 0.86027\n- 6 2.69251 5.17475 2.90586 2.18571 4.49480 3.42431 3.69831 3.83740 2.28750 3.46886 4.11447 2.70430 2.09866 2.73938 2.76272 2.62721 2.47626 3.55208 5.62234 4.22776 52 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01546 4.57296 5.29530 0.61958 0.77255 0.55000 0.86027\n- 7 2.56071 4.43952 3.46181 3.04044 1.84055 3.70398 3.77184 2.93713 2.99322 2.47281 3.40881 2.66769 4.08'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61310 5.33544 0.61958 0.77255 0.49919 0.93401\n- 295 3.49393 4.76643 5.38578 4.82257 3.42007 4.85002 5.24169 1.47278 4.69035 0.93264 3.19062 4.96987 5.05286 4.76014 4.74370 4.20950 3.37815 2.00820 5.52291 4.44597 425 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61310 5.33544 0.61958 0.77255 0.49919 0.93401\n- 296 3.63487 4.86917 5.57455 5.02538 3.38328 5.06452 5.47687 0.88755 4.90955 1.40129 2.99135 5.19428 5.21053 4.94171 4.95080 4.44647 3.86302 2.08614 5.65951 4.60567 426 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61310 5.33544 0.61958 0.77255 0.49919 0.93401\n- 297 2.69651 5.23488 2.68857 1.91653 4.14597 3.39553 3.32159 3.77226 1.87311 3.53819 4.27676 2.78448 3.90257 2.57756 2.62391 2.64596 2.78896 3.62335 5.66976 4.26162 427 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61310 5.33544 0.61958 0.77255 0.49919 0.93401\n- 298 2.65883 5.21961 2.74756 1.65234 4.02634 3.51108 3.70021 4.03221 2.23837 3.52014 3.70610 2.87223 3.08360 2.53727 2.78528 2.54645 2.96613 3.60443 5.65865 4.25427 428 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61310 5.33544 0.61958 0.77255 0.49919 0.93401\n- 299 2.84192 3.90825 4.38022 4.05716 3.26025 4.00918 4.33591 2.06140 3.87754 1.41852 2.04834 4.12094 4.35880 4.02640 3.93673 3.31764 3.07321 2.26452 4.85083 3.15616 429 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01485 4.61310 5.33544 0.61958 0.77255 0.49919 0.93401\n- 300 2.74037 4.44430 3.64599 3.07559 3.36523 3.72559 3.97785 2.28877 2.52393 2.08162 3.23831 3.47283 4.10365 3.14866 2.08862 2.97326 2.82942 2.64699 5.02693 3.62452 430 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13765 4.61310 2.13137 0.61958 0.77255 0.49919 0.93401\n- 301 2.61992 4.63217 2.51128 2.18645 4.31453 3.05701 3.65824 3.80483 2.17354 3.33546 4.21998 2.51310 3.86326 2.56037 2.52706 2.56868 2.67697 3.56110 5.61564 4.21149 431 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18648 4.48211 1.84002 0.61958 0.77255 0.64054 0.74868\n- 302 2.52849 5.04672 2.77026 2.18199 4.05379 3.43135 3.47778 3.36455 2.19881 3.33410 4.09857 2.48721 3.82402 2.65135 2.66887 2.44034 2.73681 3.14851 5.50479 4.12041 432 e - - -\n- 2.68624 4.42252 2.77520 2.73099 3.46365 2.40525 3.72468 3.29349 2.67713 2.69373 4.24696 2.90360 2.73754 3.18122 2.89815 2.37882 2.77514 2.98533 4.58466 3.61478\n- 0.59933 0.79669 * 1.05150 0.42988 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiN__AbiN.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiN__AbiN.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,572 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiN__AbiN\n-LENG 183\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 16:00:35 2022\n-NSEQ 100\n-EFFN 1.712036\n-GA 20 20;\n-CKSUM 2439436551\n-STATS LOCAL MSV -10.4111 0.70647\n-STATS LOCAL VITERBI -11.2771 0.70647\n-STATS LOCAL FORWARD -5.2158 0.70647\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66843 4.63955 2.91838 2.65423 3.25086 3.19376 3.83554 2.66720 2.53787 2.38416 3.41285 3.04286 3.73718 2.95313 3.07591 2.63158 2.79900 2.65971 4.51908 3.26720\n- 2.68618 4.42225 2.77520 2.73124 3.46354 2.40510 3.72495 3.29354 2.67741 2.69355 4.24668 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.40201 3.74612 1.17955 0.63237 0.75786 0.00000 *\n- 1 3.06376 4.59422 4.25275 3.77672 3.27502 4.05612 4.47430 2.41790 3.44810 1.79637 1.21991 4.05124 4.45528 3.87791 3.69633 3.44225 3.30218 2.42531 5.14275 3.92013 3 m - - -\n- 2.68645 4.42236 2.77483 2.73118 3.46319 2.40539 3.72507 3.29269 2.67709 2.69330 4.24646 2.90355 2.73772 3.18178 2.89826 2.37904 2.77516 2.98536 4.58372 3.61503\n- 0.60033 0.81248 4.87825 1.34223 0.30281 0.65421 0.73367\n- 2 2.62447 4.29220 3.43461 3.02397 2.99182 3.62672 3.88946 2.42585 2.77330 2.49978 2.47351 3.20097 3.67811 3.25967 3.29789 2.55079 2.56193 2.42396 4.88163 3.65704 22 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02057 4.28992 5.01227 0.61958 0.77255 0.62780 0.76307\n- 3 2.66683 4.06679 4.45640 3.85506 2.33311 3.81531 4.11658 2.09528 3.67590 1.86896 2.73843 3.44295 4.17796 3.83426 3.74215 3.11976 2.89863 2.25629 3.62509 2.90582 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01915 4.36105 5.08339 0.61958 0.77255 0.64722 0.74129\n- 4 2.66103 4.82224 2.72766 2.45324 3.24957 3.33886 3.70805 3.45993 2.33748 2.73127 3.12960 2.44548 3.89061 2.70237 2.97838 2.64457 2.89238 2.87670 5.33263 3.80094 24 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01870 4.38422 5.10656 0.61958 0.77255 0.67388 0.71279\n- 5 2.59173 4.98825 2.61340 2.37031 4.26368 3.46858 3.66551 3.20766 2.23258 2.97523 4.04810 2.63971 3.86064 2.59606 2.91234 2.51730 2.63298 3.34091 5.46485 2.97576 25 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01870 4.38422 5.10656 0.61958 0.77255 0.67388 0.71279\n- 6 3.00279 4.35019 4.82737 4.24153 2.84485 4.22934 4.55585 1.51348 4.08085 1.56755 3.18497 4.33314 4.53508 4.21016 4.14523 3.55221 3.23384 1.72314 4.99846 3.29639 26 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01870 4.38422 5.10656 0.61958 0.77255 0.66833 0.71860\n- 7 2.55660 4.10853 4.26426 3.67251 2.86611 3.47046 4.11113 1.84575 3.53143 1.82189 3.10206 3.39887 4.16217'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.49989 5.22223 0.61958 0.77255 0.50093 0.93132\n- 176 2.74055 5.19930 2.96303 1.75851 4.53154 3.36289 3.68722 3.99999 2.12271 3.02386 4.24726 2.21187 3.89872 2.69082 2.68755 2.70915 2.87099 3.58386 5.63288 4.24179 246 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.49989 5.22223 0.61958 0.77255 0.50093 0.93132\n- 177 2.75886 5.25707 2.79526 1.98687 4.59812 3.48964 3.36328 4.07853 1.64029 3.55540 4.30346 2.72224 3.90198 2.37183 2.90645 2.62412 2.89504 3.64652 5.68456 4.27860 247 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03930 4.49989 3.59623 0.61958 0.77255 0.50093 0.93132\n- 178 2.66020 5.24641 2.93542 1.48674 4.59021 3.52086 3.72228 4.04987 1.94556 3.53964 4.30833 2.99904 3.93873 2.83422 2.64838 2.42103 3.03840 3.64059 5.67438 4.29635 248 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01702 4.47761 5.19996 0.61958 0.77255 0.53737 0.87776\n- 179 3.07931 4.43504 4.82521 4.24695 3.37471 4.31066 4.66120 1.40553 4.09607 1.30980 3.26630 4.38595 4.61505 4.25680 4.19759 3.63426 2.97213 2.04302 5.14127 3.56916 249 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08002 4.47761 2.72511 0.61958 0.77255 0.53737 0.87776\n- 180 2.68710 5.15801 2.75594 2.30821 4.48933 2.47159 3.16616 3.96298 1.92393 3.27975 4.20365 2.93193 3.59811 2.64732 2.60845 2.51571 2.91784 3.54153 5.59666 4.19793 250 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08803 4.41571 2.62859 0.61958 0.77255 0.62842 0.76235\n- 181 2.65496 5.02180 2.86570 2.10855 4.31214 3.27522 3.64521 3.41633 2.09161 3.30307 4.07757 2.84917 3.84377 2.35996 2.88405 2.42183 2.88608 2.87399 4.56878 4.11385 251 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19637 4.34710 1.79973 0.61958 0.77255 0.71495 0.67181\n- 182 2.16844 4.94442 2.73343 2.21573 4.21923 3.41823 3.62329 3.65508 2.29038 2.64627 4.00829 2.73122 3.81864 2.75268 2.58005 2.63422 2.86381 3.29714 5.42029 4.06027 252 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07028 4.17387 2.94740 0.61958 0.77255 0.88524 0.53207\n- 183 2.59497 4.74361 2.71122 2.38439 3.29864 2.97446 3.64431 3.01765 2.11795 2.99631 3.82024 2.97831 3.82490 2.80705 2.91531 2.56498 2.82689 2.90694 5.25718 3.93375 253 k - - -\n- 2.68636 4.42256 2.77551 2.73118 3.46309 2.40539 3.72443 3.29350 2.67736 2.69364 4.24721 2.90312 2.73771 3.18178 2.89722 2.37906 2.77530 2.98514 4.58508 3.61384\n- 0.52225 0.89940 * 1.43670 0.27143 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiO__AbiO.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiO__AbiO.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1496 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiO__AbiO\n-LENG 491\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 30 15:21:56 2022\n-NSEQ 100\n-EFFN 1.187134\n-CKSUM 2583750271\n-GA 50 50;\n-STATS LOCAL MSV -11.8808 0.69811\n-STATS LOCAL VITERBI -12.6834 0.69811\n-STATS LOCAL FORWARD -6.2800 0.69811\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71690 4.50693 2.95303 2.59886 3.12068 3.14136 3.68793 2.67459 2.56821 2.39229 3.67410 2.90993 3.71110 2.93760 2.99748 2.67507 2.85339 2.70060 4.92501 3.25035\n- 2.68625 4.42232 2.77524 2.73127 3.46361 2.40513 3.72491 3.29347 2.67742 2.69351 4.24569 2.90351 2.73744 3.18147 2.89796 2.37890 2.77521 2.98522 4.58484 3.61497\n- 0.41273 2.24057 1.46205 1.05894 0.42591 0.00000 *\n- 1 2.63876 4.23173 3.75337 3.18893 3.30283 3.66662 3.96334 2.45022 2.97956 2.25016 1.90678 3.51930 4.04772 3.37320 3.32854 2.88899 2.78084 2.26651 4.84670 3.48534 13 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02681 4.02805 4.75040 0.61958 0.77255 0.75146 0.63805\n- 2 2.71582 4.97664 2.97447 2.46887 4.29691 3.31011 3.60047 3.59440 1.56432 3.24602 4.05663 2.78911 3.85573 2.73285 2.37696 2.71769 2.86992 3.36162 5.40826 3.99370 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02681 4.02805 4.75040 0.61958 0.77255 0.75146 0.63805\n- 3 2.52102 4.72473 2.84742 2.44225 3.83851 3.41185 3.43123 3.28213 2.39775 2.97769 3.58543 2.91846 3.25703 2.78039 2.72151 2.27565 2.73417 3.04991 5.23635 3.46854 15 s - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29349 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.05767 3.49551 3.66089 0.56650 0.83819 0.43030 1.05073\n- 4 3.00867 3.84015 4.77294 4.20464 3.35639 4.27979 4.66796 1.47161 4.07163 1.92922 2.01139 4.35590 4.57882 4.24121 4.18787 3.61128 3.24629 1.71894 5.15120 3.99792 17 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21574 4.93808 0.61958 0.77255 0.57152 0.83165\n- 5 3.02616 5.55841 1.62291 2.22556 4.87551 3.32651 3.87952 4.42265 2.83773 3.92342 4.77107 1.34603 3.94985 3.04740 3.47192 2.92238 3.32327 3.98522 6.06314 4.55882 18 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21574 4.93808 0.61958 0.77255 0.57152 0.83165\n- 6 3.33742 4.63533 5.07291 4.50924 2.04472 4.60395 4.81654 1.63120 4.37023 1.15593 2.98375 4.66698 4.79589 4.41390 4.42528 3.95138 3.55757 2.30708 5.06668 3.86663 19 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21574 4.93808 0.61958 0.77255 0.57152 0.83165\n- 7 2.53420 4.34198 3.46146 2.61217 3.48111 3.57980 3.82963 2.57080 2.70063 1.97318 3.21540 3.22735 3.9594'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27106 4.99341 0.61958 0.77255 0.50200 0.92968\n- 484 2.98294 1.72230 4.72612 4.18153 3.49060 4.20258 4.70414 1.54924 4.03570 2.07520 3.38351 4.32472 4.57027 4.25732 4.18311 3.55569 3.24781 1.83509 5.25299 4.05865 603 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27106 4.99341 0.61958 0.77255 0.50200 0.92968\n- 485 2.55273 2.91655 4.19848 3.61203 3.21206 3.77353 4.10040 2.20791 3.48058 1.74691 2.87232 3.79101 4.14372 3.69115 3.63950 2.49121 2.88937 2.21282 4.74722 3.55957 604 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27106 4.99341 0.61958 0.77255 0.50200 0.92968\n- 486 2.54886 5.04402 2.90656 2.25532 4.35923 3.04448 3.63828 3.81260 1.99916 3.34207 4.11415 2.71524 3.83373 2.75489 2.80044 2.04578 2.75807 3.35199 5.51476 4.13671 605 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27106 4.99341 0.61958 0.77255 0.50200 0.92968\n- 487 3.16812 4.46975 4.95922 4.41540 3.52784 4.52096 4.97347 1.32923 4.29865 1.52216 3.34579 4.59552 4.79397 4.48972 4.43943 3.87496 3.07735 1.50556 5.42872 4.27354 606 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27106 4.99341 0.61958 0.77255 0.50200 0.92968\n- 488 3.50404 4.78571 5.20954 4.63634 2.88047 4.80994 5.09239 2.03516 4.51436 0.74181 2.81239 4.86774 4.93722 4.52715 4.57493 4.16529 3.71721 2.27389 5.28704 4.24632 607 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27106 4.99341 0.61958 0.77255 0.50200 0.92968\n- 489 2.64107 5.16659 2.43927 2.12144 4.50074 2.89419 3.62208 3.98231 2.19087 3.46613 4.21325 2.42796 3.82068 2.57418 2.57996 2.59878 2.77577 3.55197 5.60247 4.19216 608 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20652 4.27106 1.75666 0.61958 0.77255 0.50200 0.92968\n- 490 2.55117 4.64369 3.03374 2.51986 3.27866 3.29799 3.66144 3.15551 2.33327 2.79175 3.72620 2.87060 3.56921 2.84701 2.77538 2.41531 2.51516 2.95595 5.17286 3.67367 609 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08070 4.08974 2.80034 0.61958 0.77255 0.70245 0.68393\n- 491 2.55787 4.40776 3.25685 2.69478 3.16060 3.39613 3.72283 2.74704 2.58693 2.57092 3.50524 2.89641 3.55783 2.80261 2.99649 2.55721 2.74397 2.39864 4.97218 3.71322 610 v - - -\n- 2.68623 4.42235 2.77525 2.73114 3.46364 2.40523 3.72504 3.29364 2.67712 2.69358 4.24685 2.90353 2.73739 3.18134 2.89807 2.37885 2.77507 2.98522 4.58487 3.61513\n- 0.21866 1.62759 * 1.10226 0.40365 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiP2__AbiP2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiP2__AbiP2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1514 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiP2__AbiP2\n-LENG 497\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 10:09:43 2022\n-NSEQ 30\n-EFFN 1.343994\n-CKSUM 1017810880\n-GA 300 300;\n-STATS LOCAL MSV -11.8095 0.69806\n-STATS LOCAL VITERBI -12.5119 0.69806\n-STATS LOCAL FORWARD -6.0437 0.69806\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62991 4.41150 2.92568 2.63460 3.36237 3.21072 3.71168 2.65877 2.55774 2.39818 3.64911 2.97317 3.53287 2.99990 2.99029 2.63032 2.86202 2.70608 4.22299 3.33865\n- 2.68639 4.42238 2.77528 2.73075 3.46323 2.40553 3.72500 3.29351 2.67727 2.69386 4.24178 2.90350 2.73758 3.18154 2.89814 2.37883 2.77525 2.98547 4.58484 3.61515\n- 0.58310 1.07707 2.29022 1.73588 0.19388 0.00000 *\n- 1 2.46574 4.54585 3.25230 2.69132 3.50421 3.52933 3.76008 3.10205 2.54932 2.77822 2.37557 2.90208 3.91683 2.99297 2.71841 2.54004 2.50979 2.84375 5.10173 3.82980 26 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26180 4.98415 0.61958 0.77255 0.61816 0.77422\n- 2 2.91964 5.23408 3.20214 2.41425 4.63188 3.61461 3.66639 4.03023 1.30890 3.48767 4.29524 3.09947 3.99313 2.54452 2.15996 2.89405 2.80528 3.66024 5.57329 4.30079 27 k - - -\n- 2.68620 4.42234 2.77507 2.73132 3.46363 2.40497 3.72504 3.29351 2.67743 2.69364 4.24668 2.90346 2.73719 3.18155 2.89810 2.37891 2.77522 2.98518 4.58486 3.61512\n- 0.09731 2.45479 4.98415 1.40366 0.28196 0.61816 0.77422\n- 3 2.65148 4.93897 2.99562 2.44064 4.21869 3.45296 3.64659 3.64916 2.14779 2.82639 4.00974 2.62919 3.60621 2.77776 2.53018 2.24586 2.43998 3.29641 5.42052 4.07115 38 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26180 4.98415 0.61958 0.77255 0.61816 0.77422\n- 4 3.28266 4.55810 5.10728 4.56443 3.05139 4.66354 5.07606 1.06439 4.45384 1.66007 3.23963 4.74491 4.88735 4.58811 4.56559 4.02664 3.52017 1.69249 5.41914 4.27306 39 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26180 4.98415 0.61958 0.77255 0.61816 0.77422\n- 5 2.74181 4.18263 4.27693 3.69175 2.89293 3.86414 3.58752 2.18801 3.55554 1.38627 3.15696 3.86766 4.21348 3.75042 3.70481 3.15938 2.97208 2.13828 4.71201 3.22288 40 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26180 4.98415 0.61958 0.77255 0.61816 0.77422\n- 6 2.85394 5.39759 1.67122 1.71086 4.70931 3.38015 3.74234 4.20730 2.32876 3.68791 4.46953 2.83768 3.89231 2.70706 3.12606 2.60475 2.96251 3.77432 5.83228 4.38057 41 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26180 4.98415 0.61958 0.77255 0.57553 0.82647\n- 7 3.56651 4.85252 5.22232 4.64819 3.15032 4.85457 5.13132 2.18476 4.49128 0.79644 1.94165 4.90225 4.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33365 5.05600 0.61958 0.77255 0.52609 0.89382\n- 490 2.65118 4.48519 2.98735 2.79835 3.64212 3.57821 3.82358 2.58334 2.77230 1.80748 3.58414 2.78901 3.96614 2.96571 3.16388 2.62357 2.88433 2.66622 5.05401 3.79691 718 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33365 5.05600 0.61958 0.77255 0.52609 0.89382\n- 491 3.46797 4.77735 4.85187 4.39437 0.94244 4.48258 4.00069 2.61641 4.23179 1.96388 3.48328 4.33589 4.76212 4.27111 4.29035 3.82011 3.68898 2.85476 4.19627 2.36982 719 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33365 5.05600 0.61958 0.77255 0.52609 0.89382\n- 492 2.64810 4.94586 2.48856 2.43619 3.88842 3.14398 3.65688 3.31795 2.22724 2.98095 4.00804 2.67267 3.45205 2.78707 2.73244 2.38030 2.87936 3.29377 4.47668 3.70408 720 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01968 4.33365 5.05600 0.61958 0.77255 0.52609 0.89382\n- 493 2.65097 5.05424 2.70156 2.25989 4.35739 3.28914 3.46085 3.58732 2.17545 3.00787 4.10632 2.72774 3.83397 2.61594 2.65296 2.48028 2.77640 3.42219 5.51250 3.00003 721 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08090 4.33365 2.73960 0.61958 0.77255 0.52609 0.89382\n- 494 2.54669 5.07175 2.32064 2.30935 4.37689 3.25109 3.62900 3.83775 2.24506 3.35996 4.12537 2.66353 3.82480 2.64299 2.87831 2.38165 2.68237 3.44121 5.52830 3.08012 722 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04362 4.27366 3.54913 0.61958 0.77255 0.60397 0.79106\n- 495 2.31868 4.72064 2.80234 2.44553 3.68656 3.47879 3.39335 2.90464 2.52322 2.86812 3.79977 2.76250 3.36473 2.86668 2.97287 2.60918 2.85505 3.03698 5.24290 2.96565 723 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09665 4.25143 2.55259 0.61958 0.77255 0.63026 0.76026\n- 496 2.60560 4.34895 2.87043 2.15453 3.75702 3.12914 3.64290 3.30301 2.37948 3.05728 3.57057 2.75024 3.53572 2.68657 2.90817 2.44689 2.83693 3.13049 4.60560 3.56923 724 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14972 4.17783 2.08975 0.61958 0.77255 0.70900 0.67754\n- 497 2.31411 4.53353 2.86573 2.59164 3.15872 3.46273 3.45556 3.09918 2.57454 2.76633 3.25368 2.94666 3.85038 2.90768 2.99941 2.35005 2.80445 2.83343 5.07485 3.46739 725 a - - -\n- 2.68604 4.42258 2.77494 2.73086 3.46359 2.40525 3.72512 3.29387 2.67769 2.69334 4.24693 2.90345 2.73739 3.18169 2.89824 2.37878 2.77539 2.98526 4.58382 3.61466\n- 0.51402 0.91152 * 1.56015 0.23586 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiQ__AbiQ.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiQ__AbiQ.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,536 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiQ__AbiQ\n-LENG 171\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 16:11:20 2022\n-NSEQ 14\n-EFFN 0.645996\n-GA 20 20;\n-CKSUM 3995129023\n-STATS LOCAL MSV -10.3682 0.70743\n-STATS LOCAL VITERBI -11.2260 0.70743\n-STATS LOCAL FORWARD -4.8623 0.70743\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76357 4.35308 2.96755 2.64828 3.14930 3.19258 3.70325 2.78648 2.49694 2.38186 3.49471 2.93509 3.48041 3.06719 2.91835 2.72055 2.98726 2.64006 4.93830 3.05167\n- 2.68627 4.42234 2.77515 2.73122 3.46322 2.40512 3.72503 3.29346 2.67740 2.69364 4.24551 2.90355 2.73748 3.18155 2.89809 2.37882 2.77528 2.98527 4.58486 3.61488\n- 0.32111 1.82778 2.17258 1.16542 0.37366 0.00000 *\n- 1 2.64215 4.44049 3.39467 2.80855 3.55632 3.54401 3.72637 2.87789 2.29024 2.36858 2.42602 3.22278 3.92264 2.98740 2.58017 2.81680 2.86653 2.67543 4.97323 3.73650 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03164 3.86490 4.58724 0.61958 0.77255 0.58657 0.81246\n- 2 2.67878 5.09494 2.26769 2.12469 4.40931 3.31548 3.57042 3.86410 2.03269 3.37107 4.16211 2.79099 3.77038 2.47286 2.54748 2.63818 2.91387 3.47295 5.52322 4.14232 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03164 3.86490 4.58724 0.61958 0.77255 0.48618 0.95444\n- 3 2.56300 4.55846 3.09014 2.54740 3.74532 3.27346 3.65255 3.14919 2.49115 2.80477 3.06960 2.46449 3.82291 2.85994 2.72571 2.53595 2.79747 2.87426 5.09185 3.32048 12 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93413 4.65648 0.61958 0.77255 0.52603 0.89390\n- 4 2.58283 4.66680 2.99968 2.35997 3.91613 3.39901 3.63709 2.97318 2.16386 2.93807 3.77973 2.98091 3.81094 2.81464 2.82890 2.35736 2.43870 2.99620 5.20972 3.90804 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93413 4.65648 0.61958 0.77255 0.52603 0.89390\n- 5 3.12396 4.47422 4.66021 4.11022 2.13972 4.33339 4.50884 1.70576 3.98500 1.36882 2.94910 4.31761 4.57476 4.11516 4.11955 3.66687 3.35099 2.14326 4.86248 3.57255 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93413 4.65648 0.61958 0.77255 0.52603 0.89390\n- 6 2.61339 4.76842 2.97382 2.45081 3.96660 3.40771 3.28984 3.43392 2.33991 3.03193 3.86101 2.71414 3.81100 2.76875 2.38008 2.20128 2.84427 3.11920 5.23126 3.45271 15 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02949 3.93413 4.65648 0.61958 0.77255 0.52603 0.89390\n- 7 3.24598 4.62191 4.50152 4.04888 1.43874 4.25749 4.05977 2.44257 3.90017 1.49101 3.13591 4.16274 4.55881 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97557 4.69792 0.61958 0.77255 0.48576 0.95510\n- 164 3.52942 4.82873 4.45323 4.11272 1.64686 4.28688 3.46875 3.26044 3.97143 2.61822 3.87362 3.97911 4.61373 4.01189 4.06034 3.65433 3.75834 3.17758 3.63464 1.00800 178 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97557 4.69792 0.61958 0.77255 0.48576 0.95510\n- 165 2.56209 4.42405 3.22888 2.68396 3.59538 3.46961 3.71753 2.45802 2.44793 2.65823 3.53417 2.99219 3.86496 2.97456 3.00636 2.31121 2.65457 2.71442 4.99167 3.36448 179 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97557 4.69792 0.61958 0.77255 0.48576 0.95510\n- 166 2.73876 5.16704 2.32421 2.00822 4.48149 3.31741 3.63080 3.94205 1.74239 3.45475 4.25375 2.79492 3.80541 2.76453 2.86756 2.49897 2.98406 3.54756 5.61326 4.21509 180 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97557 4.69792 0.61958 0.77255 0.48576 0.95510\n- 167 2.58143 4.78264 2.90696 2.29221 3.49342 3.14542 3.60872 3.45296 2.15651 3.05384 3.86935 2.65463 3.78849 2.76106 2.85658 2.40574 2.62409 3.12688 5.29364 3.95870 181 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07342 3.97557 2.95613 0.61958 0.77255 0.48576 0.95510\n- 168 2.58005 4.71957 2.90961 2.44995 4.04394 3.34383 3.64633 3.44844 2.25261 2.84990 3.89405 2.37050 3.79367 2.81248 2.82839 2.26933 2.59973 3.11990 5.30397 3.98742 182 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93172 4.65406 0.61958 0.77255 0.52828 0.89067\n- 169 2.60855 4.84711 2.60920 2.34624 4.12018 3.34002 2.99419 3.55378 2.41428 3.14032 3.95557 2.87360 3.78197 2.55416 2.87078 2.42888 2.28166 3.21332 5.36154 4.01110 183 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09212 3.93172 2.68250 0.61958 0.77255 0.52828 0.89067\n- 170 2.54480 4.50809 3.00276 2.41604 2.90702 3.37407 3.67997 3.11216 2.57027 2.78777 3.65291 2.58440 3.81019 2.90698 2.98435 2.49485 2.57426 2.83859 5.08168 3.78423 184 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07906 3.87104 2.89710 0.61958 0.77255 0.58150 0.81884\n- 171 2.64858 4.69283 3.05918 2.54759 3.90318 3.43121 3.62842 3.04597 2.17544 2.87882 3.78409 3.02061 3.84363 2.07116 2.62518 2.71869 2.88093 2.82403 5.19292 3.90452 185 q - - -\n- 2.68637 4.42190 2.77513 2.73120 3.46373 2.40523 3.72513 3.29302 2.67750 2.69331 4.24708 2.90329 2.73758 3.18103 2.89819 2.37883 2.77525 2.98521 4.58496 3.61522\n- 0.28045 1.40830 * 1.60858 0.22336 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiR__AbiRa.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiR__AbiRa.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2486 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiR__AbiRa\n-LENG 821\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 14:54:11 2022\n-NSEQ 37\n-EFFN 1.549194\n-GA 20 20;\n-CKSUM 1693899255\n-STATS LOCAL MSV -12.5274 0.69612\n-STATS LOCAL VITERBI -13.5981 0.69612\n-STATS LOCAL FORWARD -6.3814 0.69612\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.77814 4.66423 2.91378 2.52498 3.04236 3.13709 3.77430 2.67916 2.51594 2.34561 3.65087 2.95661 3.79031 3.06630 2.98048 2.65922 2.92460 2.74109 5.06929 3.16016\n- 2.68613 4.42233 2.77520 2.73094 3.46362 2.40521 3.72502 3.29362 2.67744 2.69358 4.24571 2.90338 2.73747 3.18154 2.89808 2.37895 2.77513 2.98526 4.58485 3.61511\n- 0.46353 2.40481 1.27062 1.16972 0.37172 0.00000 *\n- 1 2.72739 4.59198 3.22700 2.49948 3.75067 3.55705 3.78785 3.06095 2.33558 2.72879 1.83037 3.20426 3.97012 3.02879 2.86082 2.86718 2.95989 2.83759 5.13503 3.88434 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02491 4.10060 4.82295 0.61958 0.77255 0.45809 1.00101\n- 2 2.64197 4.62296 3.20763 2.66491 3.83920 3.25797 3.27782 3.22733 2.64373 2.88933 2.44778 2.87077 3.91937 2.98518 3.06595 2.22607 2.31389 2.95113 5.19456 3.90957 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01980 4.32754 5.04988 0.61958 0.77255 0.61899 0.77325\n- 3 2.65520 4.18868 3.92288 3.34406 3.28797 3.72391 4.00676 1.83496 2.89750 1.99993 3.29505 3.19278 4.09493 3.49798 3.47258 2.99996 2.88712 2.27001 4.79063 2.87412 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01980 4.32754 5.04988 0.61958 0.77255 0.61899 0.77325\n- 4 2.53586 4.58544 3.21932 2.86324 4.42161 3.25346 4.07305 3.85394 2.94308 3.48466 4.29834 2.46349 3.89026 3.26796 3.34905 1.34949 1.96447 3.38476 5.70420 4.41394 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01980 4.32754 5.04988 0.61958 0.77255 0.61899 0.77325\n- 5 3.44550 4.70310 5.27799 4.73685 3.40469 4.84262 5.26366 1.34387 4.61205 1.07230 3.17536 4.93837 5.01719 4.70646 4.70092 4.22184 3.67923 1.85536 5.51074 4.43427 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01980 4.32754 5.04988 0.61958 0.77255 0.61899 0.77325\n- 6 3.10395 4.51449 4.42914 3.92946 1.63667 4.10482 3.82542 2.58951 3.79615 2.57577 3.61652 3.97730 4.45538 3.93325 3.92976 2.84677 3.33480 2.79310 4.13533 1.43245 12 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01980 4.32754 5.04988 0.61958 0.77255 0.61899 0.77325\n- 7 2.55217 4.23149 4.38742 3.81251 1.57993 3.93670 4.15993 2.22129 3.67200 2.17880 3.23930 3.95387 4.2885'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45166 5.17401 0.61958 0.77255 0.48576 0.95510\n- 814 4.36987 5.40016 5.25146 5.10618 1.28642 4.93673 3.70375 3.96692 4.90845 3.17148 4.51641 4.52356 5.21052 4.66474 4.78449 4.34048 4.57599 3.91790 3.79152 0.72480 1118 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45166 5.17401 0.61958 0.77255 0.48576 0.95510\n- 815 3.49571 4.86306 4.80365 4.33387 2.90258 4.53381 4.42618 2.72394 4.10522 0.70051 3.31973 4.46583 4.81804 4.29743 4.21917 3.90919 3.72577 2.81498 4.71220 2.43594 1119 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45166 5.17401 0.61958 0.77255 0.48576 0.95510\n- 816 3.10308 5.73356 1.52199 1.82912 5.02857 3.45486 3.93113 4.55779 2.60415 4.01807 4.82951 1.62263 4.04008 3.07720 3.47164 2.98884 3.37565 4.10489 6.15913 4.65077 1120 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45166 5.17401 0.61958 0.77255 0.48576 0.95510\n- 817 3.61417 5.72446 2.91855 0.41954 5.17011 3.77067 4.46150 4.75825 3.43303 4.29188 5.28392 3.45093 4.41456 3.69211 3.87482 3.55806 3.93644 4.39505 6.21972 5.00336 1121 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45166 5.17401 0.61958 0.77255 0.48576 0.95510\n- 818 2.66369 4.45367 4.40806 4.08778 4.04651 3.37117 4.86465 2.42056 4.00705 2.84628 3.95313 4.13889 4.39191 4.30325 4.19770 3.20120 3.23589 0.70412 5.71464 4.50049 1122 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45166 5.17401 0.61958 0.77255 0.48576 0.95510\n- 819 4.27077 5.37727 5.10576 4.92147 1.92928 4.85190 3.73256 3.91166 4.73794 3.14553 4.48517 4.47950 5.15570 4.59870 4.68434 4.26930 4.49296 3.85776 3.83515 0.50472 1123 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05779 4.45166 3.11244 0.61958 0.77255 0.48576 0.95510\n- 820 2.57871 5.26583 2.58584 2.23069 4.59054 1.54720 3.79829 4.05342 2.20448 3.58059 4.37644 2.81797 3.95085 2.93393 3.11011 2.81991 3.11198 3.65834 5.75645 4.35316 1124 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25715 4.41206 1.53888 0.61958 0.77255 0.54712 0.86421\n- 821 2.87545 5.19446 2.89477 2.43483 4.58144 3.54620 3.63380 3.98586 1.43553 3.45189 4.26237 3.03212 3.94300 2.75509 1.91617 2.84734 3.07820 3.61610 5.54519 4.26168 1125 k - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69356 4.24690 2.90347 2.73740 3.18147 2.89794 2.37887 2.77520 2.98519 4.58478 3.61489\n- 0.04043 3.22825 * 0.63535 0.75450 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiR__AbiRb.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiR__AbiRb.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1223 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiR__AbiRb\n-LENG 400\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 14:54:16 2022\n-NSEQ 46\n-EFFN 0.985474\n-GA 20 20;\n-CKSUM 163101789\n-STATS LOCAL MSV -11.4236 0.69926\n-STATS LOCAL VITERBI -12.4400 0.69926\n-STATS LOCAL FORWARD -5.8291 0.69926\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63357 4.71118 2.80719 2.48706 3.39440 3.19755 3.78528 2.69187 2.53525 2.41662 3.70266 2.90307 3.59895 3.00045 2.86308 2.74695 2.87941 2.65018 5.13202 3.44969\n- 2.68622 4.42229 2.77524 2.73112 3.46358 2.40517 3.72499 3.29358 2.67742 2.69359 4.24525 2.90346 2.73744 3.18151 2.89805 2.37891 2.77515 2.98523 4.58481 3.61507\n- 0.21825 1.98929 2.82550 0.67327 0.71343 0.00000 *\n- 1 2.81858 4.33673 4.07463 3.51984 3.32293 3.89280 4.23401 2.08721 3.22382 2.05509 1.63704 3.81273 4.25964 3.66092 3.57953 3.20186 2.86892 2.23197 5.00273 3.81988 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18838 4.12867 1.86048 0.61958 0.77255 0.54830 0.86258\n- 2 2.80817 5.06799 2.20748 2.28088 4.43375 3.21593 3.81603 4.01453 2.77375 3.60277 4.47760 1.31062 3.84026 3.01396 3.26352 2.78403 3.13542 3.61262 5.69418 4.26730 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04986 3.96876 3.51526 0.61958 0.77255 0.69997 0.68637\n- 3 3.24032 4.68033 4.31059 3.95101 3.16524 4.07780 4.58306 2.37367 3.71801 0.78756 3.16503 4.21915 4.50032 4.06827 3.88163 3.65779 3.53122 2.43056 5.07169 3.81237 7 l - - -\n- 2.68626 4.42233 2.77509 2.73112 3.46353 2.40508 3.72503 3.29340 2.67735 2.69337 4.24698 2.90347 2.73748 3.18155 2.89801 2.37895 2.77528 2.98527 4.58485 3.61511\n- 0.26123 1.51174 4.67033 0.92818 0.50298 0.43089 1.04963\n- 4 3.11361 4.46421 4.77241 4.19240 2.49508 4.33866 4.64025 1.82438 4.06098 1.14477 2.76780 4.38254 4.58571 4.17117 4.16330 3.66327 3.11990 2.24623 5.03498 3.92020 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20372 4.13574 1.78187 0.61958 0.77255 0.54040 0.87351\n- 5 2.61166 4.88338 2.29851 2.15241 4.14298 3.34938 3.60869 2.92670 2.37245 3.15425 3.96318 2.77013 3.78144 2.75377 2.89794 2.51495 2.68269 3.22448 5.37978 4.02087 13 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02871 3.96073 4.68307 0.61958 0.77255 0.43636 1.03955\n- 6 2.56982 4.98285 2.69230 1.96466 4.27474 3.06565 3.59433 3.28924 2.28334 3.26489 3.82070 2.66496 3.79117 2.62142 2.83823 2.54638 2.83976 3.34474 5.44803 3.83826 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13574 4.85809 0.61958 0.77255 0.54040 0.87351\n- 7 2.54348 4.85025 2.81955 2.41205 4.10338 3.28484 3.40760 3.31689 2.09547 2.70323 3.91703 2.76878 3.80990'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15663 4.87898 0.61958 0.77255 0.51637 0.90803\n- 393 2.42919 4.37033 2.92641 2.11950 4.01767 3.13479 3.64143 3.07989 2.27570 2.74296 3.71149 2.87749 3.82619 2.79566 2.82949 2.59369 2.83305 3.11313 5.29018 3.95962 435 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15663 4.87898 0.61958 0.77255 0.51637 0.90803\n- 394 3.07460 4.44390 4.68835 4.10741 2.83413 4.26606 4.51926 1.87739 3.97263 1.09190 2.79829 4.29193 4.52803 4.09184 4.08115 3.58299 3.29705 2.34420 4.92971 3.26056 436 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15663 4.87898 0.61958 0.77255 0.51637 0.90803\n- 395 2.66372 5.06585 2.87816 2.09817 4.38982 3.08295 3.60737 3.84279 1.96888 3.35540 4.12732 2.81759 3.81938 2.72169 2.48194 2.28825 2.75844 3.44831 5.51079 4.13803 437 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02354 4.15663 4.87898 0.61958 0.77255 0.51637 0.90803\n- 396 2.63714 4.51731 2.20785 2.01405 4.37593 3.09199 3.61091 3.83972 2.38074 3.35918 4.12543 2.67332 3.79859 2.72538 2.81083 2.35665 2.87421 3.32788 5.52543 4.13129 438 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06248 4.15663 3.10305 0.61958 0.77255 0.51637 0.90803\n- 397 2.46468 4.57840 3.04117 2.38229 3.55478 3.47178 3.69242 2.82815 2.32383 2.43797 3.66528 2.93049 3.85826 2.89999 2.99278 2.62575 2.72506 2.80076 5.11959 3.65971 439 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17000 4.11861 1.96563 0.61958 0.77255 0.55933 0.84768\n- 398 2.51271 4.17538 3.71948 3.14871 3.14940 3.64106 3.93024 2.31990 3.07237 1.94295 3.12350 3.14244 4.01368 3.35003 3.36156 2.90975 2.56413 2.13895 4.80965 3.59744 440 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12015 3.97685 2.35946 0.61958 0.77255 0.69335 0.69294\n- 399 2.65254 5.06766 2.22512 2.11291 4.42628 3.21323 3.69465 3.87260 2.60026 3.44961 4.28972 1.70123 3.78392 2.86222 3.09975 2.70126 2.92147 3.49233 5.65011 4.24005 441 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03092 3.88762 4.60997 0.61958 0.77255 0.76130 0.62934\n- 400 2.01700 4.31089 2.98110 2.88706 3.72476 3.33789 3.95988 2.66149 2.92840 2.68471 3.65082 3.26210 3.87992 3.23962 3.29385 2.70244 2.82488 1.80598 5.20127 3.94337 442 v - - -\n- 2.68615 4.42227 2.77515 2.73115 3.46356 2.40515 3.72496 3.29356 2.67735 2.69357 4.24692 2.90344 2.73742 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.16792 1.86703 * 0.40026 1.10911 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiR__AbiRc.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiR__AbiRc.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2579 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiR__AbiRc\n-LENG 852\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 14:54:25 2022\n-NSEQ 100\n-EFFN 0.802612\n-GA 20 20;\n-CKSUM 2825019954\n-STATS LOCAL MSV -12.3233 0.69601\n-STATS LOCAL VITERBI -13.3294 0.69601\n-STATS LOCAL FORWARD -6.8652 0.69601\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63616 4.58875 2.94758 2.61233 3.14582 3.10895 3.66814 2.70846 2.59918 2.39608 3.61382 2.99347 3.60596 3.05312 2.97350 2.67356 2.88540 2.65243 4.60629 3.23778\n- 2.68623 4.42234 2.77518 2.73125 3.46363 2.40522 3.72481 3.29363 2.67743 2.69356 4.24527 2.90344 2.73745 3.18152 2.89798 2.37880 2.77525 2.98525 4.58486 3.61505\n- 0.24547 1.79010 2.98152 1.08670 0.41148 0.00000 *\n- 1 2.59377 4.54039 2.74932 2.58368 3.73245 3.45590 3.70943 3.09124 2.49710 2.77446 2.22650 3.07845 3.86242 2.93301 2.94664 2.67393 2.74866 2.75929 5.10136 3.82287 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03268 4.75503 0.61958 0.77255 0.53221 0.88505\n- 2 3.18095 4.54763 4.49470 4.00689 1.62483 4.19954 3.85301 2.66963 3.86301 1.46399 3.28243 4.05400 4.49753 3.96720 3.97830 3.52342 3.40428 2.66220 4.10874 2.19711 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03268 4.75503 0.61958 0.77255 0.53221 0.88505\n- 3 2.61024 4.82313 2.80200 2.35210 4.25751 3.38585 3.48625 3.69980 2.07134 3.24045 4.02305 2.61977 3.78569 2.67178 2.53501 2.22773 2.70472 3.32657 5.42143 4.05876 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03268 4.75503 0.61958 0.77255 0.53221 0.88505\n- 4 2.60285 5.06669 2.27611 2.00831 4.36588 3.34376 3.59957 3.82808 2.34982 3.06033 4.12856 2.63762 3.78138 2.57023 2.88120 2.56156 2.64793 3.43388 5.52409 4.12659 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03268 4.75503 0.61958 0.77255 0.53221 0.88505\n- 5 2.78723 3.98371 4.21502 3.63911 2.96526 3.90800 4.01462 2.03773 3.50936 1.33806 3.07918 3.86763 4.24096 3.72432 3.69348 3.20521 3.01815 2.25895 4.75846 3.39091 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03268 4.75503 0.61958 0.77255 0.53221 0.88505\n- 6 2.51004 4.82614 2.68772 2.35374 4.07929 3.39125 3.53102 3.50410 2.37445 3.02481 3.89612 2.59248 3.61090 2.74145 2.82136 2.46744 2.47578 2.95839 5.32136 3.72018 16 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03268 4.75503 0.61958 0.77255 0.53221 0.88505\n- 7 3.23108 4.56175 4.82844 4.26589 2.34529 4.46927 4.69606 1.90442 4.14238 1.05639 2.90775 4.48202 4.674'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 4.06966 4.79201 0.61958 0.77255 0.49290 0.94380\n- 845 2.98769 5.53872 1.82149 1.15388 4.83054 3.26718 3.80879 4.34624 2.81624 3.85318 4.70901 2.73618 3.88652 2.97591 3.40150 2.87408 3.27598 3.92361 5.99984 4.50698 891 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 4.06966 4.79201 0.61958 0.77255 0.49290 0.94380\n- 846 3.14336 4.51282 4.67738 4.25579 3.48859 4.33748 4.95384 0.93617 4.08377 2.00538 3.36086 4.46668 4.71933 4.39687 4.26860 3.77653 3.43430 1.75689 5.46421 4.21540 892 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 4.06966 4.79201 0.61958 0.77255 0.49290 0.94380\n- 847 2.63882 4.26585 3.65283 2.86196 3.36243 3.65728 3.91896 2.37033 2.77673 1.71512 3.31967 3.45059 4.02791 3.29566 3.27036 2.92333 2.87025 2.21758 4.87399 3.58284 893 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 4.06966 4.79201 0.61958 0.77255 0.49290 0.94380\n- 848 2.26100 5.09555 2.45777 2.00230 4.40264 3.35195 3.60655 3.86939 2.28460 3.38448 4.15660 2.71446 3.78984 2.59203 2.81230 2.38200 2.89492 3.46761 5.54880 4.14742 894 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 4.06966 4.79201 0.61958 0.77255 0.49290 0.94380\n- 849 3.32117 4.65260 4.88325 4.30879 2.79278 4.55904 4.81138 2.15399 4.18455 0.95632 2.07772 4.56378 4.72872 4.25726 4.29254 3.89487 3.53530 2.38472 5.10266 4.02193 895 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 4.06966 4.79201 0.61958 0.77255 0.49290 0.94380\n- 850 3.14407 4.52001 4.64827 4.09265 1.79517 4.30358 4.45449 2.20543 3.95757 1.59117 1.91791 4.28911 4.55980 4.08309 4.08505 3.63040 3.36984 2.38604 4.81506 3.51617 896 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02571 4.06966 4.79201 0.61958 0.77255 0.49290 0.94380\n- 851 2.58989 5.06607 2.48805 2.15235 4.39004 3.37023 3.48681 3.85886 2.08070 3.28425 3.98517 2.68855 3.77296 2.51012 2.62783 2.46493 2.84327 3.44589 5.50716 4.11239 897 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16713 4.06966 1.98903 0.61958 0.77255 0.49290 0.94380\n- 852 2.57526 4.79387 2.77786 1.96227 4.03923 3.37562 3.59094 3.31856 2.33255 2.88689 3.48948 2.77205 3.77779 2.73937 2.83630 2.56690 2.80776 3.12486 5.29094 3.95156 898 e - - -\n- 2.68644 4.42252 2.77513 2.73055 3.46333 2.40541 3.72520 3.29255 2.67731 2.69345 4.24636 2.90339 2.73777 3.18129 2.89803 2.37906 2.77540 2.98538 4.58518 3.61502\n- 0.31372 1.31201 * 2.16458 0.12194 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiT__AbiTi.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiT__AbiTi.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,575 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiT__AbiTi\n-LENG 184\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:02:17 2022\n-NSEQ 54\n-EFFN 2.732300\n-GA 20 20;\n-CKSUM 1717034565\n-STATS LOCAL MSV -10.3294 0.70642\n-STATS LOCAL VITERBI -11.0171 0.70642\n-STATS LOCAL FORWARD -4.8919 0.70642\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63016 4.67931 2.92626 2.54970 3.46113 2.86991 3.90128 2.67687 2.55443 2.49376 3.66570 2.85385 3.56083 2.88903 3.01636 2.56083 2.84670 2.72971 5.07176 3.63062\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01201 4.82415 5.54650 0.61958 0.77255 0.00000 *\n- 1 4.08568 5.51511 5.29939 5.06700 4.09881 4.71548 5.58897 3.40630 4.79511 2.62449 0.30535 5.20461 5.25380 5.13804 4.86627 4.48162 4.45088 3.51068 5.97754 4.81391 1 M - - -\n- 2.68829 4.42744 2.77495 2.73178 3.46040 2.40767 3.72775 3.28602 2.67545 2.69047 4.24545 2.90283 2.74007 3.17917 2.89867 2.37940 2.77619 2.98640 4.58456 3.61388\n- 1.21538 0.88940 1.22929 3.51982 0.03005 0.48576 0.95510\n- 2 2.56352 3.49528 2.55499 2.37426 4.29255 3.49766 3.20736 3.73222 2.22332 2.96836 4.07658 2.62969 3.88922 2.81916 2.75359 2.61437 2.82790 2.68203 5.49341 4.12890 98 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09940 4.48363 2.48502 0.61958 0.77255 0.90968 0.51526\n- 3 2.49449 5.15823 2.50243 2.13183 4.48860 3.13220 3.35745 3.57421 2.05638 3.05576 4.20301 2.59017 3.85418 2.75137 2.72717 2.57532 2.91430 3.54100 5.59949 4.19756 99 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44194 5.16429 0.61958 0.77255 0.82388 0.57755\n- 4 2.27340 4.18581 3.75518 3.64135 2.93010 3.83566 4.14286 2.16083 3.51521 1.54911 2.67734 3.51499 4.20251 3.72781 3.68193 3.12496 2.95535 2.40687 4.80218 3.61295 100 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01610 4.53258 5.25492 0.61958 0.77255 0.79659 0.59941\n- 5 2.72898 5.21549 2.82597 2.35834 4.55119 3.50470 3.69271 4.02991 2.21889 3.16313 4.25894 2.52660 3.38568 2.34076 2.45755 2.34657 2.40189 3.60116 5.65328 4.24902 101 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01519 4.59048 5.31282 0.61958 0.77255 0.88644 0.53123\n- 6 2.56674 5.24772 3.02798 1.97872 4.59426 3.54106 3.71154 4.06321 1.71807 3.54260 4.29356 3.01323 3.93403 2.59555 2.34074 2.44554 2.83303 3.64036 5.66970 4.28328 102 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01519 4.59048 5.31282 0.61958 0.77255 0.88644 0.53123\n- 7 2.72898 5.21109 2.41622 2.33544 4.54504 3.50549 3.69353 3.63690 2.11268 3.10740 4.25498 2.56270 3.89912'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01212 4.81491 5.53725 0.61958 0.77255 0.48576 0.95510\n- 177 2.53057 5.16024 3.12193 2.56509 4.44646 3.34510 3.79942 3.89245 2.46878 2.72803 3.38798 2.82070 3.62485 2.00825 2.51553 2.57268 2.35246 3.51891 5.62987 4.25827 546 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01212 4.81491 5.53725 0.61958 0.77255 0.48576 0.95510\n- 178 3.78488 5.01957 5.73481 5.15787 3.12157 5.16179 5.49757 1.42845 5.02205 0.83603 2.84104 5.31402 5.26456 4.95753 4.99739 4.53704 3.99867 2.27215 5.60232 4.60400 547 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01334 4.71914 5.44148 0.61958 0.77255 0.48576 0.95510\n- 179 2.72514 4.60822 3.38799 2.82588 3.15749 2.33312 3.87654 3.14979 2.59708 2.47403 3.19737 2.94419 2.57030 3.12499 3.20574 2.65307 2.95717 2.70568 5.16786 3.90199 548 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01520 4.59020 5.31254 0.61958 0.77255 0.48576 0.95510\n- 180 2.59403 4.43167 3.29617 2.74245 3.60414 3.10921 3.75649 2.24361 2.43881 2.65433 3.53823 3.18628 3.90391 2.66941 3.03407 2.75882 2.72606 2.45203 5.00711 3.75352 549 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02551 4.07734 4.79969 0.61958 0.77255 0.48576 0.95510\n- 181 2.60999 4.22025 3.66735 3.09284 3.17234 3.62673 3.85246 2.35211 2.95564 2.20438 2.77596 3.43605 3.99287 2.77484 3.23855 2.89503 2.84000 2.43934 3.07103 3.44947 550 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18564 3.90103 1.90242 0.61958 0.77255 0.48576 0.95510\n- 182 2.70738 4.54483 3.16500 2.76710 3.39093 3.45919 3.74442 2.83599 2.49247 1.97773 3.50573 3.18471 3.91940 2.46934 2.77313 2.85318 2.97161 2.70547 4.93705 3.58244 551 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03944 3.64845 4.37079 0.61958 0.77255 0.60884 0.78523\n- 183 2.48742 4.44031 2.96262 2.63147 3.99763 2.24391 3.72409 3.46156 2.40973 3.08832 3.98344 3.02458 3.70038 2.95023 2.12258 2.59605 2.83530 3.10159 5.22274 3.99064 552 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03944 3.64845 4.37079 0.61958 0.77255 0.60884 0.78523\n- 184 2.60747 4.39256 3.18942 2.83824 2.28848 3.37730 3.65916 2.90020 2.83314 2.56591 3.60880 2.53483 3.88377 3.17112 3.15764 2.76805 2.90993 2.68941 4.46589 2.91712 553 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02672 3.63573 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiT__AbiTii.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiT__AbiTii.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,674 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiT__AbiTii\n-LENG 217\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 15:02:21 2022\n-NSEQ 93\n-EFFN 1.410553\n-GA 20 20;\n-CKSUM 3633568799\n-STATS LOCAL MSV -10.9381 0.70438\n-STATS LOCAL VITERBI -11.3629 0.70438\n-STATS LOCAL FORWARD -4.8562 0.70438\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61694 4.57609 2.99117 2.51430 3.43174 2.99729 3.80716 2.74057 2.59573 2.45623 3.67193 2.92831 3.42821 2.95343 2.98456 2.60356 2.87275 2.69551 4.27559 3.50197\n- 2.68620 4.42231 2.77524 2.73122 3.46360 2.40519 3.72501 3.29354 2.67739 2.69361 4.24576 2.90335 2.73744 3.18152 2.89796 2.37890 2.77526 2.98512 4.58483 3.61496\n- 0.17298 2.56214 2.50462 1.11730 0.39625 0.00000 *\n- 1 2.69921 4.50350 3.98908 3.38855 3.48866 3.86578 4.32136 2.57603 3.31644 2.15650 1.20725 3.82442 4.30895 3.70263 3.55438 3.22840 3.18622 2.48063 5.18056 3.97812 20 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31305 5.03539 0.61958 0.77255 0.45930 0.99893\n- 2 2.55606 5.09371 2.65054 2.16140 4.40599 2.68887 3.64185 3.86948 2.33268 3.31741 3.42295 2.67121 3.84263 2.75047 2.74969 2.27248 2.73248 3.46681 5.54701 4.15641 21 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01889 4.37449 5.09683 0.61958 0.77255 0.51171 0.91496\n- 3 2.39232 4.84807 3.05244 2.55809 4.24007 2.16811 3.77444 3.66604 2.30430 3.25893 4.06573 3.05806 3.65039 2.92520 3.02266 1.87600 2.92711 3.30357 5.48515 3.89376 22 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01889 4.37449 5.09683 0.61958 0.77255 0.51171 0.91496\n- 4 3.43241 4.67937 5.29842 4.78712 3.60777 4.88458 5.39891 0.85989 4.66557 1.70059 3.38263 4.98626 5.09284 4.84093 4.79651 4.28255 3.68006 1.74438 5.70123 4.55998 23 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01889 4.37449 5.09683 0.61958 0.77255 0.49884 0.93454\n- 5 3.30065 4.57514 5.12466 4.60057 3.35292 4.71422 5.19832 1.76849 4.50011 2.10555 3.39381 4.79007 4.97068 4.70307 4.65666 4.08645 3.54935 0.78690 5.61693 4.41746 24 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01879 4.37975 5.10210 0.61958 0.77255 0.50392 0.92674\n- 6 2.72123 4.21258 4.09858 3.52473 3.27656 3.80712 3.78359 1.76772 3.35912 1.54003 3.27617 3.75961 4.17605 3.43396 3.55424 3.00231 2.85003 2.39682 4.81641 3.61693 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01879 4.37975 5.10210 0.61958 0.77255 0.50392 0.92674\n- 7 3.07326 5.69643 1.66361 1.22116 4.98963 3.28011 3.89999 4.51757 2.86212 3.98183 4.79750 2.86547 4.0064'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08248 4.24884 2.73505 0.61958 0.77255 0.67175 0.71501\n- 210 2.56119 4.68187 3.10738 2.54581 3.88755 3.47561 3.13597 2.93207 2.25018 2.80565 2.87519 2.72556 3.86253 2.67306 2.88572 2.63362 2.84515 2.99557 5.20601 3.76585 247 k - - -\n- 2.68617 4.42231 2.77521 2.73124 3.46360 2.40514 3.72494 3.29354 2.67742 2.69359 4.24675 2.90336 2.73746 3.18106 2.89807 2.37885 2.77526 2.98524 4.58483 3.61509\n- 0.49400 1.21435 2.37604 0.30901 1.32492 0.73381 0.65408\n- 211 2.59783 4.84861 2.96112 2.35105 3.93251 3.41292 3.61092 3.19717 2.26643 3.11373 3.91610 2.61703 3.80444 2.44741 2.73502 2.40227 2.54657 3.13701 5.33804 3.99349 251 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09359 4.09969 2.62054 0.61958 0.77255 0.78801 0.60651\n- 212 2.44018 4.70656 2.81752 2.46151 3.92834 3.41935 3.45970 3.01817 2.42132 2.90292 3.78657 2.50073 3.81228 2.74664 2.90746 2.57384 2.64454 2.74829 5.22544 3.90686 252 k - - -\n- 2.68626 4.42501 2.77487 2.72804 3.46520 2.40733 3.72693 3.28838 2.67668 2.69147 4.24635 2.90278 2.74002 3.17827 2.90008 2.37916 2.77562 2.98543 4.58788 3.61759\n- 0.65557 0.74998 4.77023 3.57757 0.02834 0.85499 0.55389\n- 213 2.60630 4.78971 2.96974 2.55761 4.22052 3.37476 3.72098 3.62165 2.10315 3.21495 4.05560 3.02886 1.88381 2.88859 2.63446 2.64263 2.94888 3.27518 5.42215 4.13145 301 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05433 4.04788 3.34034 0.61958 0.77255 0.85499 0.55389\n- 214 2.67461 5.07163 2.50945 2.29653 4.19590 3.35513 3.60731 3.83634 1.80332 3.35897 4.14520 2.36392 3.79826 2.64571 2.81784 2.58202 2.91212 3.44847 5.52314 4.13940 302 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02702 4.02057 4.74291 0.61958 0.77255 0.87505 0.53929\n- 215 2.57914 4.84713 2.87719 2.40917 4.17437 3.36721 3.63536 3.59789 2.18167 3.17606 3.98583 2.83671 2.55501 2.59931 2.81846 2.39810 2.64127 3.24717 5.38925 4.05253 303 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02702 4.02057 4.74291 0.61958 0.77255 0.87505 0.53929\n- 216 2.52960 4.69738 2.98886 2.41563 3.94379 2.85289 3.35373 3.35033 2.45946 2.92969 3.80167 2.78326 3.66853 2.76605 2.90864 2.43784 2.47905 2.77910 5.23803 3.92004 304 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02702 4.02057 4.74291 0.61958 0.77255 0.83278 0.57065\n- 217 2.75065 3.74613 4.24427 3.67391 3.32984 3.91490 4.27564 1.47802 3.39849 2.08128 3.26500 3.90090 4.27118 3.79500 3.62327 3.22221 2.99294 1.74331 4.95541 3.75935 305 i - - -\n- 2.68575 4.42358 2.77696 2.73171 3.46258 2.40434 3.72542 3.28829 2.67781 2.69105 4.24649 2.90441 2.73944 3.18216 2.89894 2.37878 2.77534 2.98477 4.58650 3.61659\n- 0.59724 0.79924 * 3.30314 0.03746 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiU__AbiU.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiU__AbiU.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1718 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiU__AbiU\n-LENG 565\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 29 16:11:16 2022\n-NSEQ 100\n-EFFN 0.869751\n-GA 60 60;\n-CKSUM 2457466598\n-STATS LOCAL MSV -12.0252 0.69747\n-STATS LOCAL VITERBI -12.8975 0.69747\n-STATS LOCAL FORWARD -6.1758 0.69747\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63194 4.53762 2.89566 2.60794 3.20003 3.12855 3.78387 2.70250 2.60608 2.43780 3.71098 2.90666 3.61996 3.00673 2.95197 2.65925 2.85419 2.64823 4.76625 3.25850\n- 2.68609 4.42237 2.77527 2.73134 3.46366 2.40521 3.72506 3.29359 2.67713 2.69367 4.24423 2.90351 2.73749 3.18155 2.89809 2.37888 2.77518 2.98526 4.58489 3.61515\n- 0.42249 1.38702 2.35631 0.98458 0.46776 0.00000 *\n- 1 2.58916 4.54694 3.13369 2.60560 3.73424 3.39550 3.68088 3.06814 2.22883 2.67168 2.55731 2.98175 3.85714 2.74537 2.86511 2.70092 2.75922 2.78662 5.08570 3.81021 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02689 4.02540 4.74775 0.61958 0.77255 0.46338 0.99196\n- 2 2.55690 4.34903 3.38963 2.82619 3.50611 3.52859 3.78768 2.84295 2.73249 2.22135 2.69991 3.19057 3.67181 3.08968 2.98912 2.27298 2.71684 2.63172 4.93395 3.69223 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02504 4.09579 4.81813 0.61958 0.77255 0.50910 0.91889\n- 3 2.63538 4.97534 2.60781 2.35346 4.28244 3.38121 3.61815 3.72610 2.10209 3.27375 4.06123 2.73576 3.80375 2.74561 2.73766 2.37878 2.18927 3.35246 5.46239 4.09393 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02504 4.09579 4.81813 0.61958 0.77255 0.50910 0.91889\n- 4 2.92550 4.91927 2.85784 2.76894 4.31977 3.34750 4.12571 4.08483 3.05186 3.70762 4.66600 0.81593 4.01287 3.40372 3.40998 2.98719 3.31770 3.68397 5.60015 4.25585 9 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02504 4.09579 4.81813 0.61958 0.77255 0.50910 0.91889\n- 5 2.52457 5.03289 2.18239 2.30731 4.45312 3.21901 3.70737 3.91717 2.55812 3.45805 4.25155 2.00803 3.81253 2.84719 3.06418 2.21463 2.75546 3.50395 5.64142 4.24167 10 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02504 4.09579 4.81813 0.61958 0.77255 0.50910 0.91889\n- 6 3.07900 5.05898 3.07111 2.83557 4.25629 3.52699 3.99367 3.92760 2.64210 3.40693 4.43446 3.29504 4.08744 0.88333 2.91926 3.12006 3.37859 3.64507 5.49097 4.20225 11 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02504 4.09579 4.81813 0.61958 0.77255 0.50910 0.91889\n- 7 2.67662 4.18840 3.97632 3.40494 3.30994 3.76587 4.08178 1.63085 3.18593 2.05356 3.27581 3.68258 4.1368'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02466 4.11061 4.83296 0.61958 0.77255 0.49230 0.94474\n- 558 2.55702 4.82348 2.73821 2.27685 4.07075 3.41616 3.61740 3.23319 2.17378 2.73907 3.55445 2.87328 3.74052 2.68816 2.82082 2.59212 2.64750 3.06108 5.31925 3.97764 603 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02466 4.11061 4.83296 0.61958 0.77255 0.49230 0.94474\n- 559 2.54998 4.18918 3.53212 2.85786 3.02935 3.61079 3.88400 2.37984 3.02130 1.85812 3.03468 3.25171 3.98592 3.29958 3.31818 2.82446 2.78358 2.39806 4.78895 3.57393 604 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04779 4.11061 3.49776 0.61958 0.77255 0.49230 0.94474\n- 560 2.58918 4.90787 2.60066 2.26714 3.55209 3.08646 3.52170 3.45014 2.28002 3.07578 3.90033 2.65060 3.73951 2.71770 2.58087 2.56612 2.82043 3.25970 5.38528 3.91692 605 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04037 4.08806 3.78134 0.61958 0.77255 0.51765 0.90614\n- 561 2.51535 4.55423 3.04127 2.32965 3.51866 3.38675 3.68633 2.82018 2.45853 2.47265 3.64233 3.06612 3.85047 2.86840 2.94911 2.51754 2.66760 2.74913 5.09791 3.81250 606 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15508 4.07330 2.06646 0.61958 0.77255 0.53360 0.88308\n- 562 2.47903 4.45598 2.91427 2.36937 3.56103 3.41877 3.55848 2.99319 2.38343 2.75850 3.60655 2.95185 3.63211 2.80619 2.90079 2.54915 2.65484 2.77091 5.12413 3.76732 607 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08122 3.94732 2.83526 0.61958 0.77255 0.65223 0.73581\n- 563 2.46466 4.40906 3.20333 2.53625 3.31772 3.31361 3.64162 2.69158 2.40144 2.59474 3.50403 3.10132 3.69445 2.89389 3.00530 2.65105 2.74708 2.58456 4.96808 3.53153 608 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04813 3.89673 3.62363 0.61958 0.77255 0.69250 0.69379\n- 564 2.46955 4.77735 2.83406 2.35314 4.03125 3.21305 3.50612 3.45082 2.26717 2.91918 3.85705 2.75957 3.30202 2.66914 2.78464 2.46423 2.69464 3.07139 5.28040 3.94224 609 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08219 3.87977 2.84301 0.61958 0.77255 0.70522 0.68122\n- 565 2.48933 4.41307 3.04762 2.61004 3.14737 3.42351 3.67005 2.93863 2.50572 2.51663 3.51823 3.01492 3.55335 2.91420 2.96276 2.49593 2.66976 2.64082 4.97929 3.71053 610 a - - -\n- 2.68606 4.42239 2.77529 2.73111 3.46368 2.40521 3.72505 3.29330 2.67736 2.69348 4.24694 2.90333 2.73751 3.18147 2.89810 2.37888 2.77519 2.98518 4.58491 3.61511\n- 0.32196 1.29000 * 1.25911 0.33394 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiV__AbiV.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiV__AbiV.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,626 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiV__AbiV\n-LENG 201\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 30 15:22:09 2022\n-NSEQ 100\n-EFFN 1.223755\n-CKSUM 179552083\n-GA 20 20;\n-STATS LOCAL MSV -10.3331 0.70527\n-STATS LOCAL VITERBI -11.0364 0.70527\n-STATS LOCAL FORWARD -4.7643 0.70527\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51924 4.48002 2.88554 2.58367 3.21213 3.11546 3.55139 2.74302 2.60708 2.39521 3.55392 3.02994 3.68524 3.10135 3.00471 2.57697 2.81963 2.70559 5.08038 3.54087\n- 2.68620 4.42204 2.77522 2.73126 3.46346 2.40515 3.72495 3.29359 2.67746 2.69352 4.24657 2.90349 2.73738 3.18148 2.89793 2.37889 2.77521 2.98512 4.58482 3.61504\n- 0.11039 3.22504 2.73703 1.32379 0.30942 0.00000 *\n- 1 3.25499 4.70078 4.65088 4.14020 3.25085 4.34581 4.76003 2.28180 3.89391 1.69022 1.09735 4.38858 4.67778 4.17599 4.06539 3.72532 3.52236 2.34680 5.24568 4.07003 29 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17665 4.24495 1.91330 0.61958 0.77255 0.56449 0.84084\n- 2 2.46471 4.66637 2.81913 2.46069 3.64031 3.37532 3.61250 3.08070 2.47219 2.91443 3.75012 2.89276 3.53484 2.83664 2.94183 2.33804 2.55827 2.67345 5.19487 3.88626 30 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09339 4.81574 0.61958 0.77255 0.70274 0.68364\n- 3 2.59105 4.82684 2.42559 2.30388 4.07520 3.41323 3.61504 3.16682 2.27439 2.97897 3.72196 2.63791 3.80410 2.75760 2.87128 2.61553 2.73213 2.93268 4.84711 3.97886 31 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16556 4.10462 1.99447 0.61958 0.77255 0.66681 0.72020\n- 4 2.56997 4.77880 2.61020 2.22149 3.32340 3.39213 3.40175 3.43704 2.32211 3.03790 3.59249 2.87405 3.78567 2.74919 2.86335 2.41883 2.80173 3.02131 5.27852 3.88107 32 e - - -\n- 2.68619 4.42241 2.77531 2.73126 3.46337 2.40510 3.72503 3.29352 2.67746 2.69354 4.24705 2.90330 2.73748 3.18152 2.89802 2.37862 2.77535 2.98523 4.58493 3.61494\n- 0.46950 1.02064 4.24599 1.02219 0.44598 0.61972 0.77240\n- 5 2.48032 5.01464 2.59250 2.32592 4.32155 3.12169 3.58074 3.78010 2.07177 3.30311 3.62093 2.70953 3.61663 2.46022 2.75717 2.47984 2.83663 3.38520 5.47121 4.08591 51 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02481 4.10471 4.82705 0.61958 0.77255 0.70413 0.68228\n- 6 2.61895 5.02710 2.34424 2.23745 4.32932 3.37791 3.59268 3.74774 2.29702 3.06920 4.08325 2.55620 3.60389 2.59720 2.84418 2.43859 2.58487 3.35996 5.48612 4.09816 52 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02469 4.10954 4.83188 0.61958 0.77255 0.46039 0.99705\n- 7 2.43541 4.14480 2.79959 2.27863 3.51340 3.47588 3.54385 2.90390 2.32155 2.97671 3.64388 2.74247 3.86421 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 4.30492 3.89503 0.61958 0.77255 0.48576 0.95510\n- 194 2.83215 5.36333 2.17804 1.47509 4.67878 3.30097 3.73344 4.17291 2.36963 3.65575 4.43123 2.85557 3.89140 2.64598 3.09176 2.32331 3.08159 3.74169 5.79991 4.35687 250 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02055 4.29104 5.01338 0.61958 0.77255 0.50498 0.92513\n- 195 2.55313 5.00347 2.95767 2.23525 4.29333 3.44100 3.38345 3.35892 2.05195 3.15136 4.05974 2.87848 3.83240 2.46135 2.61560 2.47718 2.71079 3.11366 5.46918 4.00753 251 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02055 4.29104 5.01338 0.61958 0.77255 0.50498 0.92513\n- 196 2.67938 4.19263 4.48737 3.90385 3.28436 3.98218 4.32656 1.42155 3.75219 2.07516 3.24972 4.04158 4.33004 3.94828 3.87489 3.25935 2.96696 1.70140 3.97007 3.71032 252 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03306 4.29104 3.97256 0.61958 0.77255 0.50498 0.92513\n- 197 2.05003 4.60956 3.03516 2.41157 4.12471 3.46708 3.66466 3.54355 2.01041 2.93825 3.94351 2.96599 3.85826 2.77024 2.68059 2.52604 2.71334 3.14941 5.36590 4.02999 253 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27878 5.00113 0.61958 0.77255 0.52142 0.90061\n- 198 2.71232 5.21341 2.55623 2.09380 4.54337 3.40854 3.28206 4.02644 2.11504 3.51004 4.26423 2.11783 3.84066 2.53960 2.90927 2.40098 2.94895 3.59715 5.64766 4.23221 254 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27878 5.00113 0.61958 0.77255 0.52142 0.90061\n- 199 2.51258 5.03561 2.37318 2.34841 4.33467 3.42752 3.57052 3.78913 2.30774 3.16795 3.87044 2.87018 3.82485 2.53093 2.86826 2.12176 2.56987 3.40169 5.49772 4.11616 255 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25476 4.27878 1.55572 0.61958 0.77255 0.52142 0.90061\n- 200 2.58174 4.40917 3.29782 2.73866 3.13899 3.51120 3.73655 2.81141 2.35345 2.62625 3.50801 3.18124 3.67220 2.95793 3.06521 2.52722 2.81340 2.69547 4.93426 2.57743 256 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12361 4.05024 2.31407 0.61958 0.77255 0.76065 0.62992\n- 201 2.48506 4.20202 3.61983 2.94234 3.32416 3.59609 3.88148 2.35333 2.96713 2.15938 2.48203 3.41099 3.97615 3.26945 3.27121 2.62463 2.77857 2.35224 4.82382 3.60753 257 l - - -\n- 2.68650 4.42258 2.77495 2.73128 3.46353 2.40534 3.72528 3.29355 2.67660 2.69345 4.24714 2.90326 2.73767 3.18142 2.89792 2.37891 2.77529 2.98517 4.58510 3.61517\n- 0.55398 0.85486 * 1.59427 0.22697 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiZ__AbiZ.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/AbiZ__AbiZ.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1304 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AbiZ__AbiZ\n-LENG 427\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 30 15:22:03 2022\n-NSEQ 100\n-EFFN 2.517700\n-CKSUM 2039060291\n-GA 20 20;\n-STATS LOCAL MSV -11.5793 0.69886\n-STATS LOCAL VITERBI -12.4582 0.69886\n-STATS LOCAL FORWARD -5.5296 0.69886\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64723 4.73874 3.02030 2.53818 3.19296 3.36208 3.76588 2.62186 2.50383 2.37825 3.67737 2.92099 3.71064 2.98680 3.08968 2.56327 2.81861 2.76493 4.56829 3.29954\n- 2.68693 4.42239 2.77539 2.72988 3.46337 2.40644 3.72643 3.28980 2.67591 2.69297 4.24126 2.90284 2.73837 3.18230 2.89931 2.37958 2.77581 2.98593 4.58536 3.61326\n- 0.54996 1.28001 1.93108 2.82780 0.06096 0.00000 *\n- 1 2.67816 4.35700 3.60054 3.19594 3.48859 3.73636 4.01816 2.60718 3.13001 2.56542 1.74872 3.55143 2.67651 3.41496 3.32177 2.82608 2.81040 2.37592 4.95942 3.74149 119 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17571 4.57529 1.89155 0.61958 0.77255 0.74410 0.64466\n- 2 2.67564 5.12242 2.59818 2.17179 4.44173 2.88123 3.64863 3.90981 2.10424 3.41661 3.44082 2.79627 3.85122 2.75423 2.75809 2.25176 2.77799 3.21451 5.57087 4.17605 120 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01808 4.41767 5.14001 0.61958 0.77255 0.41916 1.07178\n- 3 2.63944 4.54822 3.23674 2.94221 2.71037 3.69418 3.93600 2.94233 2.76503 2.38165 2.59704 2.97590 3.24552 3.04889 3.04614 2.67640 2.77822 2.82935 5.11888 2.96499 121 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01430 4.65056 5.37290 0.61958 0.77255 0.62608 0.76504\n- 4 2.60026 5.09079 2.89665 2.51648 4.37358 3.55141 3.74768 3.28648 1.99032 3.36903 4.15063 2.80584 3.94445 2.56353 2.98608 2.75016 1.81743 3.17026 5.56412 4.19678 122 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01430 4.65056 5.37290 0.61958 0.77255 0.62608 0.76504\n- 5 2.79528 5.18776 3.07329 2.41288 4.50162 3.57056 3.74911 3.50799 1.37513 3.47142 4.24247 2.51453 3.96415 2.66926 2.90774 2.61715 3.02323 3.13721 5.63273 4.26244 123 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01430 4.65056 5.37290 0.61958 0.77255 0.62608 0.76504\n- 6 2.20680 4.88497 3.19066 2.63189 4.10778 3.54207 3.80195 2.92900 2.20163 2.78121 3.82630 3.14265 3.98270 2.50152 3.07098 2.12571 2.49610 3.20779 5.40063 4.08062 124 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01430 4.65056 5.37290 0.61958 0.77255 0.62608 0.76504\n- 7 2.80207 5.22224 2.99938 1.96167 4.53766 2.57695 3.75980 3.99719 2.41416 2.99034 4.27864 3.03607 3.9618'..b'.68620 4.42227 2.77522 2.73125 3.46312 2.40515 3.72496 3.29356 2.67743 2.69345 4.24692 2.90349 2.73742 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.07968 2.62347 5.51184 0.30742 1.32932 0.48576 0.95510\n- 420 1.71713 5.19517 3.11712 2.57364 4.54263 3.29380 3.81424 3.99782 1.83508 3.52392 4.29169 3.10603 4.00248 2.48351 3.02427 2.24446 2.87452 3.53535 5.69188 4.31556 605 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.78949 5.51184 0.61958 0.77255 0.48576 0.95510\n- 421 2.70290 4.32723 4.77648 4.18073 3.42538 4.13835 4.48269 1.44893 4.00715 1.78652 2.90761 4.24922 4.48933 3.90417 4.07576 3.45039 2.47343 1.87011 5.00862 3.83177 606 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.78949 5.51184 0.61958 0.77255 0.48576 0.95510\n- 422 3.12525 4.97459 5.55822 4.97710 2.70790 4.98711 5.28952 2.00234 4.82595 0.63046 3.24500 5.11570 5.15532 4.81738 4.83035 4.34204 3.91183 2.67907 5.49277 4.42985 607 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.78949 5.51184 0.61958 0.77255 0.48576 0.95510\n- 423 2.14897 4.70893 3.43903 2.87858 3.42979 3.70580 3.94549 3.26490 2.85462 2.49424 3.80944 2.89486 4.09532 2.96086 3.26766 1.66583 2.64354 2.75128 5.27163 4.00055 608 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.78949 5.51184 0.61958 0.77255 0.48576 0.95510\n- 424 2.55073 5.20844 3.22092 2.64719 4.52277 3.66493 3.82635 3.58540 1.35758 3.24406 4.27638 3.16716 4.05367 2.94774 2.45304 2.10119 3.10719 3.58506 5.65948 4.31646 609 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09545 4.78949 2.49226 0.61958 0.77255 0.48576 0.95510\n- 425 2.75792 4.94685 3.16626 2.60711 4.18289 3.59090 3.79313 3.34032 2.20544 2.59630 3.64532 1.94930 3.98017 2.79036 2.71756 2.61802 2.84436 2.78461 5.45026 4.11896 610 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05088 4.67192 3.21252 0.61958 0.77255 0.65107 0.73707\n- 426 2.48996 4.76219 3.28895 2.72714 3.95660 3.30573 3.84154 2.33992 2.03777 2.34267 3.84876 3.03111 4.01322 3.04132 2.73781 2.46073 2.98164 3.06901 5.29827 4.00744 611 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16872 4.63555 1.92723 0.61958 0.77255 0.71074 0.67586\n- 427 2.82978 5.18925 3.00485 2.52314 4.57521 3.14307 3.73031 4.01489 1.33807 3.51121 4.29864 2.53101 3.95712 2.85039 2.63810 2.45685 3.06265 3.61985 5.64276 4.30167 612 k - - -\n- 2.68613 4.42233 2.77517 2.73131 3.46362 2.40501 3.72502 3.29351 2.67713 2.69363 4.24697 2.90348 2.73747 3.18154 2.89805 2.37888 2.77527 2.98526 4.58485 3.61486\n- 0.23752 1.55390 * 0.57546 0.82656 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Aditi__DitA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Aditi__DitA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1481 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Aditi__DitA\n-LENG 486\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 22 16:55:02 2021\n-NSEQ 95\n-EFFN 1.336517\n-CKSUM 4256914544\n-GA 300 300;\n-STATS LOCAL MSV -11.7642 0.69817\n-STATS LOCAL VITERBI -12.7823 0.69817\n-STATS LOCAL FORWARD -6.0734 0.69817\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70475 4.28390 2.97696 2.56988 3.21446 3.19736 3.58628 2.69456 2.60436 2.39932 3.48566 3.05513 3.63202 3.07753 2.96830 2.65770 2.90304 2.68121 4.33962 3.15547\n- 2.68629 4.42236 2.77520 2.73128 3.46353 2.40512 3.72505 3.29365 2.67725 2.69349 4.24456 2.90342 2.73750 3.18157 2.89802 2.37890 2.77530 2.98529 4.58488 3.61514\n- 0.61857 1.45778 1.47607 0.80392 0.59343 0.00000 *\n- 1 2.49897 4.54199 3.16684 2.54048 3.72525 3.47512 3.40635 3.10629 2.55702 2.77419 2.74910 2.57545 3.86334 2.91568 2.78675 2.70387 2.82036 2.50705 5.08672 3.80871 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02569 4.07026 4.79261 0.61958 0.77255 0.45522 1.00596\n- 2 2.62771 4.89287 2.79642 2.22428 3.70812 3.31005 3.64407 3.57775 2.36012 3.15952 2.67902 2.63266 3.54525 2.78077 2.70636 2.55184 2.85906 3.23521 5.38212 3.82823 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02139 4.25111 4.97346 0.61958 0.77255 0.57844 0.82274\n- 3 2.63698 4.59258 3.22276 2.65921 2.56281 3.52674 3.23973 3.15785 2.11819 2.73992 3.68185 3.05433 3.75169 2.96006 2.83574 2.75032 2.75358 2.89339 5.11626 3.21510 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02139 4.25111 4.97346 0.61958 0.77255 0.57844 0.82274\n- 4 2.61075 4.53434 3.04623 2.71105 3.48581 3.49293 3.79339 2.62579 2.70029 2.81171 3.67976 3.17049 3.56167 3.02787 3.11315 1.69945 2.76963 2.85140 5.13978 3.86429 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02139 4.25111 4.97346 0.61958 0.77255 0.57844 0.82274\n- 5 2.76316 5.16163 2.65013 2.24248 4.49338 3.24726 3.68540 3.94550 1.43119 3.45985 4.24624 2.92222 3.87986 2.80991 2.85660 2.61321 2.76584 3.55249 5.61688 4.23942 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02139 4.25111 4.97346 0.61958 0.77255 0.57844 0.82274\n- 6 3.54143 4.86616 5.03929 4.54283 3.18180 4.73503 5.06073 2.15105 4.31230 0.64789 3.01633 4.79384 4.93874 4.48343 4.42136 4.15024 3.78151 2.40854 5.30894 4.16861 10 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02139 4.25111 4.97346 0.61958 0.77255 0.57844 0.82274\n- 7 2.79485 5.14098 2.73120 2.12664 4.48613 3.42453 3.73228 3.93327 2.15854 3.46719 4.27137 2.7789'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02006 4.31506 5.03741 0.61958 0.77255 0.51740 0.90651\n- 479 2.49495 4.34562 3.52848 2.95988 3.48121 3.43477 3.87148 2.40770 2.70997 2.08935 3.21998 3.14254 3.99667 3.21068 2.70360 2.86394 2.62489 2.52371 4.92859 3.39582 516 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03555 4.31506 3.83693 0.61958 0.77255 0.51740 0.90651\n- 480 2.53007 5.04889 2.50725 2.21830 4.35254 3.29864 3.34983 3.65875 2.21290 3.05413 4.10104 2.57067 3.82484 2.73679 2.86358 2.47499 2.73433 2.98845 5.50713 4.12237 517 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05837 4.29988 3.14357 0.61958 0.77255 0.53794 0.87695\n- 481 2.67225 5.02994 2.88655 1.87499 3.56840 2.46306 3.64761 3.76683 2.22470 3.31061 4.09336 2.71935 3.84256 2.77122 2.76454 2.66164 2.90545 3.39273 5.49622 4.12365 518 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21158 4.26265 1.73381 0.61958 0.77255 0.58535 0.81398\n- 482 2.66210 4.13323 4.08658 3.50488 3.16545 3.77568 4.06806 2.10489 3.38175 2.02405 2.97415 3.73511 4.13175 3.61392 3.41060 3.06461 2.89427 1.78675 4.74259 2.68954 519 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07660 4.79894 0.61958 0.77255 0.77374 0.61857\n- 483 2.50066 4.76140 2.89780 2.30393 3.58733 3.28139 3.32527 2.86170 2.33807 3.01673 3.83418 2.75795 3.80831 2.66813 2.79855 2.62411 2.70518 3.01497 5.26804 3.93847 520 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07660 4.79894 0.61958 0.77255 0.77374 0.61857\n- 484 2.53678 5.00792 2.61935 2.18613 4.30783 3.23975 3.28854 3.76456 2.11545 3.29294 4.06284 2.46437 3.77853 2.69748 2.82488 2.58880 2.83974 3.16677 5.46621 3.63365 521 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07660 4.79894 0.61958 0.77255 0.77374 0.61857\n- 485 2.57914 4.43544 3.26892 2.70578 2.96642 3.50405 3.47445 2.96957 2.55178 2.51664 3.53116 2.78427 3.88708 2.99535 2.82492 2.59215 2.81031 2.58171 4.98059 3.06914 522 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07660 4.79894 0.61958 0.77255 0.51178 0.91487\n- 486 2.79065 5.30761 1.79643 1.86986 4.62205 2.76072 3.70194 4.11212 2.28881 3.60128 4.37585 2.67173 3.86172 2.82526 3.05570 2.72820 3.03905 3.44542 5.74966 4.31188 523 d - - -\n- 2.68652 4.42035 2.77494 2.73111 3.46337 2.40529 3.72514 3.29341 2.67706 2.69346 4.24692 2.90338 2.73748 3.18180 2.89796 2.37898 2.77532 2.98525 4.58511 3.61524\n- 0.66573 0.72134 * 1.29008 0.32193 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Aditi__DitB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Aditi__DitB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1106 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Aditi__DitB\n-LENG 361\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 22 16:55:11 2021\n-NSEQ 95\n-EFFN 3.365936\n-CKSUM 378883160\n-GA 150 150;\n-STATS LOCAL MSV -11.1620 0.69991\n-STATS LOCAL VITERBI -12.0757 0.69991\n-STATS LOCAL FORWARD -6.0268 0.69991\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74421 4.37548 2.91271 2.59291 2.92885 3.40656 3.79700 2.53554 2.59041 2.30795 3.54928 2.93788 3.61998 3.08693 3.11417 2.71759 2.92571 2.74229 4.80879 3.20748\n- 2.68675 4.42282 2.77576 2.73180 3.46330 2.40570 3.72551 3.29140 2.67709 2.69265 4.23993 2.90403 2.73796 3.18022 2.89858 2.37944 2.77536 2.98476 4.58534 3.61467\n- 1.35694 0.96579 1.01646 1.24463 0.33974 0.00000 *\n- 1 2.71998 5.10631 3.01356 2.22975 4.40402 3.03424 3.70423 3.30758 2.16234 3.39055 3.10990 2.10312 3.90425 2.61886 2.93847 2.45249 2.95111 3.47137 5.56792 4.18890 18 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01575 4.55462 5.27697 0.61958 0.77255 0.94342 0.49314\n- 2 2.75429 3.67785 3.18508 2.28078 3.54019 3.26156 3.80379 3.54250 2.17426 2.83384 2.83341 2.61689 3.98569 2.70691 3.07549 2.52683 2.80346 3.23244 5.41985 3.55036 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01395 4.67484 5.39719 0.61958 0.77255 0.69117 0.69512\n- 3 2.80293 5.24604 2.77393 2.52282 4.56392 2.89921 3.43777 3.47632 2.11216 3.08774 3.10312 2.02713 3.98014 2.71872 2.85724 2.45486 3.03408 3.62200 5.69524 4.30151 20 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01215 4.81212 5.53446 0.61958 0.77255 0.80262 0.59448\n- 4 2.39313 4.24660 4.55808 3.95773 2.64741 3.97260 4.29288 2.08452 2.95357 2.01575 2.35531 4.05342 4.33867 3.34135 3.88314 3.27291 2.81648 2.11836 4.86438 3.10606 21 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01180 4.84118 5.56353 0.61958 0.77255 0.39375 1.12247\n- 5 2.70163 4.47484 4.04491 2.60579 3.59155 3.02245 4.21598 2.47850 3.07379 1.45828 2.40837 3.79144 4.31195 3.66036 3.67008 2.93168 3.12553 2.59224 5.07470 3.86541 22 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01020 4.98635 5.70869 0.61958 0.77255 0.48259 0.96021\n- 6 2.89066 4.82551 3.14057 2.31755 3.50425 3.79244 4.01870 3.08516 2.51085 1.52408 2.82852 3.12712 4.17750 3.24632 3.33507 2.80096 2.80595 3.12097 5.37594 4.09939 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00999 5.00674 5.72908 0.61958 0.77255 0.51762 0.90619\n- 7 2.70231 5.38847 2.10200 2.23741 4.73198 3.65358 3.84191 3.21843 1.93363 3.69302 4.42967 2.32026'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01035 4.97212 5.69446 0.61958 0.77255 0.48576 0.95510\n- 354 2.98322 3.65015 4.93990 4.32870 2.14441 4.16540 4.50234 1.74564 3.60455 1.63394 2.61642 4.32440 4.51837 4.24748 4.13229 3.47944 3.21517 2.00280 4.98313 3.81368 394 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01035 4.97212 5.69446 0.61958 0.77255 0.48576 0.95510\n- 355 2.55574 4.14668 2.73100 2.19800 4.69539 3.64064 2.75669 3.72999 1.93713 3.26940 4.40011 2.71964 4.03394 2.53594 3.05753 2.38397 2.74696 3.45741 5.79458 4.38803 395 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03194 4.97212 3.70886 0.61958 0.77255 0.48576 0.95510\n- 356 2.72511 3.28941 3.22113 3.02266 2.79160 3.48353 4.04111 2.85724 1.96554 2.16187 3.36286 3.10892 4.18611 3.06253 3.38592 2.70575 2.64808 2.98719 5.26854 4.01232 396 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01057 4.95075 5.67310 0.61958 0.77255 0.54212 0.87111\n- 357 2.90976 4.31722 4.66659 4.06446 2.18775 4.05717 4.37859 2.35467 3.14850 1.27647 3.03175 4.14839 4.41938 4.05962 3.27980 3.35972 2.90633 2.34588 4.93370 3.75554 397 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03566 4.95075 3.57725 0.61958 0.77255 0.54212 0.87111\n- 358 2.64189 4.56990 3.75950 2.85322 3.70480 3.84608 4.10074 2.02483 2.36634 2.14245 3.67373 3.26377 3.75771 3.44207 3.23050 3.09240 3.09329 2.49899 5.15322 2.35882 398 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.36740 4.92593 1.20327 0.61958 0.77255 0.60246 0.79289\n- 359 2.22887 5.07924 2.77155 2.15450 4.36639 3.51935 3.71384 3.81342 2.47643 2.97153 3.37619 2.36178 3.43801 2.63276 2.95707 2.71424 2.65281 3.20392 5.04068 4.17527 399 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01545 4.57398 5.29632 0.61958 0.77255 0.58800 0.81066\n- 360 2.62648 5.26242 2.61956 2.21948 3.98104 3.06657 3.76262 3.63516 1.79558 3.56038 3.70644 2.52807 3.96676 2.67431 2.99407 2.56355 3.02454 3.37103 5.70549 3.64844 400 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31628 4.78842 1.33628 0.61958 0.77255 0.70987 0.67670\n- 361 2.71945 4.21181 4.12239 3.53777 2.48661 3.81134 3.05960 1.99125 2.54179 2.05402 2.84846 3.76760 4.18060 3.65402 3.62136 3.09394 2.95124 2.46350 4.80756 3.25878 401 i - - -\n- 2.68637 4.42121 2.77484 2.73084 3.46272 2.40558 3.72581 3.29230 2.67790 2.69365 4.24705 2.90269 2.73717 3.18188 2.89873 2.37885 2.77546 2.98453 4.58563 3.61589\n- 0.70036 0.68599 * 1.82016 0.17674 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_III__Avs3A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_III__Avs3A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,6299 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_III__Avs3A\n-LENG 2092\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:32 2021\n-NSEQ 100\n-EFFN 0.509644\n-CKSUM 24548321\n-GA 20 20;\n-STATS LOCAL MSV -13.7387 0.69431\n-STATS LOCAL VITERBI -15.0043 0.69431\n-STATS LOCAL FORWARD -7.9320 0.69431\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47763 4.26751 2.86914 2.66945 3.32080 2.98673 3.72612 2.77341 2.74857 2.36217 3.72376 3.11327 3.38100 3.14896 2.86681 2.59885 2.89075 2.67444 4.38038 3.47668\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05733 3.87900 3.35111 0.61958 0.77255 0.00000 *\n- 1 2.95468 4.50649 4.02935 3.62155 3.19990 3.82007 4.36105 2.37364 3.39059 1.79755 1.41443 3.90131 4.28071 3.77379 3.59808 3.30175 3.25969 2.37753 5.03812 3.79815 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05216 3.85367 3.51939 0.61958 0.77255 0.50849 0.91981\n- 2 2.29723 4.21677 3.17417 2.98881 4.03847 2.94741 4.09941 3.55619 3.05997 3.27963 4.20937 3.21931 3.68319 3.41243 3.34675 1.15032 2.77461 3.09970 5.41417 4.12195 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03265 3.83416 4.55651 0.61958 0.77255 0.52527 0.89500\n- 3 2.94949 5.07012 0.97459 2.31318 4.44226 3.18257 3.89892 4.02194 2.97605 3.63740 4.61528 2.86736 3.83273 3.13845 3.48655 2.91662 3.28747 3.66543 5.61826 4.32229 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03265 3.83416 4.55651 0.61958 0.77255 0.52527 0.89500\n- 4 2.29723 4.21677 3.17417 2.98881 4.03847 2.94741 4.09941 3.55619 3.05997 3.27963 4.20937 3.21931 3.68319 3.41243 3.34675 1.15032 2.77461 3.09970 5.41417 4.12195 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03265 3.83416 4.55651 0.61958 0.77255 0.52527 0.89500\n- 5 3.11289 4.58688 4.12769 3.76802 3.12221 3.93294 4.43579 2.32494 3.53611 0.92387 3.15830 4.04713 4.37533 3.91363 3.71819 3.50027 3.40914 2.35220 4.98694 3.70120 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03265 3.83416 4.55651 0.61958 0.77255 0.52527 0.89500\n- 6 3.11289 4.58688 4.12769 3.76802 3.12221 3.93294 4.43579 2.32494 3.53611 0.92387 3.15830 4.04713 4.37533 3.91363 3.71819 3.50027 3.40914 2.35220 4.98694 3.70120 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03265 3.83416 4.55651 0.61958 0.77255 0.52527 0.89500\n- 7 2.77802 4.33189 4.07176 3.73432 3.52279 3.68360 4.54288 2.05440 3.60150 2.21693 3.49440 3.93012 4.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03181 3.85960 4.58194 0.61958 0.77255 0.50327 0.92774\n- 2085 2.70422 3.05158 3.85233 3.36988 2.70692 3.60023 3.77442 2.74145 3.21244 2.44270 3.48646 3.57240 4.06512 3.50950 3.44251 2.96636 2.99422 2.55485 4.31453 1.65495 2096 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04186 3.85960 3.91586 0.61958 0.77255 0.50327 0.92774\n- 2086 2.69061 4.71615 3.19907 2.67063 4.12942 3.40950 3.64840 3.47272 2.10927 3.08205 3.96234 3.08944 3.86597 2.82127 1.73140 2.76340 2.40767 3.16458 5.29114 4.05294 2097 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03213 3.84986 4.57221 0.61958 0.77255 0.51181 0.91481\n- 2087 2.42940 4.24883 3.47624 2.97224 3.60128 3.37970 3.93194 2.40201 2.88779 2.57026 3.53480 3.15049 3.88648 3.23378 3.22149 2.71133 1.99700 2.20603 5.08259 3.84129 2098 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03213 3.84986 4.57221 0.61958 0.77255 0.51181 0.91481\n- 2088 2.54868 4.38536 3.19821 3.07102 4.28266 0.90587 4.22317 3.85070 3.21855 3.51045 4.45786 3.35583 3.77409 3.56449 3.37248 2.71000 3.01870 3.38423 5.45460 4.36509 2099 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03213 3.84986 4.57221 0.61958 0.77255 0.51181 0.91481\n- 2089 2.86233 5.08997 2.38859 1.24048 4.40606 3.24684 3.74806 3.82802 2.52364 3.44047 4.36440 2.82047 3.83445 2.93798 2.99426 2.82897 3.15087 3.49655 5.60408 4.25187 2100 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03213 3.84986 4.57221 0.61958 0.77255 0.51181 0.91481\n- 2090 2.85915 5.06628 2.76481 2.16012 4.42638 3.40328 3.61743 3.80822 1.44856 3.34392 4.21287 2.93477 3.87606 2.77028 2.42994 2.84147 3.08464 3.47782 5.47001 4.19501 2101 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03213 3.84986 4.57221 0.61958 0.77255 0.51181 0.91481\n- 2091 1.99302 4.15279 3.66986 3.22890 3.72678 3.25057 4.15244 2.50660 3.15685 2.61733 3.63397 3.44850 3.86817 3.47695 3.45294 2.64851 2.23323 1.80207 5.26088 4.04420 2102 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03213 3.84986 4.57221 0.61958 0.77255 0.51181 0.91481\n- 2092 2.21215 4.17742 3.10204 2.89178 4.24113 2.09757 4.07315 3.70605 3.03756 3.38129 4.21767 3.13826 3.62940 3.33544 3.36998 1.46042 2.68996 3.16387 5.56498 4.31717 2103 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89799 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02663 3.63909 * 0.60176 0.79373 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_III__Avs3B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_III__Avs3B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,746 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_III__Avs3B\n-LENG 241\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:32 2021\n-NSEQ 99\n-EFFN 0.558929\n-CKSUM 2258744819\n-GA 34 34;\n-STATS LOCAL MSV -10.4055 0.70325\n-STATS LOCAL VITERBI -11.4651 0.70325\n-STATS LOCAL FORWARD -5.0514 0.70325\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51675 4.43433 2.73928 2.51822 3.40994 3.15114 3.81586 2.79095 2.64434 2.35642 3.75836 3.04901 3.36115 3.08676 2.86423 2.68115 2.91917 2.72595 4.25798 3.61345\n- 2.68617 4.42261 2.77496 2.73150 3.46387 2.40544 3.72490 3.29315 2.67765 2.69343 4.24485 2.90360 2.73772 3.18140 2.89833 2.37798 2.77525 2.98541 4.58513 3.61539\n- 0.39410 1.90101 1.73558 2.45395 0.08987 0.00000 *\n- 1 2.86585 4.43956 3.90064 3.48859 3.15858 3.72840 4.25644 2.32081 3.26220 1.77985 1.67654 3.78179 4.19293 3.65643 3.48295 3.19795 3.17089 2.30915 4.97753 3.72366 33 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03619 3.73273 4.45508 0.61958 0.77255 0.63310 0.75703\n- 2 2.34776 4.19036 3.31280 3.06543 3.85347 3.03233 4.09221 2.96412 3.00551 2.83208 3.89704 3.29365 3.72722 3.40914 3.26744 2.54811 1.43438 2.67443 5.30433 4.07187 34 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03619 3.73273 4.45508 0.61958 0.77255 0.63310 0.75703\n- 3 2.84155 4.90717 2.44765 1.24402 4.23760 3.19038 3.77324 3.66363 2.63661 3.30650 4.29315 2.87131 3.79023 2.99613 3.02578 2.84263 3.14696 3.36446 5.43650 4.16550 35 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03619 3.73273 4.45508 0.61958 0.77255 0.63310 0.75703\n- 4 2.34801 4.28485 3.04534 2.75305 3.84328 3.05103 3.86617 3.25344 2.73157 2.82287 3.90708 3.08992 2.02123 3.13236 3.05351 2.36512 2.74948 2.90526 5.24307 3.92891 36 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03619 3.73273 4.45508 0.61958 0.77255 0.62854 0.76221\n- 5 2.25755 4.17298 3.09642 2.91133 3.94184 2.90575 4.02229 3.44842 2.97531 3.18157 4.12356 3.15485 3.63442 3.33702 3.26186 1.31757 2.72842 3.01416 5.32680 4.02583 37 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03606 3.73627 4.45861 0.61958 0.77255 0.63068 0.75978\n- 6 2.62808 4.74402 2.65279 2.05980 4.08866 3.26482 3.64256 3.41864 2.28723 3.08379 3.95579 2.86892 3.77394 2.82439 2.77265 2.66746 2.27724 3.10773 5.34521 4.03242 38 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03606 3.73627 4.45861 0.61958 0.77255 0.63068 0.75978\n- 7 2.85995 4.69805 3.33753 2.88525 4.01795 3.36688 3.74191 3.55473 2.20751 3.09612 4.10546 3.25274 3.88'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 234 2.46625 4.44493 3.01465 2.67886 3.96553 3.18439 3.82862 3.35941 2.64305 2.89901 3.92391 3.07677 1.86540 2.93992 2.98898 2.51014 2.72377 3.01765 5.31435 4.02064 268 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 235 2.62102 4.70185 2.71948 1.98408 4.12448 3.25982 3.75827 3.40827 2.57720 3.12485 4.01874 2.94660 3.80909 2.95133 2.97616 2.68307 1.87487 3.09337 5.42335 4.10755 269 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 236 2.74086 5.17197 1.87722 2.12435 4.48570 2.75593 3.64115 3.95438 2.05144 3.48010 4.29311 2.73030 3.77725 2.78728 2.99827 2.68355 3.00187 3.55874 5.65293 4.23269 270 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 237 2.76492 5.12180 1.32324 2.14346 4.57219 2.98705 3.75998 4.08577 2.77576 3.65154 4.50694 2.65275 3.77597 2.94248 3.33321 2.54394 3.09440 3.65487 5.81358 4.35146 271 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 238 2.81322 5.17999 1.25403 2.13800 4.60253 2.86349 3.77388 4.13547 2.80657 3.69610 4.56287 2.60971 3.78871 2.96084 3.37134 2.75262 3.14071 3.70766 5.83072 4.37279 272 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 239 2.58657 5.13340 1.98196 1.84944 4.43344 3.18844 3.63238 3.89240 2.41909 3.43203 4.24066 2.73281 3.76867 2.77672 3.02119 2.66097 2.65475 3.50355 5.61930 4.19957 273 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 240 2.70866 5.06735 1.61678 2.17509 4.47069 2.67795 3.69819 3.83899 2.63381 3.50346 4.33082 2.49757 3.76653 2.86121 3.16463 2.67115 2.93972 3.53758 5.69034 4.26176 274 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 3.88802 4.61036 0.61958 0.77255 0.51080 0.91632\n- 241 2.57298 4.22177 3.20617 2.99398 2.48197 3.57454 3.83929 2.45403 2.90300 2.34774 3.31651 3.31035 3.95889 3.23255 3.26202 2.84206 2.81083 2.10061 4.77940 3.50534 275 v - - -\n- 2.68622 4.42229 2.77496 2.73127 3.46358 2.40517 3.72499 3.29358 2.67733 2.69359 4.24694 2.90334 2.73744 3.18150 2.89805 2.37891 2.77524 2.98506 4.58481 3.61507\n- 0.08474 2.51023 * 1.09834 0.40560 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_II__Avs2A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_II__Avs2A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4475 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_II__Avs2A\n-LENG 1484\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:30 2021\n-NSEQ 100\n-EFFN 0.387573\n-CKSUM 3566152260\n-GA 100 100;\n-STATS LOCAL MSV -13.2428 0.69480\n-STATS LOCAL VITERBI -14.5105 0.69480\n-STATS LOCAL FORWARD -7.4215 0.69480\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63162 4.26986 2.85050 2.63996 3.09171 2.91712 3.76712 2.74988 2.67666 2.39671 3.76973 3.02780 3.44103 3.23184 2.99014 2.65622 2.92942 2.64965 4.29833 3.28846\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.00000 *\n- 1 2.90266 4.46658 3.95524 3.54415 3.17428 3.76777 4.29995 2.34126 3.31621 1.78451 1.55939 3.83193 4.22983 3.70520 3.53152 3.24150 3.20726 2.33649 5.00196 3.75459 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 2 2.88064 4.96635 2.45843 1.15887 4.30224 3.22010 3.80270 3.73856 2.67232 3.37129 4.35201 2.89040 3.82130 3.02204 3.06979 2.87390 3.18515 3.43265 5.49086 4.21607 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 3 2.52754 4.37472 3.17266 2.94635 3.89140 3.11163 4.03060 3.34900 2.93931 2.89119 4.05749 3.26847 1.32931 3.34928 3.22152 2.68793 2.94527 3.03804 5.24580 4.01394 3 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 4 2.96212 4.40895 4.20428 3.81886 3.31715 3.96615 4.56514 1.19530 3.64502 1.92457 3.26957 4.07671 4.40826 4.00407 3.85187 3.45504 3.26393 1.85157 5.18767 3.91645 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 5 2.27579 4.19360 3.13348 2.94768 3.98902 2.92531 4.05876 3.50077 3.01528 3.22890 4.16434 3.18513 3.65733 3.37223 3.30233 1.23318 2.74974 3.05551 5.36926 4.07265 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 6 2.92396 4.38892 4.18153 3.78415 3.33001 3.96027 4.55167 1.24126 3.60871 1.92835 3.26275 4.04285 4.40110 3.97076 3.82474 3.41034 3.18880 1.82659 5.20863 3.93692 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 7 2.16801 4.15239 3.33288 3.05919 3.94002 3.00687 4.10230 2.98505 3.01481 2.89386 3.90356 3.26906 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1477 2.27338 4.19093 3.12873 2.94296 3.98310 2.92277 4.05405 3.49418 3.01012 3.22290 4.15910 3.18120 3.65436 3.36764 3.29715 1.24348 2.74693 3.05027 5.36391 4.06677 1477 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1478 2.89999 4.72968 3.04143 2.79460 3.22443 3.37266 1.35913 3.58781 2.64059 3.09268 4.13046 3.20667 3.92148 3.16042 2.91061 2.97236 3.20130 3.32503 4.69036 3.17856 1478 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1479 2.88925 4.84345 3.05870 2.70171 4.20811 3.38590 3.71405 3.63209 1.17631 3.21946 4.18881 3.12936 3.89527 2.91302 2.42428 2.93912 3.15111 3.34619 5.30406 4.10415 1479 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1480 2.36693 4.21078 3.34879 3.09986 3.88972 3.05227 4.12377 3.00553 3.04090 2.87221 3.93136 3.32255 3.74963 3.44129 3.30242 2.56746 1.34346 2.71073 5.33613 4.10721 1480 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1481 2.30117 4.28474 2.89728 2.69869 4.05681 2.95533 3.91557 3.58663 2.82185 3.26939 4.13592 2.72635 3.65283 3.17380 3.16170 1.48001 2.74039 3.12357 5.40875 4.08149 1481 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1482 3.14178 4.57262 4.10761 3.80657 1.18069 3.84885 3.84238 2.67997 3.71651 2.07349 3.42617 3.91396 4.31163 3.91152 3.85960 3.41503 3.44394 2.66316 4.12432 2.50516 1482 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1483 2.36693 4.21078 3.34879 3.09986 3.88972 3.05227 4.12377 3.00553 3.04090 2.87221 3.93136 3.32255 3.74963 3.44129 3.30242 2.56746 1.34346 2.71073 5.33613 4.10721 1483 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77784 4.50018 0.61958 0.77255 0.49075 0.94718\n- 1484 2.90332 4.74362 3.38479 2.91966 4.07421 3.40579 3.76427 3.61169 2.21203 3.14515 4.15059 3.28526 3.91549 2.99177 1.13391 2.99368 3.17741 3.34044 5.19738 4.02490 1484 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02340 3.76667 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_IV__Avs4A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_IV__Avs4A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4784 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_IV__Avs4A\n-LENG 1587\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:33 2021\n-NSEQ 100\n-EFFN 0.387573\n-CKSUM 858933154\n-GA 60 60;\n-STATS LOCAL MSV -13.2973 0.69468\n-STATS LOCAL VITERBI -14.5728 0.69468\n-STATS LOCAL FORWARD -7.6530 0.69468\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64700 4.24647 2.85440 2.67395 3.10250 3.00376 3.75914 2.70552 2.66082 2.35608 3.72266 3.02727 3.51001 3.20681 2.97918 2.69630 2.93972 2.60455 4.34594 3.27469\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.78384 3.64622 0.61958 0.77255 0.00000 *\n- 1 2.89166 4.45839 3.93911 3.52760 3.16935 3.75623 4.28696 2.33490 3.30018 1.78266 1.59306 3.81703 4.21889 3.69063 3.51713 3.22857 3.19631 2.32814 4.99455 3.74536 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03802 3.64585 4.49102 0.60896 0.78508 0.49826 0.93544\n- 2 2.72668 4.30154 3.97826 3.64164 3.47775 3.61242 4.46235 2.06802 3.50761 2.18561 3.46245 3.84706 4.18117 3.87649 3.72940 3.11216 3.09236 1.16778 5.24336 3.96688 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03489 3.76868 4.49102 0.61958 0.77255 0.49423 0.94171\n- 3 2.88399 4.83725 3.05302 2.69765 4.20048 3.38094 3.71148 3.62415 1.18596 3.21307 4.18309 3.12545 3.89104 2.91107 2.42439 2.93447 3.14650 3.33871 5.29926 4.09857 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77169 4.49404 0.61958 0.77255 0.49581 0.93925\n- 4 2.62808 4.39864 3.22497 3.05209 4.05004 3.09201 4.13544 3.57225 3.10122 3.20909 4.25695 3.36736 1.03847 3.49327 3.35560 2.79318 3.06249 3.22892 5.26160 4.17043 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77169 4.49404 0.61958 0.77255 0.49581 0.93925\n- 5 2.64470 4.63259 2.66250 2.53942 3.98069 3.11999 3.84841 3.67232 2.74533 3.33182 4.29017 1.35031 3.76844 3.12369 3.09419 2.71751 3.02490 3.30481 5.29880 3.93833 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77169 4.49404 0.61958 0.77255 0.49581 0.93925\n- 6 3.17790 4.58687 3.94316 3.62652 2.57697 3.62215 3.78670 3.19988 3.35184 2.61089 3.83812 3.79658 4.13234 3.74508 3.49705 3.38234 3.47393 3.08747 1.11609 2.58489 7 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03479 3.77169 4.49404 0.61958 0.77255 0.49581 0.93925\n- 7 2.85035 4.99466 1.12789 2.24927 4.39328 3.05679 3.82656 3.94751 2.88283 3.57437 4.52311 2.80001 3.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1580 3.12376 4.64867 3.70919 3.42423 2.30504 3.72824 3.58470 3.14574 3.28429 2.62202 3.83080 3.61758 4.20536 3.61170 3.48525 3.26851 3.41071 3.01246 3.94460 1.12716 1581 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1581 2.89282 4.45940 3.98990 3.54860 3.14000 3.82231 4.29914 2.27028 3.31275 1.73184 1.67219 3.83840 4.25921 3.69455 3.53443 3.24229 3.18896 2.28225 4.99850 3.74128 1582 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1582 2.27579 4.19360 3.13348 2.94768 3.98902 2.92531 4.05876 3.50077 3.01528 3.22890 4.16434 3.18513 3.65733 3.37223 3.30233 1.23318 2.74974 3.05551 5.36926 4.07265 1583 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1583 2.90964 4.75011 3.39168 2.92483 4.08223 3.41136 3.76770 3.61988 2.21304 3.15220 4.15718 3.29012 3.92049 2.99462 1.12333 2.99953 3.18313 3.34829 5.20277 4.03132 1584 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1584 2.88064 4.96635 2.45843 1.15887 4.30224 3.22010 3.80270 3.73856 2.67232 3.37129 4.35201 2.89040 3.82130 3.02204 3.06979 2.87390 3.18515 3.43265 5.49086 4.21607 1585 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1585 2.65389 4.64328 2.66720 2.54502 3.99322 3.12749 3.85649 3.68689 2.75409 3.34474 4.30249 1.32552 3.77622 3.13123 3.10387 2.72586 3.03414 3.31812 5.30979 3.94957 1586 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1586 2.96212 4.40895 4.20428 3.81886 3.31715 3.96615 4.56514 1.19530 3.64502 1.92457 3.26957 4.07671 4.40826 4.00407 3.85187 3.45504 3.26393 1.85157 5.18767 3.91645 1587 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78384 4.50619 0.61958 0.77255 0.48576 0.95510\n- 1587 3.03626 4.53676 4.14998 3.70892 3.04233 4.01154 4.38319 2.19293 3.44161 1.08090 2.97384 3.99738 4.39556 3.81909 3.64541 3.43676 3.31486 2.21945 4.96113 3.65895 1588 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02326 3.77274 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_I__Avs1A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_I__Avs1A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1229 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_I__Avs1A\n-LENG 402\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:24 2021\n-NSEQ 100\n-EFFN 1.260376\n-CKSUM 2130501904\n-GA 20 20;\n-STATS LOCAL MSV -11.6842 0.69922\n-STATS LOCAL VITERBI -12.4387 0.69922\n-STATS LOCAL FORWARD -6.0429 0.69922\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64575 4.60552 2.84029 2.57969 3.34000 3.09290 3.48614 2.66166 2.56749 2.43498 3.70939 2.87626 3.58069 3.06983 3.08868 2.56459 2.86817 2.73746 4.65658 3.48712\n- 2.68629 4.42236 2.77525 2.73134 3.46365 2.40524 3.72506 3.29365 2.67711 2.69346 4.24493 2.90351 2.73751 3.18150 2.89812 2.37890 2.77506 2.98513 4.58488 3.61514\n- 0.82947 1.35013 1.18904 0.74831 0.64087 0.00000 *\n- 1 2.57929 4.79207 2.78134 2.33395 4.03650 3.38097 3.22799 3.45597 2.39725 3.05437 3.22820 2.73461 3.78434 2.65743 2.85707 2.23686 2.71142 3.12925 5.29283 3.95434 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02848 3.96863 4.69097 0.61958 0.77255 0.65063 0.73756\n- 2 2.60385 4.95492 2.62831 2.17764 4.23894 3.38662 3.59226 3.68393 2.25535 3.08975 3.23907 2.48268 3.78700 2.64861 2.83694 2.46871 2.73991 3.31259 5.42493 4.05329 6 e - - -\n- 2.68615 4.42198 2.77527 2.73131 3.46362 2.40517 3.72502 3.29353 2.67748 2.69353 4.24641 2.90347 2.73735 3.18146 2.89803 2.37886 2.77501 2.98526 4.58485 3.61496\n- 0.09742 2.46872 4.81189 1.39204 0.28577 0.44113 1.03088\n- 3 3.07830 4.41655 4.84443 4.26485 2.86003 4.32967 4.67647 1.35762 4.12531 1.58817 2.48436 4.41043 4.60391 4.25001 4.21277 3.65743 3.07430 2.03230 5.10098 3.97803 14 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26647 4.98882 0.61958 0.77255 0.56096 0.84550\n- 4 2.58658 4.99299 2.95940 2.29154 4.28167 3.28088 3.62949 3.72493 2.09498 2.76816 4.05091 2.60281 3.83219 2.67192 2.50418 2.51098 2.65502 3.20335 5.45870 4.09230 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26647 4.98882 0.61958 0.77255 0.56096 0.84550\n- 5 3.31130 4.56358 5.17844 4.67156 3.66341 4.77498 5.32983 0.96048 4.56734 1.94352 3.43979 4.86970 5.01255 4.78259 4.72633 4.16892 3.56386 1.42125 5.70821 4.53493 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26647 4.98882 0.61958 0.77255 0.56096 0.84550\n- 6 2.71818 5.19713 2.60305 1.71379 4.52140 3.41100 3.34553 3.99768 1.95642 3.49024 4.25166 2.76796 3.84514 2.76581 2.90272 2.60527 2.67790 3.57828 5.63451 4.22638 17 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26647 4.98882 0.61958 0.77255 0.44145 1.03030\n- 7 2.47498 4.14793 4.15469 3.56960 2.94676 3.79389 4.10308 2.36007 3.44909 2.05169 1.90497 3.42599 4.15'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07309 4.31948 2.86169 0.61958 0.77255 0.49013 0.94815\n- 395 2.64884 5.03971 2.63142 2.20498 4.33659 2.45366 3.63051 3.43226 2.34366 3.32471 4.09610 2.47648 3.59665 2.74707 2.88062 2.63355 2.63414 3.40469 5.50287 3.83861 434 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02104 4.26744 4.98979 0.61958 0.77255 0.55974 0.84713\n- 396 2.55939 4.95740 2.96159 1.97802 3.72274 3.29021 3.45741 3.67245 2.29235 3.08445 4.01732 2.69826 3.82996 2.41395 2.87672 2.50239 2.86507 3.31032 4.19058 4.06934 435 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12756 4.26744 2.24673 0.61958 0.77255 0.55974 0.84713\n- 397 2.61273 4.84669 2.95741 2.35438 4.12532 3.15766 3.64674 3.44042 2.30799 3.13834 3.94390 2.76471 3.12969 2.79044 2.89616 1.98509 2.85213 2.95834 5.36662 4.02364 436 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02338 4.16326 4.88561 0.61958 0.77255 0.55070 0.85931\n- 398 2.61667 4.17302 3.82846 3.24991 3.28687 3.67241 3.95354 1.78601 2.93999 2.20072 3.28297 3.55037 4.04546 3.41837 3.21967 2.81879 2.66990 2.30988 4.77843 3.10666 437 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02188 4.22894 4.95129 0.61958 0.77255 0.60619 0.78839\n- 399 2.61817 4.57488 3.19648 2.45535 3.75629 3.50909 3.73578 2.55423 2.54519 2.80784 3.66612 2.88126 3.89694 2.95528 3.04007 2.19336 2.55657 2.77996 5.12286 3.28682 438 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02188 4.22894 4.95129 0.61958 0.77255 0.41721 1.07553\n- 400 3.34093 4.60196 5.19868 4.66442 3.23324 4.75642 5.20133 0.97987 4.55874 1.70388 3.30605 4.84643 4.97187 4.69839 4.67336 4.12933 3.58090 1.67138 5.52841 4.38451 439 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10007 4.32255 2.50148 0.61958 0.77255 0.48576 0.95510\n- 401 2.63018 4.84792 2.75697 2.24548 4.09096 3.44997 3.39059 3.27174 2.45557 3.10861 3.91847 2.86905 3.84405 2.63596 2.92103 2.53673 2.50545 2.37622 5.34749 4.00799 440 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02155 4.24402 4.96637 0.61958 0.77255 0.58847 0.81008\n- 402 3.37611 4.66476 5.13567 4.56676 2.73752 4.68358 4.99330 1.75302 4.44123 0.93545 2.99464 4.75920 4.85786 4.48585 4.50531 4.03547 3.59706 2.06158 5.24462 4.16022 441 l - - -\n- 2.68631 4.42238 2.77513 2.73070 3.46367 2.40490 3.72491 3.29367 2.67748 2.69368 4.24703 2.90315 2.73753 3.18160 2.89814 2.37897 2.77533 2.98524 4.58490 3.61490\n- 0.31000 1.32218 * 0.94383 0.49288 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_I__Avs1B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_I__Avs1B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5795 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_I__Avs1B\n-LENG 1924\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:26 2021\n-NSEQ 100\n-EFFN 6.130981\n-CKSUM 3098332742\n-GA 100 100;\n-STATS LOCAL MSV -13.5237 0.69442\n-STATS LOCAL VITERBI -14.7604 0.69442\n-STATS LOCAL FORWARD -7.8773 0.69442\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57408 4.40913 2.93352 2.55172 3.29919 3.06169 3.67132 2.75889 2.66556 2.33575 3.80682 2.99673 3.46394 3.02795 2.94974 2.58418 2.88836 2.79398 4.38331 3.42345\n- 2.68663 4.42317 2.77545 2.73125 3.46446 2.40605 3.72587 3.29008 2.67733 2.69400 4.23311 2.90284 2.73818 3.18218 2.89819 2.37916 2.77570 2.98480 4.58569 3.61509\n- 0.93949 0.78668 1.87198 1.29275 0.32091 0.00000 *\n- 1 2.75647 4.48348 4.55913 3.48443 3.58503 3.30983 4.44726 1.93179 3.49323 1.87655 1.71006 2.87200 4.50786 4.04595 3.99410 3.42937 3.25754 2.32056 5.09741 3.90848 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10903 5.23230 2.32321 0.61958 0.77255 0.59669 0.79991\n- 2 2.75904 5.25118 2.67552 2.77034 4.51217 3.78710 3.06020 3.28640 2.55316 2.47244 2.89768 2.82504 3.55659 3.11983 3.23933 2.05005 2.10729 3.59579 5.73779 4.38418 11 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00818 5.20599 5.92833 0.61958 0.77255 0.99136 0.46374\n- 3 2.39217 5.46697 2.27285 1.79857 3.99162 3.06156 3.92963 4.29049 2.66619 3.38266 4.50885 3.21100 2.47605 2.76341 2.71028 2.68310 2.72940 3.85524 5.90233 4.49400 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00818 5.20599 5.92833 0.61958 0.77255 0.61245 0.78094\n- 4 2.75605 5.50817 2.51280 1.85169 4.85069 3.50092 3.96558 3.94065 2.39718 3.31922 3.23006 3.08763 3.67533 2.31645 3.19365 2.03358 2.57485 3.89744 5.94238 4.53296 13 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00756 5.28462 6.00696 0.61958 0.77255 0.66980 0.71706\n- 5 2.66371 5.52494 3.07543 1.52836 4.86807 2.32049 3.97980 4.35257 2.20384 3.82922 4.56636 3.25974 4.18587 2.13350 2.96002 2.98197 2.96684 3.12086 5.95855 4.54884 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00738 5.30790 6.03024 0.61958 0.77255 0.73750 0.65068\n- 6 2.83219 4.54430 4.70272 2.32333 3.65332 4.23693 4.55339 1.48743 3.97194 2.12903 2.95859 3.44346 4.60268 4.17215 4.11113 3.53175 3.02207 1.70893 5.17715 3.98966 15 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00732 5.31607 6.03842 0.61958 0.77255 0.73750 0.65068\n- 7 2.97341 5.60696 3.42364 1.85874 4.97001 3.90599 4.04732 3.31003 1.38138 3.54733 4.65161 3.37729 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05101 5.17774 3.12142 0.61958 0.77255 0.89162 0.52761\n- 1917 2.41467 5.18695 3.31395 2.30353 4.43817 3.76198 3.28349 2.63555 2.15962 2.80279 3.77079 2.82773 2.74533 3.10300 2.72488 2.96228 3.17169 2.50760 5.68024 4.33441 2894 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00878 5.13550 5.85785 0.61958 0.77255 0.98039 0.47027\n- 1918 2.62273 3.78062 4.82115 4.21370 2.97108 4.13185 4.11375 1.90603 3.68745 2.27858 3.07099 4.25451 4.49674 3.63694 2.65176 3.15906 2.66626 1.73669 4.13269 3.01075 2895 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00878 5.13550 5.85785 0.61958 0.77255 0.88846 0.52982\n- 1919 1.74524 4.49038 4.32164 3.73945 3.18520 2.91640 4.35397 2.72639 3.32997 1.89729 3.29775 3.26334 4.43139 3.66740 3.85682 2.80799 2.83622 2.05222 5.09778 3.49921 2896 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03854 5.15368 3.44110 0.61958 0.77255 0.94360 0.49303\n- 1920 2.97366 4.35177 4.91109 4.29779 2.37447 4.14110 4.47345 1.92577 3.83392 1.57856 2.91870 4.29481 4.50415 4.22443 3.58126 3.45148 2.58827 1.87325 4.97364 3.42864 2897 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04431 5.11445 3.28789 0.61958 0.77255 1.00262 0.45716\n- 1921 2.78931 4.35611 4.93393 4.32104 2.64150 4.15740 4.49155 1.77699 4.11116 1.48015 2.85680 4.31505 4.51581 4.24164 4.12422 3.46952 2.53152 2.11325 4.98129 3.13996 2898 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00947 5.05984 5.78218 0.61958 0.77255 1.06549 0.42245\n- 1922 2.91338 5.42625 1.88006 2.37852 4.77087 3.67867 2.75634 4.25755 2.38928 3.73124 4.46758 2.44094 3.43323 2.80693 2.88115 1.99750 3.00736 3.81676 5.85853 4.44612 2899 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03056 5.05984 3.74002 0.61958 0.77255 1.06549 0.42245\n- 1923 2.68202 4.99401 2.53037 2.79913 3.41977 3.22443 3.95767 2.77343 2.29049 2.70226 3.52531 3.04064 4.13482 3.01597 2.52156 2.87688 2.92904 3.08714 5.51560 2.52597 2900 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15276 5.01970 2.00203 0.61958 0.77255 1.00372 0.45652\n- 1924 2.38816 5.18645 2.29609 2.38127 3.18111 3.18489 3.33443 3.93518 2.46204 3.19472 4.24037 3.08643 3.98897 2.63005 2.91999 2.23037 3.03329 3.11213 5.64970 3.29897 2901 s - - -\n- 2.68736 4.42138 2.77458 2.73005 3.46352 2.40591 3.72488 3.29156 2.67721 2.69376 4.24820 2.90352 2.73844 3.18032 2.89751 2.38017 2.77631 2.98401 4.58480 3.61141\n- 0.73033 0.65730 * 1.95316 0.15295 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_I__Avs1C.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_I__Avs1C.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,284 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_I__Avs1C\n-LENG 87\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:28 2021\n-NSEQ 28\n-EFFN 1.199707\n-CKSUM 3809645254\n-GA 20 20;\n-STATS LOCAL MSV -9.2751 0.71842\n-STATS LOCAL VITERBI -10.0719 0.71842\n-STATS LOCAL FORWARD -4.3094 0.71842\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64051 4.58348 2.88255 2.53991 3.27237 3.04939 3.61548 2.95354 2.69244 2.49257 3.39687 2.83167 3.26280 3.06354 2.61921 2.71277 2.79329 2.81918 5.19501 3.65787\n- 2.68621 4.42228 2.77522 2.73126 3.46356 2.40515 3.72497 3.29357 2.67743 2.69358 4.24563 2.90349 2.73728 3.18149 2.89803 2.37889 2.77522 2.98521 4.58480 3.61506\n- 0.36842 2.25436 1.59339 0.50992 0.91765 0.00000 *\n- 1 2.56851 4.37260 3.34936 2.91044 3.62054 3.41557 3.89352 2.98312 2.82635 2.70329 1.78940 2.83786 3.91802 3.20260 3.15021 2.46884 2.86865 2.73276 5.06334 3.79371 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02559 4.07427 4.79661 0.61958 0.77255 0.41991 1.07033\n- 2 2.67360 4.75405 3.15350 2.58500 3.97380 3.51626 3.70124 2.97091 2.06389 2.99304 2.65465 2.36224 3.90177 2.87654 2.63643 2.73985 2.90011 3.07270 5.26182 3.96532 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02131 4.25516 4.97750 0.61958 0.77255 0.45539 1.00567\n- 3 2.95330 4.33379 4.61254 4.04101 1.69900 4.09056 4.20345 2.29980 3.88316 1.78553 2.52885 4.12277 4.40837 4.00460 3.96271 3.40185 3.17976 2.46806 4.59622 2.41933 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 4 2.72346 5.18497 2.28926 1.97092 4.50404 3.25996 3.67404 3.97801 2.29983 3.48376 4.25023 2.88630 3.85310 2.79014 2.96320 2.21373 2.26762 3.56500 5.64067 4.23067 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 5 2.19229 4.60916 3.23636 2.72241 4.14605 3.34330 3.86853 3.55636 2.70205 3.18705 4.00886 3.15648 2.98045 3.05044 2.83316 2.01491 1.88492 3.18350 5.44176 4.14736 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 6 3.11533 4.50404 4.55935 4.03337 2.07100 4.18102 4.03870 2.70961 3.88485 2.10609 1.49876 4.10922 4.49829 4.01228 3.99740 3.49577 3.34170 2.66348 4.35991 2.18037 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 7 2.49887 5.40598 1.98001 1.56486 4.71797 3.39159 3.75851 4.21482 2.61711 3.69891 4.48207 2.85091 3.90580'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 80 2.17098 4.59045 3.21978 2.68533 3.83651 3.48886 3.78776 3.21636 2.58369 2.19916 3.74240 2.70373 3.91197 3.00472 3.07985 2.30725 2.49866 2.93722 5.19589 3.91573 87 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08455 4.29317 2.69694 0.61958 0.77255 0.48576 0.95510\n- 81 2.62387 4.07102 4.19163 3.60125 2.67820 3.74379 4.04601 2.07422 3.46213 1.92139 3.16778 3.76487 4.10971 3.66406 3.60692 2.80821 2.29606 2.29970 3.58157 3.46696 88 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02185 4.23047 4.95281 0.61958 0.77255 0.56691 0.83766\n- 82 2.58224 5.03948 2.49170 2.07702 4.34011 3.03122 3.61768 3.53633 2.25068 2.86643 4.09452 2.75190 3.81370 2.73243 2.86489 2.34796 2.87119 3.40639 5.49986 4.11477 89 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02185 4.23047 4.95281 0.61958 0.77255 0.56691 0.83766\n- 83 2.50016 5.13820 2.14359 1.98165 4.44626 3.39293 3.66193 3.91248 2.45856 3.01843 4.20729 2.67777 3.83767 2.78276 2.95941 2.19294 2.94623 3.51188 5.60192 4.19828 90 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02185 4.23047 4.95281 0.61958 0.77255 0.43817 1.03624\n- 84 2.76208 5.26312 1.94593 1.96964 4.58084 3.40406 3.19444 4.06581 2.49381 3.55725 4.32288 2.86981 3.86471 2.57539 3.00476 2.13119 2.84980 3.64147 5.70455 4.27920 91 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 85 2.75451 5.51411 1.57388 1.55346 4.81969 3.38519 3.80383 4.32567 2.28793 3.80310 4.60097 2.83933 3.93416 2.94172 3.24970 2.85206 3.20568 3.88863 5.94868 4.47597 92 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.48576 0.95510\n- 86 2.52415 4.96553 2.95768 2.42873 4.25510 2.37303 3.65970 3.27235 2.17590 3.25357 4.04367 2.64223 3.84958 2.54166 2.88850 2.37382 2.89314 3.33049 5.45564 4.09659 93 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27122 4.29317 1.49661 0.61958 0.77255 0.48576 0.95510\n- 87 2.59028 4.86573 2.65309 2.14451 4.12832 3.39242 3.59746 3.06644 2.37386 2.94336 3.93266 2.90483 3.31675 2.73300 2.51857 2.51176 2.82214 3.21056 5.35216 4.00002 94 e - - -\n- 2.68631 4.42249 2.77421 2.73107 3.46378 2.40526 3.72518 3.29348 2.67765 2.69379 4.24714 2.90354 2.73732 3.18117 2.89787 2.37888 2.77516 2.98542 4.58501 3.61527\n- 0.46262 0.99326 * 1.32563 0.30875 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_V__Avs5A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Avs_V__Avs5A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2342 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Avs_V__Avs5A\n-LENG 773\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:34 2021\n-NSEQ 100\n-EFFN 2.316284\n-CKSUM 1583672662\n-GA 60 60;\n-STATS LOCAL MSV -12.6931 0.69631\n-STATS LOCAL VITERBI -13.3453 0.69631\n-STATS LOCAL FORWARD -6.8053 0.69631\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61156 4.40695 2.91921 2.59980 3.22889 3.17041 3.71411 2.64548 2.53645 2.40906 3.70097 2.91084 3.67882 3.05422 2.99301 2.57629 2.85036 2.77106 4.83384 3.38045\n- 2.68637 4.42257 2.77523 2.73076 3.46372 2.40533 3.72487 3.29343 2.67759 2.69381 4.24160 2.90365 2.73772 3.18169 2.89833 2.37865 2.77523 2.98536 4.58403 3.61492\n- 0.38047 1.22624 3.76925 1.31167 0.31385 0.00000 *\n- 1 3.12711 4.49776 4.87421 4.28397 2.90095 4.31784 4.63089 1.97271 4.12326 1.86469 1.20151 4.40221 4.62379 4.25530 4.20095 3.28539 3.35589 2.46174 5.08728 3.93281 15 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03597 4.65593 3.65636 0.61958 0.77255 0.51980 0.90298\n- 2 2.76746 5.27875 2.57658 1.83955 4.62132 3.51918 3.72085 4.10735 2.18594 3.58218 4.32176 2.46877 3.92344 2.17397 2.78021 2.61627 2.69041 3.66838 5.71071 4.29794 16 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63449 5.35684 0.61958 0.77255 0.55996 0.84684\n- 3 2.74702 4.32604 3.89998 2.96585 3.44367 3.79155 4.07076 1.76304 3.24606 2.52591 3.43675 3.64688 4.16617 2.92620 3.52140 2.94761 2.43185 2.01374 4.92796 2.97761 17 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63449 5.35684 0.61958 0.77255 0.55996 0.84684\n- 4 2.74884 4.23257 4.18400 3.59772 3.14418 3.84704 4.14695 1.73876 3.37248 1.97586 3.11875 3.81668 4.21604 2.58655 3.20455 3.13140 2.98073 2.24917 4.84218 3.09441 18 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63449 5.35684 0.61958 0.77255 0.55996 0.84684\n- 5 2.75084 5.13581 2.90482 2.48995 4.43123 3.53920 2.01299 3.61767 2.06475 3.41959 4.19039 2.64545 3.61408 2.84896 2.96565 2.52705 2.98199 3.50093 5.59588 3.10846 19 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63449 5.35684 0.61958 0.77255 0.55996 0.84684\n- 6 2.75548 3.79665 4.14405 3.56141 1.68261 3.84344 3.11399 2.47129 3.22431 2.35071 3.36547 3.54112 3.63850 3.68127 3.65259 3.12537 2.98737 2.50743 4.82362 2.60861 20 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63449 5.35684 0.61958 0.77255 0.55996 0.84684\n- 7 2.71159 5.23836 2.72535 2.13906 4.57408 3.37942 3.71111 4.05409 2.12794 3.53960 3.94902 2.37016 3.91'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01455 4.63321 5.35556 0.61958 0.77255 0.52730 0.89207\n- 766 2.51224 5.23258 2.81933 2.28627 4.22471 3.17727 3.29340 4.04898 2.34000 3.53408 4.27574 1.98821 3.91118 2.48358 2.81356 2.44421 2.65278 3.61856 5.67034 4.26434 937 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01455 4.63321 5.35556 0.61958 0.77255 0.52730 0.89207\n- 767 2.77420 4.21614 4.35445 3.76590 1.76183 3.89127 3.30068 2.37622 3.62371 2.14081 3.08685 3.50227 4.25768 3.81889 3.76021 3.18525 2.80922 2.46877 4.75164 2.40140 938 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06717 4.63321 2.89609 0.61958 0.77255 0.52730 0.89207\n- 768 2.61623 4.13985 4.55928 3.95450 2.24208 3.89790 4.22034 2.18278 3.77149 1.74835 2.85682 4.00988 4.26011 3.92779 3.83112 2.78935 2.97525 2.26982 4.75329 2.59283 939 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01533 4.58137 5.30372 0.61958 0.77255 0.61778 0.77467\n- 769 2.68338 5.22076 2.75050 2.00698 4.55931 2.87855 3.58803 4.04082 2.26422 2.96570 4.26332 2.52226 3.59620 2.67748 2.58956 2.39704 2.82692 3.60793 5.65712 4.24991 940 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08233 4.58137 2.67668 0.61958 0.77255 0.61778 0.77467\n- 770 2.63331 5.05961 2.79102 2.45648 4.34774 3.25736 3.69295 3.72590 2.37335 2.91804 3.74949 2.36133 3.57934 2.81198 2.75227 2.13572 2.47798 3.33024 5.52875 4.15551 941 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12186 4.50750 2.26625 0.61958 0.77255 0.71650 0.67033\n- 771 2.44038 5.11092 2.81109 2.32811 4.42816 3.17400 3.21670 3.76764 2.08684 3.28635 4.15909 2.68032 3.63471 2.75058 2.40513 2.46456 2.90104 3.28363 5.56043 3.69944 942 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12553 4.40398 2.24678 0.61958 0.77255 0.84273 0.56306\n- 772 2.62164 5.07136 2.80323 2.28284 3.88434 3.43998 3.48574 3.84304 1.81301 3.35908 4.12206 2.75886 3.83178 2.63101 2.32395 2.63642 2.88570 3.44523 4.66821 4.13763 943 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07388 4.29884 2.85360 0.61958 0.77255 0.86548 0.54619\n- 773 2.54363 5.08528 2.80798 2.26419 4.40643 2.89262 3.49544 3.87367 1.96851 3.11736 4.13381 2.59916 3.64230 2.55626 2.69233 2.54510 2.86968 3.46332 5.53028 4.13722 944 k - - -\n- 2.68631 4.42264 2.77550 2.73160 3.46369 2.40528 3.72438 3.29373 2.67689 2.69371 4.24729 2.90313 2.73757 3.18159 2.89657 2.37879 2.77552 2.98534 4.58516 3.61518\n- 0.59052 0.80752 * 1.46468 0.26286 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Azaca__ZacA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Azaca__ZacA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1211 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Azaca__ZacA\n-LENG 396\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:59 2021\n-NSEQ 382\n-EFFN 4.048141\n-CKSUM 4078761490\n-GA 10 10;\n-STATS LOCAL MSV -11.5592 0.69931\n-STATS LOCAL VITERBI -12.7638 0.69931\n-STATS LOCAL FORWARD -5.2924 0.69931\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43674 4.70140 2.86891 2.55314 3.39517 2.94564 3.68324 3.03929 2.70812 2.40220 3.77642 3.13973 3.34690 2.99942 2.67807 2.61727 2.85152 2.88538 4.08106 3.53381\n- 2.68590 4.42112 2.77591 2.73173 3.46431 2.40493 3.72544 3.29388 2.67779 2.69332 4.24295 2.90382 2.73767 3.18174 2.89668 2.37899 2.77563 2.98418 4.58467 3.61525\n- 0.50358 1.81158 1.45996 2.61548 0.07594 0.00000 *\n- 1 2.88588 4.32961 4.47068 3.87689 3.33498 4.00931 4.31937 2.67419 3.25601 2.07036 1.25450 3.92693 4.31302 3.93281 3.71302 3.30348 3.05898 2.11836 4.94570 3.69636 59 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01108 4.90403 5.62637 0.61958 0.77255 0.73393 0.65396\n- 2 2.31574 5.29772 3.10452 2.41917 4.60855 3.50131 3.78647 4.07105 2.39023 3.45625 3.23543 3.06816 2.84934 2.27706 3.02208 2.21712 2.35953 3.09856 5.75146 4.36218 60 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13646 4.99036 2.11398 0.61958 0.77255 0.91227 0.51351\n- 3 2.65987 5.12346 3.17174 2.56415 4.39206 3.57693 3.83517 3.82613 2.56313 3.23385 3.99401 3.01097 3.18283 2.74700 2.99169 1.33927 2.73695 3.33169 5.52144 4.20119 61 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13060 4.86542 2.16527 0.61958 0.77255 0.86864 0.54390\n- 4 2.32779 4.71878 3.39871 2.80780 3.54602 3.57506 3.89163 3.26639 2.82222 2.50255 3.06702 3.28725 4.10663 2.66806 3.07366 2.19918 2.17400 2.67079 5.27359 3.57215 62 t - - -\n- 2.68593 4.42236 2.77520 2.73134 3.46331 2.40517 3.72488 3.29356 2.67740 2.69351 4.24701 2.90352 2.73742 3.18150 2.89796 2.37879 2.77531 2.98529 4.58488 3.61514\n- 0.11551 2.25219 5.54276 1.05023 0.43056 0.42960 1.05202\n- 5 3.43513 4.76486 5.40270 4.79350 2.04372 4.65275 4.96878 1.49346 4.59522 1.19886 3.03795 4.81765 4.93232 4.64614 4.57917 3.97995 3.65883 2.26074 4.04596 4.20676 72 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00938 5.06926 5.79160 0.61958 0.77255 0.75016 0.63921\n- 6 1.91768 5.15013 3.29744 2.68954 4.56263 1.30679 4.08280 3.90779 2.81886 3.58233 4.38421 3.35733 4.18899 3.20909 3.35427 2.41821 2.69934 3.56856 5.80631 4.46678 73 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02858 5.06926 3.82167 0.61958 0.77255 0.73841 0.64984\n- 7 4.93601 5.91500 5.86826 5.75567 2.12011 5.49697 4.19806 4.46228 5.51042 3.57941 4.52540 5.06329'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00855 5.16151 5.88386 0.61958 0.77255 0.50890 0.91919\n- 389 3.81647 6.56789 0.54557 1.91667 5.82907 3.95256 4.56273 5.40632 3.67686 4.84096 5.71522 3.23989 3.32589 3.56072 4.02344 3.64895 4.11990 4.92774 6.98576 5.38891 853 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00855 5.16151 5.88386 0.61958 0.77255 0.50890 0.91919\n- 390 2.93139 4.52458 5.03640 4.42946 3.53979 4.33008 4.66089 1.17126 4.23153 1.33347 3.35433 4.46461 4.67449 4.36902 3.39532 3.64288 3.38228 2.45366 4.50683 3.98551 854 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00855 5.16151 5.88386 0.61958 0.77255 0.50890 0.91919\n- 391 2.34812 4.32972 3.32163 2.40206 3.44941 3.71340 2.32527 3.66090 2.50490 2.83775 4.12552 3.15355 4.17061 2.74611 2.48580 2.72183 2.78168 3.04875 5.30295 3.14723 855 h - - -\n- 2.68585 4.42232 2.77519 2.73131 3.46350 2.40520 3.72502 3.29361 2.67742 2.69357 4.24697 2.90338 2.73733 3.18154 2.89792 2.37894 2.77524 2.98518 4.58484 3.61510\n- 0.11480 2.27915 5.10163 0.50984 0.91777 0.50890 0.91919\n- 392 2.21013 5.45520 2.33203 1.84623 4.80046 3.03160 3.15030 4.04857 2.54645 3.70051 4.49581 2.83828 3.41886 2.52359 2.83931 2.63989 2.95899 3.45697 5.88777 4.36764 859 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01973 5.15751 4.28456 0.61958 0.77255 0.51953 0.90337\n- 393 1.80357 4.99649 3.70027 3.17753 4.50986 1.09826 4.30610 3.91734 3.16320 3.55812 4.38661 3.56853 3.73927 3.33611 3.26622 2.87525 2.86707 3.02646 5.82685 4.54006 860 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09507 5.14646 2.46667 0.61958 0.77255 0.55399 0.85485\n- 394 2.26294 4.30744 4.30302 2.97945 3.39089 3.93367 4.31431 2.54537 3.21825 1.25798 3.26067 3.96290 3.68676 3.61344 3.63561 3.17195 3.11058 2.37337 4.47336 3.81697 861 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21478 5.05925 1.67703 0.61958 0.77255 0.71463 0.67212\n- 395 2.32536 4.60972 2.79035 1.93269 3.90173 2.77184 3.69908 4.13412 2.42379 3.57497 4.29202 2.58048 3.38395 2.71906 2.53387 2.56292 3.03070 3.39863 5.75385 4.16997 862 e - - -\n- 2.68597 4.42257 2.77526 2.73133 3.46386 2.40519 3.72511 3.29350 2.67760 2.69374 4.24715 2.90348 2.73728 3.18131 2.89759 2.37890 2.77508 2.98482 4.58502 3.61524\n- 0.49680 0.97255 4.31197 0.85778 0.55182 0.97902 0.47109\n- 396 2.35745 3.55104 2.78908 2.31327 4.62648 2.73938 3.71951 4.01437 2.42179 3.49336 4.34519 2.99359 3.97356 2.77011 2.14209 2.18021 2.90107 3.37412 5.74344 4.34381 873 r - - -\n- 2.68452 4.41928 2.77484 2.73143 3.46421 2.40563 3.72561 3.29424 2.67825 2.69384 4.24762 2.90389 2.73663 3.18191 2.89769 2.37887 2.77498 2.98462 4.58570 3.61571\n- 0.72148 0.66560 * 1.55449 0.23737 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Azaca__ZacB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Azaca__ZacB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1781 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Azaca__ZacB\n-LENG 586\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:59 2021\n-NSEQ 372\n-EFFN 4.248688\n-CKSUM 2155262853\n-GA 10 10;\n-STATS LOCAL MSV -11.8724 0.69731\n-STATS LOCAL VITERBI -13.3109 0.69731\n-STATS LOCAL FORWARD -6.0753 0.69731\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42585 4.54496 2.89989 2.59253 3.35199 2.96781 3.67366 3.02625 2.73547 2.31955 3.74799 3.11783 3.23765 3.08491 2.81229 2.60460 2.81158 2.72101 4.45817 3.75868\n- 2.68610 4.42264 2.77522 2.73128 3.46387 2.40542 3.72513 3.29393 2.67746 2.69381 4.24189 2.90346 2.73723 3.18143 2.89774 2.37879 2.77524 2.98534 4.58489 3.61542\n- 0.26763 1.75078 2.79416 1.42503 0.27510 0.00000 *\n- 1 2.63091 4.46716 4.65989 4.07310 3.49709 4.14126 4.49927 2.80439 3.92661 2.56320 0.99939 4.20852 4.36882 4.12336 4.05661 3.14665 2.76505 2.16586 5.11508 3.93028 17 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00867 5.14850 5.87085 0.61958 0.77255 0.67083 0.71598\n- 2 2.47706 4.45156 4.46382 3.87711 2.70930 3.83863 4.39189 2.71547 3.47453 1.06018 3.56873 3.89083 4.06895 3.97053 3.92660 2.47541 3.08346 2.70603 5.06557 3.87463 18 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 5.14850 4.78777 0.61958 0.77255 0.65984 0.72760\n- 3 2.45619 5.45141 1.96839 2.12606 4.79722 3.28109 3.68220 4.28378 2.36890 3.69781 4.49191 2.30853 3.65986 2.76701 2.59682 2.54102 2.88162 3.68644 5.88362 4.47212 19 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00870 5.14506 5.86741 0.61958 0.77255 0.52474 0.89577\n- 4 2.55044 5.35244 3.15069 2.48846 4.65299 3.57597 3.74320 4.10856 2.54395 3.33343 4.13470 3.17428 1.38720 3.00795 2.85400 2.53117 2.94879 3.26957 5.81275 4.43061 20 p - - -\n- 2.68617 4.42262 2.77457 2.73118 3.46308 2.40532 3.72528 3.29368 2.67717 2.69366 4.24727 2.90381 2.73723 3.18116 2.89791 2.37890 2.77534 2.98542 4.58514 3.61525\n- 0.21519 1.65615 5.89864 1.33276 0.30618 0.57071 0.83270\n- 5 2.30837 5.46427 2.07896 2.14427 4.80918 3.05414 3.10987 4.29503 2.52975 3.32140 4.14802 2.43903 3.76252 2.59387 2.89117 2.64891 2.83858 3.85482 5.28815 4.35722 35 d - - -\n- 2.68634 4.42245 2.77517 2.73134 3.46360 2.40533 3.72446 3.29374 2.67740 2.69330 4.24653 2.90337 2.73760 3.18166 2.89797 2.37890 2.77511 2.98531 4.58103 3.61523\n- 0.55748 0.87828 4.43532 0.05927 2.85516 0.57964 0.82121\n- 6 2.47680 5.46096 2.00111 2.43914 4.80594 3.33672 3.57948 4.24877 2.51523 3.70750 4.36570 2.30551 2.99687 2.55054 3.08761 2.18588 2.77735 3.75584 5.89367 4.48269 37 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00847 5.17090 5.89325 0.61958 0.77255 0.53229 0.88493\n- 7 2.74468 5.43349 2.91651 2.61959 4.76317 3.18646 3.60819 4.23746 2.63858 3.66239 4.09287 3.07457'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00829 5.19249 5.91483 0.61958 0.77255 0.54044 0.87345\n- 579 2.04631 5.46468 2.90175 1.96735 4.80729 3.58704 3.81498 3.80595 2.33026 3.35693 4.32838 2.95292 3.31602 2.49114 2.93927 2.25938 2.60099 3.52053 5.89883 4.48936 1305 e - - -\n- 2.68619 4.42188 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69349 4.24690 2.90347 2.73740 3.18147 2.89801 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.02409 4.22921 4.68490 0.63662 0.75306 0.54044 0.87345\n- 580 1.27932 4.54686 4.21441 3.19952 3.01928 3.32619 4.33553 2.85146 3.55191 2.43732 3.42083 3.84239 4.42456 3.59124 3.50243 2.98673 3.03362 2.05603 5.14950 3.58364 1308 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18593 5.90828 0.61958 0.77255 0.52570 0.89438\n- 581 2.40505 4.51651 4.32275 3.74129 3.35104 4.07671 3.31241 2.39843 3.08145 1.62574 2.86958 3.85301 4.08168 3.78950 2.58192 2.78206 2.88518 2.32684 4.86020 3.74203 1309 l - - -\n- 2.68610 4.42233 2.77528 2.73126 3.46362 2.40486 3.72496 3.29357 2.67749 2.69344 4.24681 2.90355 2.73748 3.18154 2.89794 2.37893 2.77524 2.98515 4.58485 3.61511\n- 0.23155 1.82675 3.08429 0.18296 1.78858 0.51158 0.91516\n- 582 2.51321 5.44620 2.94175 2.21198 4.78845 2.52669 3.77545 4.21651 1.95526 3.08047 3.97311 2.95516 3.51317 2.51285 2.65057 2.56908 2.90178 3.22476 5.52970 4.47132 1315 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08793 5.15396 2.54593 0.61958 0.77255 0.64660 0.74196\n- 583 2.52496 5.41586 2.72750 2.06498 4.75968 2.73142 3.59550 3.89371 2.18081 3.44766 3.86086 2.94615 3.76300 2.59410 2.57630 2.38491 2.64761 3.49979 5.84929 4.31024 1316 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08581 5.07723 2.57705 0.61958 0.77255 0.72798 0.65949\n- 584 2.50663 5.36086 3.00395 1.99923 4.69053 3.29074 3.77122 3.45988 2.23147 2.63168 3.98507 2.90765 3.34140 2.69222 2.28390 2.67187 3.07944 3.22011 5.80286 4.40140 1317 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11089 5.02750 2.31864 0.61958 0.77255 0.94073 0.49486\n- 585 2.45657 5.34815 2.62394 2.34093 4.68964 2.74518 3.61765 3.79242 2.15761 3.53019 4.18944 2.74830 3.93550 2.67958 2.10325 2.69914 2.67657 3.59320 5.48952 4.13735 1318 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15005 4.92743 2.02426 0.61958 0.77255 0.90296 0.51982\n- 586 2.15807 5.30605 2.99195 2.18948 4.64283 2.55928 3.55345 3.90460 2.17375 3.31499 4.34891 2.81670 3.62320 2.72582 2.38487 2.65707 2.93500 3.35498 5.74368 4.33787 1319 a - - -\n- 2.68597 4.42193 2.77516 2.73146 3.46404 2.40492 3.72476 3.29426 2.67695 2.69405 4.24766 2.90373 2.73801 3.18165 2.89616 2.37890 2.77517 2.98506 4.58553 3.61533\n- 0.90217 0.52035 * 1.27140 0.32911 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Azaca__ZacC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Azaca__ZacC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3080 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Azaca__ZacC\n-LENG 1019\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:22:01 2021\n-NSEQ 382\n-EFFN 3.651779\n-CKSUM 4177754105\n-GA 10 10;\n-STATS LOCAL MSV -12.9398 0.69554\n-STATS LOCAL VITERBI -14.3437 0.69554\n-STATS LOCAL FORWARD -6.4165 0.69554\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42507 4.52246 2.90609 2.59930 3.38181 3.01635 3.69377 3.06045 2.69997 2.39436 3.73712 3.12408 3.24852 3.00906 2.69540 2.61068 2.84233 2.75096 4.38992 3.61289\n- 2.68633 4.42217 2.77518 2.73127 3.46368 2.40521 3.72524 3.29358 2.67741 2.69362 4.24201 2.90340 2.73760 3.18179 2.89809 2.37890 2.77520 2.98510 4.58511 3.61514\n- 0.73883 1.74598 1.05597 1.40722 0.28080 0.00000 *\n- 1 2.68878 4.80171 3.07217 2.50795 4.00177 3.61808 3.69575 3.34750 2.58229 2.86383 1.82262 2.95245 3.69384 2.89469 3.01402 2.76424 2.85554 2.63029 5.33227 4.03104 21 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04707 4.65959 3.31011 0.61958 0.77255 1.04356 0.43417\n- 2 2.29199 4.97568 2.74550 2.34128 4.21470 3.37837 3.46202 3.68309 2.28265 3.49203 3.75056 2.70185 3.63800 2.67630 2.86237 2.15147 2.54037 3.26895 5.64793 4.25413 22 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11943 4.68153 2.27000 0.61958 0.77255 1.18413 0.36530\n- 3 2.43115 4.53356 2.36220 2.15121 4.52153 3.31562 3.69026 3.65469 2.40513 3.42138 4.23774 2.60037 3.65302 2.75126 2.48099 2.36123 2.74247 3.47557 5.63528 4.23434 23 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01539 4.57749 5.29984 0.61958 0.77255 0.88965 0.52899\n- 4 2.38517 4.40592 3.27044 2.76331 2.81015 3.66698 3.85294 2.55579 2.67587 2.10397 3.39798 3.05116 3.99990 3.21190 3.11638 2.86715 2.90229 2.35005 5.11273 3.79723 24 l - - -\n- 2.68672 4.42231 2.77475 2.73097 3.46343 2.40568 3.72431 3.29321 2.67795 2.69334 4.24749 2.90409 2.73689 3.18089 2.89641 2.37909 2.77570 2.98520 4.58469 3.61554\n- 0.86644 0.59725 3.53251 1.36901 0.29351 0.92241 0.50677\n- 5 2.28417 5.01732 1.98102 2.41378 4.47784 3.57987 3.55865 3.22382 2.42395 3.09881 3.37195 2.98815 3.88161 2.71902 2.72676 2.47836 2.94181 3.44530 5.64033 4.25914 44 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01648 4.76820 4.84722 0.61958 0.77255 1.08724 0.41120\n- 6 2.06137 4.82092 2.67413 2.36969 4.19099 3.62444 3.80022 3.01999 2.60309 2.67468 3.95135 3.13027 3.59473 2.87939 2.97616 2.47019 2.72251 2.54768 5.46851 4.13960 45 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01275 4.76447 5.48682 0.61958 0.77255 1.07278 0.41864\n- 7 2.14838 5.28608 2.44067 1.94076 4.32645 3.18370 3.68074 4.00616 2.35896 3.58934 4.19333 2.6866'..b'.68588 4.42194 2.77526 2.73129 3.46346 2.40492 3.72501 3.29360 2.67747 2.69361 4.24696 2.90353 2.73746 3.18152 2.89807 2.37893 2.77526 2.98516 4.58483 3.61509\n- 0.15905 1.97220 4.84137 0.27849 1.41439 0.59878 0.79735\n- 1012 3.33253 4.65850 5.29193 4.69955 3.05890 4.58417 4.94483 1.13851 4.51762 1.47439 3.16386 4.73763 3.98185 4.62357 4.53834 3.91428 3.51935 1.85116 5.35694 4.21594 2616 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00570 5.72805 0.61958 0.77255 0.67470 0.71194\n- 1013 2.99188 5.52265 1.37757 2.54575 4.85866 3.69261 3.93888 4.27037 2.69173 3.82313 4.57311 2.07975 4.12782 2.78995 2.46023 2.44300 3.19566 3.90989 5.95484 4.53290 2617 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00570 5.72805 0.61958 0.77255 0.67470 0.71194\n- 1014 4.32326 5.55646 6.05459 5.57682 3.45730 5.58532 5.81638 2.80191 5.35738 0.29012 3.40299 5.75984 5.65913 5.28799 5.32483 4.81944 4.55257 3.12979 5.78231 4.63842 2618 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01000 5.00570 5.72805 0.61958 0.77255 0.67077 0.71604\n- 1015 2.07603 4.04423 3.34174 2.61358 4.21934 3.41639 3.90539 3.62331 2.70813 3.16547 4.00205 3.29126 4.12548 3.00450 2.33250 1.73981 2.78893 2.71298 4.75130 4.20610 2619 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01219 5.00655 5.21731 0.61958 0.77255 0.67269 0.71403\n- 1016 1.69257 4.99217 4.01350 3.63119 4.98726 3.72692 4.67860 4.40314 3.41149 4.03283 4.86677 3.89300 0.81853 3.89597 2.67040 3.16260 3.45102 3.90470 6.23434 5.01704 2620 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.38482 5.00438 1.16245 0.61958 0.77255 0.67779 0.70874\n- 1017 2.72360 4.23300 4.15127 3.31291 2.58480 3.80649 4.13358 2.34839 3.45472 2.18646 3.01330 3.48994 3.62099 2.83748 3.42166 3.06010 2.97339 2.37240 2.89712 2.65167 2621 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02014 4.63410 4.58321 0.61958 0.77255 1.20057 0.35814\n- 1018 2.64527 5.05051 2.80127 2.44607 4.00373 2.92141 3.74589 3.41415 2.37614 3.02743 3.05559 2.58119 3.67439 2.83461 2.75026 2.45565 2.46858 3.36970 5.53035 3.66532 2622 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02693 4.63542 4.08212 0.61958 0.77255 0.42305 1.06434\n- 1019 2.65350 4.86179 3.19789 2.68051 4.01324 3.37874 2.90123 3.54580 2.37029 2.88711 4.04710 3.17107 2.38784 3.04173 2.25110 2.80888 2.90030 2.63213 5.03670 3.52913 2623 r - - -\n- 2.68255 4.42315 2.77482 2.72933 3.46609 2.40607 3.72554 3.29160 2.67869 2.69212 4.24880 2.90689 2.73689 3.18212 2.89425 2.38063 2.77674 2.98426 4.58452 3.61771\n- 1.45628 0.26540 * 2.99672 0.05124 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxA_DUF1819.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxA_DUF1819.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,581 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME BREX__brxA_DUF1819\n-ACC PF08849.12\n-DESC Putative inner membrane protein (DUF1819)\n-LENG 184\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS yes\n-MAP yes\n-DATE Wed Apr 22 04:14:14 2020\n-NSEQ 47\n-EFFN 4.271423\n-CKSUM 312285727\n-GA 20.60 20.60;\n-TC 20.60 21.00;\n-NC 20.20 20.40;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.1544 0.70641\n-STATS LOCAL VITERBI -10.8723 0.70641\n-STATS LOCAL FORWARD -4.7383 0.70641\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53738 4.55656 3.01643 2.51229 3.17258 3.34327 3.86353 2.75529 2.57867 2.28061 3.58539 3.10269 3.75151 3.03406 2.78279 2.68651 2.83446 2.73672 4.55578 3.43600\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15684 5.21326 1.96816 0.61958 0.77255 0.00000 *\n- 1 2.52654 5.35243 3.00471 2.36084 4.67209 3.34981 3.87807 3.76351 1.77394 3.21862 2.82979 3.16614 3.15336 2.68805 2.67229 2.33756 3.13557 3.72934 4.61398 3.99227 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00942 5.06584 5.78818 0.61958 0.77255 0.30147 1.34605\n- 2 2.79133 5.47905 2.84551 2.04812 4.82359 3.48960 3.25635 3.10210 1.92899 3.31290 4.51988 2.85331 2.53538 2.72235 2.28757 2.93244 3.20102 3.86942 5.91199 4.50149 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 3 5.47119 6.25848 6.14406 6.18495 2.14498 5.79987 4.30719 4.99123 5.93949 4.05095 5.47584 5.26878 6.03298 5.47540 5.65969 5.22168 5.64599 4.96368 3.44007 0.27197 3 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 4 2.68584 5.38095 3.27878 2.72275 4.69100 3.77138 3.96489 3.28195 2.21107 3.67324 4.43913 2.42769 4.16548 3.07726 2.73684 1.41666 2.37132 3.75428 5.84336 4.46217 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 5 1.49112 4.60465 4.14750 3.57548 3.08354 2.86673 4.33842 3.08773 3.50255 2.48597 2.68136 3.89892 4.42290 3.77208 3.78656 2.18658 2.22823 2.87732 5.21616 4.00543 5 a - - S\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 6 2.75512 5.47811 2.83036 2.18031 4.82094 2.09908 3.93400 4.30535 2.54280 3.78243 4.51965 3.21384 4.13983 2.72371 2.37184 1.79310 2.77866 3.61907 5.91214 4.50242 6 s - - G\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 177 2.45578 5.03997 3.48434 1.78237 2.82709 3.85008 4.06480 2.83923 2.59435 2.78091 3.66739 3.42360 4.23748 2.88805 2.31319 2.77549 3.21475 2.68072 5.56980 4.26724 194 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 178 2.54280 3.51901 2.38948 2.08109 4.17597 3.74602 3.00709 3.47003 2.48414 3.26268 4.50678 2.43067 4.13933 2.83855 2.69269 2.24949 2.95113 3.85138 5.90108 4.49421 195 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 179 2.22979 3.31681 4.94752 4.33460 2.70472 3.71084 3.08347 2.83139 4.12719 1.91780 2.97591 4.33522 4.54837 4.26500 4.14773 3.49410 2.98474 2.05516 3.44811 2.02879 196 l - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21326 5.93560 0.61958 0.77255 0.48576 0.95510\n- 180 3.33045 5.28228 6.04281 5.47734 3.44661 5.43958 5.82116 1.38667 5.34008 0.68504 3.62602 5.60554 5.57988 5.31588 5.32782 4.81745 4.26849 2.53839 5.96825 4.93752 197 L - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08738 5.21326 2.54814 0.61958 0.77255 0.48576 0.95510\n- 181 2.26739 5.42517 2.97843 2.28202 4.76216 3.71065 3.37315 3.17187 2.06416 3.30060 3.68415 2.47909 4.10393 2.50217 2.30760 2.72974 3.16502 3.52424 5.86270 3.94035 198 k - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10678 5.13467 2.34985 0.61958 0.77255 0.71988 0.66711\n- 182 2.22949 5.39538 2.74271 1.97288 3.31781 3.66657 3.85413 4.22115 2.16427 3.69930 4.43690 3.00448 4.06015 2.64354 2.24550 2.38158 2.78927 3.78438 5.82984 4.42078 199 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07726 5.03758 2.69027 0.61958 0.77255 0.93192 0.50054\n- 183 2.86665 5.34572 2.80387 2.43635 4.67805 3.37034 2.56638 3.13692 2.40844 3.06922 4.38992 1.77570 4.03770 2.80144 2.52786 2.72874 3.09775 3.72954 5.78575 4.38313 200 n - - T\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05082 4.97068 3.15559 0.61958 0.77255 1.04638 0.43264\n- 184 2.93685 5.37895 2.45527 2.59948 4.73268 1.47552 3.91603 4.20621 2.54801 3.71274 4.47425 2.31935 4.08915 3.02965 3.19120 2.40565 2.92078 3.41483 5.86799 4.46393 201 g - - T\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00727 4.92713 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxB_DUF1788.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxB_DUF1788.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,401 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME BREX__brxB_DUF1788\n-ACC PF08747.12\n-DESC Domain of unknown function (DUF1788)\n-LENG 124\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 18 04:13:15 2020\n-NSEQ 52\n-EFFN 1.736084\n-CKSUM 2127342024\n-GA 26.80 26.80;\n-TC 26.80 26.90;\n-NC 26.20 26.70;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.7305 0.71284\n-STATS LOCAL VITERBI -10.6706 0.71284\n-STATS LOCAL FORWARD -4.3325 0.71284\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67070 4.57573 3.01667 2.64931 3.13683 2.97928 3.68697 2.70923 2.68863 2.23828 3.51983 3.09795 3.31953 3.06964 2.91705 2.78865 2.92583 2.64363 5.04441 3.31835\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24667 4.52712 1.57122 0.61958 0.77255 0.00000 *\n- 1 2.27516 4.18170 3.90999 3.33079 3.17199 3.71646 4.00511 2.11197 2.93847 1.82175 3.18810 3.61553 4.08693 3.49008 3.18483 2.99089 2.81283 2.27191 4.79475 3.59363 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02035 4.30080 5.02315 0.61958 0.77255 0.45458 1.00708\n- 2 2.68378 4.11783 2.99880 1.86883 3.45978 3.53553 3.37597 3.41571 2.57308 3.04540 3.75436 3.09132 3.62344 2.91770 3.02516 2.54026 2.47426 2.58555 5.31715 4.00194 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46216 5.18451 0.61958 0.77255 0.42538 1.05993\n- 3 2.74492 3.55635 4.62768 4.02103 2.48211 3.91419 4.24348 1.82363 3.82671 1.70590 3.22265 3.80514 4.27355 3.97209 3.86536 3.22395 2.97733 1.96212 4.75332 3.19305 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52712 5.24947 0.61958 0.77255 0.48576 0.95510\n- 4 3.12801 5.66322 1.44984 2.39455 5.04924 3.48344 4.02082 4.58173 3.00603 4.06619 4.88843 1.43173 4.09185 3.17705 3.59159 2.27446 3.42471 4.12234 6.21390 4.71500 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52712 5.24947 0.61958 0.77255 0.48576 0.95510\n- 5 3.80419 5.03827 5.60316 5.05824 3.35474 5.17758 5.51656 1.90884 4.89888 0.58192 3.11119 5.29190 5.25267 4.88746 4.92534 4.58104 4.02351 2.40526 5.58207 4.57286 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52712 5.24947 0.61958 0.77255 0.48576 0.95510\n- 6 3.06600 4.61413 4.09867 3.56818 1.84603 4.03345 3.13262 3.11755 3.47662 2.55207 3.73556 3.80800 4.39435 3.07418 3.73257 2.85765 3.29445 2.92253 4.37350 1.43991 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58'..b'.68623 4.42230 2.77524 2.73128 3.46359 2.40499 3.72499 3.29359 2.67746 2.69344 4.24695 2.90333 2.73744 3.18151 2.89806 2.37892 2.77504 2.98523 4.58482 3.61508\n- 0.08528 2.57059 5.24947 0.89746 0.52358 0.48576 0.95510\n- 117 2.63764 5.16705 2.82035 2.42248 4.48897 3.17549 2.70405 3.95870 2.30091 3.46231 4.21514 1.98414 3.57873 2.73626 2.78784 2.46639 2.94554 3.18124 5.61390 4.21733 154 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52712 5.24947 0.61958 0.77255 0.48576 0.95510\n- 118 2.86399 4.71799 2.55882 2.93227 3.04968 3.72566 3.87404 3.26091 2.96037 2.91647 3.83183 3.37231 4.13391 3.26237 3.35716 2.99672 2.54347 3.02025 4.86565 1.44113 155 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52712 5.24947 0.61958 0.77255 0.48576 0.95510\n- 119 3.70670 5.25588 4.06041 3.87294 2.55863 4.28791 3.91012 3.97829 3.83775 3.38244 4.55377 3.02770 4.77056 4.10798 4.03768 3.77070 3.99955 3.79431 4.21043 0.56815 156 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03184 4.52712 3.88582 0.61958 0.77255 0.48576 0.95510\n- 120 3.38896 5.31280 3.94330 3.28680 4.06692 4.00783 3.96266 4.05013 2.34762 3.51246 4.47673 3.63808 4.39983 3.20478 0.72633 3.43355 3.57941 3.79282 5.33907 3.08523 157 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11008 4.51173 2.37238 0.61958 0.77255 0.51226 0.91414\n- 121 0.76121 4.57774 3.68294 3.32823 4.40982 3.37638 4.33557 3.75300 3.11930 3.46306 4.36292 3.57053 4.05459 3.59327 2.75306 2.82956 3.09265 3.34678 5.73667 4.51761 158 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06861 4.41969 2.91369 0.61958 0.77255 0.65044 0.73776\n- 122 2.70266 4.21228 4.03297 3.45988 1.57202 3.77602 3.81343 2.43202 3.10047 2.34724 3.30363 3.70774 4.14886 3.58900 3.54778 3.06206 2.75290 2.25126 4.75713 3.50639 159 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37005 5.09240 0.61958 0.77255 0.71325 0.67344\n- 123 2.77207 5.15964 3.06294 2.49101 4.50323 3.52913 3.66524 3.94364 1.97369 3.08894 4.21352 2.30274 3.63878 2.57432 1.92443 2.63506 2.99114 3.55246 5.56920 4.22434 160 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37005 5.09240 0.61958 0.77255 0.71325 0.67344\n- 124 3.38370 4.66342 5.24532 4.67082 3.00097 4.70970 5.06007 1.58103 4.53639 1.06046 2.75450 4.82343 4.89780 4.57481 4.57502 4.06242 3.60659 1.89047 5.31849 4.25904 161 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01281 4.36389 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3644 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxC\n-LENG 1207\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 9 10:37:33 2021\n-NSEQ 4036\n-EFFN 5.392490\n-CKSUM 3736007198\n-GA 29 29;\n-STATS LOCAL MSV -12.9309 0.69517\n-STATS LOCAL VITERBI -14.2505 0.69517\n-STATS LOCAL FORWARD -6.7320 0.69517\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53156 4.74957 2.83257 2.50398 3.28386 3.05767 3.80492 2.84978 2.54656 2.42571 3.79652 3.01942 3.60034 2.90446 2.87073 2.65796 2.85261 2.74570 4.75286 3.53417\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05062 3.40436 4.12670 0.61958 0.77255 0.00000 *\n- 1 2.46433 4.00082 3.01941 2.89919 3.17562 2.76457 3.76983 2.67713 2.84639 2.33396 3.52099 3.18756 3.41572 3.29392 3.00884 2.68549 2.88160 2.50667 4.52729 3.36828 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05062 3.40436 4.12670 0.61958 0.77255 0.48576 0.95510\n- 2 2.48141 3.92362 2.93767 2.84409 3.22458 2.63932 3.71623 2.78008 2.77096 2.42335 3.69404 3.15062 3.28955 3.26832 2.96530 2.70335 2.89685 2.59174 4.43794 3.40547 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05062 3.40436 4.12670 0.61958 0.77255 0.48576 0.95510\n- 3 2.48982 3.91955 2.97196 2.87766 3.18916 2.64576 3.72589 2.74375 2.85802 2.34103 3.66326 3.17618 3.29477 3.29321 2.98843 2.71860 2.90569 2.56637 4.42119 3.37896 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05062 3.40436 4.12670 0.61958 0.77255 0.48576 0.95510\n- 4 2.48793 3.93930 2.99446 2.89221 3.08487 2.67902 3.73564 2.71666 2.87278 2.35405 3.64038 3.18687 3.32705 3.30203 3.01059 2.71647 2.90296 2.54414 4.43162 3.34735 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05062 3.40436 4.12670 0.61958 0.77255 0.48576 0.95510\n- 5 2.46531 4.09181 3.09638 2.93978 3.15158 2.90963 3.81666 2.59628 2.83863 2.25180 3.42732 3.22005 3.55572 3.30186 3.02920 2.68412 2.87728 2.43934 4.62804 3.35373 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05044 3.40783 4.13018 0.61958 0.77255 0.48576 0.95510\n- 6 2.46439 3.95640 2.69921 2.76479 3.28918 2.65407 3.70736 2.84685 2.81040 2.54367 3.76984 3.09441 3.30733 3.22866 2.97522 2.66880 2.87815 2.63014 4.49170 3.43824 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05044 3.40783 4.13018 0.61958 0.77255 0.48576 0.95510\n- 7 2.44429 4.06797 3.05598 2.91594 3.18912 2.86702 3.81510 2.56946 2.84719 2.31344 3.58851 3.19788 3.52'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04506 3.51799 4.24034 0.61958 0.77255 0.48576 0.95510\n- 1200 2.30548 4.27208 2.68644 2.50087 3.80690 2.56624 3.66051 3.25210 2.60161 2.93553 3.90771 2.90621 3.60568 3.00484 2.92499 2.42470 2.66580 2.89300 5.18621 3.84961 3330 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04597 3.49855 4.22090 0.61958 0.77255 0.48576 0.95510\n- 1201 2.38155 4.30826 2.66802 2.52848 3.59456 3.01643 3.74381 2.84928 2.57956 2.74065 3.80010 2.94617 3.66340 3.04138 2.90319 2.55581 2.79513 2.61359 5.05911 3.68479 3331 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04897 3.43673 4.15907 0.61958 0.77255 0.48576 0.95510\n- 1202 2.46350 4.11299 3.12423 2.95752 2.97368 2.95674 3.83234 2.57098 2.89650 2.25517 3.53346 3.23588 3.60043 3.32588 3.10144 2.68342 2.80459 2.41561 4.63105 3.30749 3332 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05015 3.41344 4.13579 0.61958 0.77255 0.48576 0.95510\n- 1203 2.38055 4.08236 2.87886 2.78991 3.33998 2.83581 3.79020 2.76996 2.77953 2.53872 3.73507 3.04852 3.50531 3.22318 2.99691 2.57185 2.69717 2.54582 4.74272 3.48718 3333 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05015 3.41344 4.13579 0.61958 0.77255 0.48576 0.95510\n- 1204 2.45055 4.07491 2.65891 2.68807 3.37384 2.77013 3.71938 2.88051 2.64749 2.62202 3.79904 3.04091 3.42282 3.16312 2.94449 2.62906 2.85613 2.64809 4.65317 3.49692 3334 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05015 3.41344 4.13579 0.61958 0.77255 0.48576 0.95510\n- 1205 2.46189 3.97640 2.64718 2.74142 3.31045 2.66976 3.70813 2.86337 2.80123 2.57136 3.78513 3.07868 3.32337 3.21526 2.97720 2.66014 2.87422 2.64083 4.51920 3.45227 3335 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05037 3.40935 4.13169 0.61958 0.77255 0.48576 0.95510\n- 1206 2.50427 4.04279 3.10016 2.95725 2.88214 2.84745 3.78234 2.61088 2.91217 2.25926 3.55180 3.24112 3.48607 3.33413 3.08310 2.73234 2.91048 2.46024 4.49214 3.25250 3336 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05037 3.40935 4.13169 0.61958 0.77255 0.48576 0.95510\n- 1207 2.50427 4.04279 3.10016 2.95725 2.88214 2.84745 3.78234 2.61088 2.91217 2.25926 3.55180 3.24112 3.48607 3.33413 3.08310 2.73234 2.91048 2.46024 4.49214 3.25250 3337 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03418 3.39316 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxC4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxC4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4091 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME BREX__brxC4\n-LENG 1356\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 11:24:22 2023\n-NSEQ 30\n-EFFN 4.639893\n-CKSUM 2400001114\n-GA 50 50;\n-STATS LOCAL MSV -13.0128 0.69495\n-STATS LOCAL VITERBI -14.3899 0.69495\n-STATS LOCAL FORWARD -7.1654 0.69495\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56973 4.65717 2.92071 2.49480 3.23840 3.13112 3.73798 2.81809 2.54031 2.41738 3.74843 3.00610 3.48368 2.99776 2.90838 2.64369 2.84990 2.77708 4.36882 3.47065\n- 2.68619 4.42252 2.77518 2.73150 3.46381 2.40539 3.72521 3.29381 2.67716 2.69382 4.24018 2.90342 2.73766 3.18173 2.89827 2.37894 2.77510 2.98466 4.58504 3.61530\n- 0.66648 1.54897 1.29456 0.94225 0.49389 0.00000 *\n- 1 2.34105 5.02375 2.67951 2.74578 4.31360 3.03454 3.96814 3.72577 2.80700 3.34478 1.46416 2.62420 4.10557 3.13578 3.26820 2.68850 3.13270 3.40196 5.60306 4.27651 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08553 4.87125 2.59954 0.61958 0.77255 0.31014 1.32179\n- 2 2.58541 5.21503 2.66021 2.51246 4.48166 3.72915 3.30517 3.91580 2.47181 2.85594 2.06759 2.40777 4.12031 3.05739 3.17776 2.92697 2.33259 3.56278 3.86887 4.33981 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00920 5.08882 5.81117 0.61958 0.77255 0.74556 0.64335\n- 3 2.92194 5.21913 3.26788 2.70995 3.53057 3.73235 3.30416 3.92077 1.59383 2.83568 4.28132 3.23985 3.28383 3.05849 2.34543 2.67342 2.30059 3.56758 5.70028 3.49007 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00920 5.08882 5.81117 0.61958 0.77255 0.74556 0.64335\n- 4 4.57022 5.75690 5.62139 5.41703 2.81909 5.27608 4.39352 2.64603 5.14786 3.39003 4.74181 5.04551 5.61593 5.13236 5.11410 4.72648 4.82230 3.91326 4.50905 0.33934 10 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00920 5.08882 5.81117 0.61958 0.77255 0.74556 0.64335\n- 5 2.92394 5.38550 3.18841 2.48656 3.90294 2.96865 3.89054 4.18536 2.14451 3.68288 4.43265 2.90713 4.09605 2.99374 2.29798 1.44364 2.81247 3.76753 5.82875 4.43183 11 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00920 5.08882 5.81117 0.61958 0.77255 0.49524 0.94014\n- 6 3.05473 5.58029 1.39804 1.69937 4.92091 3.75562 3.38235 4.41133 2.26505 3.88183 4.62752 3.21859 4.18408 3.09489 2.78082 2.56450 3.29087 3.96961 6.00882 4.58744 12 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00870 5.14405 5.86640 0.61958 0.77255 0.60058 0.79516\n- 7 2.64687 4.64243 5.12910 4.55810 3.71671 4.49733 4.85235 1.50821 4.38837 2.69913 3.74931 4.61903 4.8'..b'.68688 4.42335 2.77527 2.73059 3.46168 2.40568 3.72512 3.29219 2.67643 2.69337 4.24799 2.90416 2.73849 3.18026 2.89673 2.37972 2.77629 2.98488 4.58321 3.61459\n- 0.31236 1.32883 5.65722 2.28227 0.10764 0.30392 1.33911\n- 1349 3.15055 3.01571 3.45171 4.42231 3.64923 4.34485 4.69637 1.39210 4.24224 1.42085 3.64194 4.47062 4.70004 4.40140 4.29909 3.65904 2.68103 2.10381 5.21676 4.03590 1957 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05235 5.19895 3.09042 0.61958 0.77255 0.59670 0.79990\n- 1350 2.94772 5.44558 2.43837 1.68343 4.78489 3.10698 3.91027 3.34616 2.31654 2.81554 4.48798 3.19010 4.11543 2.17000 3.14017 2.30550 3.17907 3.83316 5.88150 4.47355 1958 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00861 5.15521 5.87755 0.61958 0.77255 0.72050 0.66652\n- 1351 2.98467 4.42152 4.60892 2.47819 2.60880 4.11192 4.42569 1.45265 3.86682 2.19052 3.53756 4.15496 3.76942 4.06000 3.03007 3.40689 2.94014 2.21905 3.66862 3.85153 1959 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00861 5.15521 5.87755 0.61958 0.77255 0.72050 0.66652\n- 1352 4.08516 5.33421 6.00578 5.42285 3.61706 5.38376 5.57960 1.49736 5.23989 0.66609 3.46984 5.52540 5.50287 5.16708 5.19022 4.75103 4.29363 3.08884 2.73646 4.56487 1960 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00861 5.15521 5.87755 0.61958 0.77255 0.72050 0.66652\n- 1353 1.99470 5.37009 2.38426 2.02934 4.68940 3.70709 3.89695 4.15744 2.19281 2.81122 3.26216 3.18523 4.09995 3.00226 2.45762 2.89820 2.94998 3.21140 5.81845 4.42375 1961 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09084 5.10759 2.51594 0.61958 0.77255 0.72050 0.66652\n- 1354 2.51317 5.40986 2.08999 2.22292 4.75521 3.21409 3.85479 4.24201 2.06139 3.71510 4.45091 2.43928 4.06012 2.75884 2.31029 2.44377 3.12800 3.80074 5.84180 4.42957 1962 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00980 5.02655 5.74889 0.61958 0.77255 0.89723 0.52374\n- 1355 2.87783 4.99967 3.32306 1.93334 4.21628 2.92870 3.93531 2.77496 2.51556 2.26457 4.07694 2.46175 4.11473 3.10457 3.20942 2.93505 3.10921 3.31949 5.51668 2.52899 1963 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27379 4.97629 1.45838 0.61958 0.77255 0.89723 0.52374\n- 1356 2.76716 4.28500 4.09000 2.95822 3.39448 2.80646 4.13987 2.51980 3.41001 1.81143 2.50155 3.77113 4.21753 3.65293 3.63556 2.68667 2.99953 1.92631 4.89520 3.69653 1964 l - - -\n- 2.68669 4.42300 2.77576 2.73009 3.46372 2.40431 3.72524 3.29429 2.67645 2.69360 4.24640 2.90422 2.73745 3.18182 2.89760 2.37917 2.77522 2.98558 4.58377 3.61578\n- 0.98054 0.47018 * 1.36217 0.29585 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1337 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxD\n-LENG 438\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 8 16:26:05 2021\n-NSEQ 1008\n-EFFN 1.242004\n-CKSUM 3686977546\n-GA 100 100;\n-STATS LOCAL MSV -11.5654 0.69872\n-STATS LOCAL VITERBI -12.2313 0.69872\n-STATS LOCAL FORWARD -5.8922 0.69872\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44793 4.65823 2.86973 2.61233 3.31026 2.84034 3.79747 2.89437 2.69887 2.35028 3.71542 3.19531 3.50319 3.03733 2.78037 2.74607 2.85025 2.58475 4.69913 3.62075\n- 2.68620 4.42220 2.77521 2.73125 3.46357 2.40512 3.72496 3.29357 2.67744 2.69357 4.24621 2.90348 2.73739 3.18150 2.89799 2.37885 2.77518 2.98519 4.58476 3.61506\n- 0.37807 2.75046 1.38263 0.95581 0.48532 0.00000 *\n- 1 2.60863 4.26963 3.69755 3.17485 3.38257 3.57820 3.91197 2.56476 3.01467 2.31277 1.74849 3.48096 3.99907 3.37468 3.28685 2.88414 2.77605 2.36334 4.92991 3.70285 54 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02966 4.02331 4.47993 0.61958 0.77255 0.66026 0.72715\n- 2 2.48030 4.59352 3.03625 2.54288 3.74211 3.43047 3.66436 3.16287 2.52549 2.83402 3.15384 2.88006 3.81838 2.81928 2.95620 2.28586 2.34308 2.84923 4.93387 3.84142 55 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07254 4.09253 2.93230 0.61958 0.77255 0.52388 0.89703\n- 3 2.34211 4.68430 2.85840 2.44129 3.93245 3.28012 3.62592 3.24934 2.45881 2.96040 3.00253 2.93201 3.58520 2.80044 2.87032 2.54458 2.48592 2.89685 5.23609 3.92058 56 a - - -\n- 2.68601 4.42240 2.77528 2.73132 3.46367 2.40513 3.72498 3.29355 2.67751 2.69365 4.24698 2.90360 2.73712 3.18153 2.89792 2.37877 2.77507 2.98516 4.58495 3.61519\n- 0.57776 1.29274 1.80590 1.25847 0.33420 0.56859 0.83546\n- 4 2.42459 4.89474 2.68827 2.22517 4.16754 3.28255 3.56565 3.55782 2.30458 3.13427 3.56562 2.87748 3.35141 2.57524 2.81478 2.44543 2.70119 3.15523 5.37415 4.01211 121 e - - -\n- 2.68618 4.42226 2.77516 2.73124 3.46354 2.40511 3.72494 3.29355 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37886 2.77520 2.98519 4.58477 3.61504\n- 0.05462 3.13603 4.63603 0.59901 0.79708 0.38315 1.14479\n- 5 2.54183 4.12101 3.92325 3.49015 3.22627 3.57282 4.05048 2.05671 3.33625 2.06853 2.88372 3.71261 3.78122 3.55176 3.56802 3.02997 2.83219 1.74108 4.74967 3.55583 129 v - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69353 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.04095 3.80025 4.03106 0.57283 0.82994 0.48185 0.96139\n- 6 2.61623 4.71613 3.12415 2.56492 3.95135 3.31846 3.73201 3.37643 2.50131 2.94368 3.68027 2.97546 3.88599 2.88067 2.91976 1.60896 2.68818 2.99190 5.28412 3.97939 131 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02067 4.28517 5.00752 0.61958 0.77255 0.51212 0.91436\n- 7 2.19006 4.98918 2.92673 2.23876 4.19402 3.42444 3.57108 3.71378 2.31965 3.19864 4.04735 2.85642 2.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04586 4.25776 3.48437 0.61958 0.77255 0.54061 0.87321\n- 431 1.73881 4.39903 3.42970 2.88117 3.58958 3.46720 3.86956 2.92427 2.78712 2.63776 3.57695 3.28896 2.96207 3.15698 3.17517 2.73421 2.83672 2.26588 5.05985 3.81419 699 a - - -\n- 2.68615 4.42226 2.77519 2.73119 3.46355 2.40513 3.72495 3.29351 2.67742 2.69354 4.24691 2.90347 2.73741 3.18147 2.89802 2.37887 2.77521 2.98519 4.58478 3.61504\n- 0.05591 3.04928 4.96475 0.60821 0.78598 0.52292 0.89842\n- 432 2.76104 5.43623 1.31094 2.10154 4.73562 2.89934 3.23728 4.23288 2.69637 3.72939 4.53045 2.75409 3.87262 2.91966 3.24716 2.76447 3.13283 3.81054 5.89058 4.42960 704 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02102 4.26839 4.99073 0.61958 0.77255 0.54310 0.86976\n- 433 2.68076 5.22735 1.56239 1.90321 4.52285 3.35108 3.72218 3.42708 2.55000 3.51515 4.30509 2.87200 3.81136 2.84333 3.06622 2.72035 3.02865 3.59034 5.69218 4.21449 705 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26956 4.99191 0.61958 0.77255 0.54419 0.86825\n- 434 2.55209 4.21892 3.47650 3.12463 3.34143 3.67695 3.93957 1.80691 3.12956 2.36185 3.33632 3.45601 3.94626 3.40298 3.38056 2.89334 2.78718 1.93127 4.83837 3.62726 706 i - - -\n- 2.68607 4.42236 2.77521 2.73120 3.46362 2.40509 3.72506 3.29364 2.67742 2.69358 4.24694 2.90359 2.73722 3.18144 2.89798 2.37895 2.77526 2.98517 4.58489 3.61470\n- 0.15384 1.99658 4.99191 1.34193 0.30292 0.45355 1.00888\n- 435 2.46410 5.13902 2.38539 1.78298 4.46240 3.40469 3.60827 3.93090 2.38199 3.40030 4.18843 2.71335 3.63173 2.66727 2.76422 2.57390 2.85396 3.26137 5.58391 4.18070 730 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02013 4.31164 5.03399 0.61958 0.77255 0.48755 0.95225\n- 436 2.88362 4.31270 4.40118 3.46040 2.89581 4.03219 4.33872 2.25965 3.69219 1.17459 3.06806 4.02794 4.27433 3.85679 3.85334 3.33184 3.11334 2.02899 4.92476 3.76375 731 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11547 4.31164 2.34715 0.61958 0.77255 0.48755 0.95225\n- 437 2.74560 5.33508 1.64633 1.80707 4.64581 3.30125 3.71708 4.13825 2.55734 3.62870 4.40960 2.74419 3.56465 2.77160 3.02224 2.59000 2.96288 3.71187 5.78031 4.33567 732 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02530 4.21829 4.57956 0.61958 0.77255 0.60626 0.78831\n- 438 2.61221 4.05050 4.23065 3.62833 2.58237 3.56407 4.06987 2.36493 3.50379 1.54482 3.03832 3.79811 4.01293 3.69612 3.63431 3.05345 2.83791 2.13351 4.18292 3.48436 733 l - - -\n- 2.68618 4.42231 2.77512 2.73124 3.46359 2.40510 3.72498 3.29359 2.67746 2.69359 4.24695 2.90352 2.73720 3.18150 2.89803 2.37887 2.77522 2.98524 4.58432 3.61509\n- 0.17373 1.83588 * 0.71385 0.67286 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,617 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxE\n-LENG 198\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 8 17:50:50 2021\n-NSEQ 59\n-EFFN 1.948181\n-CKSUM 12036234\n-GA 20 20;\n-STATS LOCAL MSV -10.7324 0.70549\n-STATS LOCAL VITERBI -11.2072 0.70549\n-STATS LOCAL FORWARD -4.7864 0.70549\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44273 4.67924 2.87808 2.54486 3.32309 3.01409 3.71120 2.98784 2.66670 2.35568 3.71686 3.16001 3.27244 3.02329 2.79407 2.68297 2.87128 2.80146 3.97965 3.65285\n- 2.68662 4.42296 2.77532 2.73123 3.46334 2.40556 3.72531 3.29192 2.67700 2.69317 4.23993 2.90358 2.73781 3.18199 2.89858 2.37925 2.77548 2.98526 4.58548 3.61403\n- 1.08223 1.16058 1.05596 1.99884 0.14559 0.00000 *\n- 1 2.61281 4.83174 2.82184 2.19340 3.73980 3.43519 3.64134 3.33519 2.40587 3.09240 2.97488 2.31982 3.59569 2.78798 2.90329 2.64153 2.74317 3.16590 5.33104 3.99135 21 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18630 4.90865 0.61958 0.77255 0.98805 0.46570\n- 2 2.46597 4.56153 2.88052 2.63001 3.75155 2.97053 3.72736 2.72546 2.61303 2.49078 3.66005 2.82854 3.88277 2.94576 3.03760 2.62067 2.52565 2.66354 5.11810 3.83636 22 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18630 4.90865 0.61958 0.77255 0.98805 0.46570\n- 3 2.53969 4.92751 2.94882 2.29451 4.20470 3.42319 3.62245 3.49404 2.03743 3.13287 3.99407 2.35048 3.46868 2.75152 2.84863 2.62916 2.59406 3.06460 5.40843 4.05119 23 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18630 4.90865 0.61958 0.77255 0.91623 0.51087\n- 4 2.50082 5.04665 2.34611 2.14794 4.35450 3.40834 3.60834 3.81481 2.31292 3.33637 3.66264 2.89218 2.98422 2.71978 2.69958 2.47232 2.70193 3.41760 5.50352 4.11564 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02203 4.22230 4.94465 0.61958 0.77255 0.91939 0.50876\n- 5 2.54067 4.99666 2.83647 2.17828 4.28848 3.42322 3.62123 3.73666 2.23316 3.27939 3.80121 2.75974 3.81854 2.74003 2.76732 2.12887 2.43113 3.27222 5.46494 4.09082 25 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02160 4.24176 4.96411 0.61958 0.77255 0.94396 0.49279\n- 6 2.56469 4.70993 2.36129 2.53986 3.70305 3.00374 3.69838 2.88150 2.53438 2.96680 3.80167 2.90761 3.86702 2.87604 2.98315 2.60638 2.43289 2.75201 5.24611 3.93572 26 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02160 4.24176 4.96411 0.61958 0.77255 0.55354 0.85546\n- 7 2.67553 4.43015 3.49996 2.49958 3.57262 3.64042 3.60139 2.29101 2.89037 2.57345 2.35587 3.07585 4.02100 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01495 4.60639 5.32873 0.61958 0.77255 0.48576 0.95510\n- 191 3.11227 3.89839 5.00116 4.39978 2.75811 4.32399 4.65219 1.91368 4.21898 1.31247 1.78257 4.45997 4.62016 4.30992 4.24310 3.64653 3.16323 2.44281 5.05850 3.93455 240 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01495 4.60639 5.32873 0.61958 0.77255 0.48576 0.95510\n- 192 2.81683 4.74386 3.79551 3.70706 4.93593 3.44564 4.85947 4.50783 3.86843 4.17427 5.04954 3.85304 0.52699 4.18252 4.11920 2.57088 3.34185 3.88589 6.24451 5.03249 241 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01495 4.60639 5.32873 0.61958 0.77255 0.48576 0.95510\n- 193 4.09338 5.29848 5.09058 4.77397 1.14696 4.82825 1.85816 3.88879 4.61018 3.24265 3.84502 4.47168 5.12371 4.54247 4.62406 4.17957 4.30442 3.76987 3.95597 1.26430 242 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01495 4.60639 5.32873 0.61958 0.77255 0.48576 0.95510\n- 194 3.34457 4.68103 4.91197 4.41129 2.00377 4.41319 4.13282 2.45726 4.24424 2.33373 3.61500 4.35686 4.73064 4.30965 4.29135 3.73773 3.57072 2.48404 4.38391 1.04264 243 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01495 4.60639 5.32873 0.61958 0.77255 0.48576 0.95510\n- 195 2.98748 5.32024 3.31510 2.21015 4.69566 3.71758 3.78740 4.10674 1.78312 2.75666 4.37674 3.20293 3.78752 2.90266 1.46367 2.96609 3.19076 3.73221 5.68336 4.38925 244 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09975 4.60639 2.46569 0.61958 0.77255 0.48576 0.95510\n- 196 2.56002 4.56102 3.39824 2.83394 3.72157 3.63161 3.60218 2.79837 2.79609 2.28185 3.33146 3.06016 3.81057 3.12451 1.98796 2.56784 2.93621 2.58190 5.12310 3.86318 245 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01626 4.52290 5.24524 0.61958 0.77255 0.62758 0.76331\n- 197 2.20117 5.03903 2.85691 2.07504 4.31792 3.25012 3.70517 3.75946 2.44083 3.31583 3.90444 3.00803 3.49841 2.62284 2.86802 2.63859 2.73328 2.39724 5.51416 4.14733 246 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06884 4.52290 2.88830 0.61958 0.77255 0.62758 0.76331\n- 198 1.78177 5.06015 2.91820 2.18231 4.35345 3.19185 3.68843 3.80177 2.33764 3.13378 4.12115 2.98239 3.54185 2.80768 2.78566 2.42822 2.83334 3.42395 5.53151 4.15715 247 a - - -\n- 2.68621 4.42247 2.77490 2.73113 3.46376 2.40510 3.72452 3.29376 2.67757 2.69373 4.24711 2.90330 2.73761 3.18164 2.89743 2.37904 2.77536 2.98472 4.58499 3.61525\n- 0.44151 1.03020 * 0.91401 0.51235 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,575 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxF\n-LENG 184\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 10:31:31 2021\n-NSEQ 585\n-EFFN 7.368736\n-CKSUM 1733928614\n-GA 18 18;\n-STATS LOCAL MSV -10.0474 0.70641\n-STATS LOCAL VITERBI -10.7875 0.70641\n-STATS LOCAL FORWARD -5.1407 0.70641\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65568 4.58808 2.93906 2.54724 3.50389 3.12787 3.70560 2.72053 2.61325 2.22087 3.62829 2.99501 3.41759 3.03201 2.89928 2.67439 2.94414 2.70862 4.64015 3.45195\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24670 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.15301 2.84983 2.47664 0.54568 0.86618 0.00000 *\n- 1 2.98548 4.53090 4.07180 3.66671 3.21661 3.84967 4.39699 2.39429 3.43369 1.80801 1.33834 3.94165 4.31027 3.81411 3.63657 3.33684 3.29114 2.40286 5.06030 3.82399 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03074 3.89343 4.61578 0.61958 0.77255 0.53116 0.88654\n- 2 2.51809 4.41562 3.01460 2.63736 3.63043 3.28382 3.71170 2.37034 2.60371 2.68681 3.55985 3.09069 3.69142 2.86693 3.02440 2.51907 2.49204 2.73067 5.02149 3.75688 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07467 3.89343 2.96479 0.61958 0.77255 0.53116 0.88654\n- 3 2.56209 4.67300 2.77217 2.39348 3.89186 2.63602 3.29633 3.30548 2.43607 2.75580 3.76957 2.92518 3.78016 2.78807 2.84232 2.54605 2.73455 3.00428 5.19550 3.68637 4 e - - -\n- 2.68597 4.42234 2.77521 2.73128 3.46323 2.40522 3.72502 3.29356 2.67741 2.69352 4.24699 2.90356 2.73746 3.18135 2.89803 2.37887 2.77521 2.98514 4.58486 3.61512\n- 0.25444 1.63305 3.52952 1.14704 0.38210 0.56763 0.83671\n- 4 2.49417 4.57248 3.08204 2.51576 3.78608 3.42051 3.65417 3.16831 2.47283 2.74738 2.99825 3.02401 3.57149 2.37281 2.89326 2.46496 2.72895 2.89029 5.12188 3.83397 20 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15714 3.94147 2.07150 0.61958 0.77255 0.58315 0.81676\n- 5 2.57851 4.80082 2.66517 2.30314 4.07377 3.21088 3.58724 3.49532 2.30655 3.01751 3.72252 2.37903 3.75657 2.74062 2.81730 2.38149 2.82128 3.16070 5.31816 3.97560 21 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03320 3.81753 4.53988 0.61958 0.77255 0.55236 0.85706\n- 6 2.37986 4.23804 3.51800 2.95009 3.37441 3.55728 3.82380 2.28191 2.76551 2.38609 2.77764 3.33157 3.89988 3.04285 3.20207 2.72524 2.54186 2.48176 4.83505 3.61003 22 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02698 4.02209 4.74443 0.61958 0.77255 0.59509 0.80187\n- 7 2.40504 4.84957 2.83349 2.27376 4.10696 3.33164 2.97836 3.44884 2.36495 3.11630 3.55548 2.85795 3.62562'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05211 3.78810 3.57079 0.61958 0.77255 0.65226 0.73578\n- 177 2.53548 4.66195 2.89561 2.39765 3.89452 3.27600 3.57719 3.29929 2.34841 2.89755 3.62477 2.59715 3.68464 2.69877 2.70181 2.47802 2.70746 2.95395 4.94313 3.86531 328 k - - -\n- 2.68618 4.42219 2.77522 2.73120 3.46356 2.40511 3.72497 3.29356 2.67743 2.69351 4.24692 2.90349 2.73740 3.18146 2.89792 2.37889 2.77519 2.98520 4.58479 3.61505\n- 0.10679 2.40688 4.49316 0.77594 0.61669 0.66437 0.72278\n- 178 2.55192 4.73087 2.79939 2.36931 3.98898 3.14291 3.56757 3.34983 2.28443 2.92897 3.82526 2.64543 3.56253 2.63882 2.64415 2.56936 2.74979 3.01153 5.24242 3.91764 336 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03532 3.75675 4.47910 0.61958 0.77255 0.49275 0.94404\n- 179 2.57282 4.60832 2.78462 2.24647 4.15892 3.35962 3.44524 3.59156 2.18516 3.14779 3.88043 2.66690 3.75413 2.54763 2.44490 2.57514 2.80086 3.23508 5.34237 3.84528 337 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03214 3.84955 4.57189 0.61958 0.77255 0.56306 0.84273\n- 180 2.49830 3.78233 2.97140 2.16969 3.85563 3.04782 3.63336 3.25184 2.43986 2.89293 3.73333 2.91362 3.70993 2.78509 2.86638 2.44330 2.77000 2.88498 5.17079 3.87037 338 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03942 3.82143 4.08918 0.61958 0.77255 0.54364 0.86900\n- 181 1.92244 4.11167 3.33225 2.89856 3.78948 2.91797 3.90380 2.99427 2.83633 2.82426 3.54528 3.16827 3.66198 3.17999 3.16420 2.26208 2.36992 2.53769 5.19446 3.96321 339 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04958 3.69141 3.75357 0.61958 0.77255 0.55679 0.85108\n- 182 2.49651 4.52201 2.60949 2.30638 4.02466 2.35907 3.67460 3.43165 2.40822 3.08740 3.97426 2.85856 3.68089 2.89086 2.70564 2.57349 2.83265 3.08289 5.29521 4.00453 340 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05236 3.58577 3.75949 0.61958 0.77255 0.55087 0.85909\n- 183 2.67014 4.72261 2.82568 2.42692 3.99384 3.24261 3.56093 3.43268 2.12943 2.97507 3.91184 2.92162 3.78405 2.34843 2.25290 2.71669 2.91762 3.13757 5.20314 3.91690 341 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04193 3.58851 4.31086 0.61958 0.77255 0.56305 0.84274\n- 184 2.39562 4.20331 2.85763 2.70900 3.33724 2.93832 3.75041 2.90623 2.66043 2.57791 3.74504 3.03935 3.59962 2.97526 2.90605 2.48036 2.80786 2.67553 4.81953 3.44665 342 a - - -\n- 2.68618 4.42226 2.77519 2.73123 3.46354 2.40513 3.72495 3.29352 2.67739 2.69355 4.24690 2.90347 2.73740 3.18147 2.89800 2.37887 2.77519 2.98517 4.58477 3.61504\n- 0.05454 2.93604 * 0.72123 0.66583 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxHI.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxHI.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2123 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxHI\n-LENG 700\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 11:09:26 2021\n-NSEQ 100\n-EFFN 0.936890\n-CKSUM 1466489744\n-GA 100 100;\n-STATS LOCAL MSV -12.2840 0.69663\n-STATS LOCAL VITERBI -13.1710 0.69663\n-STATS LOCAL FORWARD -6.4649 0.69663\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43240 4.43947 2.99160 2.67120 3.43641 2.86032 3.67235 2.87723 2.77730 2.34090 3.68136 3.16214 3.43584 3.05739 2.79498 2.66022 2.81387 2.57584 4.21150 3.78348\n- 2.68600 4.42251 2.77522 2.73120 3.46380 2.40508 3.72494 3.29373 2.67765 2.69373 4.24539 2.90368 2.73727 3.18149 2.89807 2.37884 2.77502 2.98495 4.58487 3.61529\n- 0.38004 1.33584 2.93318 1.58576 0.22915 0.00000 *\n- 1 2.49227 4.37750 3.22417 2.73036 3.48797 3.43271 3.77002 2.87606 2.74130 2.52911 2.64939 3.18765 3.35712 2.98910 3.07185 2.73269 2.58247 2.32901 4.95072 3.70167 27 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03309 4.10820 4.12845 0.61958 0.77255 0.51796 0.90569\n- 2 2.39949 4.60274 2.53646 2.28736 4.17077 3.27726 3.61000 3.56239 2.38925 3.17557 3.82878 2.84800 3.69999 2.71251 2.86406 2.20615 2.56012 3.24878 5.38600 4.02748 28 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02464 4.11167 4.83402 0.61958 0.77255 0.52622 0.89364\n- 3 2.18240 4.83730 2.85866 2.27554 4.12863 2.73085 3.56822 3.55449 2.41614 3.14403 3.95012 2.93481 2.99241 2.79180 2.91664 2.52700 2.76673 3.08888 5.37318 4.02710 29 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02451 4.11672 4.83906 0.61958 0.77255 0.50116 0.93096\n- 4 2.46996 4.07451 4.05422 3.46831 2.03783 3.65008 3.99653 2.36059 3.34599 2.06782 3.07159 3.67856 3.80474 3.56721 3.41559 2.98799 2.83088 2.20081 4.34759 3.46737 30 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02413 4.13210 4.85445 0.61958 0.77255 0.49752 0.93658\n- 5 2.57065 5.08889 1.79476 2.06119 4.39054 3.33628 3.64562 3.84960 2.44837 3.38240 4.16539 2.85487 3.76809 2.75362 2.92288 2.58713 2.72183 3.41887 5.25901 4.16527 31 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02394 4.14000 4.86235 0.61958 0.77255 0.49666 0.93792\n- 6 2.51573 4.87943 2.85436 2.40503 4.14310 3.15163 3.61868 3.52865 2.34248 2.77898 3.90198 2.94043 3.76892 2.49162 2.20206 2.61423 2.75861 3.17060 5.36334 4.01798 32 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02385 4.14353 4.86587 0.61958 0.77255 0.49934 0.93377\n- 7 3.40871 4.79010 4.76059 4.30413 3.13842 4.49995 4.85528 2.23049 4.04874 0.70718 3.02990 4.55571 4.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02482 4.10420 4.82654 0.61958 0.77255 0.54389 0.86865\n- 693 2.46339 4.20592 3.60742 3.03495 3.29995 3.58977 3.74692 2.52576 2.88363 2.26811 3.11114 3.33925 3.96611 3.25316 2.94210 2.76312 2.53193 2.07835 4.48566 3.58061 865 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02482 4.10420 4.82654 0.61958 0.77255 0.54389 0.86865\n- 694 2.45952 4.72813 3.03003 2.48335 3.95772 3.45272 3.54050 3.32255 2.42392 2.98040 3.81177 3.00963 3.84239 2.75606 2.03562 2.51413 2.78127 2.76847 5.03795 3.93266 866 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02482 4.10420 4.82654 0.61958 0.77255 0.54389 0.86865\n- 695 2.52254 4.04392 4.02195 3.35738 2.40200 3.49948 3.96794 2.25106 3.31498 2.12232 3.11409 3.64517 4.03639 3.53678 3.35785 2.77523 2.75813 2.12875 4.14024 3.33345 867 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03346 4.10420 4.11028 0.61958 0.77255 0.54389 0.86865\n- 696 2.47534 4.46731 3.23446 2.57874 3.55224 3.43090 3.43242 2.93182 2.64270 2.52953 3.52737 3.08505 3.73294 2.89766 2.88228 2.61335 2.52066 2.36606 5.02476 3.59953 868 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 4.09577 4.39375 0.61958 0.77255 0.55297 0.85623\n- 697 2.46951 4.51414 3.11219 2.61032 3.59184 3.14828 3.38558 2.94308 2.58661 2.68301 3.50565 3.03822 3.74519 2.90950 2.70095 2.60201 2.57627 2.59102 4.48252 3.64637 869 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05488 4.09149 3.30541 0.61958 0.77255 0.55752 0.85010\n- 698 2.47083 4.62323 2.86558 2.36625 3.83892 3.08674 3.55915 3.18433 2.45115 2.76207 3.78833 2.92598 3.68513 2.70900 2.75508 2.47262 2.69075 2.84080 5.07001 3.90760 870 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09633 4.06251 2.59527 0.61958 0.77255 0.58729 0.81155\n- 699 2.47154 4.56984 2.72144 2.30296 4.05169 3.00375 3.51292 3.43960 2.31478 3.11275 3.83481 2.87621 3.48064 2.57287 2.78560 2.46641 2.69842 3.10587 5.33110 3.97811 871 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17704 3.99394 1.93916 0.61958 0.77255 0.62609 0.76502\n- 700 2.39032 4.63496 2.77165 2.25509 3.95993 3.13118 3.53612 3.36963 2.36785 3.03016 3.83971 2.87061 3.54405 2.63614 2.74565 2.49439 2.75374 3.01524 5.26719 3.92773 872 e - - -\n- 2.68612 4.42232 2.77521 2.73127 3.46361 2.40505 3.72498 3.29361 2.67746 2.69358 4.24689 2.90350 2.73740 3.18150 2.89797 2.37883 2.77518 2.98517 4.58462 3.61505\n- 0.29655 1.36016 * 0.74546 0.64344 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxHII.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxHII.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2789 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxHII\n-LENG 922\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 11:34:23 2021\n-NSEQ 100\n-EFFN 2.236938\n-CKSUM 2729754075\n-GA 100 100;\n-STATS LOCAL MSV -12.5105 0.69579\n-STATS LOCAL VITERBI -13.3808 0.69579\n-STATS LOCAL FORWARD -6.6632 0.69579\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52257 4.58279 2.95574 2.53786 3.40258 3.04581 3.70421 2.82702 2.64626 2.37953 3.64315 3.09927 3.46098 2.95208 2.78530 2.69895 2.85742 2.62186 4.49162 3.68382\n- 2.68609 4.42258 2.77515 2.73126 3.46361 2.40510 3.72495 3.29376 2.67768 2.69377 4.24192 2.90369 2.73760 3.18148 2.89806 2.37891 2.77506 2.98512 4.58510 3.61529\n- 0.97057 1.13752 1.20225 1.25622 0.33509 0.00000 *\n- 1 2.62475 4.04926 4.29381 3.69889 2.33369 3.68585 3.86410 2.45578 3.54213 2.04654 2.40084 3.81371 4.12214 3.72414 3.56895 2.95771 2.85668 2.15675 4.04426 2.79814 17 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03895 4.26406 3.72395 0.61958 0.77255 0.89474 0.52545\n- 2 2.52282 4.75478 2.77161 2.20673 4.36091 3.09158 3.61315 3.82178 2.19932 3.22369 3.67535 2.71127 3.81447 2.38637 2.79691 2.36362 2.73678 3.35728 5.50729 4.11972 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02098 4.27031 4.99266 0.61958 0.77255 0.90680 0.51721\n- 3 2.50787 4.41076 3.31691 2.68904 3.55938 3.57840 3.82454 2.27209 2.80636 2.44586 3.51173 3.15236 3.18925 3.04687 3.14095 2.59299 2.80703 2.26839 4.98530 3.73894 19 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02074 4.28183 5.00418 0.61958 0.77255 0.85747 0.55205\n- 4 2.66731 4.77816 2.99843 2.48320 3.85859 1.71570 3.73996 3.43263 2.56904 3.02101 3.58143 2.90149 3.80716 2.83239 3.01384 2.62777 2.91123 3.12603 5.32812 4.01186 20 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02013 4.31119 5.03353 0.61958 0.77255 0.89509 0.52521\n- 5 2.52298 5.06544 2.08032 2.20895 4.37133 3.43253 3.63058 3.29144 2.33771 3.30826 4.11771 2.85725 3.64368 2.62152 2.78609 2.45710 2.78321 3.34520 5.52215 4.13499 21 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02013 4.31119 5.03353 0.61958 0.77255 0.89509 0.52521\n- 6 2.69127 4.28602 3.79217 3.21898 3.24320 3.70902 3.92213 2.75546 2.86208 2.27300 3.39438 3.53853 4.08437 3.39199 3.33916 2.83241 2.83871 2.48507 1.86385 3.11213 22 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02013 4.31119 5.03353 0.61958 0.77255 0.89509 0.52521\n- 7 2.22531 2.88725 4.01489 3.43214 3.15934 3.72723 4.02635 2.42926 3.32468 2.21446 3.24926 3.67426 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03371 4.64276 3.74987 0.61958 0.77255 0.52870 0.89006\n- 915 2.65984 3.95004 4.52144 3.91924 2.95217 3.90433 4.22706 2.41632 3.74641 1.43199 2.76161 3.99883 4.26753 3.26604 3.82418 3.20710 2.76504 1.99136 4.78066 3.28311 1288 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62374 5.34609 0.61958 0.77255 0.56369 0.84189\n- 916 2.48635 4.17818 4.35572 3.76142 3.04137 3.62407 4.17981 2.07845 3.61581 2.01084 2.37195 3.90607 4.10716 3.81055 2.86486 3.03086 2.76251 2.01011 4.79469 3.60885 1289 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62374 5.34609 0.61958 0.77255 0.56369 0.84189\n- 917 2.36573 4.18878 4.60536 4.00411 2.52792 3.96172 4.29320 2.12968 3.82671 1.84684 3.14392 4.06961 4.32077 3.98785 3.58853 3.26870 2.83263 1.60292 4.83023 3.65209 1290 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62374 5.34609 0.61958 0.77255 0.56369 0.84189\n- 918 2.69955 4.68746 3.33421 2.49685 3.70599 3.63617 3.57056 3.12421 2.74684 2.75502 3.77701 3.10818 4.02127 3.08204 1.85532 2.70313 2.97033 2.64460 4.46377 2.71534 1291 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62374 5.34609 0.61958 0.77255 0.56369 0.84189\n- 919 2.57014 4.17446 4.39499 3.79883 3.27254 3.58854 3.88238 1.89892 3.64416 1.92306 2.95383 3.92873 4.24266 3.59840 3.53521 3.17290 2.97628 1.63870 4.79299 3.60850 1292 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62374 5.34609 0.61958 0.77255 0.56369 0.84189\n- 920 2.67510 5.18728 2.68798 1.87457 4.50915 2.62376 3.70580 3.24985 2.29352 3.38088 4.10499 2.88660 3.65727 2.58503 2.83593 2.64757 2.91895 3.05122 5.63405 4.23752 1293 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07891 4.61367 2.71867 0.61958 0.77255 0.56369 0.84189\n- 921 2.49051 5.08587 3.01285 2.21677 3.42466 2.17672 3.64577 3.62001 2.32019 3.36859 4.14089 2.82435 3.47073 2.60750 2.73987 2.62036 2.94144 3.44845 5.55070 4.17388 1294 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28373 4.53496 1.44265 0.61958 0.77255 0.66660 0.72042\n- 922 2.34607 5.03020 2.72695 2.11614 4.33456 2.79917 3.60383 3.72729 2.23946 3.21190 4.08391 2.86254 3.34150 2.62731 2.81680 2.50968 2.83329 3.28110 5.48906 4.10366 1295 e - - -\n- 2.68578 4.42217 2.77518 2.73115 3.46374 2.40475 3.72443 3.29375 2.67751 2.69364 4.24683 2.90369 2.73754 3.18146 2.89804 2.37898 2.77532 2.98524 4.58493 3.61528\n- 0.50287 0.92834 * 1.32575 0.30871 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxL.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxL.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2231 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxL\n-LENG 736\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 8 16:26:05 2021\n-NSEQ 1488\n-EFFN 3.652679\n-CKSUM 7139275\n-GA 100 100;\n-STATS LOCAL MSV -12.3872 0.69646\n-STATS LOCAL VITERBI -13.2712 0.69646\n-STATS LOCAL FORWARD -6.5020 0.69646\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58350 4.45306 2.90739 2.61913 3.23332 2.86251 3.73586 2.84018 2.63319 2.43854 3.64033 3.06854 3.39982 3.08501 2.88093 2.65842 2.85219 2.66406 4.57279 3.45106\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05012 3.41419 4.13654 0.61958 0.77255 0.00000 *\n- 1 2.49271 4.16428 3.21988 3.00705 3.13634 3.05705 3.86674 2.49622 2.83984 2.17175 3.20218 3.28181 3.68372 3.31792 3.04806 2.72011 2.88999 2.36025 4.70903 3.37327 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05012 3.41419 4.13654 0.61958 0.77255 0.48576 0.95510\n- 2 2.25328 4.03289 2.99561 2.87408 3.31046 2.80039 3.82328 2.70044 2.85054 2.41348 3.66327 3.15971 3.46739 3.28906 3.03942 2.61453 2.83301 2.50556 4.68770 3.51316 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05012 3.41419 4.13654 0.61958 0.77255 0.48576 0.95510\n- 3 2.49944 4.07598 2.82561 2.48339 3.38149 2.77454 3.72493 2.83419 2.71014 2.54149 3.75339 3.06969 3.41780 3.16939 2.90989 2.68552 2.89540 2.62754 4.63928 3.53782 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05012 3.41419 4.13654 0.61958 0.77255 0.48576 0.95510\n- 4 2.47621 4.12787 2.88800 2.75656 3.25434 2.85202 3.73272 2.85295 2.70683 2.44491 3.68120 3.09099 3.49821 2.89571 2.91494 2.65579 2.87907 2.66563 4.64341 3.40435 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05012 3.41419 4.13654 0.61958 0.77255 0.48576 0.95510\n- 5 2.42743 4.08337 3.11721 2.96213 3.19951 2.91225 3.85720 2.58269 2.88256 2.28869 3.56449 3.22788 3.56968 3.32968 3.07848 2.64895 2.85016 2.29157 4.69182 3.41478 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05012 3.41419 4.13654 0.61958 0.77255 0.48576 0.95510\n- 6 2.49944 4.07598 2.82561 2.48339 3.38149 2.77454 3.72493 2.83419 2.71014 2.54149 3.75339 3.06969 3.41780 3.16939 2.90989 2.68552 2.89540 2.62754 4.63928 3.53782 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05012 3.41419 4.13654 0.61958 0.77255 0.48576 0.95510\n- 7 2.40784 3.91103 2.89306 2.79984 3.37079 2.33890 3.72262 2.94527 2.81561 2.64168 3.83683 3.10159 3.2708'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 729 2.48846 3.99907 2.88011 2.62140 3.30626 2.70827 3.72412 2.80032 2.76834 2.48226 3.72366 3.10934 3.35568 3.21852 2.93931 2.69268 2.89454 2.60245 4.54173 3.47697 2105 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 730 2.43743 4.08201 3.08099 2.93478 3.17514 2.89571 3.82967 2.57590 2.85990 2.29571 3.57326 3.20934 3.55131 3.31115 3.05339 2.65485 2.85796 2.38952 4.65424 3.37627 2106 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 731 2.49421 3.99995 3.02821 2.90873 3.16648 2.76146 3.76615 2.67743 2.85497 2.23394 3.61630 3.20224 3.40751 3.30239 3.01111 2.71894 2.90614 2.51203 4.50225 3.35953 2107 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 732 2.48846 3.99907 2.88011 2.62140 3.30626 2.70827 3.72412 2.80032 2.76834 2.48226 3.72366 3.10934 3.35568 3.21852 2.93931 2.69268 2.89454 2.60245 4.54173 3.47697 2108 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 733 2.46628 4.00490 2.93282 2.81384 3.26150 2.72837 3.72635 2.81654 2.70786 2.46213 3.70492 3.12665 3.37810 3.22365 2.81098 2.66992 2.87749 2.61937 4.53877 3.42443 2109 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 734 2.44724 4.03437 2.93798 2.81837 3.27989 2.77421 3.75918 2.75699 2.68812 2.44670 3.68949 3.12851 3.42888 3.23610 2.95997 2.65070 2.81487 2.56133 4.60792 3.45225 2110 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 735 2.41890 4.00161 2.90725 2.79848 3.25293 2.72306 3.72564 2.84419 2.78206 2.56034 3.77100 2.91678 3.38513 3.22856 2.96120 2.61656 2.84243 2.61765 4.55015 3.37831 2111 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40865 4.13099 0.61958 0.77255 0.48576 0.95510\n- 736 2.39002 3.52715 3.18243 3.02273 3.22971 2.72565 3.81530 2.64655 2.90643 2.36272 3.61884 3.25079 3.38484 3.34978 3.04964 2.63018 2.82099 2.45447 4.54614 3.44327 2112 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03420 3.39245 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxP.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__brxP.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2354 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__brxP\n-LENG 777\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 13:53:54 2021\n-NSEQ 38\n-EFFN 1.442627\n-CKSUM 1092971042\n-GA 20 20;\n-STATS LOCAL MSV -12.8694 0.69628\n-STATS LOCAL VITERBI -13.6159 0.69628\n-STATS LOCAL FORWARD -6.4339 0.69628\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61943 3.83468 3.00746 2.61338 3.24558 3.03504 3.75853 2.83189 2.57403 2.47266 3.62705 3.01931 3.45369 3.07724 2.95985 2.63197 2.83620 2.70072 4.25642 3.32061\n- 2.68624 4.42164 2.77526 2.73130 3.46367 2.40521 3.72508 3.29356 2.67740 2.69361 4.24559 2.90352 2.73753 3.18138 2.89789 2.37881 2.77525 2.98503 4.58490 3.61501\n- 0.16953 2.27771 2.92958 1.49590 0.25366 0.00000 *\n- 1 3.33634 4.65782 5.01546 4.44951 3.32526 4.61904 4.97339 1.97022 4.31562 1.64654 1.25672 4.66648 4.83989 4.43962 4.43114 3.96310 3.56531 1.92137 5.33421 4.25034 17 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01922 4.35728 5.07963 0.61958 0.77255 0.55709 0.85067\n- 2 4.18508 5.27962 5.07727 4.88220 1.57205 4.79631 3.64847 3.81347 4.69910 3.05231 4.37930 4.41049 5.08415 4.52890 4.62941 4.19504 4.39852 3.75726 3.74838 0.65425 18 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07561 4.35728 2.81327 0.61958 0.77255 0.55709 0.85067\n- 3 2.71407 5.11401 2.70204 2.38738 4.46504 3.21925 3.68609 3.92574 1.72294 3.44401 4.21838 2.65001 3.86389 2.80600 2.91471 2.00627 2.83729 3.52175 5.60648 4.21990 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02032 4.30200 5.02434 0.61958 0.77255 0.62873 0.76200\n- 4 2.91047 4.30821 4.49532 3.93264 2.83189 4.05629 4.21507 1.75782 3.79184 2.16755 3.28264 4.06133 4.39345 3.96516 3.92029 3.36618 3.14354 1.93758 4.67613 1.80795 20 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02032 4.30200 5.02434 0.61958 0.77255 0.62873 0.76200\n- 5 2.65068 4.69839 3.13574 2.15546 3.91771 3.50423 3.73872 2.90435 2.49268 2.95146 3.79786 3.09128 3.90350 2.92745 3.00926 2.57507 1.93028 2.80095 5.24642 3.94648 21 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02032 4.30200 5.02434 0.61958 0.77255 0.50683 0.92231\n- 6 4.07684 5.20305 5.06211 4.81405 1.88244 4.75127 3.63839 3.77286 4.61312 3.05319 4.32942 4.37474 5.03394 4.47457 4.56101 4.12476 4.28477 3.68936 0.95064 1.60809 22 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01922 4.35728 5.07963 0.61958 0.77255 0.55709 0.85067\n- 7 2.93437 3.10649 0.80934 2.82329 4.53641 3.48628 4.19956 3.91582 3.16458 3.64462 4.54705 3.30382 4.10369'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39340 5.11575 0.61958 0.77255 0.50497 0.92514\n- 770 2.85650 5.35603 1.40655 2.21457 4.66938 3.44078 3.76960 4.15428 2.23083 3.65019 4.42887 2.72989 3.92944 2.89493 3.11438 2.52555 3.10509 3.41086 5.80300 4.37110 1012 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39340 5.11575 0.61958 0.77255 0.50497 0.92514\n- 771 2.60018 3.41718 4.90438 4.35956 3.66490 4.37445 4.86513 1.58289 4.23834 2.32489 3.54346 4.48758 4.70968 4.45378 4.37411 3.72404 3.31249 1.03358 5.39971 4.19939 1013 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39340 5.11575 0.61958 0.77255 0.50497 0.92514\n- 772 3.52890 4.79034 5.33363 4.78473 3.37041 4.90102 5.29094 1.83830 4.65455 0.80188 3.13700 4.99568 5.05608 4.71749 4.72863 4.27868 3.75774 1.84535 5.50232 4.45189 1014 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39340 5.11575 0.61958 0.77255 0.50497 0.92514\n- 773 2.55028 5.26415 2.20738 2.08475 4.59755 3.23914 3.68635 4.08535 1.83061 3.56355 4.31424 2.64131 3.87499 2.54214 2.95731 2.61930 2.98627 3.64974 5.69751 4.27634 1015 k - - -\n- 2.68619 4.42226 2.77521 2.73107 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18138 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.09282 2.49321 5.11575 0.35414 1.20990 0.47394 0.97431\n- 774 2.67259 4.18077 4.02290 3.44039 3.12187 3.75675 4.05102 2.33254 3.19346 1.52940 2.88135 3.69238 4.12623 3.19128 3.54952 2.72512 2.75060 2.36579 4.78899 3.59327 1017 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01830 4.40594 5.12829 0.61958 0.77255 0.48576 0.95510\n- 775 3.38224 4.67623 5.24815 4.65716 2.02060 4.65680 4.95892 1.66398 4.50253 1.18314 2.45406 4.78234 4.84778 4.50959 4.50988 4.00048 3.59905 2.35504 5.20524 4.14212 1018 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13676 4.40594 2.15747 0.61958 0.77255 0.48576 0.95510\n- 776 2.57472 4.27672 3.65366 2.86125 3.25426 3.65113 3.91900 2.65225 2.72130 1.74661 3.38258 3.44819 4.02800 3.30615 3.32686 2.81524 2.69813 2.16326 4.87596 3.65614 1019 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08102 4.28975 2.74708 0.61958 0.77255 0.64342 0.74548\n- 777 2.58586 5.07937 2.95253 2.02860 4.40284 3.14066 3.61561 3.85300 1.98426 3.05168 4.13234 2.93086 3.83965 2.55267 2.33973 2.65829 2.81574 3.45970 5.51304 4.14668 1020 k - - -\n- 2.68627 4.42239 2.77522 2.73114 3.46368 2.40515 3.72508 3.29348 2.67732 2.69358 4.24704 2.90335 2.73748 3.18109 2.89804 2.37901 2.77509 2.98518 4.58491 3.61486\n- 0.41847 1.07309 * 0.78124 0.61219 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglW.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglW.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4427 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglW\n-LENG 1468\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 9 14:32:09 2021\n-NSEQ 1052\n-EFFN 2.556320\n-CKSUM 2019688964\n-GA 20 20;\n-STATS LOCAL MSV -13.3199 0.69481\n-STATS LOCAL VITERBI -14.4072 0.69481\n-STATS LOCAL FORWARD -7.2945 0.69481\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.33441 4.75287 2.88705 2.57083 3.51104 2.95845 3.65038 3.09130 2.72897 2.35221 3.80209 3.19754 3.29288 3.00485 2.70821 2.68457 2.81820 2.69370 4.44246 3.69842\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05060 3.40479 4.12714 0.61958 0.77255 0.00000 *\n- 1 2.46240 4.01947 3.03393 2.90672 3.17160 2.79336 3.77987 2.66078 2.84447 2.32171 3.49446 3.19307 3.44411 3.29520 3.01325 2.68269 2.87908 2.49275 4.54969 3.36591 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05060 3.40479 4.12714 0.61958 0.77255 0.48576 0.95510\n- 2 2.44864 3.95424 2.95730 2.85746 3.21464 2.68576 3.74060 2.75954 2.84095 2.42417 3.68804 3.15189 3.34259 3.27799 2.99295 2.61243 2.87146 2.56683 4.48962 3.38839 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05060 3.40479 4.12714 0.61958 0.77255 0.48576 0.95510\n- 3 2.43053 4.10895 3.07877 2.91829 3.17971 2.92884 3.82077 2.61927 2.81976 2.32040 3.46000 3.19564 3.58256 3.28454 3.02373 2.61279 2.84783 2.44735 4.68076 3.36625 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40860 4.13095 0.61958 0.77255 0.48576 0.95510\n- 4 2.40018 3.84237 3.06733 2.91996 3.23502 2.77076 3.78469 2.72012 2.82426 2.41546 3.65711 3.18358 3.43056 3.28329 2.93965 2.58413 2.82634 2.52129 4.58891 3.41347 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05040 3.40860 4.13095 0.61958 0.77255 0.48576 0.95510\n- 5 2.50278 4.24425 3.29669 2.99683 3.18625 3.21920 3.89959 2.43511 2.79946 2.15156 3.14366 3.30150 3.81745 3.28889 3.03759 2.71570 2.87958 2.28987 4.84042 3.44618 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04930 3.43015 4.15250 0.61958 0.77255 0.48576 0.95510\n- 6 2.33823 3.93805 3.20779 2.97318 3.11064 2.90665 3.84845 2.61176 2.85199 2.42910 3.60192 3.21748 3.65271 3.27775 3.09441 2.55199 2.75101 2.38141 4.77540 3.38943 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04930 3.43015 4.15250 0.61958 0.77255 0.48576 0.95510\n- 7 2.34618 4.13298 2.99033 2.78551 3.39039 2.86279 3.77091 2.89650 2.67957 2.57854 3.72481 3.08503 3.22'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05022 3.41208 4.13443 0.61958 0.77255 0.48576 0.95510\n- 1461 2.46678 4.00429 2.94138 2.82297 3.23848 2.72964 3.72698 2.81731 2.76725 2.43944 3.69032 3.13253 3.37962 3.18513 2.80487 2.67102 2.87911 2.62550 4.52759 3.40382 3844 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05042 3.40832 4.13066 0.61958 0.77255 0.48576 0.95510\n- 1462 2.41241 4.02913 2.94886 2.83169 3.25378 2.77548 3.76542 2.76679 2.77724 2.47353 3.70678 3.12667 3.43909 3.25048 2.98866 2.53445 2.83780 2.55973 4.61055 3.40891 3845 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05042 3.40832 4.13066 0.61958 0.77255 0.48576 0.95510\n- 1463 2.36082 3.97156 2.97532 2.87076 3.24514 2.71375 3.76961 2.72717 2.85305 2.39712 3.66588 3.16353 3.37170 3.28933 3.01140 2.66360 2.86845 2.54045 4.53992 3.43940 3846 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40719 4.12953 0.61958 0.77255 0.48576 0.95510\n- 1464 2.46598 3.94742 2.72323 2.77530 3.27964 2.64681 3.70693 2.83955 2.81481 2.53066 3.76260 3.10159 3.29985 3.23479 2.97452 2.67320 2.88030 2.62566 4.47914 3.43217 3847 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40719 4.12953 0.61958 0.77255 0.48576 0.95510\n- 1465 2.47534 3.95904 2.94520 2.83638 3.23504 2.67756 3.71763 2.81591 2.78998 2.43945 3.69781 3.14317 3.32698 3.24643 2.79279 2.68817 2.88865 2.62407 4.47563 3.40644 3848 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40719 4.12953 0.61958 0.77255 0.48576 0.95510\n- 1466 2.47534 3.95904 2.94520 2.83638 3.23504 2.67756 3.71763 2.81591 2.78998 2.43945 3.69781 3.14317 3.32698 3.24643 2.79279 2.68817 2.88865 2.62407 4.47563 3.40644 3849 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40719 4.12953 0.61958 0.77255 0.48576 0.95510\n- 1467 2.43515 3.99639 2.98402 2.87214 3.24830 2.74845 3.78205 2.71142 2.84393 2.38940 3.65533 3.16284 3.40777 3.28553 3.01261 2.65113 2.74551 2.52544 4.57872 3.44309 3850 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40719 4.12953 0.61958 0.77255 0.48576 0.95510\n- 1468 2.41685 4.00224 2.95906 2.84805 3.23512 2.74642 3.76211 2.76125 2.82513 2.45632 3.70019 3.13821 3.40972 3.26675 3.00058 2.53645 2.84390 2.55792 4.57129 3.39581 3851 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03426 3.39096 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglX1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglX1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3779 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglX1\n-LENG 1252\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 8 16:26:02 2021\n-NSEQ 4013\n-EFFN 3.693147\n-CKSUM 4113027587\n-GA 100 100;\n-STATS LOCAL MSV -13.0877 0.69510\n-STATS LOCAL VITERBI -14.4130 0.69510\n-STATS LOCAL FORWARD -7.1592 0.69510\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55029 4.48579 2.92097 2.58539 3.22185 3.02190 3.74174 2.86171 2.60314 2.48043 3.64604 2.98225 3.43016 3.01562 2.91034 2.63966 2.84744 2.77674 4.37372 3.28732\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05067 3.40344 4.12579 0.61958 0.77255 0.00000 *\n- 1 2.47346 3.94763 2.98415 2.88154 3.18630 2.68601 3.74150 2.72123 2.85212 2.36478 3.59184 3.17561 3.33706 3.29124 2.99538 2.69835 2.89129 2.54484 4.46250 3.37630 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05067 3.40344 4.12579 0.61958 0.77255 0.48576 0.95510\n- 2 2.48674 3.89799 2.94165 2.85421 3.21160 2.61051 3.70939 2.77966 2.81564 2.41209 3.69064 3.15815 3.26031 3.27928 2.97065 2.71408 2.90297 2.59392 4.40384 3.39693 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05067 3.40344 4.12579 0.61958 0.77255 0.48576 0.95510\n- 3 2.46449 4.03027 3.04517 2.91411 3.12916 2.81179 3.78410 2.64870 2.85291 2.31035 3.50671 3.19924 3.46153 3.30028 3.02518 2.68487 2.88027 2.48326 4.55220 3.34800 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05058 3.40521 4.12756 0.61958 0.77255 0.48576 0.95510\n- 4 2.67945 4.33435 3.64031 3.23246 3.05854 3.54378 4.04985 2.24978 3.01322 1.83369 2.55940 3.54025 4.03535 3.43575 3.26329 2.97334 2.98972 2.19027 4.86770 3.52644 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04583 3.50143 4.22378 0.61958 0.77255 0.48576 0.95510\n- 5 2.32905 4.32909 2.79259 2.53060 3.80206 3.09053 3.70445 3.05074 2.49832 2.85006 3.69948 2.94987 3.66573 2.94261 2.74178 2.44786 2.61851 2.76377 5.16707 3.87484 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09360 3.50661 2.82420 0.61958 0.77255 0.48576 0.95510\n- 6 2.48031 4.29641 3.13944 2.68772 3.28398 3.23610 3.68546 2.76559 2.50145 2.49491 3.51597 3.09930 3.76008 2.95022 2.76517 2.64132 2.78829 2.57471 4.77241 3.46641 6 a - - -\n- 2.68618 4.42226 2.77520 2.73123 3.46355 2.40513 3.72496 3.29354 2.67740 2.69356 4.24692 2.90345 2.73739 3.18147 2.89798 2.37887 2.77518 2.98518 4.58471 3.61503\n- 0.08777 2.67651 4.18454 0.95582 0.48531 0.50759 0.92117\n- 7 2.52188 4.28557 3.30158 2.82098 3.41418 3.35915 3.76652 2.67782 2.63492 2.38992 2.60250 3.21070 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04991 3.41823 4.14057 0.61958 0.77255 0.48576 0.95510\n- 1245 2.22630 4.06569 3.00591 2.87403 3.34764 2.84926 3.85195 2.68416 2.84606 2.42158 3.65993 3.15538 3.52202 3.28614 3.05221 2.58524 2.79255 2.48454 4.77844 3.55550 9518 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04991 3.41823 4.14057 0.61958 0.77255 0.48576 0.95510\n- 1246 2.37526 4.11616 2.88764 2.70326 3.36625 2.86046 3.77858 2.82308 2.73565 2.59120 3.76406 3.06858 3.53075 3.19073 2.96390 2.43485 2.79907 2.58707 4.78416 3.49361 9519 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05383 3.41718 3.93223 0.61958 0.77255 0.48576 0.95510\n- 1247 2.47492 4.13777 2.84376 2.62004 3.33219 2.85333 3.73415 2.83899 2.68637 2.50077 3.71465 3.06506 3.49884 3.02719 2.90351 2.65124 2.87376 2.63869 4.69613 3.48005 9520 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05015 3.41350 4.13585 0.61958 0.77255 0.48789 0.95172\n- 1248 2.32984 4.07382 3.00587 2.87267 3.31738 2.86012 3.84354 2.67259 2.83404 2.39904 3.64425 3.15529 3.53055 3.28048 3.04012 2.59189 2.72167 2.47882 4.76344 3.52215 9521 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05015 3.41350 4.13585 0.61958 0.77255 0.48444 0.95722\n- 1249 2.42359 4.02077 2.83079 2.59545 3.43961 2.52936 3.72826 2.93190 2.73220 2.66914 3.83422 3.05536 3.37299 3.17797 2.92753 2.60969 2.83903 2.68202 4.64811 3.57130 9522 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04996 3.41718 4.13952 0.61958 0.77255 0.48576 0.95510\n- 1250 2.45154 4.15655 2.92254 2.65103 3.34547 2.92463 3.79196 2.70828 2.72931 2.45377 3.67007 3.10776 3.57191 3.19621 2.95676 2.64053 2.85434 2.44959 4.78262 3.51875 9523 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04996 3.41718 4.13952 0.61958 0.77255 0.48576 0.95510\n- 1251 2.50687 4.10966 2.79999 2.42552 3.41556 2.80105 3.72310 2.85337 2.68596 2.56873 3.76759 3.05194 3.44189 3.14788 2.89695 2.68481 2.89781 2.64301 4.67972 3.56491 9524 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04996 3.41718 4.13952 0.61958 0.77255 0.48576 0.95510\n- 1252 2.28359 4.07949 2.78150 2.75894 3.38581 2.81788 3.79047 2.78583 2.79579 2.55696 3.74889 3.08052 3.48501 3.21845 3.01805 2.58247 2.81569 2.56003 4.75219 3.54123 9525 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03390 3.40112 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglX2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglX2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3842 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglX2\n-LENG 1273\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 8 16:26:04 2021\n-NSEQ 1051\n-EFFN 1.936466\n-CKSUM 419571563\n-GA 20 20;\n-STATS LOCAL MSV -13.3470 0.69506\n-STATS LOCAL VITERBI -14.3318 0.69506\n-STATS LOCAL FORWARD -7.2384 0.69506\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44985 4.52515 2.89691 2.58964 3.30471 2.94592 3.67251 3.00197 2.68717 2.46268 3.77274 3.15257 3.30497 3.01026 2.78921 2.67868 2.82029 2.72216 4.06336 3.48586\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05056 3.40561 4.12795 0.61958 0.77255 0.00000 *\n- 1 2.46113 4.04723 3.05837 2.91963 3.16532 2.83776 3.79503 2.63510 2.84180 2.30152 3.45231 3.20299 3.48725 3.29755 3.01951 2.68067 2.87643 2.47116 4.58251 3.36305 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05056 3.40561 4.12795 0.61958 0.77255 0.48576 0.95510\n- 2 2.48977 3.94745 2.98996 2.88742 3.18191 2.68499 3.74003 2.72125 2.85667 2.30465 3.64771 3.18406 3.33343 3.29601 2.99649 2.71673 2.90469 2.54772 4.45038 3.37236 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05056 3.40561 4.12795 0.61958 0.77255 0.48576 0.95510\n- 3 2.50276 4.01322 2.98035 2.86431 3.13541 2.76181 3.73386 2.71698 2.82781 2.35254 3.63087 3.17151 3.40514 3.27211 2.99148 2.71782 2.90963 2.54877 4.47544 3.18173 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05056 3.40561 4.12795 0.61958 0.77255 0.48576 0.95510\n- 4 2.47651 3.95358 2.93098 2.83030 3.24215 2.67210 3.72263 2.78352 2.71803 2.43892 3.69968 3.14073 3.32252 3.25376 2.95638 2.69209 2.89053 2.59183 4.47793 3.41749 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05056 3.40561 4.12795 0.61958 0.77255 0.48576 0.95510\n- 5 2.46947 4.05094 3.05492 2.91832 3.15957 2.83976 3.79301 2.63745 2.84388 2.26525 3.51648 3.20411 3.48830 3.29898 3.02116 2.68877 2.88363 2.47441 4.57586 3.35437 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40713 4.12948 0.61958 0.77255 0.48576 0.95510\n- 6 2.44334 3.99613 2.97172 2.85811 3.24353 2.74013 3.76435 2.74184 2.82098 2.40408 3.66573 3.15381 3.39678 3.26931 2.94255 2.65619 2.78636 2.55396 4.56009 3.42903 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40713 4.12948 0.61958 0.77255 0.48576 0.95510\n- 7 2.44978 3.88665 2.91570 2.82893 3.27880 2.46692 3.70649 2.85877 2.83324 2.52508 3.76710 3.13081 3.24'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1266 2.47282 4.04946 2.94362 2.80055 3.29384 2.77229 3.71903 2.87868 2.69258 2.49923 3.72058 3.11820 3.41654 3.18645 2.58741 2.66561 2.87648 2.67473 4.58258 3.44322 4835 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1267 2.47732 4.09601 2.87637 2.74304 3.35827 2.81206 3.72835 2.84282 2.45844 2.54197 3.74589 3.08311 3.45659 3.16305 2.87651 2.66167 2.87660 2.63240 4.66230 3.50237 4836 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1268 2.51311 4.07446 3.09569 2.94781 3.14030 2.87772 3.80292 2.61009 2.85614 2.12410 3.56495 3.23808 3.51608 3.31528 3.03206 2.73795 2.91747 2.45875 4.56703 3.34130 4837 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1269 2.45960 4.12545 3.13323 2.96567 3.15674 2.97078 3.85126 2.55973 2.86217 2.19618 3.53749 3.23938 3.61816 3.32150 3.06457 2.67969 2.87288 2.34600 4.68563 3.36633 4838 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1270 2.50221 4.08928 2.81557 2.46034 3.39489 2.78519 3.72434 2.84148 2.70046 2.55218 3.75893 3.06268 3.42753 3.16086 2.90474 2.68509 2.89621 2.63335 4.65542 3.54852 4839 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1271 2.38658 4.11119 3.07869 2.92154 3.27360 2.93973 3.87354 2.60376 2.84816 2.33605 3.59066 3.19087 3.60733 3.30075 3.06398 2.59767 2.72534 2.37000 4.80227 3.48841 4840 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1272 2.24013 4.03852 2.99782 2.87441 3.31999 2.80872 3.82939 2.69852 2.85066 2.41695 3.66408 3.15917 3.47689 3.28910 3.04272 2.60880 2.82870 2.50230 4.70532 3.52391 4841 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05006 3.41533 4.13767 0.61958 0.77255 0.48576 0.95510\n- 1273 2.27712 4.00192 2.93733 2.82180 3.37062 2.62175 3.78646 2.81711 2.81413 2.55803 3.76022 3.11261 3.41129 3.25095 3.00276 2.57466 2.80649 2.58478 4.67223 3.53310 4842 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.39924 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglXI.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglXI.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2792 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglXI\n-LENG 923\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 15:51:34 2021\n-NSEQ 100\n-EFFN 0.765991\n-CKSUM 2836367889\n-GA 20 20;\n-STATS LOCAL MSV -12.6225 0.69580\n-STATS LOCAL VITERBI -13.7182 0.69580\n-STATS LOCAL FORWARD -6.8196 0.69580\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51591 4.25798 2.89335 2.62391 3.20675 3.03303 3.66493 2.90442 2.62381 2.49439 3.66686 3.10720 3.28924 3.04145 2.88286 2.70335 2.85785 2.67419 4.36664 3.33259\n- 2.68617 4.42226 2.77519 2.73124 3.46355 2.40514 3.72491 3.29355 2.67742 2.69354 4.24683 2.90348 2.73739 3.18147 2.89802 2.37887 2.77520 2.98517 4.58467 3.61500\n- 0.27515 3.72820 1.53013 0.86835 0.54412 0.00000 *\n- 1 2.92094 4.46356 4.09923 3.61366 3.13437 3.92125 4.35162 2.22872 3.38562 1.66403 1.71040 3.90597 4.31900 3.73853 3.60993 3.29842 3.20245 2.18778 5.02557 3.79321 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04684 3.82018 3.73637 0.61958 0.77255 0.66215 0.72514\n- 2 2.27220 4.58707 2.93904 2.47280 3.94468 3.23213 3.65011 3.34344 2.29342 2.97520 3.81064 2.70533 3.64496 2.79162 2.87380 2.46717 2.52012 2.91254 5.23734 3.93537 12 a - - -\n- 2.68628 4.42234 2.77516 2.73121 3.46349 2.40525 3.72483 3.29373 2.67720 2.69363 4.24704 2.90350 2.73741 3.18123 2.89777 2.37890 2.77503 2.98536 4.58499 3.61515\n- 0.31521 1.34785 4.55001 1.69588 0.20265 0.39411 1.12171\n- 3 2.56494 4.46319 3.00298 2.50580 3.82229 3.39376 3.65836 3.16612 2.46885 2.84138 2.70857 2.91421 3.83153 2.38964 2.89669 2.58961 2.67220 2.93129 5.15192 3.85452 42 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03628 4.04152 4.01426 0.61958 0.77255 0.49867 0.93480\n- 4 2.58050 4.91883 2.64791 2.34105 4.20214 3.24943 3.58774 3.55662 2.34491 3.05577 3.98752 2.42697 3.43216 2.59275 2.79558 2.50997 2.51604 3.27807 5.40055 4.03370 43 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02671 4.03195 4.75430 0.61958 0.77255 0.50879 0.91935\n- 5 2.65477 5.08439 2.05590 2.11797 4.38435 3.27207 3.52933 3.66768 2.40488 3.31948 4.14920 2.49028 3.69289 2.66160 2.90446 2.52501 2.75170 3.45296 5.54326 4.14072 44 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02671 4.03195 4.75430 0.61958 0.77255 0.49848 0.93511\n- 6 2.63680 4.23395 3.73225 3.16132 3.21837 3.66777 3.94227 2.45192 3.04641 1.57718 3.07777 3.50111 4.03782 3.15019 3.29545 2.78491 2.79089 2.40141 4.82413 3.61368 45 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.03789 4.76024 0.61958 0.77255 0.50254 0.92885\n- 7 2.80411 4.27595 4.13846 3.58665 1.80051 3.75905 3.99425 2.44651 3.45570 1.71975 3.12533 3.79657 4.225'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02613 4.05347 4.77581 0.61958 0.77255 0.48576 0.95510\n- 916 2.58054 4.19889 3.76639 3.19389 3.29388 3.65837 3.95231 2.43204 3.07825 1.66524 3.18573 3.51746 4.03511 3.30748 3.23351 2.74578 2.82051 2.15030 4.82000 3.61385 1362 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02613 4.05347 4.77581 0.61958 0.77255 0.48576 0.95510\n- 917 2.55624 4.35913 3.50049 3.01121 3.67321 3.42018 3.97119 2.82356 2.87743 2.60021 3.14264 3.25975 3.93957 3.26475 3.19765 2.76425 1.51797 2.59227 5.15016 3.89225 1363 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02613 4.05347 4.77581 0.61958 0.77255 0.48576 0.95510\n- 918 3.08753 4.99333 3.64633 3.06817 4.27844 3.65283 3.83140 3.78945 2.17445 3.17752 4.28764 3.41759 4.11446 3.02711 0.92547 3.15760 3.32765 3.52424 5.37947 4.17150 1364 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02613 4.05347 4.77581 0.61958 0.77255 0.48576 0.95510\n- 919 2.51398 4.22741 3.55399 2.98554 3.25650 3.56834 3.84547 2.64566 2.87626 2.27489 2.83539 3.30612 3.95135 3.21756 3.24816 2.55539 2.27339 2.32334 4.83171 3.60802 1365 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02613 4.05347 4.77581 0.61958 0.77255 0.48576 0.95510\n- 920 2.79101 5.11007 2.48638 1.63621 4.48871 1.98056 3.74519 3.94700 2.58548 3.49817 4.33107 2.84301 3.85354 2.85211 2.96500 2.76203 3.07131 3.56161 5.68032 4.29227 1366 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03606 4.05347 4.01407 0.61958 0.77255 0.48576 0.95510\n- 921 2.30893 5.02173 2.27290 2.02369 4.32574 2.90859 3.61738 3.77973 2.41991 3.28224 4.10636 2.76675 3.78736 2.74535 2.86658 2.59243 2.88530 3.19871 5.50770 4.11829 1367 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06994 4.04379 2.99541 0.61958 0.77255 0.49625 0.93857\n- 922 2.63262 5.16246 2.15082 1.93001 4.46654 2.60807 3.63394 3.94112 2.43575 3.45690 4.24404 2.70347 3.73658 2.69942 2.96492 2.49035 2.87680 3.53676 5.62687 4.20533 1368 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18491 4.00140 1.89358 0.61958 0.77255 0.53979 0.87435\n- 923 2.18487 4.43896 3.13411 2.54413 3.66355 3.11930 3.67786 2.92117 2.56194 2.62157 3.58081 3.00570 3.80664 2.90931 2.91409 2.48634 2.71806 2.72988 5.03673 3.66851 1369 a - - -\n- 2.68621 4.42228 2.77519 2.73117 3.46357 2.40507 3.72493 3.29357 2.67742 2.69357 4.24693 2.90339 2.73743 3.18149 2.89804 2.37889 2.77523 2.98516 4.58449 3.61506\n- 0.08721 2.48278 * 0.96390 0.48030 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglY.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglY.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3758 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglY\n-LENG 1245\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 15:10:07 2021\n-NSEQ 100\n-EFFN 1.449585\n-CKSUM 303662401\n-GA 100 100;\n-STATS LOCAL MSV -13.0820 0.69511\n-STATS LOCAL VITERBI -14.0546 0.69511\n-STATS LOCAL FORWARD -7.0696 0.69511\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41981 4.74211 2.86200 2.60264 3.40426 3.00764 3.66609 2.95023 2.68596 2.32164 3.71991 3.14345 3.36711 2.98624 2.79696 2.69016 2.85578 2.65744 4.56260 3.68795\n- 2.68614 4.42237 2.77518 2.73118 3.46346 2.40504 3.72506 3.29351 2.67745 2.69358 4.24644 2.90348 2.73747 3.18158 2.89802 2.37891 2.77513 2.98514 4.58488 3.61515\n- 0.29885 2.81543 1.61721 1.70692 0.20019 0.00000 *\n- 1 3.15520 4.61247 4.56717 4.05660 3.27395 4.24525 4.70480 2.28178 3.85002 1.72758 1.21949 4.30126 4.59993 4.12010 4.03202 3.62021 3.42776 2.09702 5.23438 4.07122 27 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 4.19512 4.10611 0.61958 0.77255 0.74863 0.64058\n- 2 1.80981 4.28005 3.60341 3.15868 4.15732 3.13248 4.17293 3.49439 3.13252 3.22619 4.07183 3.37734 3.81259 3.43565 3.47535 1.68789 1.78704 2.84552 5.52640 4.30273 28 s - - -\n- 2.68618 4.42247 2.77526 2.73137 3.46376 2.40526 3.72516 3.29376 2.67760 2.69377 4.24677 2.90339 2.73699 3.18087 2.89801 2.37866 2.77491 2.98535 4.58499 3.61525\n- 0.68632 1.02448 1.98349 1.16062 0.37585 0.37899 1.15376\n- 3 2.40083 4.75196 3.09280 2.41083 3.96988 3.48584 3.69312 3.37261 2.47224 2.96121 2.66339 3.04076 3.11280 2.52471 2.68908 2.66241 2.80475 2.87972 5.26942 3.95556 41 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02082 4.27792 5.00027 0.61958 0.77255 0.42665 1.05754\n- 4 2.66878 4.62266 3.25850 2.65241 3.80842 3.55998 3.78683 2.97157 2.55295 2.80073 3.60085 3.17563 2.26317 2.89137 3.07579 2.78476 2.11548 2.72245 5.17408 3.89507 42 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39014 5.11249 0.61958 0.77255 0.51450 0.91080\n- 5 2.98220 4.42270 4.42797 3.84953 2.84216 4.10276 4.33530 2.53357 3.38803 0.95925 3.05808 4.06799 4.42034 3.90615 3.86680 3.40244 3.20889 2.44112 4.88351 3.37141 43 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.39014 5.11249 0.61958 0.77255 0.46820 0.98384\n- 6 3.67250 4.91610 5.46914 4.90257 3.27205 5.03867 5.35499 1.69173 4.75869 0.72776 2.75852 5.13228 5.12214 4.74651 4.78948 4.41856 3.88573 2.40608 5.46528 4.46725 44 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01824 4.40899 5.13134 0.61958 0.77255 0.48576 0.95510\n- 7 3.21011 5.39730 3.62561 2.92561 4.86533 3.84936 3.42486 4.20798 1.68734 3.62242 4.46901 3.34358 4.19'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12723 0.61958 0.77255 0.49215 0.94498\n- 1238 2.68501 5.16521 2.61125 1.72258 4.49637 3.44952 3.30089 3.97340 2.32514 3.46395 4.21074 2.78733 3.84949 2.67394 2.65590 2.49863 2.63441 3.30154 5.60492 4.20091 1701 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12723 0.61958 0.77255 0.49215 0.94498\n- 1239 3.39076 4.61760 5.36181 4.86247 3.80596 4.91641 5.51430 1.11128 4.77570 1.97542 3.56887 5.03632 5.14027 4.98497 4.92243 4.31972 3.64306 1.11504 5.86030 4.68190 1702 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12723 0.61958 0.77255 0.49215 0.94498\n- 1240 2.67619 4.88835 3.06488 2.38106 4.13394 3.50056 3.62504 3.37416 2.48921 3.08490 3.96032 2.95050 3.89183 2.61715 2.74696 2.25493 1.93472 3.02617 5.38769 4.05168 1703 t - - -\n- 2.68612 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.03760 3.47485 5.12723 0.51464 0.91060 0.49215 0.94498\n- 1241 3.49356 4.85678 4.65765 4.21233 2.37076 4.39040 3.81183 2.97321 3.98256 2.71123 3.88496 4.16770 4.72169 4.13497 4.09417 3.72474 3.72122 3.02546 0.99328 2.05138 1705 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12723 0.61958 0.77255 0.49215 0.94498\n- 1242 2.70642 4.99469 3.06045 2.39053 4.27192 3.50884 3.42366 3.59734 2.17879 3.26218 4.05716 3.01597 3.89633 2.52313 1.90410 2.62815 2.81421 2.99933 3.98489 4.11740 1706 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12723 0.61958 0.77255 0.49215 0.94498\n- 1243 2.54019 4.20143 3.99755 3.41754 3.32021 3.76314 4.06016 2.09671 3.12888 2.14928 3.31626 3.68408 3.55907 3.56347 3.25120 3.04240 2.79524 1.63567 4.82581 3.62614 1707 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12723 0.61958 0.77255 0.49215 0.94498\n- 1244 2.54184 4.65757 3.23788 2.22281 3.84618 3.56117 3.78021 3.13572 2.63837 2.73154 3.74657 3.16251 3.87057 2.76891 2.77972 2.78389 2.79596 1.88544 5.20066 3.91660 1708 v - - -\n- 2.68620 4.42227 2.77518 2.73119 3.46356 2.40506 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73735 3.18138 2.89803 2.37887 2.77522 2.98521 4.58479 3.61505\n- 0.18220 2.35376 2.63725 0.46592 0.98768 0.49215 0.94498\n- 1245 2.69996 5.18874 2.52107 1.77934 4.52098 3.21893 3.64820 4.00017 2.31195 3.48676 4.23751 2.90012 3.42346 2.70697 2.25077 2.55643 2.89874 3.57341 5.62522 4.21716 1712 e - - -\n- 2.68610 4.42253 2.77493 2.73096 3.46382 2.40479 3.72507 3.29374 2.67751 2.69369 4.24697 2.90366 2.73752 3.18147 2.89796 2.37880 2.77519 2.98536 4.58505 3.61531\n- 0.36471 1.18546 * 1.38104 0.28944 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZ2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZ2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2771 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglZ2\n-LENG 916\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 8 16:26:04 2021\n-NSEQ 949\n-EFFN 3.688931\n-CKSUM 1846091560\n-GA 20 20;\n-STATS LOCAL MSV -12.6270 0.69581\n-STATS LOCAL VITERBI -13.9977 0.69581\n-STATS LOCAL FORWARD -6.3467 0.69581\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.25975 4.71448 2.88868 2.62467 3.64587 2.85926 3.63298 3.14438 2.81280 2.34876 3.85151 3.25599 3.27585 3.03166 2.70401 2.68236 2.82179 2.59156 4.28290 3.87634\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05035 3.40964 4.13198 0.61958 0.77255 0.00000 *\n- 1 2.47233 4.12242 3.14898 2.96871 3.14659 2.97114 3.83880 2.55279 2.83734 2.22875 3.31020 3.24499 3.61058 3.30798 3.03603 2.69430 2.87909 2.40429 4.66646 3.36301 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05035 3.40964 4.13198 0.61958 0.77255 0.48576 0.95510\n- 2 2.56269 4.26797 3.43756 3.12166 3.10666 3.31781 3.95163 2.29766 2.87591 2.01070 3.07985 3.39853 3.89185 3.35879 3.10849 2.81438 2.92833 2.22530 4.81538 3.41438 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04927 3.43086 4.15321 0.61958 0.77255 0.48576 0.95510\n- 3 2.35775 4.21628 3.01857 2.76500 3.43329 3.04469 3.77532 2.81409 2.62014 2.61417 3.49345 2.93584 3.57116 3.10730 2.88615 2.53032 2.72456 2.56685 4.94693 3.54889 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05541 3.44416 3.81811 0.61958 0.77255 0.48576 0.95510\n- 4 2.40034 4.29189 3.15927 2.86963 3.22257 3.21918 3.80674 2.59876 2.68257 2.29807 3.39739 3.19647 3.80379 3.17221 2.91285 2.68645 2.85318 2.43686 4.83575 3.29285 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04852 3.44578 4.16812 0.61958 0.77255 0.48960 0.94900\n- 5 2.38572 4.27966 2.92830 2.67708 3.56435 3.13205 3.74156 2.84031 2.56464 2.63168 3.37381 3.04797 3.62605 3.02076 2.82601 2.51543 2.72742 2.59106 5.03245 3.69375 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05329 3.47069 3.87265 0.61958 0.77255 0.48960 0.94900\n- 6 2.38296 4.27406 3.00047 2.67498 3.63020 3.04138 3.72336 2.93456 2.51120 2.69794 3.39867 3.04086 3.70030 2.93836 2.76957 2.49528 2.64231 2.66298 5.05419 3.74386 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04639 3.48960 4.21194 0.61958 0.77255 0.48684 0.95339\n- 7 2.34104 4.27319 2.94523 2.58088 3.77056 2.98149 3.74190 2.95437 2.48799 2.79517 3.64590 3.00940 3.681'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04313 3.56075 4.28309 0.61958 0.77255 0.48576 0.95510\n- 909 2.56757 4.55923 2.57788 2.37328 3.82496 3.13341 3.60980 3.25381 2.22394 2.92181 3.89133 2.85409 3.70519 2.74320 2.57480 2.64114 2.86039 2.97167 5.15436 3.81961 2713 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04767 3.46312 4.18547 0.61958 0.77255 0.48576 0.95510\n- 910 2.45515 3.91524 2.93564 2.84145 3.26288 2.62790 3.72498 2.81786 2.83571 2.45391 3.71327 3.14294 3.08984 3.26862 2.97503 2.67442 2.87646 2.61850 4.46115 3.44587 2714 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40662 4.12896 0.61958 0.77255 0.48576 0.95510\n- 911 2.42340 3.99323 2.95923 2.85035 3.23012 2.73515 3.75814 2.75965 2.82847 2.44855 3.69685 3.14131 3.39706 3.26928 2.99940 2.55188 2.84959 2.55878 4.55487 3.39359 2715 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40662 4.12896 0.61958 0.77255 0.48576 0.95510\n- 912 2.48673 3.96361 2.90203 2.68744 3.27371 2.67490 3.72071 2.79008 2.79541 2.45715 3.71170 3.12654 3.32345 3.24018 2.95154 2.69908 2.89663 2.59635 4.49463 3.45029 2716 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40662 4.12896 0.61958 0.77255 0.48576 0.95510\n- 913 2.47653 3.95040 2.94537 2.83950 3.23066 2.66820 3.71667 2.81124 2.79808 2.43482 3.69627 3.14555 3.31777 3.25139 2.81152 2.69132 2.89040 2.62041 4.46516 3.40401 2717 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40662 4.12896 0.61958 0.77255 0.48576 0.95510\n- 914 2.48673 3.96361 2.90203 2.68744 3.27371 2.67490 3.72071 2.79008 2.79541 2.45715 3.71170 3.12654 3.32345 3.24018 2.95154 2.69908 2.89663 2.59635 4.49463 3.45029 2718 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40662 4.12896 0.61958 0.77255 0.48576 0.95510\n- 915 2.47402 3.97455 2.92505 2.81946 3.25598 2.69440 3.72602 2.78787 2.68052 2.45130 3.70463 3.13317 3.34471 3.24247 2.94838 2.68512 2.88673 2.59364 4.50587 3.42723 2719 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40662 4.12896 0.61958 0.77255 0.48576 0.95510\n- 916 2.47653 3.95040 2.94537 2.83950 3.23066 2.66820 3.71667 2.81124 2.79808 2.43482 3.69627 3.14555 3.31777 3.25139 2.81152 2.69132 2.89040 2.62041 4.46516 3.40401 2720 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03428 3.39039 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZ3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZ3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1967 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglZ3\n-LENG 648\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 8 16:26:05 2021\n-NSEQ 524\n-EFFN 2.378693\n-CKSUM 1181294664\n-GA 20 20;\n-STATS LOCAL MSV -12.1569 0.69692\n-STATS LOCAL VITERBI -13.0766 0.69692\n-STATS LOCAL FORWARD -6.5480 0.69692\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58263 4.62805 2.93679 2.59482 3.24190 3.04578 3.54834 2.79913 2.66296 2.41756 3.67476 3.10063 3.41303 2.98321 2.92097 2.65732 2.86549 2.65668 4.17648 3.46292\n- 2.68617 4.42220 2.77521 2.73128 3.46360 2.40516 3.72490 3.29356 2.67746 2.69359 4.24623 2.90344 2.73740 3.18151 2.89800 2.37883 2.77518 2.98516 4.58476 3.61500\n- 0.31781 3.08630 1.48463 1.26358 0.33218 0.00000 *\n- 1 2.73315 4.40304 3.75408 3.21894 3.52123 3.69991 4.05527 2.82428 2.92057 2.61370 1.28679 3.47493 4.13099 3.43529 3.32075 2.81227 2.97783 2.65715 5.03873 3.81403 40 m - - -\n- 2.68618 4.42229 2.77521 2.73120 3.46350 2.40514 3.72497 3.29357 2.67731 2.69350 4.24693 2.90349 2.73743 3.18150 2.89793 2.37890 2.77521 2.98522 4.58481 3.61502\n- 0.10622 2.54702 3.79598 0.76298 0.62787 0.48782 0.95183\n- 2 2.62167 4.91267 3.11211 2.52537 3.96787 3.35029 3.75380 3.35268 2.40420 3.08513 2.45697 2.69940 3.85944 2.87959 2.95597 2.05436 2.62623 3.20404 5.42060 3.95242 67 s - - -\n- 2.68623 4.42205 2.77516 2.73126 3.46360 2.40513 3.72497 3.29350 2.67747 2.69335 4.24699 2.90337 2.73744 3.18147 2.89806 2.37886 2.77525 2.98522 4.58487 3.61493\n- 0.09256 2.48094 5.35198 1.25073 0.33729 0.51128 0.91561\n- 3 2.48207 5.16991 2.70830 2.45870 4.17356 3.13077 3.65774 3.74889 2.37987 3.13823 3.60591 2.31481 3.82585 2.70871 2.86236 2.19299 2.51430 3.43623 5.62613 4.23945 84 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04263 4.68080 3.42770 0.61958 0.77255 0.46418 0.99061\n- 4 3.00841 4.43899 4.53548 3.96173 3.06508 4.00228 4.25857 2.54812 3.78747 2.24203 2.77406 3.98785 4.46115 3.99195 3.92434 3.41371 3.23978 2.61405 1.16237 3.37868 85 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01377 4.68822 5.41057 0.61958 0.77255 0.56162 0.84464\n- 5 2.62275 4.97906 3.15031 2.48197 4.18676 3.58765 3.53697 2.83650 2.50316 3.04716 4.03293 3.07516 3.77910 2.46084 1.95620 2.62121 2.71607 2.99219 5.47763 3.59444 86 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01376 4.68898 5.41132 0.61958 0.77255 0.49638 0.93836\n- 6 2.72294 5.15892 1.64790 1.88811 4.66960 3.46506 3.77123 4.15609 2.41224 3.63449 4.27041 2.65590 3.96658 2.53731 3.02731 2.67036 3.05677 3.63287 5.76731 4.35064 87 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01348 4.70885 5.43120 0.61958 0.77255 0.52241 0.89916\n- 7 2.52671 5.20921 2.69406 2.22796 4.59809 3.34157 3.38700 3.80545 1.93090 3.47418 4.30209 2.96769 3.714'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.73485 5.45719 0.61958 0.77255 0.49231 0.94472\n- 641 2.76922 4.74970 5.53901 5.06637 4.17974 5.02593 5.76229 1.17453 4.99367 2.68967 3.93961 5.20181 5.31357 5.25400 5.15948 4.44365 3.77998 0.85522 6.18210 4.95485 1048 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.73485 5.45719 0.61958 0.77255 0.49231 0.94472\n- 642 2.77627 5.23711 3.06657 2.29526 4.56215 3.57091 2.98705 3.24629 1.65601 3.53019 4.28444 3.02137 3.96249 2.60181 2.33354 2.65680 2.76253 3.43248 5.47414 4.23029 1049 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.73485 5.45719 0.61958 0.77255 0.49231 0.94472\n- 643 3.47479 4.74448 5.54034 5.01980 3.01767 4.98901 5.51451 1.18370 4.91432 2.20762 3.62642 5.13472 5.22545 5.07713 5.00637 4.37399 3.75493 1.00066 5.85302 4.68011 1050 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.73485 5.45719 0.61958 0.77255 0.49231 0.94472\n- 644 2.67146 5.05483 2.92105 2.15996 4.34889 3.35368 3.75803 3.39128 2.25881 3.13514 3.89771 2.63508 3.94089 2.70524 2.68580 2.27645 2.42560 3.42537 4.53180 3.83516 1051 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03226 4.73485 3.77378 0.61958 0.77255 0.49231 0.94472\n- 645 2.70846 4.89065 2.96088 2.38995 4.46304 3.18633 3.53018 3.72526 1.92741 3.44644 3.89979 2.99241 3.44750 2.70987 2.06163 2.54238 2.98702 3.36041 5.40630 3.36854 1052 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12766 4.68085 2.20203 0.61958 0.77255 0.53171 0.88576\n- 646 2.60119 5.17159 2.92598 2.14693 4.49521 3.24699 3.54179 3.69103 1.97393 3.39045 4.19444 2.73214 3.74652 2.74928 2.36204 2.50939 2.86377 2.91036 5.61704 4.22012 1053 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15266 4.55214 2.03233 0.61958 0.77255 0.71732 0.66954\n- 647 2.55602 5.13256 2.57665 2.20252 4.41550 3.34234 3.47485 3.49012 2.19487 3.21845 3.95622 2.68497 3.70665 2.50410 2.69883 2.42561 2.69528 3.39230 5.57719 4.17852 1054 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16902 4.40692 1.94272 0.61958 0.77255 0.88413 0.53285\n- 648 2.56259 4.84409 2.79841 2.19003 4.27921 2.83309 3.15548 3.63513 2.23871 3.25531 3.97799 2.76543 3.68622 2.65570 2.56449 2.52657 2.75950 3.30729 5.34090 4.08976 1055 e - - -\n- 2.68611 4.42236 2.77523 2.73095 3.46362 2.40516 3.72499 3.29359 2.67737 2.69351 4.24709 2.90347 2.73760 3.18145 2.89807 2.37885 2.77511 2.98517 4.58482 3.61517\n- 0.46955 0.98159 * 1.13260 0.38890 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZ4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZ4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2327 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME BREX__pglZ4\n-LENG 768\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 10:46:06 2023\n-NSEQ 31\n-EFFN 4.703735\n-CKSUM 62607145\n-GA 20 20;\n-STATS LOCAL MSV -12.4103 0.69633\n-STATS LOCAL VITERBI -13.5763 0.69633\n-STATS LOCAL FORWARD -6.2915 0.69633\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64809 4.38896 2.91128 2.51398 3.29144 3.08174 3.70921 2.75780 2.58648 2.41220 3.81293 2.99912 3.39033 3.09654 2.94316 2.64239 2.85727 2.70472 4.34467 3.39500\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04029 5.29452 3.36757 0.61958 0.77255 0.00000 *\n- 1 4.82726 6.19263 5.97945 5.85689 4.83836 5.23724 6.31370 4.24624 5.63382 3.38542 0.13074 5.95104 5.82611 5.95260 5.63505 5.20944 5.23163 4.38189 6.62878 5.53426 1 M - - -\n- 2.68771 4.42084 2.77593 2.73030 3.45973 2.40646 3.72413 3.29090 2.67623 2.69404 4.24763 2.90142 2.73879 3.18256 2.89906 2.37786 2.77645 2.98480 4.58629 3.61574\n- 1.91004 0.69395 1.04319 1.71322 0.19880 0.42031 1.06957\n- 2 2.85205 4.26770 4.57657 3.97617 2.15269 3.99315 4.31274 1.71389 3.09477 2.09259 2.69320 4.07295 4.35894 3.98542 3.10200 3.29345 2.68195 2.51511 4.88468 3.04940 13 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07757 4.88112 2.70229 0.61958 0.77255 1.14165 0.38462\n- 3 3.28000 5.90542 1.31309 1.51654 5.21091 3.68396 4.12711 4.73793 2.71158 4.19469 4.99000 2.07264 4.24769 3.26498 3.62958 2.65746 3.54652 4.28079 6.33028 4.83186 14 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01155 4.86285 5.58520 0.61958 0.77255 1.33039 0.30703\n- 4 2.43347 5.30427 2.57382 1.61665 4.63441 3.10569 3.79494 4.11047 2.22929 3.60331 4.34956 3.07533 3.99817 2.89676 3.02879 2.33141 3.05992 3.11568 5.74604 3.45281 15 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01155 4.86285 5.58520 0.61958 0.77255 0.95071 0.48852\n- 5 2.61112 3.33381 4.78773 4.18183 2.54120 4.10714 4.43512 2.39501 3.99467 1.14652 3.40808 4.22844 4.46572 2.96829 4.04560 3.41465 3.17779 2.29822 4.95630 3.78219 16 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01035 4.97222 5.69457 0.61958 0.77255 0.80948 0.58895\n- 6 2.33524 4.57506 3.94805 3.37682 2.96024 3.06442 4.21199 1.76214 2.72641 2.52304 3.68224 3.74190 4.32244 2.69206 3.06915 2.89288 3.16373 2.54746 5.16694 2.97994 17 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00934 5.07408 5.79643 0.61958 0.77255 1.04475 0.43352\n- 7 2.64144 5.38613 2.29989 2.42321 3.40395 3.68624 3.87471 4.19467 1.94226 3.01272 4.43030 3.15893 4.0794'..b'.68666 4.42273 2.77527 2.73051 3.46402 2.40561 3.72335 3.29402 2.67728 2.69366 4.24611 2.90395 2.73710 3.18194 2.89819 2.37818 2.77530 2.98528 4.58525 3.61458\n- 0.62848 0.76752 6.01687 0.63578 0.75401 0.48576 0.95510\n- 761 2.81273 5.40555 3.85606 3.78610 5.70850 0.46934 5.15753 5.21568 4.06798 4.80635 5.62951 4.11035 4.73145 2.12319 4.40191 3.50828 3.87720 4.54230 6.93052 5.67571 1167 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00748 5.29452 6.01687 0.61958 0.77255 0.48576 0.95510\n- 762 2.19477 4.56612 4.40031 3.81799 2.20338 4.13695 4.43097 1.62447 2.71652 2.51288 3.19950 4.07100 4.50819 3.29254 3.93373 2.32313 2.91827 2.82165 5.17372 3.97619 1168 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00748 5.29452 6.01687 0.61958 0.77255 0.48576 0.95510\n- 763 3.01288 5.37332 3.32660 2.17036 4.66098 3.81197 4.00615 2.68002 2.06518 3.16795 3.42238 2.82982 4.20383 2.48172 2.80214 2.49732 2.60487 2.43625 5.84195 4.46868 1169 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00748 5.29452 6.01687 0.61958 0.77255 0.48576 0.95510\n- 764 3.03003 5.53203 2.89772 1.17742 4.87200 3.79353 3.98877 3.69368 2.26554 3.83475 4.57492 2.54294 4.19266 2.47932 3.22091 2.99258 3.26193 2.87785 5.96666 4.55701 1170 e - - -\n- 2.68676 4.42361 2.77442 2.73127 3.45814 2.40519 3.72631 3.29355 2.67767 2.69306 4.24690 2.90349 2.73837 3.17982 2.89892 2.37921 2.77499 2.98555 4.58613 3.61639\n- 0.38651 1.14527 6.01687 1.99695 0.14589 0.48576 0.95510\n- 765 2.64650 5.53963 2.06930 1.84773 4.88507 3.21698 3.98237 4.37216 2.08283 3.84482 4.58092 2.57800 4.18723 3.07944 1.99893 2.98564 2.98689 3.93061 5.97126 4.55855 1195 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00748 5.29452 6.01687 0.61958 0.77255 0.48576 0.95510\n- 766 2.68100 5.62952 1.09296 2.40110 4.96140 2.49834 4.06747 4.44701 2.58070 3.92923 3.60761 3.29652 4.25773 2.74903 3.33673 3.07748 3.35897 4.01407 6.06606 4.64782 1196 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00748 5.29452 6.01687 0.61958 0.77255 0.48576 0.95510\n- 767 3.05913 4.51208 3.33891 3.18258 3.11065 3.38754 4.48533 2.65168 3.88808 1.05328 2.95560 4.19303 3.28099 4.09268 4.03790 3.46723 3.29119 2.45408 3.78175 3.93776 1197 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03896 5.29452 3.40532 0.61958 0.77255 0.48576 0.95510\n- 768 3.18319 4.58989 4.93639 4.34984 0.99454 2.93283 4.62909 2.54783 4.17722 1.84281 3.62420 4.42211 3.46483 4.33590 4.25282 3.63274 3.42044 2.79287 5.14314 3.91509 1198 f - - -\n- 2.68634 4.42278 2.77278 2.73140 3.46248 2.40520 3.72547 3.29358 2.67761 2.69188 4.24626 2.90399 2.73792 3.18199 2.89853 2.37939 2.77572 2.98571 4.58530 3.61556\n- 0.58048 0.82014 * 0.80623 0.59157 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2564 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglZA\n-LENG 847\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 14:42:25 2021\n-NSEQ 200\n-EFFN 2.627563\n-CKSUM 4148226631\n-GA 20 20;\n-STATS LOCAL MSV -12.2717 0.69603\n-STATS LOCAL VITERBI -13.3592 0.69603\n-STATS LOCAL FORWARD -6.3276 0.69603\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53215 4.65872 2.86181 2.56497 3.23002 3.14554 3.66066 2.87170 2.62507 2.43733 3.67865 3.06122 3.60655 2.92578 2.87203 2.66888 2.81825 2.68271 4.63970 3.33315\n- 2.68599 4.42259 2.77518 2.73092 3.46388 2.40545 3.72518 3.29383 2.67767 2.69389 4.23837 2.90368 2.73752 3.18176 2.89823 2.37873 2.77509 2.98547 4.58511 3.61537\n- 0.69640 0.98988 2.04023 0.95744 0.48431 0.00000 *\n- 1 2.55667 4.55103 3.01222 2.84864 3.69930 3.71426 3.95882 2.92388 2.93928 2.16106 1.85646 3.04002 3.92846 3.25244 3.31857 2.75166 2.85377 2.68801 5.12423 3.87702 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24311 4.69000 1.57683 0.61958 0.77255 0.59235 0.80526\n- 2 2.65641 5.18689 2.19749 2.26979 4.51432 3.42058 3.68179 3.98903 2.36215 3.33079 3.41168 2.19762 3.88394 2.43096 2.91785 2.56983 2.76594 3.56817 5.62964 4.22773 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01623 4.52460 5.24694 0.61958 0.77255 0.96430 0.48006\n- 3 2.54581 4.48478 3.17502 2.92333 3.54890 3.65687 3.90195 2.24293 2.70063 2.04628 3.58498 3.06654 4.03849 3.09625 3.26305 2.75659 2.27607 2.69712 5.05878 3.81282 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01623 4.52460 5.24694 0.61958 0.77255 0.51102 0.91600\n- 4 2.55729 5.25837 2.53790 2.28363 4.39167 3.39713 3.65303 3.90933 2.21041 3.56063 3.40937 2.50676 3.64511 2.39199 2.87177 2.30277 2.61325 3.60004 5.69531 4.28867 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01350 4.70798 5.43033 0.61958 0.77255 0.39827 1.11316\n- 5 2.69251 5.31205 2.77591 1.99954 4.65635 3.57697 3.76425 4.14150 2.14631 3.61677 3.84348 2.64083 3.83428 2.07847 2.39525 2.57153 2.79132 3.70230 5.74494 4.33480 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01215 4.81226 5.53461 0.61958 0.77255 0.51480 0.91037\n- 6 3.01014 4.62161 5.29581 4.73887 3.23884 4.67836 5.11984 0.96184 4.59520 1.88395 3.64574 4.81752 4.97471 4.75816 4.66823 4.02762 3.25787 1.62630 5.55705 4.38323 12 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01215 4.81226 5.53461 0.61958 0.77255 0.51480 0.91037\n- 7 2.54149 5.05507 3.17691 2.35979 4.30748 3.55688 3.54781 2.33437 2.40776 3.14495 4.12154 3.08742 4.016'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01241 4.79097 5.51332 0.61958 0.77255 0.56151 0.84478\n- 840 1.72273 4.63830 3.51977 2.95660 3.59593 2.64342 3.97708 3.05176 2.92616 2.59215 3.35688 3.26334 3.11602 3.24585 3.32069 2.33743 2.79745 2.77410 5.20931 3.95267 1216 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01859 4.79097 4.59359 0.61958 0.77255 0.56151 0.84478\n- 841 2.71161 4.26572 4.04954 3.40170 1.60072 3.91685 4.12284 1.84314 3.60770 2.32548 3.23671 3.75949 4.28554 3.59846 3.61911 3.15448 3.03695 2.42497 4.87809 3.49010 1217 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.78487 4.41811 0.61958 0.77255 0.57433 0.82801\n- 842 2.20139 5.12964 3.05248 2.33220 4.41022 2.98929 3.78863 3.36544 2.47001 3.26791 4.10172 3.04964 3.76299 2.44235 3.00244 2.41412 2.15357 3.00881 5.60313 4.23492 1218 t - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40514 3.72495 3.29350 2.67742 2.69356 4.24691 2.90348 2.73740 3.18147 2.89802 2.37888 2.77520 2.98501 4.58478 3.61504\n- 0.07862 3.19713 3.36007 0.41050 1.08862 0.56847 0.83561\n- 843 2.63597 5.26716 2.08336 2.36947 4.32949 2.93613 3.74781 4.07988 2.40818 3.56784 4.01508 2.34858 3.95241 2.70698 2.94532 2.17941 2.70006 3.47455 5.70643 4.30181 1220 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02599 4.75206 4.07335 0.61958 0.77255 0.44977 1.01549\n- 844 3.19884 5.79327 0.94524 2.01694 5.10088 2.99512 3.85269 4.61631 2.61579 4.08178 4.87295 3.00142 4.18941 3.19276 3.29186 3.01810 3.46030 4.16908 6.22026 4.74012 1221 d - - -\n- 2.68616 4.42231 2.77503 2.73129 3.46332 2.40499 3.72500 3.29359 2.67746 2.69353 4.24649 2.90352 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61509\n- 0.15659 2.47834 2.79588 0.73266 0.65513 0.54950 0.86095\n- 845 4.36114 5.45396 5.49362 5.27840 0.47578 5.08007 3.95723 3.56260 5.06563 2.96676 4.49678 4.73157 5.34771 4.84300 4.94009 4.45678 4.56621 3.88965 3.47560 2.05797 1226 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23861 4.73784 1.59199 0.61958 0.77255 0.66564 0.72143\n- 846 3.04548 5.55357 1.21335 2.30069 4.89433 2.02278 3.94540 4.09861 2.87709 3.89522 4.70338 2.76186 4.04972 3.09210 3.43684 2.74850 3.32143 3.96401 6.05904 4.59289 1227 d - - -\n- 2.68611 4.42227 2.77508 2.73121 3.46356 2.40515 3.72497 3.29350 2.67743 2.69351 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.11933 2.48206 3.54346 0.46013 0.99750 0.51353 0.91224\n- 847 3.68852 4.97251 5.09351 4.67517 0.61636 4.63947 4.00732 3.08409 4.48982 2.75799 3.76276 4.47201 4.95035 4.48447 4.49804 3.74699 3.90967 3.27463 3.82299 2.33330 1230 F - - -\n- 2.68628 4.42235 2.77489 2.73124 3.46309 2.40511 3.72504 3.29315 2.67751 2.69353 4.24700 2.90354 2.73749 3.18156 2.89811 2.37884 2.77529 2.98523 4.58487 3.61513\n- 0.19851 1.71454 * 0.65951 0.72796 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BREX__pglZB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2351 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BREX__pglZB\n-LENG 776\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 10 14:37:33 2021\n-NSEQ 461\n-EFFN 1.762093\n-CKSUM 2359828250\n-GA 20 20;\n-STATS LOCAL MSV -12.6170 0.69629\n-STATS LOCAL VITERBI -13.4748 0.69629\n-STATS LOCAL FORWARD -6.7883 0.69629\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42192 4.42920 2.91806 2.60835 3.53009 2.96131 3.66831 2.96803 2.66929 2.36460 3.73483 3.15115 3.34393 2.96327 2.90618 2.69670 2.82664 2.66146 3.95375 3.63499\n- 2.68605 4.42263 2.77536 2.73143 3.46397 2.40547 3.72526 3.29365 2.67761 2.69387 4.23970 2.90379 2.73718 3.18138 2.89793 2.37867 2.77494 2.98548 4.58512 3.61541\n- 0.56069 0.88742 4.04744 1.43491 0.27199 0.00000 *\n- 1 2.58993 4.80137 2.94898 2.47043 4.07056 3.41472 3.70523 3.37781 2.42968 2.92018 2.23392 2.99868 3.80165 2.81913 2.93686 2.59262 2.36922 3.06839 5.36155 4.03959 62 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02158 4.52484 4.55561 0.61958 0.77255 0.50053 0.93194\n- 2 2.65455 5.00026 3.04909 2.50625 4.26753 3.46141 3.71747 3.63884 2.13552 2.75912 3.91445 2.91366 3.91458 2.61300 2.64529 2.48484 1.97509 3.33491 5.48143 4.12889 63 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01628 4.52198 5.24433 0.61958 0.77255 0.49060 0.94741\n- 3 2.83237 4.26253 4.61819 3.97056 3.05013 4.05533 4.39182 2.03333 3.86981 1.56834 3.18607 4.13632 3.35531 4.03936 3.96486 3.36446 3.10694 1.50488 4.93216 3.74119 64 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01615 4.52963 5.25198 0.61958 0.77255 0.49903 0.93424\n- 4 2.55997 4.02987 4.09021 3.63377 3.14680 3.50433 4.12075 1.88658 3.42393 1.66693 3.19767 3.81776 4.18249 3.70031 3.07294 2.97036 2.92562 2.24550 4.65091 3.50535 65 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01615 4.52963 5.25198 0.61958 0.77255 0.49903 0.93424\n- 5 2.45506 5.36281 1.64611 1.92255 4.68869 3.44027 3.71355 4.15303 2.50630 3.66012 4.41795 2.59070 3.94435 2.68939 3.06933 2.64900 2.98673 3.74489 5.79851 4.33121 66 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01615 4.52963 5.25198 0.61958 0.77255 0.49903 0.93424\n- 6 1.98990 4.47662 3.18321 2.54646 3.88083 3.39380 3.26149 3.27141 2.33814 2.81075 3.81755 3.01231 3.95187 2.81638 2.78785 2.66246 2.91608 2.73517 5.31600 3.23217 67 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01615 4.52963 5.25198 0.61958 0.77255 0.49313 0.94344\n- 7 3.47566 4.75450 5.32193 4.65890 3.25627 4.81270 5.17742 1.92089 4.62272 0.82307 3.13699 4.91832 5.004'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42812 5.15047 0.61958 0.77255 0.65417 0.73371\n- 769 2.49413 4.87087 3.01719 2.39133 4.22914 3.42652 3.56800 3.37653 2.14846 3.11805 3.66253 2.96067 3.87720 2.27676 2.28760 2.65556 2.74516 3.18998 5.38271 4.10941 1158 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42812 5.15047 0.61958 0.77255 0.65417 0.73371\n- 770 2.24240 5.01063 2.90225 2.32224 4.25594 3.38090 3.63572 3.67400 2.35686 3.09080 3.91630 2.84460 2.90758 2.52823 2.87526 2.45658 2.66477 3.03813 5.18005 4.11773 1159 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42812 5.15047 0.61958 0.77255 0.65417 0.73371\n- 771 2.87769 4.45138 4.09851 3.54520 3.47647 3.95158 4.35111 2.31822 3.45552 2.19439 3.44691 3.86437 4.34808 3.74456 3.74157 3.25461 1.27996 2.05156 5.20878 3.99693 1160 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42812 5.15047 0.61958 0.77255 0.65417 0.73371\n- 772 2.59142 4.26047 3.57988 3.00122 3.50702 3.65738 3.91337 2.56906 2.74754 2.33502 3.31339 3.34834 4.03629 3.15833 3.06331 2.79568 1.87501 2.34189 4.95723 3.72664 1161 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42812 5.15047 0.61958 0.77255 0.65417 0.73371\n- 773 3.21386 4.58894 5.29657 4.80153 3.73253 4.84560 5.46805 1.23500 4.71924 2.35996 3.65849 4.96892 5.10562 4.95608 4.88322 4.24523 3.60462 0.91846 5.87999 4.67131 1162 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01789 4.42812 5.15047 0.61958 0.77255 0.65417 0.73371\n- 774 2.72122 4.68065 3.60393 3.52329 4.90607 0.53349 4.72715 4.44919 3.73212 4.09987 4.97003 3.72133 3.89005 4.03885 3.81690 2.92713 3.27559 3.82895 6.14350 4.99510 1163 G - - -\n- 2.68618 4.42228 2.77518 2.73118 3.46354 2.40512 3.72490 3.29357 2.67743 2.69357 4.24687 2.90346 2.73739 3.18149 2.89797 2.37888 2.77521 2.98518 4.58465 3.61506\n- 0.05685 3.27613 4.04599 0.95700 0.48458 0.65417 0.73371\n- 775 2.73705 5.20191 2.41551 2.03287 4.50888 1.79062 3.58697 3.90902 2.50848 3.44510 4.26615 2.92424 3.77835 2.78340 2.94924 2.72220 2.97227 3.46814 5.65984 4.25704 1183 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15777 4.41636 2.01085 0.61958 0.77255 0.63997 0.74931\n- 776 2.44262 5.11079 2.47133 1.87201 4.43153 3.19821 3.56796 3.90240 2.33887 3.40578 4.04294 2.66466 3.79471 2.65343 2.85054 2.56859 2.73500 3.25335 5.55779 4.13060 1184 e - - -\n- 2.68593 4.42233 2.77516 2.73108 3.46362 2.40515 3.72499 3.29360 2.67746 2.69361 4.24698 2.90346 2.73746 3.18145 2.89800 2.37889 2.77521 2.98520 4.58485 3.61511\n- 0.47693 0.96939 * 0.23635 1.55829 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Borvo__BovA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Borvo__BovA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2183 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Borvo__BovA\n-LENG 720\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:46 2021\n-NSEQ 148\n-EFFN 4.313354\n-CKSUM 3792971675\n-GA 10 10;\n-STATS LOCAL MSV -12.2547 0.69654\n-STATS LOCAL VITERBI -13.0627 0.69654\n-STATS LOCAL FORWARD -6.3880 0.69654\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58512 4.37384 2.98446 2.64206 3.29083 3.10245 3.64511 2.63176 2.69267 2.39100 3.64025 2.96143 3.28325 3.13439 2.93722 2.57291 2.83610 2.71540 4.69939 3.55867\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09786 5.14061 2.43763 0.61958 0.77255 0.00000 *\n- 1 4.28298 5.55819 5.94712 5.47171 3.68268 5.45357 5.82185 2.92279 5.15296 1.75058 0.47721 5.66014 5.61897 5.24319 5.16937 4.94244 4.52775 3.16371 5.88667 4.79033 1 M - - -\n- 2.68610 4.42473 2.77558 2.72929 3.46055 2.40639 3.72475 3.29145 2.67745 2.69421 4.24741 2.90372 2.73742 3.18088 2.89810 2.37911 2.77554 2.98546 4.58528 3.61593\n- 1.37861 0.67307 1.43576 2.37080 0.09806 0.72818 0.65930\n- 2 2.49938 4.91315 3.11090 2.61385 2.54910 3.40368 3.85666 3.53300 2.45953 2.03242 3.99068 2.68443 3.28113 2.92640 3.04886 2.57586 2.93981 3.23237 5.43198 4.11589 39 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12797 4.78464 2.19137 0.61958 0.77255 1.12818 0.39100\n- 3 2.68608 4.74105 3.21928 2.69596 3.92588 3.17289 3.86604 3.11316 2.74104 2.34092 3.49717 2.75880 3.30057 2.69123 2.68387 2.60314 2.91031 2.47122 4.24457 3.38200 40 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68194 5.40429 0.61958 0.77255 0.98440 0.46787\n- 4 2.61506 5.23292 2.39034 2.21598 3.65541 3.57387 3.60449 3.29347 2.17629 2.92625 4.04322 2.65638 3.19222 2.43100 2.99799 2.76500 3.02053 3.60889 5.68220 3.62414 41 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01259 4.77699 5.49934 0.61958 0.77255 0.88244 0.53405\n- 5 2.69965 4.99448 2.91537 2.42240 3.38304 3.56752 3.43822 3.20530 2.68018 2.79186 4.06779 2.20871 3.24304 2.81182 3.14006 2.51500 2.90112 2.65939 4.71105 3.37500 42 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01152 4.86514 5.58749 0.61958 0.77255 0.98990 0.46460\n- 6 2.61168 5.28276 2.64181 2.30695 3.82749 3.61248 3.20405 4.07424 2.21409 2.89272 3.35155 2.89255 2.95175 2.85099 2.51623 2.80320 2.40589 3.66077 5.72969 3.98152 43 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01131 4.88395 5.60630 0.61958 0.77255 0.98294 0.46874\n- 7 2.76956 4.53694 3.77946 3.21060 2.38444 2.93506 3.88415 3.02770 3.15978 2.44068 3.39426 3.31061'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00858 5.15876 5.88111 0.61958 0.77255 0.67470 0.71195\n- 713 2.63265 4.23409 2.82287 2.64095 4.11946 3.22317 3.17282 3.57538 2.51693 2.88545 2.97892 3.09378 3.99980 3.04502 2.71831 2.34759 2.71588 2.47809 4.90520 3.23790 967 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07864 5.15876 2.66102 0.61958 0.77255 0.67470 0.71195\n- 714 2.25298 5.34805 2.59371 2.55724 4.04069 3.58518 3.89181 3.78160 2.47052 2.31554 4.39702 2.77945 3.18927 2.82196 2.64315 2.07901 3.05194 3.58277 5.79984 4.08818 968 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15242 5.08932 2.00092 0.61958 0.77255 0.84321 0.56269\n- 715 2.78963 5.35860 2.46663 1.72108 4.70109 3.37133 3.59082 3.91534 2.19130 3.24603 3.65557 2.97860 3.14155 2.76116 2.55574 2.64517 2.93522 3.57395 5.79282 4.38344 969 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05405 4.94750 3.08971 0.61958 0.77255 1.09408 0.40774\n- 716 2.45905 5.34461 1.94982 2.00150 4.68630 3.41717 3.30912 3.60488 2.35427 3.64845 4.38636 2.64325 4.00777 2.90003 2.94099 2.38028 2.75275 3.73347 5.77915 4.36962 970 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11835 4.88707 2.26271 0.61958 0.77255 1.15353 0.37910\n- 717 2.79374 4.90019 2.84735 2.56514 4.11331 3.31870 3.32281 2.79595 2.62592 2.15609 3.39165 3.08840 3.67845 2.85338 2.68111 2.65789 2.77650 2.59303 5.42101 4.10738 971 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02487 4.78126 4.12439 0.61958 0.77255 1.27548 0.32753\n- 718 2.34170 4.44339 3.15900 3.22792 3.05452 3.49103 3.74199 2.16165 3.16932 2.26989 3.20892 3.42363 3.69625 3.31658 3.48905 2.21776 3.02615 2.42830 5.03456 3.45802 972 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01269 4.76908 5.49143 0.61958 0.77255 1.28785 0.32278\n- 719 2.66741 5.20252 2.41974 1.95805 3.97552 3.41851 3.48297 2.85880 2.34779 2.86565 4.00528 2.81073 3.40184 2.80413 2.82421 2.71013 3.01784 3.26012 5.65841 4.27137 973 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.76908 4.07153 0.61958 0.77255 1.02847 0.44247\n- 720 2.47982 5.26098 2.89547 1.99522 4.58142 2.75754 3.78418 3.53264 2.30725 3.15671 3.98345 2.74745 3.42681 2.81696 2.66921 2.78524 2.59231 2.90985 5.70868 4.31309 974 e - - -\n- 2.68496 4.42324 2.77568 2.72991 3.46240 2.40633 3.72530 3.29317 2.67813 2.69261 4.24345 2.90502 2.73762 3.18043 2.89742 2.37927 2.77622 2.98489 4.58506 3.61538\n- 1.09515 0.40720 * 2.57808 0.07896 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Borvo__BovA_addition.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Borvo__BovA_addition.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2156 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Borvo__BovA_addition\n-LENG 711\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:19:04 2022\n-NSEQ 32\n-EFFN 4.113281\n-CKSUM 3635354999\n-GA 20 20;\n-STATS LOCAL MSV -12.2052 0.69658\n-STATS LOCAL VITERBI -13.0416 0.69658\n-STATS LOCAL FORWARD -5.9615 0.69658\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44269 4.35260 2.99770 2.61324 3.18151 3.05261 3.60891 2.81747 2.78909 2.36881 3.68092 3.10008 3.42364 3.03031 2.95186 2.61357 2.86516 2.73888 4.19216 3.41271\n- 2.68640 4.42273 2.77523 2.73129 3.46402 2.40515 3.72543 3.29402 2.67748 2.69321 4.23535 2.90395 2.73757 3.18195 2.89849 2.37912 2.77527 2.98531 4.58525 3.61448\n- 1.03992 0.84887 1.52043 0.90839 0.51613 0.00000 *\n- 1 2.52044 4.68047 3.52760 2.96861 3.10077 3.75567 3.99842 3.21436 2.93738 2.90427 1.94978 2.19350 4.14267 2.75774 3.33368 2.98929 2.29699 2.96910 5.24782 3.98828 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14577 4.85061 2.05716 0.61958 0.77255 0.26231 1.46651\n- 2 2.62646 4.62996 3.73535 2.40630 3.76979 3.86038 4.11073 3.13274 3.12617 1.99045 2.44224 3.58330 2.76271 2.94505 3.48809 2.73788 3.12095 2.36580 5.20913 2.99423 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01015 4.99116 5.71351 0.61958 0.77255 0.74903 0.64022\n- 3 2.54892 3.54463 2.46074 2.24151 3.23357 3.67384 3.86833 3.96542 2.52522 3.51202 3.37817 2.83201 4.06571 2.98777 2.76415 2.53126 1.96960 3.59085 5.70133 4.32866 10 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01015 4.99116 5.71351 0.61958 0.77255 0.74903 0.64022\n- 4 2.91162 4.29734 4.80054 4.19045 2.89491 4.07355 4.40294 1.90754 3.99191 1.62937 2.57046 4.21104 4.43682 3.17624 4.02635 2.78196 3.14369 1.98146 4.91735 3.03353 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01015 4.99116 5.71351 0.61958 0.77255 0.74903 0.64022\n- 5 2.89904 5.41197 2.60581 1.64025 4.75781 2.94803 3.85178 4.24396 1.80429 3.71610 4.45390 3.12359 3.41536 2.61279 2.43965 2.85887 3.13070 3.80333 5.84187 4.43050 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01015 4.99116 5.71351 0.61958 0.77255 0.74903 0.64022\n- 6 2.60529 5.39576 2.41782 1.97966 4.73873 3.65147 3.84587 4.22402 2.58458 3.70007 4.43811 3.11912 4.05009 1.87378 2.45661 2.20471 2.76764 3.78550 5.82926 4.41800 13 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01015 4.99116 5.71351 0.61958 0.77255 0.74903 0.64022\n- 7 2.17044 3.58769 3.49046 2.92886 2.85508 3.78495 4.01093 3.37628 2.05220 3.04918 3.11999 3.40'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00838 5.18180 5.90415 0.61958 0.77255 0.48576 0.95510\n- 704 3.54309 4.88025 5.25858 4.74404 2.34739 4.62027 4.40432 2.67673 4.54541 2.42365 3.98313 4.62408 4.96255 4.60430 4.54915 3.14605 3.77106 3.16026 0.88618 2.43990 877 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00838 5.18180 5.90415 0.61958 0.77255 0.48576 0.95510\n- 705 2.51459 5.08065 4.32035 4.17344 4.81232 0.42546 5.16866 4.61993 4.33055 4.29731 5.17789 4.27792 4.64552 4.58169 4.58532 3.37221 3.68764 4.09506 6.27708 2.94021 878 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00838 5.18180 5.90415 0.61958 0.77255 0.48576 0.95510\n- 706 1.62743 2.57679 5.19055 4.93200 5.38901 3.71931 5.59006 4.81821 4.82576 4.53654 5.32982 4.51055 4.55941 4.98987 4.94201 0.62471 2.83379 4.11222 6.76813 5.67757 879 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00838 5.18180 5.90415 0.61958 0.77255 0.48576 0.95510\n- 707 1.65946 4.82019 3.68952 3.12673 3.98193 3.90773 4.15068 3.35395 3.09664 2.65332 3.03703 3.10619 2.06176 3.41721 3.49246 2.34963 2.75535 3.10926 5.38927 3.31329 880 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00838 5.18180 5.90415 0.61958 0.77255 0.48576 0.95510\n- 708 1.23928 2.79691 4.86599 4.38331 4.15243 3.90712 4.90010 3.42613 4.25540 3.23831 4.15013 4.33625 4.54176 4.44856 4.39543 2.72199 1.87050 1.60026 5.65185 4.47903 881 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 5.18180 3.13885 0.61958 0.77255 0.48576 0.95510\n- 709 3.87622 5.15347 5.64754 5.14742 1.38746 4.99948 4.72294 2.14121 4.94930 1.32195 3.76875 5.01042 5.25826 4.90935 4.89920 4.34205 4.09453 3.23549 4.90419 1.70715 882 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00874 5.14035 5.86269 0.61958 0.77255 0.61444 0.77858\n- 710 3.44095 4.86266 4.84683 4.30718 1.75359 4.48153 4.34497 3.31285 4.12197 1.82237 3.95441 4.39137 4.83132 2.94070 3.27851 3.78508 3.66838 3.14510 4.72044 1.21414 883 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00874 5.14035 5.86269 0.61958 0.77255 0.41297 1.08378\n- 711 2.60344 3.61974 3.32406 2.02955 4.47843 3.16396 3.97897 2.77736 2.76367 3.48903 4.28815 3.29392 4.16757 1.79030 3.23427 2.70404 2.12241 3.56335 5.71279 4.36351 884 q - - -\n- 2.68587 4.41967 2.77538 2.73141 3.46372 2.40494 3.72375 3.29372 2.67759 2.69373 4.24708 2.90365 2.73732 3.18164 2.89819 2.37869 2.77538 2.98536 4.58495 3.61521\n- 0.04045 3.22776 * 1.88429 0.16480 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BstA__BstA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/BstA__BstA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,935 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME BstA__BstA\n-LENG 304\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri May 7 12:45:10 2021\n-NSEQ 26\n-EFFN 0.917236\n-CKSUM 1969958859\n-GA 100 100;\n-STATS LOCAL MSV -11.0902 0.70117\n-STATS LOCAL VITERBI -11.7732 0.70117\n-STATS LOCAL FORWARD -5.8604 0.70117\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53703 4.40148 2.95992 2.66901 3.22666 2.98780 3.66145 2.84638 2.66282 2.46993 3.59977 3.03428 3.27080 3.02286 2.92845 2.70449 2.90945 2.70247 4.23290 3.19911\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11192 4.14373 2.40776 0.61958 0.77255 0.00000 *\n- 1 3.12456 4.64612 4.25337 3.86461 3.30224 3.97505 4.55697 2.49696 3.62143 1.87223 1.06254 4.11807 4.43996 3.99298 3.80421 3.49127 3.43524 2.52382 5.16556 3.94189 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13387 4.05783 2.22550 0.61958 0.77255 0.57979 0.82102\n- 2 2.20302 4.44598 2.78083 2.63699 3.88824 3.26509 3.78017 3.21344 2.67241 2.93057 3.78561 3.07063 3.78181 2.99367 3.09104 2.10074 2.59092 2.39732 5.24109 3.95919 2 s - - -\n- 2.68626 4.42233 2.77519 2.73115 3.46362 2.40521 3.72480 3.29362 2.67742 2.69357 4.24698 2.90312 2.73748 3.18116 2.89804 2.37883 2.77528 2.98527 4.58485 3.61511\n- 0.43377 1.19940 2.98451 0.71188 0.67476 0.54493 0.86722\n- 3 2.60504 4.82158 2.73265 2.38787 4.06877 3.38654 3.61348 2.71620 2.27688 3.08339 3.89915 2.47571 3.51684 2.51978 2.85523 2.62902 2.83887 3.15909 5.31896 3.98031 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02767 3.99688 4.71922 0.61958 0.77255 0.63726 0.75234\n- 4 2.57450 4.69814 2.84765 2.45830 3.62131 3.41555 3.62164 3.32199 2.37472 2.49416 3.77555 2.62321 3.80604 2.67441 2.62064 2.62990 2.80517 3.01989 5.20684 3.61933 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02767 3.99688 4.71922 0.61958 0.77255 0.59871 0.79744\n- 5 2.43754 4.50382 3.16209 2.55352 3.70930 3.44232 3.69885 2.87879 2.58256 2.63987 3.61987 3.08145 3.03220 2.83427 2.99867 2.29465 2.66085 2.68460 5.07829 3.80067 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.01999 4.74233 0.61958 0.77255 0.61626 0.77644\n- 6 2.62415 4.24996 3.66523 3.10677 3.41535 3.64916 3.96330 2.13822 3.03080 2.20283 3.36679 2.91163 4.03689 3.33537 3.34615 2.92268 2.46119 1.96569 4.92960 3.70467 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.01999 4.74233 0.61958 0.77255 0.55203 0.85750\n- 7 2.58335 4.86813 2.78093 2.30406 4.13213 3.00623 3.59396 3.56394 2.37304 3.13851 3.75447 2.79349 3.5864'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02385 4.14373 4.86607 0.61958 0.77255 0.48576 0.95510\n- 297 2.71739 4.99006 3.06937 2.49213 4.30770 3.48661 3.62258 3.72283 1.91077 3.02362 4.06403 2.85380 3.00245 2.75133 2.01744 2.72071 2.74588 3.37101 5.42764 4.11358 313 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02385 4.14373 4.86607 0.61958 0.77255 0.48576 0.95510\n- 298 2.53916 4.98161 2.79569 2.21067 4.29694 3.39415 3.67003 3.72947 2.22705 3.29202 4.09653 2.72078 2.14353 2.81003 2.88466 2.68680 2.75871 3.36791 5.49239 4.13529 314 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05382 4.14373 3.30943 0.61958 0.77255 0.48576 0.95510\n- 299 2.59629 5.10544 2.83283 1.71879 4.43226 3.42076 3.61693 3.87662 2.11729 3.38360 4.16840 2.90348 3.84021 2.44203 2.55778 2.68852 2.80248 3.48944 5.53128 4.17112 315 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02457 4.11447 4.83682 0.61958 0.77255 0.51971 0.90310\n- 300 3.33135 4.64863 4.93623 4.39171 3.21039 4.61674 4.97695 1.81995 4.24257 0.90660 3.00296 4.64687 4.81778 4.38774 4.37723 3.98084 3.56498 1.97656 5.30032 4.20698 316 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02457 4.11447 4.83682 0.61958 0.77255 0.51971 0.90310\n- 301 2.65456 4.77269 2.93628 2.46541 4.06995 3.40802 3.71038 3.47343 2.49090 2.88246 3.93286 2.79691 1.98684 2.69914 2.90107 2.70665 2.70477 3.15654 5.34459 4.03156 317 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09942 4.11447 2.54712 0.61958 0.77255 0.51971 0.90310\n- 302 2.55711 4.99037 2.88727 2.39154 4.30769 3.40898 3.49357 3.74072 2.09469 3.27560 4.07146 2.15346 3.19069 2.73039 2.43393 2.66410 2.90115 3.37402 5.44569 4.10269 318 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02645 4.04150 4.76384 0.61958 0.77255 0.59586 0.80093\n- 303 2.49888 4.83779 2.99583 2.44966 4.14064 3.41140 3.61861 3.55507 1.89968 2.98710 3.94531 2.95733 3.10359 2.76141 2.59872 2.40115 2.77980 3.21538 5.34690 4.02325 319 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04670 4.04150 3.57342 0.61958 0.77255 0.59586 0.80093\n- 304 2.77779 5.06650 3.07650 2.50191 4.41649 3.49988 2.72145 3.82703 1.67722 3.32243 4.13129 2.99431 3.44347 2.52838 2.22550 2.76513 2.98309 3.46916 5.44283 4.15290 320 k - - -\n- 2.68612 4.42226 2.77531 2.73137 3.46336 2.40523 3.72477 3.29353 2.67754 2.69359 4.24703 2.90329 2.73728 3.18125 2.89790 2.37888 2.77518 2.98523 4.58490 3.61511\n- 0.27550 1.42375 * 1.20638 0.35564 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Bunzi__BnzA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Bunzi__BnzA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1655 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Bunzi__BnzA\n-LENG 544\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:51 2021\n-NSEQ 207\n-EFFN 3.603928\n-CKSUM 2311625000\n-GA 10 10;\n-STATS LOCAL MSV -11.7960 0.69763\n-STATS LOCAL VITERBI -12.7688 0.69763\n-STATS LOCAL FORWARD -6.2541 0.69763\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54083 4.60872 2.91890 2.57001 3.44542 2.89139 3.86426 2.68639 2.52674 2.40008 3.59150 2.97520 3.66190 3.06266 3.09349 2.59836 2.79809 2.70630 5.20817 3.51926\n- 2.68556 4.41389 2.77522 2.72778 3.46429 2.40687 3.72733 3.28964 2.67428 2.69478 4.23834 2.90215 2.73908 3.18458 2.89937 2.38060 2.77676 2.98497 4.58828 3.61521\n- 0.83317 1.26917 1.25785 3.25604 0.03930 0.00000 *\n- 1 2.78676 5.04688 2.88095 2.59293 4.30512 3.60241 3.79753 3.41160 2.19012 3.28811 1.97915 3.11798 3.99254 2.16837 2.76070 2.69329 3.01708 3.18386 5.53357 4.18702 62 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09396 4.73498 2.51462 0.61958 0.77255 0.40834 1.09288\n- 2 2.37592 4.86352 3.39092 2.76066 4.05445 3.42593 3.95018 3.15973 2.78851 2.81156 2.15881 3.25230 4.11819 2.41772 2.33321 2.54898 2.93777 2.82093 5.40119 4.04512 63 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01087 4.92255 5.64490 0.61958 0.77255 0.82221 0.57885\n- 3 2.85387 5.28641 2.55644 2.54688 4.59972 3.17931 3.61715 2.61861 2.46905 3.57820 4.33647 2.03411 4.03000 2.93762 2.97097 1.90016 2.81259 3.66005 5.73876 4.34695 64 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01087 4.92255 5.64490 0.61958 0.77255 0.82221 0.57885\n- 4 2.84487 4.32086 4.55184 3.95787 3.42736 4.03099 4.35391 1.88889 3.80670 2.34617 3.44046 4.08696 4.39785 3.99659 3.92503 2.24227 2.20506 1.65570 4.95309 2.93952 65 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01087 4.92255 5.64490 0.61958 0.77255 0.82221 0.57885\n- 5 2.66019 5.23477 2.78250 2.10440 3.86603 3.63994 3.67090 3.47528 2.59032 3.51948 4.28842 1.62711 4.03250 2.94779 3.07368 2.55825 2.73446 3.14783 5.69719 4.05171 66 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01087 4.92255 5.64490 0.61958 0.77255 0.82221 0.57885\n- 6 2.54557 5.32306 3.01914 1.68460 4.65467 3.19145 3.81215 3.50965 2.33484 3.58026 4.36731 2.70400 4.01677 2.42633 2.93526 2.50273 2.87286 2.78728 5.76386 4.36117 67 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01087 4.92255 5.64490 0.61958 0.77255 0.82221 0.57885\n- 7 2.92547 4.47506 4.12901 3.04973 1.61762 3.97363 3.94444 2.85243 3.15974 2.44237 3.58764 3.84579'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01564 4.56151 5.28385 0.61958 0.77255 1.28105 0.32538\n- 537 2.64005 5.23672 2.65879 2.35284 4.56605 3.04522 3.71422 4.04343 2.40144 3.53558 4.28636 2.48917 3.91134 2.69383 2.65932 1.66176 2.99091 3.61986 5.67872 4.27223 1122 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01564 4.56151 5.28385 0.61958 0.77255 1.05902 0.42586\n- 538 2.21067 4.67484 3.35611 2.79439 3.22521 2.93590 3.87330 2.92440 2.10897 2.74876 2.64860 2.95951 4.03174 3.10230 3.04064 2.62699 2.97537 2.97011 5.22592 3.95026 1123 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64225 5.36460 0.61958 0.77255 1.20950 0.35431\n- 539 2.51869 4.44574 4.85831 4.26400 2.74928 4.27184 4.60102 2.25982 4.10307 0.98653 3.00989 4.36884 4.58360 4.23189 4.17235 3.58759 3.11206 2.26443 5.06708 3.92909 1124 l - - -\n- 2.68621 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67691 2.69358 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61507\n- 0.16988 1.99408 3.90724 0.22788 1.59073 1.02451 0.44469\n- 540 2.61209 5.22958 3.04859 2.49144 4.55823 3.24061 3.57308 4.02564 1.50193 3.33896 4.27746 2.55949 3.94840 2.77115 2.65384 2.45912 2.77319 3.55513 5.66965 4.27915 1126 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68913 5.41147 0.61958 0.77255 1.16253 0.37498\n- 541 2.87603 5.30446 2.91212 2.26741 4.65618 1.77660 3.84394 4.12568 2.36389 3.63668 4.40783 2.60766 4.01311 2.96335 3.11345 1.87220 2.98739 3.71238 5.79571 4.39504 1127 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68913 5.41147 0.61958 0.77255 1.08544 0.41211\n- 542 3.06791 4.43147 4.92515 4.32149 1.83243 4.25627 4.57772 2.28326 4.13997 1.32161 2.73022 4.38237 3.36436 4.24926 4.17540 3.57228 3.29553 2.13958 5.02143 3.88164 1128 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01343 4.71271 5.43505 0.61958 0.77255 1.13715 0.38674\n- 543 3.80987 5.06545 5.63993 5.06361 0.98479 5.09371 5.23861 2.41120 4.91168 1.31741 2.55777 5.19574 5.20443 4.83453 4.88421 4.45499 4.01569 2.84270 5.35441 4.19076 1129 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01343 4.71271 5.43505 0.61958 0.77255 1.08893 0.41034\n- 544 2.81528 5.30565 2.88898 2.36156 4.64153 2.60289 3.70617 4.12098 1.95872 3.60515 4.35225 2.84237 3.96918 2.64424 2.90882 1.67044 3.04791 3.69207 5.74088 4.33451 1130 s - - -\n- 2.68663 4.42280 2.77418 2.72990 3.46349 2.40490 3.72549 3.29397 2.67699 2.69409 4.24744 2.90374 2.73781 3.18120 2.89795 2.37907 2.77555 2.98545 4.58532 3.61505\n- 0.47099 0.97918 * 1.50654 0.25061 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Bunzi__BnzB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Bunzi__BnzB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1535 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Bunzi__BnzB\n-LENG 504\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:51 2021\n-NSEQ 207\n-EFFN 3.212265\n-CKSUM 1946954176\n-GA 150 150;\n-STATS LOCAL MSV -11.6065 0.69799\n-STATS LOCAL VITERBI -13.1124 0.69799\n-STATS LOCAL FORWARD -5.7817 0.69799\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54713 4.49909 2.84832 2.65567 3.28882 2.89444 3.61185 2.79966 2.62893 2.41188 3.59717 3.00470 3.54900 3.01420 3.04120 2.60004 2.83794 2.73080 4.65691 3.50428\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69355 4.24497 2.90350 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.11042 2.57547 3.56038 0.30325 1.34100 0.00000 *\n- 1 3.17076 4.58970 4.85484 4.28515 3.60550 4.31544 4.72065 2.63906 4.11734 2.15539 1.01105 4.41545 4.68581 4.31552 4.23751 2.91895 3.42143 1.88293 5.27829 4.10817 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01841 4.95540 4.49257 0.61958 0.77255 0.48959 0.94901\n- 2 2.76617 5.35704 2.59686 2.39237 4.69586 3.63667 3.82488 3.83161 2.15769 3.65967 4.39948 2.12646 3.19168 2.92332 2.92457 1.91497 2.73912 3.25434 5.79352 4.38630 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01045 4.96251 5.68485 0.61958 0.77255 0.53472 0.88149\n- 3 2.61645 5.36412 2.68984 2.28809 4.70620 3.33866 3.37972 3.41010 1.67906 3.10609 4.40562 2.58423 4.02905 2.83218 2.41094 2.63662 3.09209 3.75316 5.79847 4.38956 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01802 4.96250 4.52242 0.61958 0.77255 0.53472 0.88149\n- 4 2.66465 5.36589 2.14655 2.26800 4.10533 3.54620 3.81879 4.19517 1.81226 3.15986 4.40686 2.66403 3.53606 2.46590 2.72099 2.73109 2.96541 3.75599 5.79913 4.38880 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05710 4.95501 3.02721 0.61958 0.77255 0.55384 0.85504\n- 5 2.83887 4.55441 2.09532 1.99841 4.45907 3.59276 3.57193 3.81794 2.02782 3.45844 4.38383 2.63734 4.00710 2.66079 2.97424 2.35397 2.81556 3.73139 5.77684 4.19826 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20685 4.90894 1.71768 0.61958 0.77255 0.49645 0.93825\n- 6 2.74642 4.84711 3.11425 2.60659 3.84218 3.65542 3.86969 2.87758 2.32298 1.84966 3.53639 3.12867 4.04281 2.82555 2.41508 2.73941 2.90061 3.15815 5.37650 3.71785 8 l - - -\n- 2.68613 4.42227 2.77510 2.73105 3.46398 2.40552 3.72539 3.29385 2.67646 2.69377 4.24673 2.90324 2.73784 3.18122 2.89659 2.37911 2.77556 2.98553 4.58521 3.61521\n- 1.16735 0.77617 1.47558 1.07142 0.41934 0.91392 0.51241\n- 7 2.74966 5.21252 2.54511 2.35164 4.27918 3.50113 3.69574 4.01430 1.42164 3.50636 4.26110 2.895'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01066 4.94283 5.66518 0.61958 0.77255 0.58387 0.81584\n- 497 3.11032 3.74706 4.69848 4.13360 2.93466 4.20561 4.26118 2.97022 3.07132 2.26792 3.58341 4.20604 4.56396 4.13384 4.07418 3.50831 3.34064 2.78802 1.79984 1.40657 837 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06073 4.94283 2.96067 0.61958 0.77255 0.58387 0.81584\n- 498 2.72928 5.33252 2.77076 1.85636 4.67296 3.60879 3.57383 3.93226 1.98965 3.18917 4.37445 2.40013 4.00214 2.80039 2.39685 2.72066 2.96437 3.66578 3.91877 4.36002 838 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01120 4.89331 5.61565 0.61958 0.77255 0.69421 0.69208\n- 499 2.73954 5.32257 3.12268 2.09974 4.65746 3.63129 3.69757 4.12888 2.05511 3.48947 4.36766 3.01335 4.02284 2.66398 1.70550 2.40040 3.08457 3.54033 3.94736 4.36322 839 r - - -\n- 2.68637 4.42244 2.77513 2.73142 3.46373 2.40532 3.72514 3.29199 2.67690 2.69350 4.24709 2.90336 2.73759 3.18166 2.89791 2.37906 2.77539 2.98506 4.58496 3.61522\n- 0.10267 2.36520 5.61565 1.54136 0.24091 0.69421 0.69208\n- 500 3.23784 4.59538 5.05967 4.46308 3.47819 4.44456 4.77574 2.16372 3.26049 1.00502 2.25323 4.55378 4.75020 4.41328 4.34322 3.76375 3.46631 1.99109 5.22399 4.09064 851 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06302 4.89331 2.92660 0.61958 0.77255 0.69421 0.69208\n- 501 2.79554 4.17059 4.43842 3.84430 3.37083 3.95625 4.26876 2.58361 3.69907 1.39389 2.63437 3.99268 4.32373 3.70897 3.02214 2.96504 2.78530 2.29930 4.88740 2.56911 852 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.84208 4.35363 0.61958 0.77255 0.79202 0.60318\n- 502 2.45388 5.27516 2.64681 2.12516 4.00374 3.28515 3.77993 3.27280 2.15904 3.04769 4.08609 2.77613 3.98387 2.52105 2.85087 2.36337 2.84898 3.53603 5.71916 3.96127 853 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16978 4.83301 1.90928 0.61958 0.77255 0.80790 0.59022\n- 503 2.52961 5.25106 2.76420 2.23378 4.58986 3.24261 3.43916 4.07149 2.40016 3.55364 4.29346 2.46250 3.83416 2.44754 2.64752 2.11635 2.64958 3.19360 5.68745 4.28018 854 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18276 4.67715 1.84689 0.61958 0.77255 1.03066 0.44125\n- 504 2.51666 4.97134 2.88804 2.43143 3.29962 3.20957 3.65417 3.38997 2.49755 3.02652 3.87809 2.64792 3.90682 2.67885 2.53572 2.16761 2.75930 3.22700 5.45947 3.91463 855 s - - -\n- 2.68667 4.42302 2.77593 2.73044 3.46272 2.40540 3.72551 3.29201 2.67737 2.69356 4.24621 2.90298 2.73803 3.18148 2.89798 2.37851 2.77576 2.98519 4.58516 3.61493\n- 0.80725 0.59074 * 1.66335 0.21011 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Butters_gp30.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Butters_gp30.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1031 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Butters_gp30_gp31__Butters_gp30\n-LENG 336\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:41 2023\n-NSEQ 36\n-EFFN 2.298340\n-CKSUM 3895333874\n-GA 20 20;\n-STATS LOCAL MSV -10.9306 0.70042\n-STATS LOCAL VITERBI -11.8501 0.70042\n-STATS LOCAL FORWARD -5.4221 0.70042\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45711 4.72141 2.80314 2.56311 3.44092 2.87167 3.74217 3.02992 2.61456 2.56757 3.75489 3.18635 3.22127 2.99568 2.77184 2.64458 2.82741 2.67443 4.35547 3.57610\n- 2.68619 4.42262 2.77545 2.73161 3.46364 2.40531 3.72436 3.29348 2.67766 2.69324 4.24339 2.90333 2.73741 3.18163 2.89796 2.37880 2.77522 2.98541 4.58443 3.61513\n- 0.26405 1.84123 2.61125 1.86875 0.16761 0.00000 *\n- 1 2.64890 4.43097 3.95631 3.40721 3.59914 3.80791 4.17493 2.84012 2.83943 2.61923 1.23056 3.71410 4.22932 3.58329 3.49366 2.94567 3.07321 2.34656 5.09266 3.88603 34 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65324 5.37559 0.61958 0.77255 0.62383 0.76762\n- 2 2.02597 4.70414 3.44116 2.91519 4.16138 3.52499 4.02792 3.55744 2.90026 3.21294 3.66046 3.06647 2.73597 3.23312 3.31842 2.58574 1.42985 3.22027 5.49778 4.21716 35 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65324 5.37559 0.61958 0.77255 0.62383 0.76762\n- 3 2.75462 5.18769 2.82645 2.47240 4.50368 3.15083 3.73009 3.96848 2.25023 3.48152 3.55130 2.49118 3.93048 2.67197 2.96602 1.70634 2.59280 3.56332 5.64113 4.24935 36 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65324 5.37559 0.61958 0.77255 0.62383 0.76762\n- 4 4.65244 5.62039 5.47322 5.35416 1.95386 5.15858 3.07012 4.30506 5.14002 3.48274 4.82489 4.69109 5.41548 4.84881 4.98825 4.55212 4.84432 4.23341 3.33248 0.46361 37 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65324 5.37559 0.61958 0.77255 0.62383 0.76762\n- 5 3.89152 5.52327 4.70905 4.72425 5.73029 0.14342 5.72151 5.58757 4.99987 5.10385 6.13078 4.87697 4.92445 5.26412 5.08728 4.09389 4.42455 4.96841 6.55614 5.87919 38 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65324 5.37559 0.61958 0.77255 0.56469 0.84057\n- 6 3.27922 4.62481 4.93018 4.40426 1.16295 4.37599 4.21924 2.62488 4.23002 2.38936 3.22357 4.36779 4.69738 4.30527 4.26973 3.69756 3.50594 2.43404 4.50015 1.76105 39 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67187 5.39422 0.61958 0.77255 0.59064 0.80738\n- 7 3.75955 5.76166 4.40637 3.47641 5.40233 4.25579 4.00221 4.65132 1.48833 3.96711 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72488 5.44723 0.61958 0.77255 0.48576 0.95510\n- 329 1.87532 4.26990 4.20180 3.61713 3.37735 2.97626 4.17860 2.34047 3.50422 1.98796 2.85482 3.84113 3.60268 3.73124 3.69893 2.96154 2.73743 2.09492 4.88326 3.68938 480 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72488 5.44723 0.61958 0.77255 0.48576 0.95510\n- 330 2.41970 5.25791 2.81502 2.26161 4.58935 2.87581 3.74678 4.06595 2.39194 3.55812 4.30442 3.02457 3.40686 2.34702 2.98208 2.33878 2.01469 3.64168 5.70038 4.29692 481 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72488 5.44723 0.61958 0.77255 0.48576 0.95510\n- 331 2.87704 4.26062 4.71638 4.11547 2.47213 4.05049 4.38513 1.45972 3.93354 1.73493 3.32821 4.16938 3.68996 4.08667 3.99021 3.03679 3.11010 2.07075 4.90369 3.72666 482 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72488 5.44723 0.61958 0.77255 0.48576 0.95510\n- 332 2.82892 5.89736 0.95461 2.25832 5.19319 3.61227 4.09638 4.72208 2.66526 4.18438 4.99871 2.09081 4.20173 3.24411 3.64899 3.15359 3.54307 4.26988 6.32794 4.81763 483 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01327 4.72488 5.44723 0.61958 0.77255 0.48576 0.95510\n- 333 2.87389 4.26318 4.68433 4.08618 2.23590 4.02442 3.47540 2.42645 3.90116 1.95265 2.88913 4.12821 4.37988 4.04470 3.95378 3.33195 3.10482 2.32726 1.78012 3.52269 484 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11482 4.72488 2.30658 0.61958 0.77255 0.48576 0.95510\n- 334 2.49421 5.14621 2.50436 2.49635 4.49750 3.51982 3.76435 3.95750 2.36549 3.48417 4.25087 3.03310 2.61391 2.87991 3.01585 1.91213 2.25184 3.55404 5.65437 4.26903 485 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07572 4.62474 2.76282 0.61958 0.77255 0.67148 0.71530\n- 335 2.60439 5.07953 2.60028 2.26825 4.36889 2.23563 3.73124 3.81370 2.50456 3.04668 4.14683 2.85444 3.92076 2.85472 2.98623 2.17988 2.96831 2.77285 5.55963 4.18775 486 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01559 4.56461 5.28696 0.61958 0.77255 0.76122 0.62941\n- 336 2.77855 4.53846 3.59578 3.04515 3.61536 3.70777 3.95793 3.07280 2.90187 2.52800 3.66452 3.44630 4.10943 2.74864 3.23045 2.43322 2.82448 2.84123 1.63641 3.77207 487 w - - -\n- 2.68644 4.42264 2.77435 2.73138 3.46393 2.40438 3.72534 3.29393 2.67767 2.69368 4.24729 2.90386 2.73717 3.18143 2.89807 2.37889 2.77540 2.98479 4.58516 3.61542\n- 0.30762 1.32875 * 1.62619 0.21900 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Butters_gp31.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Butters_gp31.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,581 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Butters_gp30_gp31__Butters_gp31\n-LENG 186\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:41 2023\n-NSEQ 50\n-EFFN 1.864624\n-CKSUM 3824728794\n-GA 20 20;\n-STATS LOCAL MSV -10.3044 0.70627\n-STATS LOCAL VITERBI -11.1377 0.70627\n-STATS LOCAL FORWARD -4.5137 0.70627\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.29269 4.46047 3.23088 2.92653 3.29408 3.03755 3.77692 2.74676 2.89864 2.11164 3.43679 3.31452 3.52074 3.29680 2.94014 2.65625 2.78972 2.45792 4.56806 3.48913\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.44042 4.57591 1.06149 0.61958 0.77255 0.00000 *\n- 1 3.22096 4.72926 4.37202 3.99692 3.36874 4.05680 4.66590 2.57473 3.74682 1.92801 0.91806 4.23606 4.52716 4.11421 3.91645 3.59552 3.53626 2.61241 5.24199 4.02505 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02348 4.15897 4.88131 0.61958 0.77255 0.61623 0.77647\n- 2 2.49819 4.15898 4.05603 3.47344 3.02044 3.75653 4.06037 2.47970 3.36511 2.01166 2.23865 3.71079 4.12664 3.59716 3.57024 2.67650 2.29870 2.26145 4.77754 3.58353 2 l - - -\n- 2.68618 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29354 2.67741 2.69346 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.04968 3.16447 5.07807 0.47520 0.97223 0.61355 0.77963\n- 3 2.54121 5.09787 2.25798 2.29936 4.40488 3.12170 3.52630 3.86507 2.41431 3.38671 3.25905 2.95119 3.86211 2.62083 2.71998 2.11987 2.91384 3.46799 5.55382 3.88249 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01775 4.43593 5.15827 0.61958 0.77255 0.70170 0.68467\n- 4 3.46260 5.41849 3.95023 3.29821 4.85561 3.97343 3.97277 4.33139 2.18198 3.72880 4.67173 3.62912 4.39008 2.95335 0.64625 3.48534 3.64711 4.03355 5.70734 4.56565 5 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01775 4.43593 5.15827 0.61958 0.77255 0.63279 0.75738\n- 5 3.44371 4.75511 5.17286 4.59915 1.22262 4.67342 4.85597 2.46550 4.45101 1.38428 2.51676 4.74005 4.87256 4.48010 4.49191 4.01328 3.66060 2.35116 5.10707 3.89942 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46292 5.18526 0.61958 0.77255 0.63897 0.75043\n- 6 2.68898 4.99501 2.52840 2.47232 3.82449 3.49778 3.69556 3.70072 2.46971 3.14271 3.89503 2.16234 3.88937 2.58255 2.94516 2.13764 2.81144 3.16473 4.50404 4.11523 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01710 4.47298 5.19532 0.61958 0.77255 0.65168 0.73641\n- 7 2.75094 4.27202 4.39410 3.80997 2.78345 3.98131 4.30186 2.03550 3.68210 1.74840 3.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57591 5.29825 0.61958 0.77255 0.48576 0.95510\n- 179 2.64129 5.20091 2.41012 2.45073 4.53930 3.50490 3.74304 4.00845 2.50854 3.51864 4.27948 1.65289 3.53092 2.85484 2.79150 2.32497 3.00542 3.33916 5.67621 4.27815 210 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03831 4.57591 3.60119 0.61958 0.77255 0.48576 0.95510\n- 180 2.29874 4.55022 3.78924 3.67318 4.98830 0.61478 4.82231 4.44544 3.89494 4.12527 4.93522 3.75211 3.25029 4.12318 4.16412 2.78789 3.14149 3.75001 6.29553 5.13359 211 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01577 4.55336 5.27571 0.61958 0.77255 0.52607 0.89385\n- 181 2.54102 4.49571 3.49946 2.93369 2.13510 3.66762 3.63625 2.89047 2.73331 2.71163 3.59549 3.36414 4.04868 2.59697 2.98304 2.80483 2.30238 2.77515 4.20937 3.60514 212 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04381 4.55336 3.43183 0.61958 0.77255 0.52607 0.89385\n- 182 2.70449 4.92897 2.82123 2.30534 3.70000 3.53058 2.92459 3.36656 2.45590 3.19029 3.99765 2.77121 3.92079 2.87788 2.79962 2.49181 2.85984 2.25972 5.42681 3.48087 213 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04120 4.52577 3.52225 0.61958 0.77255 0.57215 0.83083\n- 183 2.43792 4.92140 3.09200 2.53298 4.16691 3.28669 3.72772 3.18205 2.13456 3.18233 3.99098 3.05390 3.91765 2.80062 2.13803 2.43342 2.72208 3.04996 5.41857 3.41570 214 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03703 4.50120 3.67857 0.61958 0.77255 0.61048 0.78327\n- 184 2.69547 5.12190 2.39953 2.36396 3.59430 2.79372 3.07540 3.89617 2.42290 3.41272 4.17220 2.96093 3.87368 2.70056 2.49321 2.30685 2.54837 3.49443 5.57537 4.18545 215 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14615 4.48113 2.08227 0.61958 0.77255 0.64007 0.74920\n- 185 2.69484 5.09655 2.98629 2.42424 4.41498 2.73694 3.26548 3.86730 2.09952 3.38093 3.70707 2.66899 3.72610 2.64951 2.06240 2.67596 2.81779 3.47379 5.53692 4.16605 216 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16903 4.35426 1.94727 0.61958 0.77255 0.79825 0.59805\n- 186 2.55649 4.81661 3.05728 2.52436 4.20356 3.07267 3.70205 3.62392 2.39408 3.20733 4.01450 3.01918 3.66261 2.84836 1.98900 2.25325 2.39392 3.26459 5.42175 4.09829 217 r - - -\n- 2.68657 4.42264 2.77504 2.73138 3.46382 2.40537 3.72481 3.29381 2.67733 2.69338 4.24503 2.90349 2.73748 3.18185 2.89611 2.37922 2.77539 2.98517 4.58480 3.61542\n- 0.52448 0.89615 * 1.56282 0.23515 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__CarolAnn_gp43.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__CarolAnn_gp43.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,530 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Butters_gp30_gp31__CarolAnn_gp43\n-LENG 169\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:42 2023\n-NSEQ 10\n-EFFN 1.313477\n-CKSUM 1839170290\n-GA 20 20;\n-STATS LOCAL MSV -10.0867 0.70757\n-STATS LOCAL VITERBI -10.9309 0.70757\n-STATS LOCAL FORWARD -4.4957 0.70757\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.20963 4.32068 3.21424 3.06504 3.40404 2.91523 3.94747 2.67042 2.95710 2.20964 3.42613 3.41897 3.36639 3.19551 2.86639 2.67299 2.74847 2.40948 4.70019 3.78038\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10926 4.34757 2.40170 0.61958 0.77255 0.00000 *\n- 1 3.32588 4.82167 4.49623 4.13717 3.44592 4.14269 4.78285 2.66394 3.88025 1.99597 0.79017 4.36140 4.62017 4.24401 4.03623 3.70713 3.64673 2.71224 5.32731 4.11685 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17509 4.25953 1.92083 0.61958 0.77255 0.60245 0.79290\n- 2 2.23438 4.23208 3.86746 3.29976 3.34641 3.73980 4.06215 2.14363 3.21470 2.10436 2.71894 3.61806 4.11546 3.48930 3.49062 3.02060 2.24513 2.22285 4.90681 3.70375 2 l - - -\n- 2.68645 4.42289 2.77562 2.73187 3.46375 2.40550 3.72559 3.29382 2.67712 2.69168 4.24754 2.90352 2.73773 3.18141 2.89671 2.37891 2.77552 2.98556 4.58245 3.61523\n- 0.58132 0.97940 2.72873 2.17654 0.12040 0.75695 0.63317\n- 3 2.34855 4.72676 2.96471 2.47590 4.01065 3.38819 3.66664 3.41896 2.46569 2.63692 3.86870 2.56066 3.81979 2.46167 2.89840 2.24681 2.84497 3.10020 5.29169 3.97281 16 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02622 4.05010 4.77245 0.61958 0.77255 0.80629 0.59152\n- 4 2.60242 4.81547 2.32701 2.40124 4.14505 3.33854 3.67441 3.56970 2.50221 2.74276 3.98956 2.91946 2.97634 2.82999 2.97147 2.07115 2.86599 3.22068 5.40364 4.05314 17 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02622 4.05010 4.77245 0.61958 0.77255 0.80629 0.59152\n- 5 1.97431 4.48251 3.30052 2.81088 3.65192 3.49599 3.83644 2.94248 2.69249 2.00598 3.58830 3.23633 3.93918 2.56416 3.03762 2.79909 2.89848 2.73059 5.10287 3.84276 18 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02622 4.05010 4.77245 0.61958 0.77255 0.80629 0.59152\n- 6 2.52588 4.43512 3.29383 2.75777 3.77497 3.38163 3.79646 3.10614 2.64980 2.81823 3.69074 3.17312 3.85457 3.03414 2.52943 2.33855 2.16594 2.30428 5.14595 3.88777 19 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02622 4.05010 4.77245 0.61958 0.77255 0.80629 0.59152\n- 7 2.58354 4.22927 3.57549 2.59252 2.81999 3.59167 3.84636 2.27069 2.94949 2.39902 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01941 4.34757 5.06992 0.61958 0.77255 0.48576 0.95510\n- 162 2.04751 4.60006 3.32793 2.79898 3.99681 3.44900 3.88479 3.35160 2.71189 3.03130 3.88956 3.22887 1.94063 3.09433 2.54659 2.74126 2.91649 2.57956 5.33580 4.06301 179 p - - -\n- 2.68618 4.42248 2.77543 2.73146 3.46377 2.40536 3.72518 3.29241 2.67742 2.69378 4.24713 2.90370 2.73708 3.18169 2.89768 2.37856 2.77486 2.98541 4.58500 3.61526\n- 0.29428 1.39171 5.06992 1.37628 0.29104 0.48576 0.95510\n- 163 2.46091 4.42918 3.52991 3.19807 4.46750 3.18817 4.30687 3.87780 3.23586 3.55116 4.37620 3.43289 1.27197 3.54972 3.57932 2.03393 2.14625 3.36348 5.79266 4.55843 185 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01941 4.34757 5.06992 0.61958 0.77255 0.48576 0.95510\n- 164 2.98324 5.26089 3.34857 2.70967 4.67090 3.68599 3.70319 4.05587 1.72955 3.51150 4.32674 3.17779 4.05217 2.31429 1.56029 2.96403 2.47117 3.69546 5.59129 4.34099 186 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09462 4.34757 2.55953 0.61958 0.77255 0.48576 0.95510\n- 165 3.00233 4.55538 4.27526 3.82196 3.42325 3.98106 4.55030 2.46420 3.62883 0.94275 3.31418 4.06427 4.43546 3.95764 3.83592 3.37650 2.41049 2.42347 5.25165 4.06619 187 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02091 4.27386 4.99621 0.61958 0.77255 0.58502 0.81440\n- 166 2.76874 4.46271 3.67708 3.09306 3.54268 3.75080 3.98764 2.34824 2.89380 2.41578 2.93702 3.48953 4.11920 3.29582 1.75884 3.01448 2.99958 2.22292 5.06688 3.84735 188 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02091 4.27386 4.99621 0.61958 0.77255 0.58502 0.81440\n- 167 2.41069 5.01486 3.02801 2.46519 4.31662 3.48362 3.64767 3.74614 2.15730 3.28812 4.07967 2.55664 3.87348 2.49002 2.06207 2.70054 2.92664 2.86408 5.46595 4.12475 189 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02091 4.27386 4.99621 0.61958 0.77255 0.58502 0.81440\n- 168 1.89867 4.47394 3.36528 2.80811 3.66484 3.55342 3.82571 2.47228 2.74806 2.71533 3.59935 2.76706 3.95439 3.09024 2.69950 2.80052 2.87565 2.45583 5.07263 3.81715 190 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02091 4.27386 4.99621 0.61958 0.77255 0.58502 0.81440\n- 169 2.70874 4.97531 2.97315 2.48941 4.33107 3.45204 3.70393 3.75930 2.15447 3.31617 4.11819 3.00288 3.88642 2.34765 2.82766 1.74264 2.55162 3.39332 5.50528 4.16697 191 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01412 4.26708 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__CarolAnn_gp44.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__CarolAnn_gp44.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1118 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Butters_gp30_gp31__CarolAnn_gp44\n-LENG 365\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:42 2023\n-NSEQ 19\n-EFFN 1.108643\n-CKSUM 776163869\n-GA 20 20;\n-STATS LOCAL MSV -11.2984 0.69985\n-STATS LOCAL VITERBI -11.9948 0.69985\n-STATS LOCAL FORWARD -5.9550 0.69985\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55926 4.61933 2.83811 2.52717 3.35429 2.79361 3.73948 2.92075 2.66603 2.54148 3.74563 3.10379 3.46602 3.04993 2.71342 2.65789 2.83049 2.64062 4.30964 3.68733\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27087 4.24739 1.50066 0.61958 0.77255 0.00000 *\n- 1 3.07675 4.60575 4.19255 3.79761 3.27121 3.93316 4.50238 2.46020 3.55796 1.84758 1.14674 4.05836 4.39597 3.93207 3.74751 3.43881 3.38542 2.48120 5.12859 3.90109 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00399 4.72634 0.61958 0.77255 0.73808 0.65015\n- 2 1.92884 4.25920 3.40106 2.90914 3.83716 2.83343 3.92972 3.19707 2.88648 2.90538 3.76456 3.22969 3.06535 3.19589 3.25344 2.33723 2.43659 2.26025 5.22528 3.98565 2 a - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69356 4.24690 2.90347 2.73740 3.18147 2.89785 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.18476 2.55000 2.40112 0.43206 1.04746 0.73808 0.65015\n- 3 2.49478 4.75328 3.06261 2.53178 4.12614 3.39039 3.62874 3.51627 2.12621 3.10579 3.93845 3.00295 3.82447 2.78644 2.02801 2.36958 2.64997 3.18473 5.31421 4.03238 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02996 3.91870 4.64104 0.61958 0.77255 0.75995 0.63053\n- 4 2.60049 4.43445 3.26707 2.81897 3.28218 3.42566 3.73433 3.10313 2.72090 2.76326 3.67161 2.69783 3.90076 3.10776 3.05323 2.34870 2.88199 2.84042 2.32597 3.32938 5 w - - -\n- 2.68622 4.42229 2.77524 2.73097 3.46358 2.40510 3.72499 3.29358 2.67745 2.69359 4.24694 2.90318 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.41661 1.10462 4.66839 0.19921 1.71134 0.69160 0.69470\n- 5 2.41251 4.45968 3.04551 2.67901 4.21494 1.88146 3.87902 3.64578 2.72689 3.26899 4.08951 3.07419 2.90278 3.07397 2.89994 2.07534 2.79393 3.20611 5.49645 4.21020 7 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00399 4.72634 0.61958 0.77255 0.73808 0.65015\n- 6 2.76313 5.24202 1.72655 2.04309 4.54560 3.30465 3.64830 4.02462 2.46732 3.52500 4.32056 2.77108 3.80923 2.44117 2.62194 2.70023 3.01248 3.61676 5.67960 4.25590 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00399 4.72634 0.61958 0.77255 0.73808 0.65015\n- 7 2.69629 4.70175 3.31244 2.78391 4.17552 3.41813 3.75464 3.51673 2.27824 3.13927 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 358 2.25752 4.97627 2.40886 2.39180 4.40567 2.77966 3.70617 3.86434 2.51262 3.40614 4.18628 2.37050 3.82762 2.83590 3.00287 2.16725 2.66573 3.45230 5.58808 4.20616 370 s - - -\n- 2.68609 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.05929 2.98785 4.93819 0.46935 0.98192 0.52619 0.89368\n- 359 2.95692 5.35146 1.01413 2.30454 4.85133 2.74844 3.93457 4.36951 2.95440 3.89484 4.73994 2.86966 3.22959 3.10921 3.52919 2.89590 3.28346 3.91429 6.04158 4.58874 372 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 360 2.48015 5.06895 2.49742 2.03655 4.40270 3.38278 3.67076 3.86149 2.47057 3.39587 4.17590 2.88924 2.49004 2.79619 2.96587 2.25316 2.73840 3.46595 5.57543 4.18320 373 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 361 2.69693 5.10737 2.77892 2.04557 4.42390 2.64889 3.65050 3.88326 2.16954 3.40347 4.17983 2.89129 2.61475 2.63566 2.88732 2.47485 2.93508 3.48762 5.56970 4.18102 374 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 362 2.46049 5.16834 2.37631 1.99764 4.49212 3.38809 3.63497 3.97031 2.40908 3.46566 4.22465 2.34033 3.03653 2.74620 2.60318 2.64691 2.92584 3.54947 5.61324 4.20126 375 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 363 2.36645 5.04475 2.37323 2.19986 4.34458 3.40932 3.62424 3.79863 2.38691 3.33036 4.10332 2.89638 3.81834 2.22739 2.71111 2.63218 2.88376 2.86725 5.50630 4.12265 376 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 364 2.55349 5.09354 2.43836 2.16669 4.42069 2.61540 3.64901 3.88603 2.43378 3.40654 4.17727 2.87982 3.31330 2.76756 2.79779 2.07129 2.91705 3.48253 5.57451 4.17691 377 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27485 4.21584 1.48919 0.61958 0.77255 0.52619 0.89368\n- 365 2.63925 4.97013 2.26843 2.12187 4.25277 3.32656 3.61642 3.69343 2.43382 3.25772 4.05936 2.82945 3.78092 2.57416 2.92149 2.22905 2.88372 2.87388 5.46344 4.08500 378 e - - -\n- 2.68492 4.42274 2.77540 2.73124 3.46402 2.40483 3.72543 3.29378 2.67776 2.69387 4.24738 2.90366 2.73735 3.18156 2.89801 2.37919 2.77527 2.98413 4.58525 3.61527\n- 0.46759 0.98486 * 2.03740 0.13968 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Sbash_gp30.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Sbash_gp30.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1118 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Butters_gp30_gp31__Sbash_gp30\n-LENG 365\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:46 2023\n-NSEQ 19\n-EFFN 1.108643\n-CKSUM 3538701212\n-GA 20 20;\n-STATS LOCAL MSV -11.2996 0.69985\n-STATS LOCAL VITERBI -11.9976 0.69985\n-STATS LOCAL FORWARD -5.9564 0.69985\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55849 4.61918 2.83776 2.52716 3.35430 2.79365 3.73963 2.92063 2.66638 2.54151 3.74563 3.10380 3.46687 3.05048 2.71361 2.65796 2.83051 2.64039 4.30961 3.68736\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27088 4.24739 1.50064 0.61958 0.77255 0.00000 *\n- 1 3.07674 4.60574 4.19255 3.79760 3.27121 3.93316 4.50237 2.46019 3.55796 1.84758 1.14675 4.05835 4.39597 3.93206 3.74750 3.43880 3.38541 2.48119 5.12858 3.90109 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00399 4.72633 0.61958 0.77255 0.73809 0.65014\n- 2 1.92835 4.25896 3.40147 2.90954 3.83672 2.83578 3.92987 3.19649 2.88681 2.90495 3.76421 3.22995 3.06691 3.19620 3.25367 2.33706 2.43595 2.25949 5.22497 3.98540 2 a - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69356 4.24690 2.90347 2.73740 3.18147 2.89785 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.18472 2.55231 2.39951 0.43245 1.04673 0.73809 0.65014\n- 3 2.49425 4.75339 3.06253 2.53173 4.12629 3.39038 3.62867 3.51642 2.12584 3.10589 3.93855 3.00290 3.82446 2.78636 2.02796 2.36937 2.65154 3.18486 5.31425 4.03244 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02996 3.91853 4.64088 0.61958 0.77255 0.76006 0.63043\n- 4 2.60053 4.43445 3.26705 2.81899 3.28188 3.42568 3.73424 3.10309 2.72086 2.76321 3.67158 2.69758 3.90077 3.10776 3.05316 2.34936 2.88202 2.84040 2.32581 3.32904 5 w - - -\n- 2.68622 4.42229 2.77524 2.73097 3.46358 2.40510 3.72499 3.29358 2.67745 2.69359 4.24694 2.90318 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.41677 1.10432 4.66824 0.19919 1.71144 0.69149 0.69480\n- 5 2.41253 4.45970 3.04548 2.67900 4.21494 1.88126 3.87901 3.64577 2.72688 3.26898 4.08951 3.07418 2.90252 3.07396 2.89988 2.07575 2.79395 3.20611 5.49644 4.21019 7 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00399 4.72633 0.61958 0.77255 0.73809 0.65014\n- 6 2.76326 5.24228 1.72622 2.04254 4.54584 3.30455 3.64838 4.02490 2.46758 3.52526 4.32085 2.77097 3.80923 2.44104 2.62300 2.70030 3.01264 3.61701 5.67987 4.25608 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02748 4.00399 4.72633 0.61958 0.77255 0.73809 0.65014\n- 7 2.69637 4.70185 3.31250 2.78395 4.17563 3.41818 3.75462 3.51684 2.27812 3.13934 4.03'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 358 2.25825 4.97623 2.40908 2.39182 4.40562 2.77961 3.70614 3.86429 2.51258 3.40609 4.18622 2.37057 3.82761 2.83587 3.00282 2.16684 2.66516 3.45225 5.58803 4.20612 370 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 359 2.60449 5.27705 1.02066 2.31525 4.83602 2.73993 3.94977 4.32066 2.98272 3.88053 4.73143 2.87283 3.93768 3.12877 3.55681 2.87264 3.26133 3.86303 6.05285 4.59476 371 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 360 2.48343 5.07392 2.47990 2.02930 4.40725 3.38128 3.67817 3.86536 2.48384 3.40183 4.18445 2.88870 2.34749 2.80557 2.98022 2.36647 2.74221 3.47119 5.58344 4.19077 372 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 361 2.68629 5.10026 2.79118 2.05101 4.41753 2.66101 3.64404 3.87797 2.16926 3.39720 4.17078 2.88993 2.78891 2.63134 2.88311 2.35283 2.92392 3.48056 5.56261 4.17301 373 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 362 2.45952 5.15865 2.38184 2.08202 4.48082 3.38943 3.63538 3.95686 2.40921 3.45565 4.21624 2.34333 2.84004 2.74738 2.60257 2.64698 2.92402 3.53909 5.60589 4.19632 374 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 363 2.36572 5.07899 2.29585 2.08727 4.37754 3.40057 3.64630 3.83072 2.42991 3.36590 4.14421 2.88654 3.82954 2.20854 2.92031 2.65572 2.91657 2.85016 5.54506 4.15458 375 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02217 4.21584 4.93819 0.61958 0.77255 0.52619 0.89368\n- 364 2.54183 5.05946 2.62365 2.18691 4.38194 2.64721 3.63569 3.84262 2.40753 3.36767 4.13784 2.89012 3.33227 2.75289 2.62550 2.08666 2.89423 3.44456 5.53842 4.14848 376 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27470 4.21584 1.48969 0.61958 0.77255 0.52619 0.89368\n- 365 2.65234 4.95489 2.08258 2.10617 4.25999 3.30509 3.64908 3.68332 2.49578 3.27217 4.08597 2.82893 3.78796 2.79783 2.98879 2.20634 2.90928 2.83245 5.49008 4.11071 377 d - - -\n- 2.68493 4.42274 2.77540 2.73125 3.46403 2.40484 3.72544 3.29379 2.67777 2.69388 4.24739 2.90367 2.73736 3.18140 2.89801 2.37919 2.77527 2.98413 4.58526 3.61527\n- 0.46752 0.98499 * 2.04998 0.13781 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Sbash_gp31.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp30_gp31__Sbash_gp31.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,572 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Butters_gp30_gp31__Sbash_gp31\n-LENG 183\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:46 2023\n-NSEQ 11\n-EFFN 1.302490\n-CKSUM 720277915\n-GA 20 20;\n-STATS LOCAL MSV -10.4078 0.70649\n-STATS LOCAL VITERBI -11.0238 0.70649\n-STATS LOCAL FORWARD -4.7685 0.70649\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.22718 4.32523 3.21967 3.05246 3.38158 2.91794 3.92739 2.67318 2.91261 2.20125 3.38964 3.40306 3.35740 3.18473 2.84913 2.70357 2.78116 2.40021 4.87722 3.83462\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05717 4.34245 3.15679 0.61958 0.77255 0.00000 *\n- 1 3.37700 4.86723 4.55519 4.20426 3.48504 4.18363 4.83928 2.70889 3.94435 2.03133 0.73645 4.42146 4.66487 4.30654 4.09391 3.76093 3.70068 2.76201 5.36951 4.16204 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15131 4.30553 2.06415 0.61958 0.77255 0.53737 0.87776\n- 2 2.42142 4.35819 3.03345 2.90159 3.50681 3.59252 3.85460 2.45975 2.85920 2.33210 2.91725 3.31791 3.97506 3.16815 3.22304 2.83894 2.14377 2.53960 4.96233 3.72338 2 t - - -\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40501 3.72499 3.29358 2.67745 2.69359 4.24694 2.90324 2.73744 3.18150 2.89805 2.37875 2.77524 2.98523 4.58481 3.61507\n- 0.27790 2.35304 1.91360 0.87916 0.53637 0.56818 0.83599\n- 3 2.94225 5.12842 3.32109 2.70111 4.56202 3.61425 3.63818 3.93231 1.53810 3.40316 4.24251 3.14245 3.99673 2.76897 1.60772 2.54527 3.13480 3.59077 5.48358 4.26430 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02502 4.09645 4.81879 0.61958 0.77255 0.76234 0.62844\n- 4 2.33816 4.47205 4.09824 3.67222 3.38371 3.84064 4.45052 2.38589 3.51183 1.06557 3.29026 3.92592 4.32105 3.84503 3.73577 3.24653 3.20648 2.32614 5.19780 3.99047 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02502 4.09645 4.81879 0.61958 0.77255 0.76234 0.62844\n- 5 2.34063 4.86484 3.04593 2.52444 4.21955 3.43800 3.66243 3.62360 2.06754 3.19717 4.01875 3.01449 2.30188 2.80980 2.34817 2.71168 2.92367 3.28199 5.39609 4.09396 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02502 4.09645 4.81879 0.61958 0.77255 0.76234 0.62844\n- 6 2.72892 4.77789 3.24300 2.64595 4.03389 3.53716 3.66956 3.39736 2.04746 2.45873 3.87104 3.11007 3.91997 2.84152 2.04598 2.79550 2.36466 3.11284 5.26013 3.99786 9 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02502 4.09645 4.81879 0.61958 0.77255 0.76234 0.62844\n- 7 2.59456 4.37622 3.38634 2.81967 3.51249 2.94372 3.77626 2.89828 2.71605 2.09275 3.4832'..b'.68601 4.42228 2.77522 2.73126 3.46356 2.40515 3.72497 3.29318 2.67743 2.69357 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61506\n- 0.30776 1.65944 2.59480 0.26863 1.44573 0.33063 1.26751\n- 176 2.65245 4.65867 3.19882 2.63491 3.86161 3.52370 3.73772 2.89230 2.32651 2.90035 3.75152 3.11924 2.79816 2.93733 2.43991 2.54250 2.88406 2.34149 5.19749 3.91079 189 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02054 4.29157 5.01391 0.61958 0.77255 0.55573 0.85250\n- 177 2.59014 4.40015 3.48643 2.94439 3.67625 3.49615 3.92290 2.99462 2.89445 2.72690 2.86664 3.33309 1.97855 3.21514 3.25862 2.52880 2.49751 2.46891 5.10372 3.86220 190 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02054 4.29157 5.01391 0.61958 0.77255 0.44437 1.02507\n- 178 2.43758 5.14355 3.19053 2.59438 4.50134 3.58961 3.68671 3.91156 1.86105 3.41311 4.21472 3.09000 3.97054 2.55439 1.69242 2.83595 2.63004 3.54781 5.54291 4.24479 191 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08846 4.34244 2.63585 0.61958 0.77255 0.48576 0.95510\n- 179 2.65198 4.55612 2.82452 2.73536 3.76750 3.51303 3.83558 3.10180 2.75360 1.74552 3.69319 3.19510 3.03909 3.07871 3.15910 2.79030 2.41301 2.84938 5.16804 3.89649 192 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02089 4.27487 4.99722 0.61958 0.77255 0.57694 0.82465\n- 180 2.80630 4.76217 3.41469 2.79926 3.98758 3.64296 3.76928 2.75256 2.18657 2.95539 3.84889 3.24333 4.01862 2.96195 1.55325 2.90731 3.02192 2.61292 5.26521 4.01953 193 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02089 4.27487 4.99722 0.61958 0.77255 0.57694 0.82465\n- 181 2.15861 4.86296 3.04934 2.49574 4.13579 3.46743 3.67709 3.55062 2.43433 3.14421 3.95548 2.71943 3.86649 2.53261 2.22924 2.68538 2.63059 2.82071 5.37396 4.04390 194 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02089 4.27487 4.99722 0.61958 0.77255 0.57694 0.82465\n- 182 1.98125 4.55474 3.25568 2.70008 3.76589 3.51096 3.77707 2.73103 2.66439 2.81784 3.68008 2.77340 3.91551 3.00483 2.69573 2.41399 2.86438 2.55809 5.13896 3.86495 195 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11130 4.27487 2.39230 0.61958 0.77255 0.57694 0.82465\n- 183 2.68023 4.90751 2.95511 2.48543 4.26788 3.42137 3.69458 3.68946 2.16863 3.26047 4.07146 2.99243 3.86545 2.46670 2.81885 1.76273 2.53607 3.33218 5.46160 4.13220 196 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01543 4.17900 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp57r__gp57r.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Butters_gp57r__gp57r.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,605 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Butters_gp57r__gp57r\n-LENG 194\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:42 2023\n-NSEQ 21\n-EFFN 1.233032\n-CKSUM 665888832\n-GA 20 20;\n-STATS LOCAL MSV -10.2326 0.70572\n-STATS LOCAL VITERBI -11.0307 0.70572\n-STATS LOCAL FORWARD -5.4241 0.70572\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44325 4.34985 2.80553 2.66316 3.35217 3.17764 3.63212 2.81710 2.68472 2.44773 3.61914 3.17989 3.44022 3.00209 2.76969 2.68390 2.83584 2.62180 4.35137 3.61172\n- 2.68616 4.42236 2.77492 2.73134 3.46352 2.40524 3.72505 3.29354 2.67752 2.69359 4.24570 2.90358 2.73744 3.18157 2.89778 2.37892 2.77507 2.98521 4.58488 3.61514\n- 0.19984 2.26556 2.55919 1.40244 0.28236 0.00000 *\n- 1 2.46981 4.48663 4.12384 3.69885 3.50288 3.77881 4.47187 2.55709 3.51726 2.13678 1.17964 3.92080 4.30192 3.86424 3.73609 3.19016 3.20073 2.47799 5.26821 4.07283 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23594 4.95829 0.61958 0.77255 0.58119 0.81923\n- 2 2.08808 4.27558 3.67780 3.35947 4.34395 3.10032 4.37012 3.64894 3.35677 3.41990 4.27352 3.48261 3.84305 3.65942 3.64845 2.20225 1.04078 3.16849 5.71776 4.51606 10 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07670 4.23594 2.82408 0.61958 0.77255 0.58119 0.81923\n- 3 2.66146 4.24445 3.95560 3.41992 3.49800 3.68492 4.18432 1.63218 3.32704 2.44932 3.44603 3.68898 4.13718 3.61160 3.59245 2.65601 2.12206 2.03818 5.04856 3.83828 11 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02294 4.18218 4.90453 0.61958 0.77255 0.53589 0.87984\n- 4 2.65062 4.95336 2.36643 2.40181 3.61308 3.42255 3.03833 3.67146 2.44708 3.23862 4.03336 2.93508 2.61225 2.79048 2.92555 2.23985 2.88830 3.31372 5.43688 4.06687 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23594 4.95829 0.61958 0.77255 0.58119 0.81923\n- 5 2.61202 4.38391 3.12901 2.84690 3.52786 3.57054 3.32044 2.63911 2.80792 2.20639 3.27621 3.27371 3.95158 3.11914 3.18120 2.33426 2.57647 2.55983 4.95819 3.24433 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23594 4.95829 0.61958 0.77255 0.58119 0.81923\n- 6 2.50841 4.97070 2.37254 2.23502 4.29867 2.09250 3.69997 3.73212 2.51455 3.30609 4.10463 2.93273 3.84867 2.83905 2.99978 2.67665 2.65125 3.00115 5.51668 4.14772 14 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12184 4.23594 2.30012 0.61958 0.77255 0.58119 0.81923\n- 7 2.15697 4.64123 2.65507 2.55908 3.97801 2.64668 3.73541 2.95048 2.58528 3.01305 3.84960 3.0418'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02017 4.30941 5.03176 0.61958 0.77255 0.48576 0.95510\n- 187 3.46102 4.76656 4.72220 4.30479 1.29825 4.36667 2.39128 3.28903 4.14983 2.06788 3.90333 4.14606 4.68739 4.16685 4.20141 3.69563 3.68167 3.13859 2.96965 1.82882 202 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02017 4.30941 5.03176 0.61958 0.77255 0.48576 0.95510\n- 188 2.35024 4.90170 3.31379 2.71977 4.17535 3.61139 3.74240 3.55088 2.31571 2.59291 4.00002 3.18283 4.00008 2.62841 1.54613 2.87923 3.04302 3.25923 5.37474 4.11093 203 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02017 4.30941 5.03176 0.61958 0.77255 0.48576 0.95510\n- 189 2.47560 4.82023 2.84381 2.49636 3.49407 3.47651 3.68220 3.46604 2.48780 2.82079 3.89313 3.01323 2.71332 2.63396 2.60863 2.39687 2.87257 3.14899 5.32685 3.49614 204 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02017 4.30941 5.03176 0.61958 0.77255 0.48576 0.95510\n- 190 2.41265 4.48077 3.34952 2.78927 3.65560 2.88802 3.81310 3.02224 2.57559 2.47965 3.59258 3.23558 3.62320 3.07744 2.98399 2.79551 2.45789 2.08132 5.05996 3.80291 205 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12122 4.30941 2.29545 0.61958 0.77255 0.48576 0.95510\n- 191 2.52387 5.01957 2.69999 2.10147 4.32809 2.88906 3.62268 3.78306 2.39121 3.31733 4.08927 2.57970 3.39622 2.74023 2.87754 2.39217 2.64451 3.03874 5.49588 4.11292 206 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02229 4.21049 4.93284 0.61958 0.77255 0.61075 0.78295\n- 192 2.83448 5.35328 1.77237 1.79505 4.66754 2.40898 3.73077 4.16052 2.59014 3.65169 4.43901 2.82381 3.87550 2.86233 2.75958 2.76407 3.08996 3.73475 5.80327 4.35703 207 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19479 4.21049 1.81919 0.61958 0.77255 0.61075 0.78295\n- 193 2.43408 5.08187 2.43282 2.17209 4.38872 3.33751 3.61297 3.85317 2.41088 3.37627 4.15480 2.64862 2.92914 2.29425 2.90817 2.49122 2.90051 3.45624 5.54816 4.14718 208 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02643 4.04213 4.76447 0.61958 0.77255 0.77209 0.61998\n- 194 2.43023 5.02950 2.44964 2.13122 4.34435 2.46587 3.62485 3.79640 2.41297 3.33554 4.12443 2.84449 3.79571 2.75463 2.42669 2.63659 2.90218 3.41255 5.51844 4.13397 209 e - - -\n- 2.68637 4.42190 2.77475 2.73127 3.46387 2.40513 3.72486 3.29387 2.67774 2.69366 4.24665 2.90380 2.73702 3.18120 2.89801 2.37867 2.77516 2.98502 4.58510 3.61536\n- 0.43809 1.03640 * 1.67111 0.20830 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__CARD_Protease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__CARD_Protease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1937 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME CARD_NLR__CARD_Protease\n-LENG 638\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jul 10 10:18:01 2023\n-NSEQ 29\n-EFFN 3.550659\n-GA 300 300;\n-CKSUM 2478689473\n-STATS LOCAL MSV -12.1906 0.69697\n-STATS LOCAL VITERBI -13.1326 0.69697\n-STATS LOCAL FORWARD -6.0894 0.69697\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37229 4.37238 2.92415 2.70249 3.38974 2.82315 3.59973 2.95715 2.79260 2.40076 3.70590 3.14082 3.21230 3.01233 2.81083 2.70587 2.81476 2.65935 4.36669 3.80853\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08242 5.06110 2.62037 0.61958 0.77255 0.00000 *\n- 1 4.12746 5.36969 5.96317 5.40391 3.61877 5.46286 5.80029 2.72649 5.22053 1.53815 0.64535 5.61294 5.54136 5.17858 5.21629 4.86551 4.34582 2.55115 5.84492 4.85761 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.45240 4.98886 1.02978 0.61958 0.77255 0.67549 0.71112\n- 2 2.19023 4.99965 2.66331 2.51264 3.48829 3.52521 3.73270 3.70133 1.90709 3.27740 4.07182 3.04090 3.92113 2.86584 2.98449 2.11047 2.95031 2.99565 5.49282 4.13774 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01579 4.55225 5.27459 0.61958 0.77255 1.14265 0.38415\n- 3 2.26740 4.75439 2.34268 2.69571 3.94907 3.60303 3.82365 3.34055 2.68247 2.13416 3.84046 2.71743 3.23786 3.02065 3.11999 2.81966 2.96201 2.77337 3.82474 3.99510 3 l - - -\n- 2.68263 4.42346 2.77426 2.73155 3.46384 2.40487 3.72616 3.29314 2.67816 2.69434 4.24811 2.90444 2.73670 3.18128 2.89898 2.37976 2.77588 2.98380 4.58467 3.61624\n- 0.58735 0.82255 5.32071 2.22738 0.11408 0.49083 0.94705\n- 4 2.84048 5.15793 3.17537 2.36414 3.49958 3.64746 3.84375 3.86954 2.23951 3.43194 3.54057 2.64286 2.73055 2.97027 2.72983 2.84434 1.90349 3.50948 5.63587 3.21640 27 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01107 4.90477 5.62712 0.61958 0.77255 0.58316 0.81675\n- 5 1.79449 5.27561 2.23546 2.33264 4.57888 3.65905 3.85365 3.34024 2.60853 2.83487 4.32821 3.14491 2.85925 2.65039 3.09355 2.49012 3.10255 3.64366 5.73461 4.35003 28 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97446 5.69681 0.61958 0.77255 0.70793 0.67858\n- 6 1.94391 5.36801 2.78951 2.12766 4.70811 2.42822 3.83465 4.19023 2.57367 3.67204 4.41209 2.82279 3.34576 2.93343 2.63428 2.37752 2.62105 3.75643 5.80567 4.39767 29 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97446 5.69681 0.61958 0.77255 0.70793 0.67858\n- 7 1.90719 5.06019 2.32682 2.22800 4.29501 3.70731 3.91577 2.42384 2.72211 2.61839 4.13362 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01323 4.72781 5.45016 0.61958 0.77255 0.96083 0.48220\n- 631 2.36800 4.28713 3.38933 3.64627 2.47721 3.89908 4.19865 1.90922 2.93255 1.74725 3.39921 3.86691 4.26874 3.75667 3.72229 3.18313 3.03391 2.53626 4.89600 3.08516 929 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01268 4.76992 5.49227 0.61958 0.77255 1.04950 0.43096\n- 632 2.52448 4.81613 2.82242 2.75941 4.00831 3.66746 2.39327 3.40109 2.34032 3.05392 2.76372 3.25235 4.05455 3.08201 3.17821 2.88278 3.02412 2.52595 5.35036 2.51024 930 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01268 4.76992 5.49227 0.61958 0.77255 1.04950 0.43096\n- 633 2.78692 3.40207 2.50524 2.12241 4.62082 2.99328 3.75068 4.10226 2.31133 3.58472 3.57721 2.76346 3.23742 2.27113 2.79527 2.39534 3.01810 3.66938 5.71874 4.31169 931 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01268 4.76992 5.49227 0.61958 0.77255 1.04950 0.43096\n- 634 2.56946 5.07371 3.14150 2.38664 4.33679 3.12852 3.80056 3.12936 1.99964 2.71922 2.94661 3.11302 3.99342 2.62212 2.66401 2.41763 2.82439 3.41950 5.55865 4.20400 932 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06724 4.76992 2.87273 0.61958 0.77255 1.04950 0.43096\n- 635 1.82081 4.74473 2.82503 2.78100 3.16927 3.66016 3.88349 3.31368 2.76293 2.97832 3.83326 2.88524 4.04660 2.76677 3.19088 2.44705 3.00257 2.42075 3.60648 4.00400 933 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01339 4.71607 5.43842 0.61958 0.77255 1.11419 0.39776\n- 636 2.51948 5.03293 3.17510 2.64198 4.42918 1.90644 3.85940 3.86655 2.62876 3.43382 4.22315 3.15168 3.99990 2.68899 2.65566 2.27187 2.05594 3.48554 5.63627 4.28697 934 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01339 4.71607 5.43842 0.61958 0.77255 1.11419 0.39776\n- 637 2.77652 5.21519 3.04710 2.04938 4.53338 3.55780 2.95010 3.99897 2.48942 3.03035 4.26431 2.67514 3.95170 2.85449 2.46946 2.05329 2.33154 3.59162 5.66373 4.27229 935 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14533 4.71607 2.06901 0.61958 0.77255 0.79637 0.59959\n- 638 2.51316 2.79536 3.42688 2.86439 3.81989 3.03628 3.91667 3.19608 2.41160 2.87933 3.74809 3.32656 3.28154 2.80851 3.24417 2.90970 2.07511 2.66774 3.62489 3.94602 936 t - - -\n- 2.68563 4.42326 2.77525 2.73143 3.46149 2.40529 3.72595 3.29382 2.67782 2.69181 4.24499 2.90371 2.73840 3.18159 2.89719 2.37896 2.77594 2.98534 4.58577 3.61604\n- 0.98248 0.46902 * 1.62748 0.21868 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__CARD_Protease_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__CARD_Protease_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1892 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__CARD_Protease_new\n-LENG 623\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:49:42 2023\n-NSEQ 43\n-EFFN 5.162415\n-GA 100 100;\n-CKSUM 3355259052\n-STATS LOCAL MSV -11.8607 0.69706\n-STATS LOCAL VITERBI -13.2406 0.69706\n-STATS LOCAL FORWARD -6.1850 0.69706\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36344 4.50181 2.85478 2.66420 3.39678 2.79510 3.61885 2.98263 2.82303 2.39861 3.77062 3.20237 3.19953 3.01899 2.73171 2.69106 2.86660 2.67340 4.45956 3.83831\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00691 5.37408 6.09643 0.61958 0.77255 0.00000 *\n- 1 5.02854 6.37283 6.15181 6.05406 5.05132 5.37628 6.50048 4.48935 5.85305 3.61045 0.10428 6.14375 5.97585 6.16479 5.83627 5.40538 5.44183 4.62980 6.80456 5.73475 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16923 5.37408 1.89016 0.61958 0.77255 0.48576 0.95510\n- 2 2.28601 5.38984 2.90487 2.50922 4.69822 3.76076 3.95227 3.47750 2.49130 3.67941 4.44058 3.24420 1.84024 3.06197 2.58836 2.54034 2.33177 3.09634 5.84538 4.45789 2 p - - -\n- 2.68553 4.42353 2.77334 2.73130 3.46447 2.40531 3.72508 3.29432 2.67845 2.69441 4.24818 2.90340 2.73598 3.18181 2.89879 2.37932 2.77464 2.98471 4.57811 3.61632\n- 1.49760 0.62552 1.42150 1.52639 0.24503 0.81409 0.58526\n- 3 2.18147 4.94137 3.36676 2.62721 4.14509 3.73796 3.95174 3.54213 2.62256 2.19790 3.36884 3.04124 2.42050 2.58991 3.23825 2.74678 2.82960 3.25364 3.24307 4.16440 20 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15199 4.97648 2.00912 0.61958 0.77255 1.33794 0.30433\n- 4 2.82037 5.00987 2.13921 2.66705 4.24995 3.64831 3.86142 3.14411 2.66712 2.34337 4.08717 2.87493 3.30029 3.01451 3.13003 2.55330 1.95600 3.34301 5.52007 4.18698 21 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83635 5.55870 0.61958 0.77255 1.48082 0.25806\n- 5 2.49014 5.25759 2.34390 2.06902 3.55032 3.59554 3.78562 4.04437 2.53140 3.55163 4.30524 3.07383 3.29651 2.44362 2.51292 2.78668 2.61435 3.14293 5.70627 3.24222 22 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83635 5.55870 0.61958 0.77255 0.58959 0.80869\n- 6 2.44972 4.69898 2.89391 2.90655 2.85233 3.30635 4.19147 2.67510 3.21311 2.24167 3.80148 3.66790 3.07896 2.75853 3.57221 2.71501 3.19742 1.96079 3.96680 4.04247 23 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00865 5.15085 5.87319 0.61958 0.77255 0.49893 0.93440\n- 7 3.00839 5.52150 2.58500 2.00449 4.86746 3.29821 3.96830 4.35416 2.14651 3.82712 4.56'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00735 5.31260 6.03495 0.61958 0.77255 0.70443 0.68199\n- 616 2.23181 5.49342 2.76882 2.06402 3.79166 3.79734 3.38017 4.29975 2.21572 3.02865 3.53511 3.27058 4.19046 2.51751 2.28095 2.98718 2.67579 3.28299 5.93493 3.71951 1004 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00735 5.31260 6.03495 0.61958 0.77255 0.70443 0.68199\n- 617 2.36754 5.51675 2.67117 2.34735 4.85707 2.56579 3.98047 4.33970 2.39378 3.40806 4.55867 3.26220 2.05667 2.41256 2.91990 2.56392 3.24857 3.44981 3.99847 4.54422 1005 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00735 5.31260 6.03495 0.61958 0.77255 0.70443 0.68199\n- 618 1.89563 4.71723 4.03407 3.46365 3.84514 4.05974 3.19176 2.52907 2.98960 1.64623 3.82344 3.83990 4.43708 3.22168 2.94313 2.47220 3.28666 2.71799 3.30070 4.08302 1006 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06498 5.31260 2.84754 0.61958 0.77255 0.70443 0.68199\n- 619 2.79167 3.75816 4.37086 3.26643 2.60965 4.11342 4.40686 3.00121 2.93267 1.53783 2.90057 4.04454 3.51411 3.41000 2.73651 3.39139 2.81585 2.22086 5.15338 3.30484 1007 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00778 5.25540 5.97775 0.61958 0.77255 0.86331 0.54777\n- 620 2.73877 5.50003 2.82523 2.21657 4.84493 2.43528 3.95056 4.33079 2.10968 3.80524 4.54076 2.86927 2.30355 2.76687 2.85556 2.44849 2.83275 3.09825 5.93281 4.52192 1008 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05380 5.25540 3.05430 0.61958 0.77255 0.68976 0.69655\n- 621 2.10152 5.37939 3.28499 2.45694 4.67845 3.36664 3.02907 4.13318 2.27428 2.69545 3.01742 3.26779 3.60124 3.08595 2.68781 2.22505 2.38950 3.53470 5.84064 4.45934 1009 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14943 5.24273 2.01351 0.61958 0.77255 0.89425 0.52579\n- 622 2.36168 5.37695 3.19294 2.30188 4.69984 2.39864 3.29787 4.16998 2.63595 3.67248 4.42370 3.18093 4.09713 2.06155 2.17611 2.44962 3.15307 3.23934 3.93790 4.42650 1010 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18002 5.10237 1.84095 0.61958 0.77255 0.72429 0.66294\n- 623 2.11849 5.28517 2.61608 2.40998 4.58048 1.74352 3.89372 4.03228 2.65274 3.13046 3.17500 3.18895 3.15983 3.00972 2.82901 2.89431 3.13681 3.64905 5.75028 4.37193 1011 g - - -\n- 2.68472 4.42308 2.77603 2.73121 3.46437 2.40418 3.72578 3.29401 2.67824 2.69372 4.24773 2.90410 2.73697 3.18152 2.89763 2.37856 2.77508 2.98509 4.58560 3.61586\n- 1.38076 0.28954 * 0.93626 0.49773 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__CARD_Protease_supposed.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__CARD_Protease_supposed.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1919 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__CARD_Protease_supposed\n-LENG 632\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 10:02:07 2023\n-NSEQ 45\n-EFFN 4.990540\n-GA 100 100;\n-CKSUM 2717961117\n-STATS LOCAL MSV -11.9614 0.69701\n-STATS LOCAL VITERBI -13.2457 0.69701\n-STATS LOCAL FORWARD -6.0670 0.69701\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39004 4.48347 2.87119 2.68826 3.40188 2.80696 3.63043 2.98460 2.80134 2.40814 3.78733 3.14202 3.12977 3.04794 2.78357 2.65768 2.84351 2.66430 4.45381 3.79393\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00711 5.34501 6.06735 0.61958 0.77255 0.00000 *\n- 1 4.97607 6.32606 6.10730 6.00331 4.99539 5.34010 6.45218 4.42543 5.79627 3.55112 0.11060 6.09387 5.93701 6.10984 5.78416 5.35432 5.38712 4.56479 6.75884 5.68232 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.46529 5.34501 1.00165 0.61958 0.77255 0.48576 0.95510\n- 2 2.23017 5.16752 2.68496 2.62649 4.48196 3.63584 3.85896 3.92365 2.62558 3.47899 4.26049 3.15612 1.92440 2.98300 2.25733 2.84410 2.44921 3.09918 5.67403 4.30806 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.89095 3.96448 0.61958 0.77255 1.38310 0.28875\n- 3 2.30520 5.31443 2.42108 2.23768 4.64770 3.60558 3.79675 4.12571 2.53756 3.61474 4.35874 2.64122 3.19663 2.89737 2.49416 2.79858 1.94809 3.69882 5.75426 3.71279 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08445 4.87550 2.61250 0.61958 0.77255 1.19857 0.35900\n- 4 2.49117 4.45424 3.90305 3.33050 3.57710 3.07974 4.13254 2.04488 3.26222 2.21497 3.56350 3.67931 4.23691 2.54127 3.18222 2.61759 3.06771 1.91756 5.05047 3.83473 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09363 4.86052 2.50549 0.61958 0.77255 1.26503 0.33161\n- 5 2.04990 5.12134 2.72266 2.31953 4.39356 3.01643 3.81409 3.83072 2.28966 2.67475 4.18295 3.12039 4.00790 2.94167 3.06352 2.45271 2.81802 2.46511 5.60138 4.23960 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01203 4.82207 5.54442 0.61958 0.77255 0.96650 0.47870\n- 6 2.56061 5.25058 2.60128 2.61195 4.54704 3.45580 3.85402 2.80818 2.61139 3.53510 4.30488 3.15047 3.07523 1.99619 2.66504 2.51893 2.40748 3.02172 5.71413 4.33487 6 q - - -\n- 2.68537 4.42437 2.77393 2.73230 3.46501 2.40591 3.72624 3.29326 2.67784 2.69096 4.24902 2.90460 2.73576 3.18176 2.89774 2.38025 2.77627 2.98431 4.57529 3.61532\n- 1.37287 0.39511 2.61705 2.03011 0.14078 0.74911 0.64015\n- 7 1.74787 4.91938 3.17237 2.89435 3.19526 3.79300 2.74443 3.49884 2.87790 2.47791 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01203 4.82244 5.54479 0.61958 0.77255 1.13414 0.38816\n- 625 3.07878 5.42654 3.32164 2.26006 4.79217 3.79069 1.98178 4.21846 2.43955 3.69647 4.49161 3.27766 4.18290 3.01755 1.38188 3.05437 2.70847 3.83850 5.80454 4.49296 1074 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09745 4.82244 2.46742 0.61958 0.77255 1.13414 0.38816\n- 626 1.96576 4.50786 4.93417 4.34440 1.81508 4.33382 4.65272 2.04170 4.17960 1.41832 3.30444 4.43729 4.64826 4.30498 4.24327 3.65315 3.37228 2.47450 5.10230 3.93490 1075 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01309 4.73809 5.46043 0.61958 0.77255 1.22933 0.34600\n- 627 2.83430 5.29835 2.99178 1.71438 4.62587 3.57359 2.40050 4.09906 2.53675 3.59612 4.35217 3.04870 3.98690 2.44717 3.02123 2.07030 2.62259 3.68169 5.74228 4.34152 1076 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01309 4.73809 5.46043 0.61958 0.77255 1.22933 0.34600\n- 628 2.09892 5.42505 2.29913 1.56494 4.75682 3.57252 3.84262 4.24667 2.63143 3.72722 4.48239 3.03774 4.02169 2.34156 3.14151 2.31434 3.14860 3.81113 5.86469 4.43756 1077 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01309 4.73809 5.46043 0.61958 0.77255 1.22933 0.34600\n- 629 1.97518 4.58257 3.60233 3.04321 3.75694 2.98346 4.01607 3.09384 2.20865 1.73159 3.70547 3.46385 4.13707 3.31025 3.34047 2.99082 3.03919 2.46590 5.18271 3.93948 1078 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01309 4.73809 5.46043 0.61958 0.77255 1.22933 0.34600\n- 630 3.30889 4.63745 5.15735 4.58429 2.08015 4.49093 4.59890 1.55119 4.39708 1.28265 3.32290 4.58696 4.77655 4.45042 4.40040 3.81842 3.53291 2.67451 4.90339 2.47869 1079 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01309 4.73809 5.46043 0.61958 0.77255 1.22933 0.34600\n- 631 2.79267 5.11904 2.60802 2.56238 4.39708 3.59306 3.78345 3.83858 2.53646 2.64854 4.17890 3.09378 3.98448 2.41386 1.81622 2.35432 3.02277 3.47501 3.59669 4.22618 1080 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11031 4.73809 2.34666 0.61958 0.77255 1.02912 0.44211\n- 632 2.05076 5.19226 3.00570 2.15155 4.52162 2.51877 3.72254 3.98638 2.19026 3.49236 4.25059 3.00904 3.92603 2.83036 2.39902 2.36025 2.98922 3.57731 5.64444 4.25564 1081 a - - -\n- 2.68607 4.42317 2.77578 2.73137 3.46446 2.40370 3.72357 3.29360 2.67833 2.69365 4.24782 2.90439 2.73831 3.18060 2.89619 2.37888 2.77512 2.98505 4.58569 3.61595\n- 1.01596 0.44950 * 1.61629 0.22144 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Endonuclease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Endonuclease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1925 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME CARD_NLR__Endonuclease\n-LENG 634\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jul 10 14:03:55 2023\n-NSEQ 100\n-EFFN 2.188110\n-GA 500 500;\n-CKSUM 2627916253\n-STATS LOCAL MSV -12.4267 0.69699\n-STATS LOCAL VITERBI -13.1862 0.69699\n-STATS LOCAL FORWARD -5.5154 0.69699\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47726 4.39968 2.83860 2.74494 3.21006 2.82776 3.74369 2.89175 2.78307 2.48201 3.71095 3.06856 3.33118 3.10673 2.82391 2.65258 2.82833 2.65745 4.34412 3.39881\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04674 3.48230 4.20465 0.61958 0.77255 0.00000 *\n- 1 2.65872 4.30825 3.55799 3.19559 3.12297 3.43167 4.02085 2.29776 2.96011 1.89331 2.54501 3.49575 3.95906 3.41296 3.19508 2.93497 2.99392 2.22793 4.85338 3.52891 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04674 3.48230 4.20465 0.61958 0.77255 0.48576 0.95510\n- 2 2.19279 4.08573 2.98020 2.79208 3.72012 2.86683 3.88624 2.96781 2.77156 2.82528 3.85148 3.05269 3.57535 3.19476 3.04130 2.18746 2.41692 2.64197 5.18198 3.85687 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08688 3.48230 2.94742 0.61958 0.77255 0.48576 0.95510\n- 3 2.27039 4.09336 2.91958 2.77582 3.47057 2.84181 3.81922 2.96325 2.77249 2.74848 3.84833 3.05426 3.53946 3.20473 3.01699 2.15076 2.71702 2.66910 4.91077 3.57287 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04861 3.44403 4.16638 0.61958 0.77255 0.50871 0.91947\n- 4 2.34073 3.98172 2.87331 2.76647 3.58808 2.02379 3.78564 3.14468 2.82428 2.86026 3.95928 3.06746 3.35027 3.23115 3.01980 2.52553 2.78407 2.82490 4.73076 3.70669 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04861 3.44403 4.16638 0.61958 0.77255 0.50871 0.91947\n- 5 2.38761 4.19510 2.75475 2.62535 3.45290 2.86758 3.71889 3.10984 2.65390 2.86017 3.92973 2.46272 3.53581 3.10085 2.91120 2.53302 2.80223 2.80965 4.82761 3.49611 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04861 3.44403 4.16638 0.61958 0.77255 0.50871 0.91947\n- 6 2.27039 4.09336 2.91958 2.77582 3.47057 2.84181 3.81922 2.96325 2.77249 2.74848 3.84833 3.05426 3.53946 3.20473 3.01699 2.15076 2.71702 2.66910 4.91077 3.57287 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04861 3.44403 4.16638 0.61958 0.77255 0.50871 0.91947\n- 7 2.27039 4.09336 2.91958 2.77582 3.47057 2.84181 3.81922 2.96325 2.77249 2.74848 3.84833 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 627 2.70607 5.24484 2.43439 2.19904 4.34154 3.36608 3.22744 3.86065 2.38530 3.54513 4.28859 2.83144 3.93129 2.73893 1.77841 2.72847 2.93749 3.24919 5.68365 4.27988 796 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 628 2.61628 5.14501 2.64601 2.47032 4.45319 2.34860 3.76010 3.90639 2.52168 3.44235 4.21314 2.72489 3.95222 2.87643 2.89096 2.04680 2.45579 2.84050 5.62178 4.24238 797 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 629 2.49058 4.28601 4.36502 3.78005 2.68254 3.94216 4.22360 2.69067 3.64344 1.44722 3.34989 3.95150 2.21769 3.84691 3.79570 3.23645 3.06554 2.52274 3.33317 3.59923 798 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 630 2.29691 5.28427 2.61672 1.89305 4.62530 2.74492 3.73463 4.11039 2.39268 3.58780 4.32720 2.76849 3.93725 2.41112 2.76518 2.32590 3.00939 3.67297 5.71840 4.30651 799 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 631 2.65193 5.31021 1.43931 2.39664 4.63808 3.44160 3.77384 4.11777 2.47841 3.60788 4.00571 2.81881 3.96741 2.40715 2.92701 2.57785 3.05766 3.69247 5.75021 4.33948 800 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 632 3.58382 4.79148 5.63174 5.14627 4.02739 5.15991 5.81826 0.79338 5.07113 2.44491 3.21358 5.30625 5.37111 5.28094 5.21163 4.57917 3.83843 1.26877 6.12144 4.94201 801 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 633 3.20829 5.11150 3.90580 3.19635 4.30379 3.99090 3.99074 3.62860 2.32227 2.46193 3.32458 3.58556 4.34126 3.17574 0.93324 3.30593 3.39518 3.41336 5.52046 4.32383 802 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01375 4.68907 5.41142 0.61958 0.77255 0.48576 0.95510\n- 634 3.52542 4.75400 5.54096 5.03197 3.92143 5.03414 5.60775 1.57783 4.93636 1.61751 3.69307 5.17418 5.26153 5.11875 5.05185 4.43032 3.58130 0.89017 5.94119 4.77761 803 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00928 4.68460 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Endonuclease_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Endonuclease_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,968 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__Endonuclease_new\n-LENG 315\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:49:43 2023\n-NSEQ 7\n-EFFN 0.803223\n-GA 150 150;\n-CKSUM 3549392176\n-STATS LOCAL MSV -11.3313 0.70089\n-STATS LOCAL VITERBI -11.9878 0.70089\n-STATS LOCAL FORWARD -5.5770 0.70089\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52221 4.55035 2.79156 2.62078 3.22729 2.87280 3.68434 2.93529 2.70884 2.55064 3.69770 3.03821 3.35961 3.03504 2.79838 2.67675 2.85438 2.67007 4.33748 3.47776\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.00000 *\n- 1 3.14165 4.66070 4.27477 3.88834 3.31367 3.98979 4.57639 2.51041 3.64389 1.88157 1.03464 4.13921 4.45556 4.01463 3.82430 3.50989 3.45310 2.53928 5.17894 3.95655 1 m - - -\n- 2.68649 4.42256 2.77551 2.73133 3.46251 2.40497 3.72467 3.29308 2.67772 2.69344 4.24721 2.90378 2.73771 3.18177 2.89832 2.37871 2.77461 2.98463 4.58508 3.61534\n- 0.43608 1.27988 2.58545 1.76400 0.18797 0.48576 0.95510\n- 2 2.71815 5.15474 2.18927 2.24039 4.48023 3.31148 3.63929 3.95151 1.88968 3.46414 4.25521 2.39048 3.80054 2.77086 2.92741 2.39378 2.96876 3.54730 5.62437 4.21545 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02739 4.00697 4.72932 0.61958 0.77255 0.55823 0.84914\n- 3 2.37322 4.27018 4.23857 3.69751 2.14170 3.92862 4.26231 1.75070 3.58885 1.99302 3.18011 3.92299 4.29413 3.81332 3.78817 3.25040 3.06422 2.08532 4.86111 3.58762 15 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02739 4.00697 4.72932 0.61958 0.77255 0.55823 0.84914\n- 4 2.27287 5.05913 1.91972 2.24451 4.49433 2.55795 3.71828 3.96448 2.61913 3.50859 4.31670 2.27902 3.79602 2.86956 3.14285 2.67304 2.99291 3.54608 5.69479 4.27920 16 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02739 4.00697 4.72932 0.61958 0.77255 0.55823 0.84914\n- 5 2.67095 4.34981 3.58786 3.08845 3.41982 3.62216 3.98085 2.53889 2.97782 1.68974 3.41933 2.72309 4.04994 3.33272 3.28672 2.93447 2.93525 2.07481 4.98013 3.70888 17 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02739 4.00697 4.72932 0.61958 0.77255 0.55823 0.84914\n- 6 2.62657 4.92309 2.80034 2.08640 4.23545 3.35902 3.61525 3.66852 2.13466 3.23017 4.02988 2.88226 3.00475 2.75152 2.82525 2.40123 2.51523 3.30617 5.42963 4.07331 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02739 4.00697 4.72932 0.61958 0.77255 0.55823 0.84914\n- 7 2.07096 4.63710 3.12054 2.57658 3.75771 3.46128 2.94951 3.24580 2.44202 2.88245 3.73938'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.48576 0.95510\n- 308 2.67664 5.01923 2.50009 2.37358 4.33730 3.40108 3.61524 3.77670 2.31741 3.30944 4.10188 2.90269 3.82288 2.47831 1.99253 2.66343 2.51067 3.40266 5.47945 4.12315 340 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.48576 0.95510\n- 309 2.64475 5.07846 2.42284 2.30566 4.39887 2.86079 3.59197 3.86239 2.16639 3.37036 4.13785 2.85020 3.79047 2.39409 2.49816 2.41021 2.87877 3.45840 5.52510 4.13469 341 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.48576 0.95510\n- 310 2.24820 4.32543 3.57926 3.04073 3.50426 3.57761 3.96158 2.26606 2.96852 2.17029 3.44148 3.41476 2.41664 3.28970 3.30271 2.86779 2.88376 2.41871 5.01876 3.78849 342 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.48576 0.95510\n- 311 2.43802 5.01448 2.83615 1.99462 4.32817 3.39449 3.60903 3.77031 2.32653 3.30322 4.09088 2.89246 3.81318 2.39990 2.44039 2.31764 2.89455 3.39370 5.47587 4.11404 343 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.48576 0.95510\n- 312 2.73782 4.99384 1.67065 2.34227 2.97271 3.35719 3.70392 3.68447 2.61395 3.27711 4.12521 2.45472 3.85559 2.89242 3.10970 2.73227 2.99748 3.34863 5.38009 3.93377 344 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.48576 0.95510\n- 313 3.15938 4.47292 4.85901 4.29927 3.27410 4.47353 4.85234 1.40617 4.18228 1.52466 2.40601 4.51523 4.70679 4.32776 4.31443 3.81708 3.39170 1.73579 5.25143 4.14615 345 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07645 4.79880 0.61958 0.77255 0.48576 0.95510\n- 314 2.81596 4.73251 3.52127 2.93738 4.00793 3.56904 3.81724 3.26490 2.31959 2.94134 3.93189 3.31651 4.02253 3.01881 1.34901 2.93423 3.07868 2.43724 5.30012 4.05160 346 r - - -\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72433 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.12508 2.21334 4.79880 0.36071 1.19462 0.48576 0.95510\n- 315 2.76090 4.28538 3.98134 3.40633 3.35515 3.85195 4.14976 2.03418 3.24544 1.94934 3.27972 3.72179 4.20680 3.56819 2.78462 3.14004 2.99693 1.62307 4.97283 3.77069 348 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.06818 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__NLR_IMG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__NLR_IMG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3140 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME CARD_NLR__NLR_IMG\n-LENG 1039\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jul 10 10:30:08 2023\n-NSEQ 25\n-EFFN 3.396606\n-GA 100 100;\n-CKSUM 616133733\n-STATS LOCAL MSV -12.5939 0.69550\n-STATS LOCAL VITERBI -13.7745 0.69550\n-STATS LOCAL FORWARD -6.5556 0.69550\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37669 4.60848 2.89388 2.61994 3.47991 2.97092 3.72987 3.02233 2.79361 2.24720 3.68749 3.22296 3.27412 2.98282 2.66703 2.68318 2.87765 2.72844 4.48844 3.75667\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02535 5.74769 0.61958 0.77255 0.00000 *\n- 1 4.41524 5.81814 5.61140 5.43107 4.41766 4.94980 5.91833 3.76780 5.17370 2.94821 0.20861 5.54406 5.51260 5.50647 5.21285 4.80687 4.79888 3.88865 6.26687 5.13004 1 M - - -\n- 2.68644 4.42370 2.77560 2.73159 3.46446 2.40591 3.72640 3.29499 2.67650 2.69118 4.24526 2.90352 2.73829 3.18203 2.89765 2.37763 2.77452 2.98592 4.58622 3.61548\n- 1.38861 0.79496 1.20738 1.98588 0.14764 0.48576 0.95510\n- 2 1.97761 4.51845 3.58184 3.01469 3.66193 3.72320 3.16301 3.02416 2.96468 2.10908 3.07758 3.43541 4.10396 3.27978 2.44755 2.96407 2.47916 2.54484 5.09540 3.85459 17 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67467 5.39702 0.61958 0.77255 0.66849 0.71843\n- 3 2.20977 5.31979 2.68456 2.27467 4.65426 3.59149 3.79322 4.13374 2.17306 3.62108 4.36638 3.06274 3.99423 2.62893 3.03110 1.64135 2.72630 3.70536 5.75968 4.35280 18 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01197 4.82723 5.54957 0.61958 0.77255 0.90435 0.51887\n- 4 2.49389 5.39933 1.43595 2.52108 4.73486 3.60610 3.84265 4.21910 2.60551 3.70172 4.45240 2.67898 2.99378 2.57007 2.54671 2.85368 3.13432 3.78690 5.83824 4.42255 19 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01197 4.82723 5.54957 0.61958 0.77255 0.50941 0.91842\n- 5 2.55824 5.35496 2.28103 2.05361 4.69059 3.63350 3.82734 4.17085 2.56901 2.84257 4.39888 2.68746 4.03079 2.51436 3.06146 2.24197 2.22225 3.74067 5.79317 4.38635 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01063 4.94554 5.66788 0.61958 0.77255 0.37820 1.15547\n- 6 2.60647 5.35483 2.06945 2.20016 4.68156 3.66806 3.19213 3.03265 2.60078 3.65231 4.40050 2.34410 2.85798 2.96068 3.09054 2.62663 2.75364 3.07827 5.79868 4.39882 21 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02535 5.74769 0.61958 0.77255 0.48576 0.95510\n- 7 1.62197 4.47894 4.10097 2.99221 2.98946 3.96427 4.24615 1.89259 3.44414 2.39764 3.06326 3.058'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14699 4.97158 2.04202 0.61958 0.77255 0.62675 0.76427\n- 1032 1.90744 5.05618 3.19265 2.19837 4.31110 3.63625 3.84115 3.73472 2.62934 3.32453 3.07455 3.15992 3.31183 2.98239 2.66794 1.97757 3.04767 2.99279 5.55467 4.21025 1750 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83644 5.55879 0.61958 0.77255 0.88979 0.52889\n- 1033 2.26123 4.66659 3.52654 2.96412 3.82880 3.74888 2.69019 3.20079 2.93341 2.50831 3.76682 3.41464 3.70188 3.05300 3.32987 2.38128 2.27282 2.01275 5.23469 3.97635 1751 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06138 4.83644 2.96423 0.61958 0.77255 0.88979 0.52889\n- 1034 2.81609 4.21248 4.64061 4.03521 2.00082 3.97018 4.29333 2.16030 3.84989 2.21835 3.32615 4.08531 2.78617 4.00648 3.90695 2.84984 3.04830 1.80989 3.29552 3.64261 1752 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01246 4.78752 5.50987 0.61958 0.77255 0.96334 0.48065\n- 1035 2.28768 5.15169 2.60728 2.28249 4.43833 3.11111 3.21787 3.10398 2.55105 2.91869 3.35248 2.69202 2.75576 2.90756 3.03162 2.78844 2.73017 3.51053 5.62106 4.24839 1753 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05904 4.78752 3.01598 0.61958 0.77255 0.96334 0.48065\n- 1036 2.21365 5.20309 2.63572 2.50684 4.51604 2.83374 3.75911 3.97844 2.50919 3.49592 3.36259 3.04853 2.30427 2.54033 2.62316 2.51755 3.01164 3.57707 5.65925 4.27016 1754 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01305 4.74153 5.46387 0.61958 0.77255 1.02497 0.44442\n- 1037 2.78420 4.36960 3.08993 3.35108 2.97841 3.82619 2.96806 2.34998 2.89697 2.25645 3.47956 3.67586 4.20066 3.54423 3.55670 3.09081 2.11115 2.42175 3.35209 3.06269 1755 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01305 4.74153 5.46387 0.61958 0.77255 0.55078 0.85920\n- 1038 2.83588 5.29059 3.10715 2.29225 4.61291 2.99287 3.80804 3.48906 2.33317 3.58609 4.33731 2.68661 3.04328 2.58548 2.50128 2.51599 2.32483 3.23481 5.73710 3.08634 1756 e - - -\n- 2.68679 4.42124 2.77556 2.73024 3.46480 2.40489 3.72574 3.29523 2.67802 2.69346 4.24633 2.90321 2.73625 3.18264 2.89505 2.37886 2.77564 2.98688 4.57986 3.61592\n- 1.15998 0.47122 2.77633 1.94939 0.15357 0.77947 0.61369\n- 1039 2.58631 5.11273 3.17518 2.62544 4.43941 2.58920 3.85118 3.87940 2.40200 3.44180 4.22682 2.80376 2.30854 2.97901 3.09948 2.07414 2.46994 2.89956 5.64365 4.28318 1780 s - - -\n- 2.68522 4.42241 2.77535 2.73139 3.46327 2.40529 3.72510 3.29370 2.67757 2.69322 4.24706 2.90362 2.73755 3.18162 2.89777 2.37886 2.77535 2.98534 4.58493 3.61519\n- 0.62497 0.76632 * 0.07315 2.65158 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__NLR_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__NLR_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3008 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__NLR_new\n-LENG 995\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:49:45 2023\n-NSEQ 46\n-EFFN 5.988647\n-CKSUM 409203502\n-GA 100 100;\n-STATS LOCAL MSV -12.7881 0.69560\n-STATS LOCAL VITERBI -13.8099 0.69560\n-STATS LOCAL FORWARD -6.1100 0.69560\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.31430 4.72483 2.85217 2.60524 3.51692 2.89936 3.76290 3.09805 2.87008 2.24160 3.78087 3.28413 3.18928 3.04348 2.59534 2.66376 2.91181 2.76560 4.43526 3.81749\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00607 5.50314 6.22549 0.61958 0.77255 0.00000 *\n- 1 5.26319 6.58010 6.34742 6.27577 5.30472 5.53764 6.71322 4.77961 6.10368 3.88117 0.08024 6.36395 6.14797 6.40739 6.06618 5.63375 5.68577 4.92353 7.00795 5.97052 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 5.50314 3.66923 0.61958 0.77255 0.48576 0.95510\n- 2 2.25607 5.61473 2.59754 2.80299 4.95881 3.88170 4.07209 4.44303 1.87824 3.92037 4.65809 2.53282 4.27724 3.16969 2.96365 1.94642 1.84566 4.00536 6.05024 4.64075 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00622 5.47934 6.20169 0.61958 0.77255 0.58983 0.80838\n- 3 1.92565 5.61084 2.38442 2.03724 4.95483 3.41362 4.06404 3.78673 2.28970 3.91566 3.34530 3.34470 3.04104 2.86412 2.99327 1.99892 3.33389 4.00090 6.04416 4.63385 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14635 5.47934 2.02518 0.61958 0.77255 0.58983 0.80838\n- 4 2.80877 5.50384 2.31894 2.14620 4.83297 3.18620 3.27387 3.56421 2.36582 2.57378 4.54871 3.28548 4.20476 3.10211 2.91912 2.21241 2.26014 3.37428 5.94617 3.80494 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00715 5.34015 6.06249 0.61958 0.77255 1.01724 0.44878\n- 5 2.09372 5.52396 2.63662 2.13634 4.86155 2.97854 3.99557 3.54838 2.54481 2.57821 4.56658 2.79880 3.42706 2.82648 2.90779 2.52434 2.63797 3.20317 5.96114 4.55473 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17704 5.34015 1.84857 0.61958 0.77255 1.01724 0.44878\n- 6 2.21774 5.42004 2.21114 2.46761 3.71850 3.73143 3.36750 3.57840 2.30675 3.20904 4.46524 2.37785 3.25561 3.02245 3.15184 2.28242 2.88834 3.34083 5.86313 4.46276 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00847 5.17157 5.89392 0.61958 0.77255 1.32565 0.30874\n- 7 2.47632 5.39467 2.58732 2.25698 3.74710 3.31049 3.92666 3.45307 2.67305 2.91791 4.44267 3.2152'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00909 5.10087 5.82322 0.61958 0.77255 1.37130 0.29273\n- 988 2.92201 5.43208 2.85908 2.10705 4.77675 2.77589 3.35722 4.26252 2.43348 3.73709 4.47303 2.81244 3.56133 2.97885 1.77227 2.42180 2.45436 3.82254 5.86478 4.45389 1871 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00909 5.10087 5.82322 0.61958 0.77255 1.37130 0.29273\n- 989 2.54463 5.85696 4.00466 2.82449 5.36893 4.25200 4.17075 4.70404 1.75527 4.08889 4.92875 3.73908 4.60453 3.28855 0.78284 3.59375 3.78585 4.35054 6.09810 4.92064 1872 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04485 5.10087 3.27629 0.61958 0.77255 1.04238 0.43481\n- 990 2.69528 5.30765 3.25568 2.43467 3.56923 3.73780 3.92447 4.04882 2.22239 3.58810 3.56627 3.23077 3.43771 3.04230 1.28413 2.67517 3.17320 3.67117 5.76935 4.39936 1873 r - - -\n- 2.67613 4.42567 2.77562 2.73202 3.46666 2.40591 3.72875 3.29391 2.68124 2.68835 4.24220 2.90738 2.73844 3.18215 2.89290 2.38103 2.77662 2.98598 4.58516 3.61834\n- 1.56275 0.61040 1.39713 2.82164 0.06135 0.40435 1.10085\n- 991 2.16680 4.50922 3.38554 3.15703 3.61949 4.04775 3.46899 2.12429 3.58700 2.05501 2.77001 3.95610 4.41994 3.83479 3.82493 2.66308 3.20926 1.74878 5.11460 3.91361 1905 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04773 5.15275 3.19835 0.61958 0.77255 1.02759 0.44296\n- 992 2.70891 5.23993 3.32414 2.78403 4.54569 1.87874 3.34927 3.38764 2.78623 3.55331 4.34718 3.30712 1.94361 2.80743 3.25626 2.01191 3.21023 3.62106 5.76677 4.41357 1906 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00856 5.16101 5.88336 0.61958 0.77255 1.23579 0.34334\n- 993 1.80475 5.31224 3.32561 2.55059 4.74968 3.20445 4.07269 4.20382 2.84267 3.74524 4.51892 3.33852 1.56889 3.19642 2.89209 2.05255 3.26233 3.79283 5.92399 4.55508 1907 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00856 5.16101 5.88336 0.61958 0.77255 1.23579 0.34334\n- 994 1.26107 4.63483 3.30663 3.39305 3.18680 3.98086 3.50252 2.80372 3.33690 2.84345 3.74330 3.76668 4.35990 3.62524 3.66167 2.85275 2.69225 2.03023 5.22707 4.00405 1908 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04165 5.16101 3.35080 0.61958 0.77255 0.89485 0.52538\n- 995 2.30182 4.40657 4.52094 3.92906 1.96617 3.28064 4.38426 2.56570 3.79253 2.02272 2.72275 2.80309 4.44255 3.34602 3.93908 2.98648 3.18802 2.45595 5.02058 2.83796 1909 f - - -\n- 2.68265 4.42577 2.77670 2.73165 3.46415 2.40582 3.72471 3.29140 2.68002 2.69033 4.24632 2.90610 2.73600 3.18177 2.89751 2.38009 2.77599 2.98266 4.58371 3.61737\n- 0.79012 0.60475 * 2.60906 0.07645 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Phospho.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Phospho.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1349 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME CARD_NLR__Phospho\n-LENG 442\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jul 10 14:04:12 2023\n-NSEQ 86\n-EFFN 1.635071\n-GA 500 500;\n-CKSUM 1788245013\n-STATS LOCAL MSV -11.6244 0.69867\n-STATS LOCAL VITERBI -12.2589 0.69867\n-STATS LOCAL FORWARD -6.0690 0.69867\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42936 4.56314 2.99492 2.68637 3.38543 2.83413 3.63507 2.88141 2.75313 2.39008 3.64424 3.19470 3.19704 3.04003 2.93710 2.67160 2.81595 2.61105 4.55059 3.47299\n- 2.68620 4.42244 2.77523 2.73131 3.46327 2.40531 3.72504 3.29354 2.67749 2.69349 4.24326 2.90360 2.73750 3.18148 2.89816 2.37894 2.77515 2.98526 4.58426 3.61509\n- 0.28570 1.52039 3.51039 1.18370 0.36549 0.00000 *\n- 1 2.55018 4.39742 3.62565 3.06966 3.56720 3.65672 3.96243 2.80919 2.75124 2.63465 1.61155 3.36203 4.06164 3.30635 3.30148 2.74452 2.52045 2.67766 5.01502 3.78829 33 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46232 5.18467 0.61958 0.77255 0.52616 0.89371\n- 2 2.58413 5.18298 2.63970 1.98907 4.51839 3.19026 2.83826 3.71834 1.96527 3.41610 4.22681 2.91122 3.86127 2.56095 2.88647 2.58185 2.85394 3.56855 5.62064 4.21514 34 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46232 5.18467 0.61958 0.77255 0.52616 0.89371\n- 3 2.12285 2.88960 4.19499 3.61105 3.19831 3.45312 4.11735 2.18975 3.48561 2.36099 3.28456 3.79478 4.15965 3.69975 3.57233 2.80206 2.63905 1.82827 4.78653 3.59645 35 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46232 5.18467 0.61958 0.77255 0.52616 0.89371\n- 4 2.13569 4.39779 4.69910 4.15002 3.65215 4.26638 4.72574 1.71184 4.03638 2.29264 3.55014 4.32926 4.62253 4.27155 4.21188 3.44606 3.27629 1.12160 5.34029 4.13870 36 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46232 5.18467 0.61958 0.77255 0.52616 0.89371\n- 5 3.22618 4.50728 5.14239 4.59844 2.98416 4.60932 5.06948 1.33957 4.47761 2.18208 3.38448 4.72289 4.88653 4.65464 4.58364 3.96645 3.28012 1.08939 5.50025 4.32281 37 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46232 5.18467 0.61958 0.77255 0.52616 0.89371\n- 6 3.39404 4.70276 5.17292 4.59508 1.43581 4.64397 4.88473 2.36473 4.44701 1.25677 2.92227 4.73011 4.85364 4.48627 4.48636 3.98388 3.61369 2.01387 5.15759 3.99152 38 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46232 5.18467 0.61958 0.77255 0.52616 0.89371\n- 7 3.15066 4.59472 5.30260 4.78884 3.80744 4.82648 5.38585 1.33614 4.69258 1.84267 3.59182 4.944'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47908 5.20143 0.61958 0.77255 0.49907 0.93418\n- 435 2.08370 4.51652 3.11997 2.70808 3.67282 3.62427 3.86452 2.94688 2.81857 2.42844 3.61486 3.29573 3.50017 3.13740 3.21073 2.78618 2.46079 2.09796 5.08505 3.62799 537 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47908 5.20143 0.61958 0.77255 0.49907 0.93418\n- 436 2.37108 4.86766 3.03902 2.21389 3.88628 3.39570 3.34412 2.84943 2.46928 2.91843 3.73128 3.06278 3.48802 2.58964 2.73696 2.73010 2.81499 2.69497 5.37475 4.04482 538 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47908 5.20143 0.61958 0.77255 0.49907 0.93418\n- 437 3.74452 5.00562 5.29565 4.82420 0.98062 4.87823 4.57424 2.58865 4.65547 1.33595 3.25479 4.82995 5.06309 4.62849 4.66800 4.25206 3.96299 2.81228 4.70817 3.17798 539 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47908 5.20143 0.61958 0.77255 0.49907 0.93418\n- 438 1.79968 4.17215 4.13532 3.55001 2.68499 3.57588 4.09646 2.33578 3.43381 2.20966 3.07077 3.76550 4.16106 3.65749 3.62148 2.68445 2.75614 2.13941 4.78950 3.59654 540 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47908 5.20143 0.61958 0.77255 0.49907 0.93418\n- 439 3.27340 4.63990 5.29314 4.83067 3.97414 4.82545 5.56463 1.60467 4.73642 2.44939 3.74126 4.99390 5.13575 5.01080 4.91834 4.24843 3.65123 0.67079 6.00680 4.78406 541 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47908 5.20143 0.61958 0.77255 0.49907 0.93418\n- 440 2.48199 3.95156 3.18132 2.57529 3.76965 3.55054 3.76740 3.36437 2.60717 3.00549 3.62425 3.12242 3.93987 2.30700 2.86903 2.02424 2.38506 2.94696 5.28948 3.98412 542 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47908 5.20143 0.61958 0.77255 0.49907 0.93418\n- 441 2.31014 5.14824 2.60747 2.07616 4.47149 3.05127 3.66273 3.76404 2.33124 3.26756 4.19473 2.91030 3.28028 2.58660 2.64804 2.58159 2.66800 3.40711 5.03378 4.19683 543 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05452 4.47908 3.17690 0.61958 0.77255 0.49907 0.93418\n- 442 2.28620 5.01010 2.77646 2.30979 3.98252 2.92791 3.68002 3.63218 2.36428 3.03837 4.06934 2.78786 3.17677 2.77695 2.81140 2.48093 2.87844 2.79065 5.48556 4.11948 544 a - - -\n- 2.68581 4.42254 2.77510 2.73093 3.46383 2.40500 3.72516 3.29378 2.67762 2.69373 4.24707 2.90353 2.73730 3.18141 2.89822 2.37874 2.77512 2.98528 4.58506 3.61532\n- 0.48892 0.95008 * 1.12358 0.39321 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Phospho_Trypsin.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Phospho_Trypsin.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2789 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME CARD_NLR__Phospho_Trypsin\n-LENG 922\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jul 10 14:04:44 2023\n-NSEQ 94\n-EFFN 1.592102\n-GA 1000 1000;\n-CKSUM 3947362074\n-STATS LOCAL MSV -12.6821 0.69580\n-STATS LOCAL VITERBI -13.6255 0.69580\n-STATS LOCAL FORWARD -6.7306 0.69580\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45137 4.62891 2.86419 2.62045 3.40764 2.87975 3.62286 2.87995 2.67354 2.56842 3.74173 3.06236 3.29348 3.03843 2.85288 2.63019 2.81766 2.60640 4.47445 3.63913\n- 2.68612 4.42219 2.77521 2.73125 3.46360 2.40514 3.72489 3.29357 2.67747 2.69353 4.24665 2.90348 2.73743 3.18136 2.89795 2.37887 2.77521 2.98518 4.58483 3.61509\n- 0.08855 2.64157 4.30525 1.53031 0.24394 0.00000 *\n- 1 3.14454 4.66318 4.27838 3.89234 3.31563 3.99227 4.57968 2.51270 3.64769 1.88318 1.03002 4.14278 4.45819 4.01829 3.82769 3.51304 3.45613 2.54191 5.18122 3.95903 25 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23794 4.07958 1.63558 0.61958 0.77255 0.48576 0.95510\n- 2 2.44499 4.86680 2.64824 2.28201 4.15545 3.18674 3.57504 3.59006 2.21598 3.15879 3.95745 2.76153 3.30777 2.71190 2.72730 2.47702 2.63564 3.23366 5.36838 4.00917 26 k - - -\n- 2.67853 4.42718 2.77644 2.73194 3.46575 2.40748 3.72849 3.29330 2.68371 2.68887 4.24719 2.90930 2.73630 3.18191 2.89312 2.38092 2.77647 2.97713 4.57590 3.61858\n- 0.47324 1.06370 3.44694 5.15170 0.00581 0.64368 0.74519\n- 3 2.32938 4.97049 2.45056 2.07273 4.26375 3.03188 3.59486 3.58404 2.40283 3.26383 4.05572 2.70529 3.19779 2.67727 2.89407 2.60036 2.85899 3.33874 5.45998 4.07718 1103 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02939 3.93767 4.66001 0.61958 0.77255 0.63138 0.75898\n- 4 2.43674 4.84689 2.73538 2.31915 4.11122 3.37651 3.57472 3.38092 2.25678 3.11590 3.77769 2.88821 3.46873 2.66917 2.48799 2.43590 2.74904 3.19372 5.33109 3.89241 1104 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96590 4.68825 0.61958 0.77255 0.49079 0.94711\n- 5 2.44131 4.90958 2.80040 2.38734 4.16747 3.45743 3.65822 3.59557 2.38213 3.10385 2.53466 2.67510 3.69932 2.69679 2.70582 2.52760 2.69129 3.25262 5.39835 4.04815 1105 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02032 4.30209 5.02444 0.61958 0.77255 0.55661 0.85132\n- 6 2.18654 4.53871 3.08133 2.72656 3.34476 3.50237 3.78601 3.08359 2.66356 2.36661 3.15211 3.19218 3.74991 2.97328 2.80361 2.50276 2.58269 2.75094 5.09543 3.82670 1106 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01973 4.33141 5.05375 0.61958 0.77255 0.55661 0.85132\n- 7 2.36132 5.02482 2.83908 2.23571 4.31775 2.93049 3.63953 3.34349 2.22085 3.30775 4.08'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01716 4.46950 5.19185 0.61958 0.77255 0.48576 0.95510\n- 915 2.37656 5.13144 2.35105 1.64093 4.43984 3.47761 3.68552 3.57390 2.44432 3.42139 4.18584 2.96041 3.88177 2.75421 2.79254 2.66905 2.94443 3.13207 5.58823 4.19798 2333 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01716 4.46950 5.19185 0.61958 0.77255 0.48576 0.95510\n- 916 2.46620 4.09189 4.37885 3.91576 2.57424 3.85030 4.16521 2.19047 3.73039 1.77751 3.08462 3.96421 4.21332 3.88461 3.78626 3.15598 2.92857 2.21292 3.25110 2.51260 2334 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01716 4.46950 5.19185 0.61958 0.77255 0.48576 0.95510\n- 917 2.49916 4.23120 3.92814 3.34987 3.26697 3.60671 4.03324 2.64677 3.25524 1.34895 3.19980 3.63937 3.82145 3.41642 3.37160 2.84577 2.91724 2.42783 4.83506 3.43731 2335 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01716 4.46950 5.19185 0.61958 0.77255 0.48576 0.95510\n- 918 2.22969 5.20529 2.58687 2.01218 4.52883 2.22657 3.70318 4.00266 2.39318 3.50512 4.26355 2.78828 3.89196 2.81352 2.91712 2.55805 2.77964 3.58676 5.65780 4.25221 2336 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01716 4.46950 5.19185 0.61958 0.77255 0.48576 0.95510\n- 919 2.47409 4.94264 2.50002 1.95137 4.21752 2.82393 3.62923 3.65065 2.41557 3.05026 3.26082 2.90872 3.81389 2.76084 2.89451 2.63146 2.86533 3.29310 5.42879 4.06356 2337 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07099 4.15809 2.93945 0.61958 0.77255 0.48576 0.95510\n- 920 2.40618 4.67242 2.74530 2.35171 3.89762 3.33965 3.61593 3.17567 2.43938 2.85507 3.75952 2.94705 3.78909 2.53174 2.88740 2.61525 2.68885 2.64440 5.19995 3.88382 2338 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03009 3.91443 4.63678 0.61958 0.77255 0.53934 0.87498\n- 921 2.67017 4.99812 1.87451 2.00874 4.25333 3.27691 3.62110 3.66051 2.46893 3.19736 3.68360 2.77748 3.76942 2.77238 2.95911 2.64812 2.92257 3.31578 5.48858 4.09524 2339 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08883 3.84964 2.75339 0.61958 0.77255 0.53934 0.87498\n- 922 2.32449 4.23773 2.71934 2.57814 3.56258 2.90693 3.72989 3.18321 2.62149 2.95938 3.95868 2.58275 3.58619 3.06069 2.90725 2.38573 2.74433 2.84401 4.99444 3.58379 2340 a - - -\n- 2.68609 4.42227 2.77516 2.73125 3.46356 2.40504 3.72497 3.29356 2.67743 2.69357 4.24692 2.90347 2.73742 3.18148 2.89801 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.09062 2.44607 * 0.93285 0.49994 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Subtilase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Subtilase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2807 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME CARD_NLR__Subtilase\n-LENG 928\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jul 10 14:04:59 2023\n-NSEQ 68\n-EFFN 1.788818\n-GA 500 500;\n-CKSUM 2866153942\n-STATS LOCAL MSV -12.6692 0.69578\n-STATS LOCAL VITERBI -13.7314 0.69578\n-STATS LOCAL FORWARD -6.6614 0.69578\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34813 4.40760 2.91167 2.67022 3.48580 2.69761 3.66833 2.94953 2.75750 2.53049 3.77946 3.10205 3.19890 3.08317 2.91337 2.59953 2.80574 2.63047 4.50832 3.76535\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21490 3.93381 1.74981 0.61958 0.77255 0.00000 *\n- 1 2.88131 4.45077 3.92379 3.51198 3.16489 3.74521 4.27473 2.32910 3.28501 1.78126 1.62576 3.80295 4.20852 3.67691 3.50350 3.21634 3.18607 2.32042 4.98766 3.73667 1 m - - -\n- 2.68621 4.42208 2.77532 2.73143 3.46377 2.40505 3.72464 3.29352 2.67742 2.69335 4.24713 2.90357 2.73748 3.18160 2.89765 2.37899 2.77492 2.98532 4.58472 3.61491\n- 0.24252 1.58975 4.47666 1.96571 0.15089 0.45027 1.01461\n- 2 2.55046 4.27848 3.42498 2.86604 3.27852 3.51634 3.79105 2.69909 2.80041 2.47210 2.36517 3.16017 3.44630 3.01512 3.14714 2.77228 2.51756 2.54165 4.87118 3.63486 37 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07774 3.97107 2.88337 0.61958 0.77255 0.52075 0.90159\n- 3 2.48031 4.71210 2.68172 2.40536 4.07143 3.07230 3.48818 3.49016 2.42514 3.09981 3.92354 2.91066 3.77012 2.82942 2.94922 2.03998 2.45240 3.14598 5.34431 4.01351 38 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92315 4.64549 0.61958 0.77255 0.56527 0.83980\n- 4 2.40421 4.53706 3.09282 2.46250 3.37322 3.42532 3.52445 3.01689 2.51243 2.77435 3.62683 2.94654 3.65498 2.68322 2.85488 2.42716 2.77793 2.66613 5.07892 3.79105 39 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92315 4.64549 0.61958 0.77255 0.56527 0.83980\n- 5 2.36714 4.53534 2.89634 2.53781 3.75047 3.22889 3.65588 2.86808 2.52072 2.73200 3.64719 2.93206 3.80757 2.86062 2.82290 2.53452 2.54572 2.72048 5.09970 3.81035 40 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92315 4.64549 0.61958 0.77255 0.56527 0.83980\n- 6 2.58022 4.75487 2.98114 2.34962 4.00066 3.14794 3.45250 3.30081 2.14138 2.88964 3.83200 2.93648 3.79054 2.74453 2.58954 2.39118 2.74575 3.00733 5.25101 3.93132 41 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92315 4.64549 0.61958 0.77255 0.56527 0.83980\n- 7 2.67326 5.06836 2.08971 2.03677 4.35296 3.29439 3.61172 3.81128 2.43919 3.07653 4.15065 2.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02615 4.05286 4.77521 0.61958 0.77255 0.80214 0.59487\n- 921 2.43621 4.89375 2.79102 2.21292 4.16221 3.15339 3.60378 3.59551 2.33476 2.82082 3.96396 2.78154 3.79048 2.56348 2.85994 2.29484 2.73611 3.24412 5.38079 4.02253 2294 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02615 4.05286 4.77521 0.61958 0.77255 0.80214 0.59487\n- 922 2.51491 4.61113 3.00791 2.28214 3.80928 2.73916 3.66250 2.89396 2.50917 2.85138 3.69655 3.02735 3.83409 2.85595 2.67097 2.66272 2.80847 2.77913 4.14942 3.84746 2295 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02615 4.05286 4.77521 0.61958 0.77255 0.80214 0.59487\n- 923 2.41501 4.80109 2.84165 2.35782 3.80134 3.21417 3.61018 3.46689 2.40629 2.94611 3.87316 2.65908 2.88835 2.75681 2.75199 2.53498 2.81374 3.13785 5.30171 3.70481 2296 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05365 4.05286 3.35626 0.61958 0.77255 0.80214 0.59487\n- 924 2.49702 4.38476 3.16251 2.60420 3.07965 2.75723 3.74266 2.67223 2.69984 2.34499 3.48579 3.17278 3.53580 3.01871 3.08924 2.73364 2.79505 2.66274 4.95646 3.70155 2297 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02608 4.74843 0.61958 0.77255 0.82299 0.57824\n- 925 2.56044 4.22530 3.53541 2.96980 2.86007 3.34577 3.82504 2.57633 2.89923 1.97051 3.33229 3.19616 3.24662 3.20023 3.07174 2.81637 2.79483 2.48818 4.80759 3.57473 2298 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02608 4.74843 0.61958 0.77255 0.73965 0.64871\n- 926 2.29631 4.70630 2.80032 2.44874 3.93940 3.40305 3.20135 3.34630 2.44686 2.87999 3.79476 2.95909 3.39940 2.69852 2.90027 2.51487 2.65463 2.73086 5.23187 3.91110 2299 a - - -\n- 2.68599 4.42255 2.77509 2.73139 3.46372 2.40502 3.72524 3.29323 2.67739 2.69316 4.24719 2.90332 2.73741 3.18164 2.89792 2.37912 2.77532 2.98514 4.58507 3.61533\n- 0.66084 0.74486 4.73511 1.33808 0.30429 0.78408 0.60980\n- 927 2.81300 3.76837 4.12724 3.58071 2.79558 3.82570 3.92865 2.58541 3.37679 1.83724 3.28316 3.76835 4.20814 3.65225 3.56710 3.15034 3.06182 2.46761 1.92434 2.96563 2309 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02723 4.01276 4.73511 0.61958 0.77255 0.78408 0.60980\n- 928 2.77324 4.34356 3.90062 3.43098 3.14449 3.76603 4.22441 1.93989 3.21031 1.68741 3.13576 3.73506 4.20037 3.60448 3.46437 3.14796 3.07073 1.83611 4.98675 3.66424 2310 l - - -\n- 2.68614 4.42228 2.77522 2.73126 3.46356 2.40515 3.72497 3.29357 2.67735 2.69358 4.24692 2.90342 2.73738 3.18149 2.89803 2.37889 2.77513 2.98510 4.58480 3.61506\n- 0.17737 1.81688 * 0.70062 0.68573 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Subtilase_long_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Subtilase_long_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1646 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__Subtilase_long_new\n-LENG 541\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:49:47 2023\n-NSEQ 5\n-EFFN 0.883789\n-GA 300 300;\n-CKSUM 3549645810\n-STATS LOCAL MSV -11.7779 0.69767\n-STATS LOCAL VITERBI -12.8373 0.69767\n-STATS LOCAL FORWARD -6.0534 0.69767\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.20328 4.35954 2.94308 2.70470 3.51773 2.70053 3.73395 2.93747 2.86173 2.53124 3.71918 3.19015 3.16199 3.10783 2.93161 2.64959 2.83086 2.55633 4.43401 3.82361\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.00000 *\n- 1 3.18706 4.69980 4.33085 3.95080 3.34482 4.02842 4.62777 2.54688 3.70308 1.90758 0.96547 4.19491 4.49671 4.07182 3.87726 3.55907 3.50067 2.58089 5.21487 3.99567 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 2 1.66824 4.54072 3.14884 2.27002 3.90315 3.40870 3.86748 3.05929 2.74752 2.89726 3.80326 3.16791 3.90492 3.09070 3.14737 2.73445 2.89477 2.32403 5.29233 4.01342 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 3 2.64035 5.01396 2.40375 2.08222 4.30273 3.38356 3.61543 3.75313 2.39390 3.29527 3.13272 2.87381 3.80279 2.39660 2.87801 2.30385 2.87586 3.37506 5.48167 4.10045 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25172 4.12446 1.57809 0.61958 0.77255 0.48576 0.95510\n- 4 2.50070 4.25804 3.57561 3.17242 3.65722 3.33876 4.11692 2.60215 3.09911 2.56034 3.62162 3.44748 2.49969 3.44766 3.39384 2.74839 2.86774 1.56865 5.20284 3.95807 4 v - - -\n- 2.68556 4.42243 2.77509 2.73114 3.46372 2.40531 3.72434 3.29372 2.67759 2.69373 4.24708 2.90332 2.73758 3.18164 2.89819 2.37884 2.77507 2.98501 4.58495 3.61521\n- 0.35059 1.25202 4.62551 1.39644 0.28432 0.69539 0.69091\n- 5 2.80978 4.56888 3.57345 3.01424 3.50224 3.64130 3.84461 2.84821 2.50200 1.62778 3.51150 3.38941 4.04831 3.12074 2.12275 2.99572 3.04974 2.72146 5.01799 3.74363 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 6 2.16122 4.62141 2.30208 2.50229 3.88827 3.34206 3.74008 3.12629 2.62396 2.34392 3.80246 2.99402 3.82756 2.94263 3.06147 2.67783 2.86656 2.85959 5.26778 3.94651 12 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.37398 1.16473\n- 7 1.66544 5.15911 2.06993 1.94424 4.50177 3.31777 3.75292 3.94074 2.65271 3.51100 4.33'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 534 3.00952 4.75228 3.73428 3.66936 4.79251 0.42823 4.76697 4.46061 3.88449 4.08049 5.06354 3.89959 4.15091 4.18917 4.08592 3.18982 3.51029 3.94016 5.81370 4.90545 594 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 535 2.24899 4.45858 3.32058 2.79471 3.66190 3.50268 3.81800 2.96570 2.70871 2.00125 3.58833 3.22613 3.92787 2.56468 3.07347 2.77719 2.41872 2.73113 5.08170 3.82967 595 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25172 4.12446 1.57809 0.61958 0.77255 0.48576 0.95510\n- 536 2.41128 4.35444 3.09870 2.88513 4.29172 1.98003 4.08708 3.76390 3.02893 3.41567 4.28261 3.20199 1.56040 3.34943 3.36738 2.55593 2.85911 3.27918 5.53982 4.35085 596 p - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40514 3.72496 3.29356 2.67742 2.69357 4.24691 2.90348 2.73741 3.18148 2.89802 2.37868 2.77521 2.98520 4.58479 3.61505\n- 0.18327 1.84735 4.62551 0.32667 1.27769 0.69539 0.69091\n- 537 3.17086 4.53591 4.60988 4.08906 3.14016 4.38309 4.72605 1.65122 3.90901 1.13226 2.98669 4.36705 4.63908 4.14641 4.08725 3.75127 3.41321 1.99736 5.16247 3.98768 598 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 538 2.75144 5.06109 1.68772 2.28524 4.37548 3.28658 3.67484 3.86522 2.47062 3.41286 4.25307 2.82694 3.80929 2.83312 2.20083 2.72293 3.01684 3.49277 5.55189 4.17808 599 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 539 2.16820 4.54147 2.38452 2.58528 3.82094 3.38464 3.77784 2.37598 2.67566 2.79600 3.72451 3.06254 3.85586 2.99317 3.10352 2.70291 2.85545 2.66941 5.22867 3.92813 600 a - - -\n- 2.68601 4.42236 2.77502 2.73107 3.46365 2.40524 3.72505 3.29365 2.67752 2.69366 4.24701 2.90357 2.73694 3.18157 2.89812 2.37898 2.77500 2.98529 4.58488 3.61514\n- 0.35026 1.25282 4.62551 0.97833 0.47150 0.69539 0.69091\n- 540 3.03379 4.46499 4.41820 3.91952 3.22549 4.16876 4.61538 2.01111 3.74842 1.24406 3.09629 4.18743 4.51382 4.03021 3.95473 3.54482 3.30207 1.61353 5.17307 3.96767 604 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 541 2.71405 4.74695 3.17769 2.69569 4.19461 3.38420 3.71413 3.62785 2.25398 3.19295 4.07545 3.11901 2.52557 2.89259 1.59562 2.78160 2.99171 3.29438 5.34356 4.10507 605 r - - -\n- 2.68631 4.42238 2.77532 2.73107 3.46367 2.40505 3.72507 3.29367 2.67754 2.69342 4.24703 2.90327 2.73752 3.18114 2.89779 2.37900 2.77502 2.98531 4.58490 3.61516\n- 0.34074 1.24218 * 1.11447 0.39763 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Subtilase_small_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Subtilase_small_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1646 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__Subtilase_small_new\n-LENG 541\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:49:48 2023\n-NSEQ 5\n-EFFN 0.883789\n-CKSUM 3549645810\n-GA 500 500;\n-STATS LOCAL MSV -11.7779 0.69767\n-STATS LOCAL VITERBI -12.8373 0.69767\n-STATS LOCAL FORWARD -6.0534 0.69767\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.20328 4.35954 2.94308 2.70470 3.51773 2.70053 3.73395 2.93747 2.86173 2.53124 3.71918 3.19015 3.16199 3.10783 2.93161 2.64959 2.83086 2.55633 4.43401 3.82361\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.00000 *\n- 1 3.18706 4.69980 4.33085 3.95080 3.34482 4.02842 4.62777 2.54688 3.70308 1.90758 0.96547 4.19491 4.49671 4.07182 3.87726 3.55907 3.50067 2.58089 5.21487 3.99567 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 2 1.66824 4.54072 3.14884 2.27002 3.90315 3.40870 3.86748 3.05929 2.74752 2.89726 3.80326 3.16791 3.90492 3.09070 3.14737 2.73445 2.89477 2.32403 5.29233 4.01342 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 3 2.64035 5.01396 2.40375 2.08222 4.30273 3.38356 3.61543 3.75313 2.39390 3.29527 3.13272 2.87381 3.80279 2.39660 2.87801 2.30385 2.87586 3.37506 5.48167 4.10045 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25172 4.12446 1.57809 0.61958 0.77255 0.48576 0.95510\n- 4 2.50070 4.25804 3.57561 3.17242 3.65722 3.33876 4.11692 2.60215 3.09911 2.56034 3.62162 3.44748 2.49969 3.44766 3.39384 2.74839 2.86774 1.56865 5.20284 3.95807 4 v - - -\n- 2.68556 4.42243 2.77509 2.73114 3.46372 2.40531 3.72434 3.29372 2.67759 2.69373 4.24708 2.90332 2.73758 3.18164 2.89819 2.37884 2.77507 2.98501 4.58495 3.61521\n- 0.35059 1.25202 4.62551 1.39644 0.28432 0.69539 0.69091\n- 5 2.80978 4.56888 3.57345 3.01424 3.50224 3.64130 3.84461 2.84821 2.50200 1.62778 3.51150 3.38941 4.04831 3.12074 2.12275 2.99572 3.04974 2.72146 5.01799 3.74363 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 6 2.16122 4.62141 2.30208 2.50229 3.88827 3.34206 3.74008 3.12629 2.62396 2.34392 3.80246 2.99402 3.82756 2.94263 3.06147 2.67783 2.86656 2.85959 5.26778 3.94651 12 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.37398 1.16473\n- 7 1.66544 5.15911 2.06993 1.94424 4.50177 3.31777 3.75292 3.94074 2.65271 3.51100 4.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 534 3.00952 4.75228 3.73428 3.66936 4.79251 0.42823 4.76697 4.46061 3.88449 4.08049 5.06354 3.89959 4.15091 4.18917 4.08592 3.18982 3.51029 3.94016 5.81370 4.90545 594 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12446 4.84680 0.61958 0.77255 0.48576 0.95510\n- 535 2.24899 4.45858 3.32058 2.79471 3.66190 3.50268 3.81800 2.96570 2.70871 2.00125 3.58833 3.22613 3.92787 2.56468 3.07347 2.77719 2.41872 2.73113 5.08170 3.82967 595 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25172 4.12446 1.57809 0.61958 0.77255 0.48576 0.95510\n- 536 2.41128 4.35444 3.09870 2.88513 4.29172 1.98003 4.08708 3.76390 3.02893 3.41567 4.28261 3.20199 1.56040 3.34943 3.36738 2.55593 2.85911 3.27918 5.53982 4.35085 596 p - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40514 3.72496 3.29356 2.67742 2.69357 4.24691 2.90348 2.73741 3.18148 2.89802 2.37868 2.77521 2.98520 4.58479 3.61505\n- 0.18327 1.84735 4.62551 0.32667 1.27769 0.69539 0.69091\n- 537 3.17086 4.53591 4.60988 4.08906 3.14016 4.38309 4.72605 1.65122 3.90901 1.13226 2.98669 4.36705 4.63908 4.14641 4.08725 3.75127 3.41321 1.99736 5.16247 3.98768 598 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 538 2.75144 5.06109 1.68772 2.28524 4.37548 3.28658 3.67484 3.86522 2.47062 3.41286 4.25307 2.82694 3.80929 2.83312 2.20083 2.72293 3.01684 3.49277 5.55189 4.17808 599 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 539 2.16820 4.54147 2.38452 2.58528 3.82094 3.38464 3.77784 2.37598 2.67566 2.79600 3.72451 3.06254 3.85586 2.99317 3.10352 2.70291 2.85545 2.66941 5.22867 3.92813 600 a - - -\n- 2.68601 4.42236 2.77502 2.73107 3.46365 2.40524 3.72505 3.29365 2.67752 2.69366 4.24701 2.90357 2.73694 3.18157 2.89812 2.37898 2.77500 2.98529 4.58488 3.61514\n- 0.35026 1.25282 4.62551 0.97833 0.47150 0.69539 0.69091\n- 540 3.03379 4.46499 4.41820 3.91952 3.22549 4.16876 4.61538 2.01111 3.74842 1.24406 3.09629 4.18743 4.51382 4.03021 3.95473 3.54482 3.30207 1.61353 5.17307 3.96767 604 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03044 3.90317 4.62551 0.61958 0.77255 0.69539 0.69091\n- 541 2.71405 4.74695 3.17769 2.69569 4.19461 3.38420 3.71413 3.62785 2.25398 3.19295 4.07545 3.11901 2.52557 2.89259 1.59562 2.78160 2.99171 3.29438 5.34356 4.10507 605 r - - -\n- 2.68631 4.42238 2.77532 2.73107 3.46367 2.40505 3.72507 3.29367 2.67754 2.69342 4.24703 2.90327 2.73752 3.18114 2.89779 2.37900 2.77502 2.98531 4.58490 3.61516\n- 0.34074 1.24218 * 1.11447 0.39763 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsin.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsin.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1265 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME CARD_NLR__Trypsin\n-LENG 414\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jul 10 10:37:43 2023\n-NSEQ 50\n-EFFN 1.913452\n-GA 100 100;\n-CKSUM 1205607059\n-STATS LOCAL MSV -11.6118 0.69905\n-STATS LOCAL VITERBI -12.4347 0.69905\n-STATS LOCAL FORWARD -5.8281 0.69905\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47716 4.56885 2.85932 2.64247 3.50740 2.66215 3.57629 2.95822 2.71239 2.47073 3.79229 3.04107 3.26733 3.05566 2.86886 2.59889 2.79822 2.71470 4.64681 3.76320\n- 2.68618 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24668 2.90341 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.08017 2.76630 4.25807 0.63263 0.75757 0.00000 *\n- 1 3.64584 5.03232 5.08930 4.61587 3.38558 4.72032 5.11578 2.58556 4.30614 1.69384 0.74847 4.83124 5.01834 4.56658 4.42179 4.16166 3.91030 2.72006 5.44692 4.26768 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11936 4.56573 2.28175 0.61958 0.77255 0.48576 0.95510\n- 2 2.51933 5.14749 2.78235 2.11021 4.47127 3.46846 3.24519 3.94261 2.25267 3.25974 4.19405 2.63732 3.53088 2.71327 2.89238 2.19245 2.54570 3.22993 5.59306 4.19507 4 e - - -\n- 2.67433 4.42999 2.77361 2.72848 3.46329 2.40936 3.72829 3.29136 2.68791 2.68042 4.24818 2.91335 2.73803 3.18530 2.88703 2.38399 2.77798 2.98148 4.58328 3.62269\n- 0.75105 1.18971 1.49692 5.23167 0.00536 0.64896 0.73938\n- 3 2.62265 4.90531 2.70783 2.32199 4.16804 3.29485 3.48513 3.41972 2.41244 3.06448 3.59977 2.94701 3.13841 2.76754 2.32759 2.58180 2.63332 2.99968 5.39081 4.03662 1209 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04140 4.23402 3.64736 0.61958 0.77255 0.91570 0.51122\n- 4 2.29954 4.82439 2.87607 2.37892 4.06473 3.44525 3.03506 3.48278 2.44632 2.82658 3.52345 2.89296 3.31554 2.79714 2.76421 2.51636 2.68606 3.15748 5.32540 3.59584 1210 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02219 4.21482 4.93717 0.61958 0.77255 0.72961 0.65796\n- 5 2.42458 5.05219 2.30128 2.20538 4.35411 3.29660 3.63611 3.55412 2.30750 3.12053 4.10742 2.92276 2.89498 2.75002 2.87987 2.49711 2.72528 3.41989 5.51389 4.13003 1211 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31665 5.03900 0.61958 0.77255 0.74033 0.64809\n- 6 2.65727 5.07590 2.67950 2.30892 4.38450 2.88229 3.45728 3.57605 2.38736 3.11874 3.70263 2.83187 3.29847 2.47008 2.51516 2.46326 2.67622 3.44681 5.53098 4.14335 1212 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01915 4.36067 5.08302 0.61958 0.77255 0.79337 0.60206\n- 7 2.20334 5.02881 2.47435 2.30446 3.84630 2.97912 3.64820 3.41711 2.24802 3.31105 4.08444 2.697'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03130 3.87542 4.59777 0.61958 0.77255 0.45269 1.01037\n- 407 1.80957 4.05120 2.98506 2.80518 3.92712 2.39074 3.94245 3.18558 2.88588 3.01328 3.96154 3.05365 3.53231 3.24037 3.17278 2.32627 2.61687 2.78856 5.29368 4.06453 1691 a - - -\n- 2.68506 4.42381 2.77494 2.73156 3.46238 2.40567 3.72524 3.29314 2.67897 2.69324 4.24687 2.90490 2.73694 3.18165 2.89685 2.37957 2.77463 2.98419 4.58334 3.61506\n- 0.19685 2.20065 2.68889 4.82422 0.00807 0.45930 0.99893\n- 408 2.52792 4.64691 1.90086 2.20946 4.04987 3.00786 3.68333 3.52292 2.66431 3.22510 4.14159 2.71809 3.64641 2.90924 3.12374 2.37873 2.88305 3.16383 5.38645 3.98765 2089 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04306 3.56250 4.28485 0.61958 0.77255 0.52081 0.90150\n- 409 2.78886 4.37787 3.70368 3.32165 2.51194 3.63075 3.92348 2.26706 3.16359 1.70455 3.17430 3.60043 4.09737 3.51988 3.40501 3.07927 3.09516 2.21896 4.49506 2.98777 2090 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04622 3.49327 4.21562 0.61958 0.77255 0.52081 0.90150\n- 410 2.43940 4.40556 2.59113 2.25994 3.83515 3.00984 3.70449 3.20803 2.53104 2.97169 3.94121 2.86821 3.64504 2.96057 2.85418 2.29535 2.81068 2.89381 5.19825 3.86188 2091 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04622 3.49327 4.21562 0.61958 0.77255 0.52081 0.90150\n- 411 2.60369 4.46605 2.74637 2.55438 3.55549 3.09250 3.67307 3.17482 2.43890 2.71655 3.83192 2.97613 3.68588 2.22692 2.70616 2.70624 2.94132 2.95221 4.94456 3.62025 2092 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04622 3.49327 4.21562 0.61958 0.77255 0.52081 0.90150\n- 412 2.67806 4.28482 3.61770 3.28862 3.15116 3.46863 4.10735 1.82050 3.09923 1.94874 3.27087 3.57307 4.00619 3.52952 3.33017 2.99418 3.02067 2.04823 4.89105 3.54707 2093 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04622 3.49327 4.21562 0.61958 0.77255 0.52081 0.90150\n- 413 2.61450 4.53163 2.89662 2.57328 3.81001 3.19651 3.59798 3.25859 2.02258 2.88834 3.87129 2.98270 3.73116 2.82926 2.18134 2.70696 2.90811 2.98827 5.07075 3.80259 2094 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04622 3.49327 4.21562 0.61958 0.77255 0.52081 0.90150\n- 414 2.60303 4.27516 3.59961 3.24959 3.15808 3.42908 4.07346 2.20729 3.03379 1.86889 3.28868 3.51658 3.98497 3.47522 3.27409 2.89254 2.96089 1.94313 4.90976 3.52988 2095 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.47840 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsin_Phospho.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsin_Phospho.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2699 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__Trypsin_Phospho\n-LENG 892\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:59:24 2023\n-NSEQ 10\n-EFFN 1.430664\n-CKSUM 2136748012\n-GA 400 400;\n-STATS LOCAL MSV -12.5493 0.69588\n-STATS LOCAL VITERBI -13.7569 0.69588\n-STATS LOCAL FORWARD -6.4462 0.69588\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45105 4.59066 2.83581 2.63842 3.35480 2.83471 3.70113 2.87423 2.73202 2.53181 3.72354 3.09696 3.16318 3.06825 2.85158 2.66509 2.85190 2.60220 4.63660 3.60873\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05584 4.40068 3.16907 0.61958 0.77255 0.00000 *\n- 1 3.44476 4.92806 4.63197 4.29204 3.53825 4.23715 4.91355 2.76982 4.02856 2.08017 0.67231 4.50019 4.72358 4.38879 4.16980 3.83174 3.77228 2.82902 5.42598 4.22239 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23418 4.36392 1.62936 0.61958 0.77255 0.54014 0.87387\n- 2 2.07978 4.67930 3.07455 2.58790 4.12338 3.35296 3.76038 3.51704 2.18552 3.14465 3.97106 3.05665 2.41502 2.93039 2.95950 2.64646 2.40974 3.16581 5.39270 4.08754 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02362 4.15336 4.87570 0.61958 0.77255 0.77791 0.61501\n- 3 2.87982 5.39180 1.64425 2.22085 4.63718 3.32853 2.69373 4.19373 2.66031 3.69035 4.50113 1.93614 3.87995 2.90066 3.20113 2.79918 3.14515 3.77509 5.81795 4.34690 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02362 4.15336 4.87570 0.61958 0.77255 0.77791 0.61501\n- 4 2.34777 4.81769 3.19605 2.60958 4.08406 3.52768 3.67572 2.79290 1.73883 3.06340 3.91013 3.08816 3.91377 2.83829 2.28692 2.77496 2.94199 3.14669 5.30512 4.02651 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02362 4.15336 4.87570 0.61958 0.77255 0.77791 0.61501\n- 5 2.70155 4.82786 3.14965 2.57313 4.09559 3.50597 3.66534 2.78192 1.86024 3.08585 3.92087 3.06004 3.89530 2.82388 2.31539 2.23619 2.92526 3.17590 5.31401 4.02398 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02362 4.15336 4.87570 0.61958 0.77255 0.77791 0.61501\n- 6 2.69394 5.02717 2.77796 2.07078 4.35213 3.39137 3.66461 3.79376 2.42546 3.34095 4.13740 2.90604 3.84003 1.99854 2.87921 2.31628 2.47437 3.41882 5.52711 4.15908 6 q - - -\n- 2.68650 4.42257 2.77482 2.73155 3.46385 2.40526 3.72526 3.29274 2.67772 2.69323 4.24721 2.90378 2.73689 3.18178 2.89754 2.37874 2.77493 2.98550 4.58508 3.61535\n- 0.44693 1.04191 4.87570 1.52827 0.24451 0.77791 0.61501\n- 7 2.32300 5.37201 2.00334 1.35134 4.69305 3.31808 3.77151 4.16847 2.69662 3.69234 4.5091'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13939 4.86173 0.61958 0.77255 0.79036 0.60455\n- 885 2.63879 4.72919 3.17236 2.65878 4.19462 3.39755 3.75880 3.58684 2.42084 3.19026 4.02924 3.10693 2.22882 2.92557 2.00306 2.70964 2.37362 3.23729 5.41166 4.13091 1125 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13939 4.86173 0.61958 0.77255 0.79036 0.60455\n- 886 3.18587 4.59144 4.50802 3.99104 2.75377 4.20076 4.15326 2.60998 3.73318 1.02705 3.20175 4.13996 4.51688 3.97719 3.87099 3.56652 3.41748 2.64802 2.51208 3.01460 1126 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13939 4.86173 0.61958 0.77255 0.79036 0.60455\n- 887 1.78705 4.23890 3.52838 3.27268 4.41503 3.00940 4.34579 3.79350 3.33395 3.52579 4.36750 3.40163 3.77323 3.62524 3.63182 1.04123 2.79628 3.24280 5.76829 4.55010 1127 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13939 4.86173 0.61958 0.77255 0.79036 0.60455\n- 888 2.81798 5.21968 1.61666 1.95663 4.38939 3.35230 3.72420 3.94416 2.61895 3.48869 4.31084 2.83072 3.86995 2.88180 3.13966 2.76847 3.07321 3.57121 5.63182 2.69829 1128 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13939 4.86173 0.61958 0.77255 0.79036 0.60455\n- 889 3.65560 5.03536 4.24381 4.03060 2.35630 4.15012 3.77745 3.63055 3.88118 3.01336 4.27884 4.06816 4.62107 4.12113 4.00659 3.76237 3.94546 3.51466 4.00769 0.61594 1129 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13939 4.86173 0.61958 0.77255 0.79036 0.60455\n- 890 2.63529 4.67908 2.50092 2.56018 3.79034 3.48023 3.68638 3.26292 2.52542 2.23389 3.75849 3.05448 3.87517 2.88917 2.51415 2.71307 2.86678 2.98536 5.14577 3.02577 1130 l - - -\n- 2.68579 4.42235 2.77529 2.73133 3.46364 2.40522 3.72504 3.29364 2.67751 2.69365 4.24469 2.90356 2.73749 3.18156 2.89810 2.37896 2.77529 2.98463 4.58487 3.61513\n- 0.23918 1.58478 4.86173 0.96882 0.47728 0.79036 0.60455\n- 891 2.98382 5.56700 1.37021 1.70813 4.87503 2.46276 3.81863 4.39765 2.82549 3.88363 4.71921 2.75028 3.90109 2.97850 3.42509 2.87071 3.27041 3.95756 6.04012 4.53199 1134 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02395 4.13939 4.86173 0.61958 0.77255 0.79036 0.60455\n- 892 2.78227 5.25790 2.08907 1.76873 4.57786 3.36713 3.67462 4.05433 2.45523 3.54794 4.33379 2.83664 3.85000 2.80098 2.07747 2.72563 3.02666 3.64164 5.69131 4.27857 1135 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.13162 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsin_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsin_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1097 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__Trypsin_new\n-LENG 358\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:49:49 2023\n-NSEQ 22\n-EFFN 2.339111\n-CKSUM 3791337209\n-GA 100 100;\n-STATS LOCAL MSV -11.1678 0.69997\n-STATS LOCAL VITERBI -12.3059 0.69997\n-STATS LOCAL FORWARD -5.4267 0.69997\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37116 4.60577 2.88870 2.63148 3.48294 2.71537 3.56417 2.97955 2.74077 2.54326 3.74993 3.08340 3.24356 3.05024 2.84021 2.62862 2.81196 2.61605 4.72803 3.83786\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03263 4.69892 3.77219 0.61958 0.77255 0.00000 *\n- 1 3.86616 5.31284 5.08102 4.81201 3.89683 4.55595 5.36292 3.17744 4.53755 2.42380 0.39612 4.97057 5.07667 4.88663 4.63130 4.26225 4.21850 3.26848 5.78617 4.60750 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.37355 4.68016 1.19589 0.61958 0.77255 0.52380 0.89714\n- 2 2.28995 4.81855 3.06081 2.50790 4.05475 3.48083 3.17903 2.88298 2.49914 3.07891 3.89739 2.75094 3.27122 2.58050 2.95730 2.49144 2.40837 3.15073 5.33153 4.00339 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01983 4.32644 5.04879 0.61958 0.77255 0.85305 0.55532\n- 3 2.67367 5.03783 2.52500 2.41776 4.33158 3.45915 3.14723 3.23038 2.43239 3.32438 4.10063 2.67597 2.95903 2.78581 2.91451 2.05238 2.66711 3.40237 5.51107 4.13537 3 s - - -\n- 2.68635 4.42338 2.77446 2.73026 3.46371 2.40547 3.72608 3.29403 2.67854 2.69379 4.24803 2.90332 2.73562 3.18178 2.89784 2.37887 2.77476 2.98531 4.58590 3.61570\n- 0.86179 0.66917 2.72629 2.21421 0.11568 0.67010 0.71674\n- 4 2.71200 5.14591 2.66774 2.42695 4.47065 3.48684 3.17318 3.93250 2.21397 2.79216 4.19488 2.96567 3.87936 2.34192 2.06066 2.47412 2.94046 3.52635 5.58412 4.20109 28 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11317 4.44471 2.35116 0.61958 0.77255 0.86993 0.54297\n- 5 1.90642 4.56578 3.29783 2.50040 3.73965 3.57341 3.81794 3.08112 2.71420 2.10163 3.66072 3.21888 3.96730 2.68513 3.11166 2.81463 2.90886 2.58880 5.13378 3.86771 29 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01934 4.35089 5.07323 0.61958 0.77255 0.96406 0.48020\n- 6 2.52276 5.21623 2.76915 1.78386 4.51436 3.46825 1.98564 3.97887 2.48339 3.49849 4.29174 2.95126 3.92377 2.53515 2.93483 2.78492 3.05728 3.59311 5.65792 4.27268 30 e - - -\n- 2.68515 4.42267 2.77561 2.73137 3.46396 2.40555 3.72536 3.29346 2.67738 2.69336 4.24732 2.90389 2.73762 3.18188 2.89620 2.37913 2.77541 2.98488 4.58393 3.61545\n- 0.99897 0.76739 1.78668 1.38120 0.28939 0.75252 0.63710\n- 7 2.01028 4.28398 3.66082 3.08985 2.97287 3.65505 3.92688 2.35702 3.01758 2.25554 3.38280 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65348 5.37582 0.61958 0.77255 0.64741 0.74107\n- 351 1.60757 4.98620 3.28709 2.71741 4.27645 3.64411 3.83986 3.67676 2.35510 2.84763 4.09959 3.21008 4.04455 2.99483 1.91116 2.56478 3.07016 3.35647 5.50231 4.20016 491 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65348 5.37582 0.61958 0.77255 0.64741 0.74107\n- 352 2.54171 4.30431 4.13297 2.95723 3.42791 3.89062 4.19299 2.09704 3.45749 1.75547 3.41936 3.14229 4.25991 3.70372 3.68253 3.17243 3.03237 1.69327 4.94421 3.74472 492 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65348 5.37582 0.61958 0.77255 0.64741 0.74107\n- 353 2.24104 5.03145 3.12985 2.57067 4.29777 2.75509 3.32265 3.72433 2.52982 2.74731 4.10028 3.09438 3.96932 2.66101 1.93795 2.78283 2.57997 3.38040 5.51694 4.17162 493 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65348 5.37582 0.61958 0.77255 0.64741 0.74107\n- 354 1.74954 5.56764 1.74539 1.89519 4.89156 3.04454 3.92087 4.39380 2.78497 3.87298 4.65106 2.35218 4.06428 3.04809 3.32554 2.94672 3.27673 3.95416 6.01684 4.56014 494 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65348 5.37582 0.61958 0.77255 0.64741 0.74107\n- 355 2.32320 5.09708 2.74132 2.23876 4.37929 3.54947 2.06883 3.35450 2.51512 3.37522 4.15571 3.04692 3.94370 2.66311 2.99445 2.54745 2.98398 2.86091 5.56957 4.19973 495 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65348 5.37582 0.61958 0.77255 0.64741 0.74107\n- 356 2.55309 4.79071 3.26649 2.50514 3.98934 3.62186 3.83670 3.04504 2.47539 1.95573 3.87464 3.20165 2.55433 3.02865 2.78173 2.62383 2.74535 3.09996 5.32295 4.02523 496 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01426 4.65348 5.37582 0.61958 0.77255 0.51002 0.91751\n- 357 2.16010 5.22049 2.57726 2.09033 4.54382 3.54392 3.73410 4.01475 2.32599 2.82959 4.26705 2.72253 3.93746 2.64927 2.74801 2.48238 2.99419 2.87551 5.66629 4.26878 497 e - - -\n- 2.68491 4.42188 2.77645 2.73139 3.46239 2.40503 3.72600 3.29272 2.67867 2.69255 4.24531 2.90455 2.73695 3.18130 2.89661 2.37996 2.77570 2.98446 4.58062 3.61700\n- 1.34600 0.30748 5.42027 2.13486 0.12586 0.43801 1.03653\n- 358 2.18965 4.47841 3.69851 3.13013 3.04164 2.94059 4.02857 2.34763 3.08057 2.47587 3.58365 3.52455 2.99360 3.37768 2.58938 2.75559 2.55163 2.54834 5.06427 3.83433 531 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00883 4.73355 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsine_Endonuclease_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CARD_NLR__Trypsine_Endonuclease_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1973 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME CARD_NLR__Trypsine_Endonuclease_new\n-LENG 650\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jul 11 11:49:50 2023\n-NSEQ 18\n-EFFN 0.997559\n-GA 600 600;\n-CKSUM 2186255980\n-STATS LOCAL MSV -11.9885 0.69690\n-STATS LOCAL VITERBI -13.0821 0.69690\n-STATS LOCAL FORWARD -6.3452 0.69690\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44803 4.58280 2.84893 2.64184 3.30847 2.83189 3.67095 2.89499 2.73266 2.47731 3.71185 3.08506 3.33917 3.06097 2.85544 2.69477 2.84679 2.61596 4.51968 3.52822\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04442 4.18854 3.56570 0.61958 0.77255 0.00000 *\n- 1 3.22941 4.73664 4.38220 4.00835 3.37478 4.06383 4.67538 2.58175 3.75768 1.93323 0.90674 4.24627 4.53472 4.12474 3.92618 3.60458 3.54514 2.62033 5.24879 4.03239 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02328 4.16741 4.88975 0.61958 0.77255 0.51162 0.91510\n- 2 2.62394 4.86411 2.98565 2.44090 4.14063 3.42853 3.63951 3.56373 2.39978 3.14693 3.61427 2.38783 3.82911 2.62066 2.59709 2.28934 2.36306 3.22304 5.36780 4.02823 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02328 4.16741 4.88975 0.61958 0.77255 0.51162 0.91510\n- 3 2.66883 5.12253 2.32773 2.31023 4.43877 3.38496 3.19752 3.90886 2.18706 3.41365 4.17772 2.48548 3.81012 2.49293 2.86642 2.63409 2.35910 3.49922 5.56755 4.16670 3 k - - -\n- 2.68600 4.42244 2.77538 2.73051 3.46373 2.40525 3.72513 3.29373 2.67748 2.69310 4.24652 2.90341 2.73759 3.18144 2.89787 2.37906 2.77538 2.98537 4.58496 3.61522\n- 0.72990 1.24962 1.46350 1.23196 0.34492 0.51162 0.91510\n- 4 2.24793 4.52743 2.80738 2.32819 4.17049 3.14162 3.83334 3.54707 2.70206 3.21878 4.07168 2.98745 3.75268 3.03789 3.10396 1.58354 2.84164 3.15664 5.47224 4.16749 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03010 3.91393 4.63628 0.61958 0.77255 0.37971 1.15221\n- 5 2.65333 4.97365 2.97319 2.08200 4.26474 3.44082 3.61334 3.18778 2.22592 2.95259 4.03367 2.80357 3.83092 2.28130 2.44610 2.65182 2.87944 3.33576 5.42894 4.07958 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02328 4.16741 4.88975 0.61958 0.77255 0.51162 0.91510\n- 6 2.73262 5.23121 2.26736 1.98247 4.54865 2.47478 3.65607 4.03232 2.22226 3.52433 4.29329 2.82850 3.82853 2.44156 2.96741 2.48457 2.97594 3.60966 5.67231 4.24760 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02328 4.16741 4.88975 0.61958 0.77255 0.51162 0.91510\n- 7 2.87449 4.90196 3.43275 2.91133 4.43844 3.52744 3.81918 3.88380 2.22820 3.421'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.48576 0.95510\n- 643 2.50256 4.94819 2.65905 2.14240 4.22637 3.03603 3.30222 3.66758 2.38455 3.22461 3.34774 2.91450 3.80915 2.56735 2.86253 2.61592 2.49319 3.12621 5.42364 4.05688 794 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.48576 0.95510\n- 644 2.04670 4.65625 3.04315 2.34944 4.18142 2.60660 3.80853 3.60006 2.64983 3.21677 4.03215 3.05841 3.82706 2.97932 3.09554 2.12856 2.23296 3.21828 5.45881 4.14355 795 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.48576 0.95510\n- 645 2.08612 4.37254 3.44419 2.76029 3.55508 3.55347 3.86732 2.82964 2.85259 2.01849 3.50310 3.31106 2.99620 3.17329 3.21244 2.81907 2.85994 2.35659 5.00220 3.76260 796 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.48576 0.95510\n- 646 2.42806 5.09110 2.12791 2.20726 4.40417 2.91180 3.27835 3.86740 2.43845 3.39285 4.16782 2.86978 3.82096 2.76690 2.93595 2.30882 2.65070 3.47009 5.56596 4.16850 797 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.48576 0.95510\n- 647 2.77064 5.28189 1.83868 2.14649 4.59344 3.36182 3.28477 4.08226 2.50882 3.57294 4.34738 2.61237 3.84586 2.31907 3.02701 2.28654 3.01765 3.65799 5.72177 4.28731 798 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.48576 0.95510\n- 648 3.33108 4.60948 5.08705 4.55032 3.36242 4.70120 5.12203 1.25124 4.41944 1.25160 3.14694 4.76918 4.90425 4.56310 4.54225 4.07497 3.56897 1.82675 5.43629 4.32918 799 i - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67724 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.09498 2.48604 4.91089 0.38907 1.13224 0.48576 0.95510\n- 649 3.22155 4.49768 5.01850 4.50222 3.61737 4.64133 5.16610 1.54148 4.39610 1.88367 3.41019 4.71177 4.90088 4.62577 4.57078 4.02069 3.47392 0.97697 5.60819 4.42416 801 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.48576 0.95510\n- 650 3.15856 4.56992 4.59557 4.06055 2.54549 4.28983 4.55114 2.34819 3.92172 0.92007 3.04612 4.28789 4.58253 4.09525 4.07788 3.62863 2.99455 2.39877 4.98195 3.73478 802 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.18115 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__1TM_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__1TM_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,554 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__1TM_new\n-LENG 177\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 14:09:52 2021\n-NSEQ 20\n-EFFN 2.280273\n-CKSUM 2948398468\n-GA 25 25;\n-STATS LOCAL MSV -10.2964 0.70692\n-STATS LOCAL VITERBI -11.0051 0.70692\n-STATS LOCAL FORWARD -4.5813 0.70692\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46054 4.55982 3.05778 2.73899 3.27873 3.11398 3.80305 2.57847 2.70978 2.39065 3.60010 3.06326 3.49068 3.11491 2.84176 2.65381 2.75027 2.61241 4.57743 3.54282\n- 2.68642 4.42249 2.77544 2.73102 3.46283 2.40537 3.72519 3.29318 2.67765 2.69379 4.24168 2.90276 2.73731 3.18171 2.89825 2.37911 2.77544 2.98543 4.58501 3.61481\n- 0.96024 1.31514 1.05336 1.07580 0.41707 0.00000 *\n- 1 3.29123 4.60204 5.04139 4.46376 2.77470 4.56346 4.87034 1.47774 4.32744 1.51000 1.74551 4.63890 4.77017 4.39301 4.39424 3.90336 3.51259 2.28148 5.17536 4.08322 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26600 4.98835 0.61958 0.77255 0.73547 0.65254\n- 2 2.67230 5.03424 2.69066 2.14195 4.32270 3.46905 3.66364 3.77008 2.42417 2.75708 3.48776 2.54951 3.86168 2.33987 2.72273 2.66543 2.90348 2.85314 5.50195 4.12856 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01828 4.40682 5.12916 0.61958 0.77255 0.89522 0.52512\n- 3 2.49925 5.03344 2.98036 2.06051 4.31864 3.48064 3.67951 2.95931 2.27297 3.31043 4.09441 2.97869 2.60736 2.29215 2.90053 2.69066 2.92555 3.39136 5.50291 4.13738 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01828 4.40682 5.12916 0.61958 0.77255 0.55073 0.85927\n- 4 3.35725 4.65094 5.25313 4.67935 2.55032 4.66483 5.02243 1.08164 4.53120 1.89954 2.14763 4.79082 4.90031 4.60529 4.57174 4.01172 3.58601 2.04342 5.34218 4.22942 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01571 4.55730 5.27965 0.61958 0.77255 0.71128 0.67534\n- 5 2.71779 4.22824 4.06369 3.48163 3.33468 3.80046 4.09484 2.09113 3.37704 1.94835 3.33946 3.73465 4.17147 2.91173 3.59499 2.84370 2.24722 2.19474 4.83721 2.86859 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01571 4.55730 5.27965 0.61958 0.77255 0.71128 0.67534\n- 6 2.37459 5.21951 2.41592 2.42646 4.55942 2.89091 3.71866 4.03630 2.47697 3.53191 4.28344 2.24897 3.90941 2.43974 2.97188 2.23324 2.61132 3.61206 5.67770 4.27201 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01571 4.55730 5.27965 0.61958 0.77255 0.71128 0.67534\n- 7 1.79242 4.42463 4.02643 3.57137 1.32182 3.63924 4.27509 3.05679 3.51680 2.75991 3.73556 3.77306 2.96'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17426 4.52792 1.90302 0.61958 0.77255 0.80095 0.59584\n- 170 3.04280 4.49591 4.26333 2.99076 3.56646 4.18278 4.53244 1.05168 3.62405 2.04144 3.45915 4.07781 4.53045 3.95453 3.86378 3.51442 3.28544 2.05379 5.29141 4.08144 251 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01892 4.37259 5.09493 0.61958 0.77255 0.97037 0.47633\n- 171 2.73350 4.65979 3.56832 3.14564 4.28711 3.45760 4.13781 3.62604 2.81475 3.31220 4.22230 3.46753 4.05886 3.36894 2.52107 2.88087 0.96269 3.28007 5.58659 4.35359 252 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01892 4.37259 5.09493 0.61958 0.77255 0.77587 0.61675\n- 172 2.65986 4.70028 2.72911 2.77680 4.19702 2.66837 3.97249 3.56006 2.85409 3.23969 4.08075 3.22335 3.96385 3.16932 3.28756 2.76118 1.33925 2.71796 5.52199 4.22451 253 t - - -\n- 2.68624 4.42231 2.77526 2.73110 3.46360 2.40505 3.72501 3.29360 2.67747 2.69342 4.24696 2.90353 2.73726 3.18152 2.89807 2.37880 2.77526 2.98524 4.58483 3.61509\n- 0.12589 2.18344 5.17903 0.83189 0.57133 0.88551 0.53189\n- 173 2.73700 4.92555 3.00507 2.63703 4.46992 3.43097 3.91501 3.91283 2.71423 3.49168 4.29953 2.65560 3.96329 2.64178 3.15068 1.22628 2.66118 3.50480 5.69192 4.35283 258 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07303 4.45668 2.83316 0.61958 0.77255 0.88551 0.53189\n- 174 4.34000 5.35222 5.25316 5.10557 1.73526 4.91158 3.64073 3.98660 4.89553 3.20308 4.52273 4.47955 5.17475 4.62598 4.75401 4.30057 4.53762 3.91354 2.40883 0.66575 259 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40202 5.12437 0.61958 0.77255 0.94228 0.49387\n- 175 2.48189 5.17218 1.92492 1.69773 4.45371 3.45846 3.73041 3.92146 2.53507 3.45687 4.24226 2.94326 3.90525 2.85820 3.03195 2.74438 3.01298 3.53613 3.37462 4.23522 260 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40202 5.12437 0.61958 0.77255 0.94228 0.49387\n- 176 2.89281 5.22049 3.23148 2.62124 4.59173 2.98734 3.70109 4.00394 1.56780 2.95039 4.27866 3.11601 4.00236 2.31108 1.95559 2.87370 3.09716 3.63093 5.58953 4.29422 261 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07657 4.40202 2.78936 0.61958 0.77255 0.94228 0.49387\n- 177 2.74342 5.07066 3.05703 2.48977 4.38727 2.98570 3.65545 3.81630 2.12999 2.72605 4.13137 2.58076 3.89853 2.47790 1.96295 2.73530 2.96369 3.44889 5.49999 4.16565 262 r - - -\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40516 3.72498 3.29358 2.67716 2.69330 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58481 3.61507\n- 0.11506 2.21932 * 0.66106 0.72629 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,542 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__2TM_5\n-LENG 173\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jan 10 11:46:01 2022\n-NSEQ 37\n-EFFN 5.433472\n-CKSUM 674302532\n-GA 60 60;\n-STATS LOCAL MSV -10.3551 0.70725\n-STATS LOCAL VITERBI -10.9417 0.70725\n-STATS LOCAL FORWARD -4.9650 0.70725\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.26662 4.32236 3.24368 2.97560 3.09246 2.98723 3.89390 2.63360 2.76430 2.22514 3.52737 3.20399 3.53627 3.29912 3.11142 2.56544 2.78893 2.62469 4.29424 3.54324\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41828 6.14063 0.61958 0.77255 0.00000 *\n- 1 5.10862 6.44391 6.21918 6.13067 5.13721 5.43142 6.57367 4.58761 5.93919 3.70186 0.09535 6.21941 6.03486 6.24815 5.91531 5.48330 5.52522 4.72951 6.87418 5.81498 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12836 5.41828 2.15394 0.61958 0.77255 0.48576 0.95510\n- 2 2.13009 5.51474 2.76880 2.32900 4.85734 3.36037 3.34374 4.34158 2.70757 3.81897 4.55606 2.54504 3.12093 2.86059 2.92722 2.23357 1.99828 3.90405 3.90550 4.53942 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30767 5.29739 1.34770 0.61958 0.77255 0.88310 0.53358\n- 3 2.26840 5.35563 2.93719 2.40396 3.53014 3.06063 3.84303 4.16483 2.11590 3.12444 4.39971 2.48494 2.77603 2.68191 3.07353 2.58445 2.48143 3.73934 5.79610 4.39302 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03577 4.99978 3.56127 0.61958 0.77255 1.38798 0.28712\n- 4 2.40094 5.20327 2.43729 2.63654 3.73065 3.67131 3.32383 3.29043 2.05340 2.77779 4.26190 2.80743 3.14236 2.72467 3.11300 2.86711 2.81098 2.65663 5.67753 4.31024 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08015 4.97433 2.65772 0.61958 0.77255 0.87983 0.53589\n- 5 2.72706 4.07430 2.32180 2.20543 4.73832 3.36489 3.86563 4.22025 2.16506 3.18837 4.44119 2.81789 3.11960 2.96383 2.77187 1.96648 2.96267 3.27043 5.83515 4.42769 5 s - - -\n- 2.68631 4.42456 2.77488 2.73092 3.46590 2.40730 3.72456 3.29497 2.67898 2.69308 4.25010 2.90405 2.73345 3.17920 2.89687 2.37953 2.77355 2.98459 4.57985 3.61761\n- 1.71059 0.54367 1.43285 2.49323 0.08626 1.00098 0.45810\n- 6 2.54261 5.29311 2.24075 2.07024 3.57634 3.61220 3.80170 4.09038 1.99723 3.58985 4.33909 2.83772 3.56595 2.90484 3.03406 2.54456 2.86806 2.79882 5.73792 3.71918 89 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01127 4.88691 5.60926 0.61958 0.77255 1.50315 0.25158\n- 7 2.42175 5.26683 2.52772 2.14317 3.04626 3.61751 3.80900 3.25249 2.12431 3.55888 4.31587 2.76936 2.44148'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03542 5.39208 3.49841 0.61958 0.77255 0.59087 0.80709\n- 166 2.14764 4.51139 4.86012 3.49546 3.28789 3.55229 4.56949 2.22589 4.08604 1.68770 2.86104 4.33938 3.08255 4.25535 4.16653 2.99630 2.65013 1.85475 5.12979 3.94853 287 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04293 5.36364 3.28787 0.61958 0.77255 0.69101 0.69529\n- 167 2.56844 4.46415 5.02399 4.41053 2.63725 4.25258 4.58501 1.75901 4.20116 1.51023 3.58256 4.40665 3.57142 4.33720 4.21842 3.13936 3.00337 2.13315 5.08614 2.58265 288 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03658 5.32795 3.47167 0.61958 0.77255 0.80060 0.59613\n- 168 2.63807 3.54971 5.01694 3.54332 2.72829 3.35317 4.56783 1.82102 4.19051 1.97268 3.56297 4.39286 4.59882 4.32435 4.20359 3.54568 2.55289 1.62389 3.88297 3.37948 289 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03171 5.29882 3.64152 0.61958 0.77255 0.87943 0.53618\n- 169 2.74614 4.48990 4.52042 3.93168 2.32414 2.34001 4.43579 1.99609 3.80632 2.12295 3.60514 3.48474 4.49959 2.90353 3.40856 3.03526 2.73436 2.37051 3.61262 3.91176 290 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21733 5.23114 1.66080 0.61958 0.77255 0.77089 0.62102\n- 170 1.94182 4.41569 4.37470 3.78845 3.07446 2.67115 4.33308 1.75471 3.18869 2.17104 3.53028 4.00454 3.45590 3.29688 3.85926 3.31638 3.16514 2.66974 3.67514 3.16499 291 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04801 5.06181 3.20553 0.61958 0.77255 1.24013 0.34157\n- 171 2.91721 4.33298 4.64245 4.04218 2.12636 3.26286 4.37828 2.42959 3.87656 1.73163 3.45034 3.38848 3.44354 4.05178 3.26857 2.93517 3.14932 2.18223 3.66713 2.77314 292 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05562 5.02363 3.04655 0.61958 0.77255 1.29163 0.32134\n- 172 2.40544 3.52947 3.29994 2.74164 4.26087 2.87265 3.92102 2.83580 2.73304 3.28724 4.10790 2.81981 3.36987 2.79101 2.39192 2.03512 2.79261 2.92330 5.54450 4.21873 293 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13685 4.97829 2.11185 0.61958 0.77255 0.67372 0.71296\n- 173 2.18993 4.96682 2.90845 2.71428 3.32736 3.67693 3.88539 3.59427 2.47493 3.21727 4.04275 2.29687 4.06572 3.05073 2.77523 2.32252 3.06182 2.54109 3.73789 3.36652 294 a - - -\n- 2.68617 4.42080 2.77587 2.73137 3.46372 2.40509 3.72340 3.29244 2.67648 2.69351 4.24812 2.90409 2.73837 3.17983 2.89891 2.37864 2.77617 2.98398 4.58475 3.61626\n- 0.86465 0.54680 * 1.73052 0.19503 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_Gros.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_Gros.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,746 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__2TM_Gros\n-LENG 241\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 15:50:48 2021\n-NSEQ 423\n-EFFN 20.786613\n-CKSUM 645905878\n-GA 25 25;\n-STATS LOCAL MSV -10.5537 0.70327\n-STATS LOCAL VITERBI -12.1861 0.70327\n-STATS LOCAL FORWARD -4.5463 0.70327\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63969 4.45300 2.95001 2.61502 3.25154 2.85487 3.65917 2.79039 2.57999 2.47541 3.83855 2.99851 3.38977 3.13332 2.92338 2.53105 2.80493 2.89626 4.31768 3.29517\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04217 3.58280 4.30514 0.61958 0.77255 0.00000 *\n- 1 2.72851 4.31926 3.87991 3.39997 3.20363 3.70992 4.22494 2.08357 3.21018 1.80866 2.63588 3.70300 4.15612 3.57911 3.46933 3.08639 3.02955 1.80482 5.03230 3.77773 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04217 3.58280 4.30514 0.61958 0.77255 0.48576 0.95510\n- 2 2.75535 4.36808 3.84970 3.28093 3.44243 3.29234 4.04283 2.76105 3.05831 2.10518 1.52971 3.60607 4.14405 3.43989 2.97036 3.04517 2.99643 2.58930 4.96111 3.74898 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24590 4.38826 1.58194 0.61958 0.77255 0.48576 0.95510\n- 3 2.61425 4.18190 3.79617 3.21386 3.24868 3.65755 3.58837 2.26979 3.07088 2.36240 3.28551 3.51924 4.02970 3.37566 2.71038 2.92976 2.84505 2.01104 2.95977 3.50903 3 v - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67742 2.69356 4.24690 2.90347 2.73733 3.18147 2.89801 2.37888 2.77513 2.98519 4.58478 3.61504\n- 0.70049 3.18913 0.77122 0.63690 0.75275 0.75211 0.63746\n- 4 3.14377 3.67754 4.92690 4.39011 3.70218 4.20339 4.81714 2.54298 4.18312 2.49026 0.73363 4.44530 4.67022 4.40231 4.29448 3.33723 3.44544 2.61156 5.38848 4.20660 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26636 4.93105 1.48451 0.61958 0.77255 0.99830 0.45967\n- 5 2.56855 5.15494 2.96193 2.51219 4.45231 3.56175 3.17788 3.39464 2.09342 3.43944 3.62325 2.25771 3.95389 2.86868 2.44543 2.33403 2.99889 2.89309 5.61712 4.23750 7 k - - -\n- 2.68633 4.42279 2.77480 2.73160 3.46408 2.40494 3.72506 3.29378 2.67707 2.69357 4.24744 2.90334 2.73741 3.18201 2.89790 2.37865 2.77574 2.98529 4.58063 3.61490\n- 1.02852 0.44925 5.43507 1.00428 0.45620 0.54162 0.87180\n- 6 2.66667 5.35957 2.59203 2.08636 4.66358 3.74377 3.93570 3.41184 2.57610 1.80840 3.65495 2.61770 3.36291 2.74461 3.02575 2.74826 3.18415 3.36265 5.81764 4.43290 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16263 5.17224 1.93504 0.61958 0.77255 0.96190 0.48153\n- 7 2.92350 4.44772 3.71339 3.64817 2.25571 3.99823 4.28915 1.95764 3.55196 2.04771 3.18509 3.30898 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01774 4.43647 5.15882 0.61958 0.77255 0.53043 0.88759\n- 234 2.69233 5.16399 2.71935 2.15058 4.49652 3.43744 3.28179 3.96934 1.97278 3.45877 4.21209 2.90933 3.84419 2.51339 2.73287 1.99522 2.92366 3.54877 5.59756 4.19978 718 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01994 4.32105 5.04339 0.61958 0.77255 0.55995 0.84685\n- 235 2.50580 4.60300 2.93696 2.60718 3.81702 3.47486 3.73016 2.51896 2.60246 2.86296 3.71570 2.66937 2.73487 2.93678 3.03364 2.56557 2.84764 2.63083 5.16992 3.88028 719 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20012 4.92247 0.61958 0.77255 0.55995 0.84685\n- 236 2.60078 3.65337 3.54960 2.56545 2.47812 3.59781 3.85613 2.76661 2.92235 2.48512 3.07678 3.36481 3.97564 3.02424 2.82978 2.84839 2.83245 2.42777 4.86367 3.16999 720 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20012 4.92247 0.61958 0.77255 0.55995 0.84685\n- 237 2.57243 4.58055 3.10814 2.57407 3.86000 3.07238 3.65697 3.23600 2.24410 2.88559 3.73890 3.03822 3.82043 2.85206 2.42142 2.49091 2.82080 2.41534 5.16097 3.88577 721 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03066 3.89576 4.61811 0.61958 0.77255 0.49274 0.94405\n- 238 2.68852 5.01026 1.88471 2.16846 4.30058 2.45651 3.11049 3.82648 2.56813 3.38609 4.22244 2.72166 3.74588 2.82219 3.07607 2.65674 2.97133 3.44637 5.54655 4.12822 722 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03408 3.79198 4.51432 0.61958 0.77255 0.51943 0.90353\n- 239 2.46513 4.25722 3.21307 2.89377 3.47106 2.56297 3.87071 2.77658 2.78547 1.99155 3.63071 3.22098 3.77023 3.21303 3.06543 2.66056 2.82825 2.55691 4.96799 3.65164 723 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04135 3.60210 4.32445 0.61958 0.77255 0.51943 0.90353\n- 240 2.24630 4.09541 2.91923 2.76944 3.54151 2.83959 3.83367 3.03269 2.77849 2.81730 3.88314 3.04504 3.54335 3.20101 3.03237 2.04913 2.69678 2.71445 4.97695 3.63709 724 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04766 3.46315 4.18550 0.61958 0.77255 0.46527 0.98876\n- 241 2.51315 4.35970 3.07608 2.74516 3.59262 3.22920 3.76990 2.74340 2.26376 2.56406 3.64777 3.11911 3.78693 3.03922 2.76884 2.68030 2.84526 2.29863 5.06503 3.75218 725 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03055 3.50356 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,749 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__2TM_new\n-LENG 242\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 14:23:14 2021\n-NSEQ 20\n-EFFN 6.000977\n-CKSUM 870651167\n-GA 25 25;\n-STATS LOCAL MSV -10.5323 0.70323\n-STATS LOCAL VITERBI -11.7920 0.70323\n-STATS LOCAL FORWARD -5.0739 0.70323\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47088 4.42805 3.08545 2.75800 3.30020 2.88728 3.73881 2.73997 2.73592 2.37123 3.72267 3.05727 3.33398 3.07571 2.94524 2.57058 2.81710 2.65749 4.30362 3.51427\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10075 5.10183 2.41064 0.61958 0.77255 0.00000 *\n- 1 3.80485 5.15146 5.64172 5.17144 3.85336 5.00393 5.65105 2.60907 4.96327 2.23825 0.66407 5.27392 5.34195 5.11652 5.03520 4.43976 4.09266 1.78572 5.93316 4.82013 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00995 5.01103 5.73338 0.61958 0.77255 0.72557 0.66174\n- 2 2.94536 5.39488 3.11351 2.19393 4.71610 3.68934 3.90509 4.18555 2.65733 2.74053 4.44999 2.07465 4.10177 2.22886 3.14247 1.61364 3.17947 3.77465 5.84331 4.44573 2 s - - -\n- 2.68622 4.42322 2.77566 2.73138 3.46451 2.40491 3.72370 3.29366 2.67746 2.69405 4.24787 2.90216 2.73574 3.18039 2.89898 2.37926 2.77515 2.98616 4.58177 3.61600\n- 0.52292 0.90640 5.73338 1.70973 0.19957 0.72557 0.66174\n- 3 1.83912 4.51865 4.31142 3.73283 3.63740 2.39930 4.37123 2.97922 3.63573 1.90374 2.66936 3.99372 2.66117 3.87929 3.86451 3.34024 2.55058 2.31518 5.13518 3.93615 17 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12500 5.17308 2.19069 0.61958 0.77255 0.72557 0.66174\n- 4 2.99132 4.57915 4.13171 3.55790 3.69883 2.88409 4.31292 2.46780 3.48317 1.73522 2.44398 2.07178 4.40776 3.75197 3.76418 2.62289 2.50103 2.84101 5.18059 3.97041 18 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00837 5.18344 5.90578 0.61958 0.77255 0.97846 0.47143\n- 5 2.51224 5.22648 3.32657 2.76917 4.48316 3.78059 2.57789 3.91094 2.33589 2.23356 4.29192 3.29600 2.99910 2.50050 3.23434 2.23266 2.58377 2.80867 5.71626 4.36644 19 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00837 5.18344 5.90578 0.61958 0.77255 0.97846 0.47143\n- 6 2.96013 5.31075 3.27842 2.11187 4.59508 2.98348 3.95560 4.04027 2.27010 3.58967 2.98814 3.25725 4.15269 2.55214 3.19902 2.11943 2.65267 3.66834 3.29278 2.53027 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00837 5.18344 5.90578 0.61958 0.77255 0.97846 0.47143\n- 7 3.02756 4.78534 3.85227 2.64213 3.93135 3.98173 4.20594 1.86103 2.57403 1.83731 3.88459 3.68808 4.358'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41961 5.14196 0.61958 0.77255 1.15982 0.37621\n- 235 2.04348 4.32541 4.46750 3.92868 2.24884 3.98005 4.44741 2.31463 3.81135 2.34020 3.42523 4.08270 4.39587 4.02582 3.97804 3.31929 3.13955 1.32040 5.06253 3.82765 493 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41961 5.14196 0.61958 0.77255 1.15982 0.37621\n- 236 2.78325 4.28683 4.10159 3.53585 2.23664 3.86407 4.12852 2.57093 3.43291 1.82704 3.33060 2.46920 4.23107 3.67337 3.65422 3.15199 3.01872 1.89365 4.81842 3.55027 494 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41961 5.14196 0.61958 0.77255 1.15982 0.37621\n- 237 2.76581 5.19004 2.13650 2.39808 4.52359 3.45353 3.73355 3.99054 2.52346 3.50888 4.28281 2.94672 2.57729 2.16618 3.01825 2.73553 2.19131 3.58432 5.67455 4.27337 495 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41961 5.14196 0.61958 0.77255 1.15982 0.37621\n- 238 2.98247 5.31921 1.28744 2.46207 4.89456 3.39872 4.05413 4.42359 3.05487 3.96607 4.80262 3.00978 4.03965 3.22924 3.60948 1.43425 3.32764 3.94992 6.11098 4.66009 496 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41961 5.14196 0.61958 0.77255 1.15982 0.37621\n- 239 2.67202 4.32090 3.76487 3.22069 3.50145 2.38774 4.04264 2.10024 3.14960 1.98048 3.48226 3.54965 4.08552 3.43974 3.44900 2.19591 2.93472 2.56209 4.98534 3.76622 497 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41961 5.14196 0.61958 0.77255 1.15982 0.37621\n- 240 2.98819 5.56889 1.84645 1.74262 4.87824 3.43865 3.85705 4.39126 2.76216 3.86387 4.65579 2.02959 2.28342 2.99272 3.32098 2.89708 3.25094 3.94742 6.00728 4.52931 498 e - - -\n- 2.68629 4.42236 2.77531 2.73134 3.46365 2.40524 3.72356 3.29365 2.67752 2.69366 4.24701 2.90358 2.73751 3.18070 2.89812 2.37898 2.77467 2.98529 4.58488 3.61514\n- 1.06769 0.69882 1.83869 0.09927 2.35915 0.40860 1.09236\n- 241 1.89542 5.14424 3.07858 2.05572 4.43677 3.57257 3.76133 3.88310 2.49671 3.42302 4.20268 3.06658 3.96749 2.39004 2.40533 2.78004 3.01776 3.50845 5.60314 2.74472 500 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14607 4.66902 2.06734 0.61958 0.77255 0.90126 0.52097\n- 242 3.29339 4.55197 5.17609 4.69793 3.77341 4.74884 5.40242 0.97262 4.59930 2.23093 3.54796 4.88133 5.02679 4.85015 4.77315 4.16215 3.55926 1.23903 5.81428 4.61029 501 i - - -\n- 2.68650 4.42035 2.77539 2.73146 3.46372 2.40439 3.72478 3.29393 2.67889 2.69150 4.24838 2.90200 2.73765 3.18101 2.89733 2.38035 2.77539 2.98507 4.58237 3.61651\n- 0.54139 0.87212 * 2.75810 0.06551 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_type_IV.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__2TM_type_IV.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,617 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__2TM_type_IV\n-LENG 198\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Dec 4 11:13:17 2021\n-NSEQ 9\n-EFFN 1.595215\n-CKSUM 3195422722\n-GA 25 25;\n-STATS LOCAL MSV -10.3997 0.70548\n-STATS LOCAL VITERBI -11.0555 0.70548\n-STATS LOCAL FORWARD -4.8481 0.70548\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58575 4.51715 3.02124 2.68542 3.16741 3.25866 3.61878 2.66744 2.45676 2.28997 3.55487 3.15268 3.51952 3.12004 2.94134 2.63087 2.85948 2.67221 4.69620 3.59001\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47078 5.19313 0.61958 0.77255 0.00000 *\n- 1 3.33428 4.75547 4.90006 4.40472 3.44270 4.44992 4.98803 2.37483 4.20016 1.88521 0.96443 4.59455 4.81077 4.42940 4.34347 3.84805 3.61591 2.00092 5.43505 4.29420 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47078 5.19313 0.61958 0.77255 0.48576 0.95510\n- 2 2.41417 5.15714 2.92139 1.99812 4.48432 3.47556 3.69285 3.95061 2.15950 3.46084 4.22137 2.58147 3.88667 2.80325 2.93068 2.00907 2.57671 3.54199 5.61797 4.22406 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47078 5.19313 0.61958 0.77255 0.48576 0.95510\n- 3 2.74298 3.41613 2.96949 1.44385 4.35821 3.49384 3.75674 3.79470 2.53025 3.35994 4.15597 3.02745 3.92622 2.51935 2.99250 2.34385 2.98937 3.42861 5.56159 4.20164 3 e - - -\n- 2.68590 4.42249 2.77544 2.73120 3.46378 2.40498 3.72445 3.29378 2.67765 2.69356 4.24714 2.90371 2.73764 3.18171 2.89761 2.37894 2.77458 2.98508 4.58501 3.61527\n- 0.75439 1.21133 1.46143 1.17039 0.37142 0.48576 0.95510\n- 4 2.92293 5.51025 1.73262 1.91426 4.81042 3.34464 3.77654 4.32494 2.69083 3.79688 4.59649 1.91575 3.90174 2.33865 3.24986 2.82594 3.18725 3.88343 5.94093 4.45865 12 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21415 4.93649 0.61958 0.77255 0.63230 0.75794\n- 5 2.33266 4.75627 3.09811 2.56890 4.00410 2.86202 3.72909 2.45428 2.05005 3.03235 3.86752 2.61369 3.89606 2.90395 2.96574 2.72323 2.89886 3.09269 5.30287 3.99452 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02035 4.30051 5.02286 0.61958 0.77255 0.54793 0.86309\n- 6 2.66666 4.70122 3.18505 2.33702 3.89739 3.53649 3.07767 2.79014 2.58655 2.93941 2.69839 3.11666 3.92284 2.57882 2.61180 2.75216 2.89713 3.01037 5.23044 3.12109 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01882 4.37826 5.10061 0.61958 0.77255 0.40876 1.09206\n- 7 2.72515 5.07448 3.04066 1.99915 4.37171 3.51472 3.69205 3.81197 2.01743 2.86795 4.13226 3.00954 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08903 4.47078 2.60715 0.61958 0.77255 0.48576 0.95510\n- 191 2.76677 5.16392 3.00041 2.47435 4.52319 2.50466 3.68996 3.97290 1.69688 3.46990 4.24261 2.58211 3.91400 2.80275 2.40739 2.40776 2.99641 3.57149 5.60707 4.24740 206 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19355 4.40015 1.80975 0.61958 0.77255 0.59306 0.80438\n- 192 2.59235 3.16040 3.48601 2.92980 3.54274 2.74037 3.86742 2.20677 2.44404 2.61246 3.50240 3.32406 3.95563 3.18595 3.21610 2.42700 2.84652 2.65267 4.97839 3.74304 207 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02189 4.22850 4.95084 0.61958 0.77255 0.79134 0.60374\n- 193 2.70363 5.17300 2.15073 2.33638 4.50551 2.78566 3.63372 3.97733 2.12625 3.46640 4.22740 2.88372 3.83590 2.31841 2.45742 2.66419 2.93709 3.55917 5.60507 4.20709 208 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02189 4.22850 4.95084 0.61958 0.77255 0.79134 0.60374\n- 194 2.62088 4.60004 2.69664 2.62370 3.07252 3.50623 3.72409 3.17077 2.60262 2.83245 3.68820 2.58398 3.89305 2.93993 2.62241 2.72628 2.85249 2.53802 3.45773 3.82495 209 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02189 4.22850 4.95084 0.61958 0.77255 0.79134 0.60374\n- 195 2.62754 4.52975 2.74549 2.69749 3.68962 3.53101 2.89910 2.60340 2.67413 2.16544 3.62031 3.16505 3.91984 3.00639 3.08285 2.76391 2.49793 2.80456 5.08281 3.80827 210 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02189 4.22850 4.95084 0.61958 0.77255 0.79134 0.60374\n- 196 2.74033 5.23914 2.02423 2.04664 4.56199 3.38430 3.66828 4.04612 2.46329 3.53599 4.30144 2.43868 3.84378 2.78465 2.49293 2.24785 2.98278 3.62106 5.68117 4.25822 211 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02189 4.22850 4.95084 0.61958 0.77255 0.79134 0.60374\n- 197 2.72516 4.93870 3.05018 2.15221 4.13307 3.50371 2.22958 3.61965 2.08145 3.19050 4.01059 3.02270 3.89792 2.81652 2.74307 2.74412 2.94817 3.29184 3.37953 4.01264 212 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11174 4.22850 2.39529 0.61958 0.77255 0.79134 0.60374\n- 198 2.74143 5.14295 2.67168 2.03481 4.46964 3.37997 3.66706 3.92735 2.10992 3.44609 4.23720 2.38654 3.84585 2.79645 2.88695 1.94210 2.98545 3.53413 5.60907 4.22178 213 s - - -\n- 2.68642 4.42250 2.77488 2.73061 3.46378 2.40517 3.72519 3.29379 2.67739 2.69379 4.24714 2.90301 2.73764 3.18171 2.89756 2.37888 2.77544 2.98500 4.58501 3.61528\n- 0.41750 1.07498 * 1.34461 0.30197 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__4TM_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__4TM_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,788 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__4TM_new\n-LENG 255\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 14:31:45 2021\n-NSEQ 20\n-EFFN 2.719727\n-CKSUM 196092924\n-GA 30 30;\n-STATS LOCAL MSV -10.8913 0.70272\n-STATS LOCAL VITERBI -11.4528 0.70272\n-STATS LOCAL FORWARD -5.1762 0.70272\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50332 4.44936 3.24262 2.70899 3.03962 3.31182 3.85489 2.67351 2.71557 2.28881 3.47334 3.05081 3.72924 3.12791 2.95564 2.57493 2.83300 2.60127 4.31655 3.26824\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04979 4.85105 3.20033 0.61958 0.77255 0.00000 *\n- 1 4.06878 5.49952 5.28289 5.04772 4.08294 4.70331 5.57175 3.38832 4.77543 2.60858 0.31146 5.18682 5.24030 5.11885 4.84829 4.46481 4.43300 3.49174 5.96275 4.79789 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01214 4.81340 5.53575 0.61958 0.77255 0.57174 0.83136\n- 2 2.22005 5.15670 3.12674 2.57333 4.45682 3.60327 3.80815 3.90315 2.10186 2.87601 4.22750 2.61422 3.07413 2.92844 3.04810 1.97601 2.46333 3.52664 5.63951 4.26854 2 s - - -\n- 2.68534 4.42289 2.77550 2.73046 3.46418 2.40553 3.72468 3.29418 2.67726 2.69355 4.24660 2.90411 2.73729 3.18107 2.89801 2.37890 2.77506 2.98496 4.58541 3.61568\n- 0.54518 1.03601 2.72731 1.61553 0.22163 0.57174 0.83136\n- 3 3.18416 5.44681 3.57806 2.92052 4.85224 3.89071 3.89425 2.98944 1.36349 3.69171 4.51067 2.67418 4.25148 3.01421 1.43355 3.16763 3.37079 3.87736 5.77184 4.52793 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07118 4.74998 2.81256 0.61958 0.77255 0.69567 0.69063\n- 4 2.76960 4.55329 3.55121 2.98721 3.69911 3.72111 3.96408 3.06587 2.38455 2.13631 3.65408 2.84849 4.10321 3.25995 3.31192 2.29772 3.00136 1.97724 5.12450 2.93534 18 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01371 4.69251 5.41486 0.61958 0.77255 0.79045 0.60448\n- 5 2.78400 5.16125 1.60972 2.23079 4.45519 3.56099 3.76825 3.07943 2.53266 3.44460 4.21963 3.05192 3.96295 2.88670 2.62130 2.50901 3.01686 3.05788 5.62783 4.24881 19 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01371 4.69251 5.41486 0.61958 0.77255 0.79045 0.60448\n- 6 2.79203 4.98662 3.14829 2.44046 4.53079 2.29412 3.99927 3.97058 2.82357 3.55280 4.35117 3.22019 1.78689 3.15099 3.28649 2.54950 1.94660 3.56045 5.76360 4.42143 20 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01371 4.69251 5.41486 0.61958 0.77255 0.79045 0.60448\n- 7 2.78805 4.23178 4.37169 3.77962 3.31904 3.91178 4.22193 1.85515 3.63683 1.80032 3.33121 3.93889 3.186'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01169 4.85105 5.57340 0.61958 0.77255 0.48576 0.95510\n- 248 2.50170 5.33816 2.65569 1.95043 4.68307 3.11323 3.78571 4.16833 1.99126 3.64249 4.37966 3.06294 3.99206 2.49570 2.09126 2.58131 3.06006 3.72888 5.76974 4.35949 304 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07343 4.85105 2.76497 0.61958 0.77255 0.48576 0.95510\n- 249 2.60230 4.26226 4.40971 3.81723 3.35832 3.94289 2.80014 1.47799 3.67391 2.01327 3.37500 3.97291 4.30999 3.87483 3.81223 3.23675 2.64691 2.35258 4.87816 2.92946 305 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.79005 5.51240 0.61958 0.77255 0.62011 0.77195\n- 250 3.67004 5.79918 4.22293 3.36068 5.40438 4.23275 4.01260 4.67095 0.99692 3.99252 4.86405 3.71498 4.54732 2.05440 1.40825 3.62997 3.77970 4.34441 5.94247 4.84871 306 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.79005 5.51240 0.61958 0.77255 0.62011 0.77195\n- 251 2.11966 5.25097 3.06737 2.38721 4.57393 2.61385 3.76750 4.04380 2.10563 3.23820 4.29785 2.64828 3.97159 2.34756 2.74189 2.76999 2.74214 3.12885 5.69683 4.30077 307 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.79005 5.51240 0.61958 0.77255 0.62011 0.77195\n- 252 2.34570 5.30488 2.35222 2.09845 4.64718 3.57096 3.76070 4.13111 2.11879 3.60863 4.34677 3.03931 3.96642 2.66778 2.39684 2.49041 2.37706 3.69413 5.73868 4.32937 308 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.79005 5.51240 0.61958 0.77255 0.62011 0.77195\n- 253 2.81328 3.37660 4.63010 4.02462 2.91102 3.96652 4.29182 2.28838 3.84083 1.55109 3.32549 4.07918 4.33109 3.99935 3.01962 3.27140 2.56664 2.26892 4.83055 2.33395 309 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01243 4.79005 5.51240 0.61958 0.77255 0.62011 0.77195\n- 254 2.87917 5.36226 2.99796 2.35361 4.69886 2.12432 3.81974 4.17564 2.08171 3.66087 4.41462 1.86218 4.02023 2.57764 3.03780 2.83963 2.64168 3.75032 5.79719 4.39339 310 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08121 4.79005 2.66375 0.61958 0.77255 0.41008 1.08944\n- 255 2.81751 4.38435 4.00060 3.42497 3.50061 3.03473 4.14770 1.51417 2.79068 1.96501 3.04169 2.96352 4.24129 3.60252 3.59030 3.13759 3.04956 2.62628 4.98874 3.78212 311 i - - -\n- 2.68548 4.42187 2.77453 2.73112 3.46404 2.40558 3.72506 3.29288 2.67686 2.69428 4.24783 2.90200 2.73812 3.18079 2.89816 2.37905 2.77591 2.98514 4.58570 3.61596\n- 0.64182 0.74725 * 1.72946 0.19526 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__AG_E1_ThiF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__AG_E1_ThiF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,759 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__AG_E1_ThiF\n-ACC PF00899.22\n-DESC ThiF family\n-LENG 244\n-ALPH amino\n-RF yes\n-MM no\n-CONS yes\n-CS yes\n-MAP yes\n-DATE Sat Apr 4 21:14:12 2020\n-NSEQ 53\n-EFFN 5.308411\n-CKSUM 1087067748\n-GA 25 25;\n-BM hmmbuild --handHMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.7869 0.70315\n-STATS LOCAL VITERBI -11.5556 0.70315\n-STATS LOCAL FORWARD -5.2367 0.70315\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47925 3.95961 2.90461 2.76330 3.38164 2.66920 3.79426 2.88185 2.73222 2.45183 3.81671 3.01237 3.18819 3.14617 2.92300 2.62734 2.83001 2.63297 4.78715 3.66765\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03650 5.39813 3.46347 0.61958 0.77255 0.00000 *\n- 1 3.12116 4.67309 4.33960 3.33510 2.72092 4.17594 3.30103 3.13683 3.66382 1.91166 3.78463 4.05551 4.54828 3.92812 2.92709 3.44759 2.35573 2.93420 5.22709 1.37067 1 y x - T\n- 2.68622 4.42244 2.77539 2.73142 3.46341 2.40499 3.72514 3.29347 2.67722 2.69331 4.24709 2.90312 2.73759 3.18165 2.89784 2.37906 2.77539 2.98518 4.58496 3.61450\n- 0.39674 2.32206 1.47221 1.13589 0.38734 0.60113 0.79450\n- 2 2.38450 5.42051 1.94563 2.56387 4.75881 3.47604 3.89039 4.23998 2.62873 3.58899 4.46370 3.02993 2.61696 2.70515 2.84465 1.87657 2.84590 3.65774 5.85788 4.45091 9 s x - H\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29289 2.67745 2.69359 4.24694 2.90351 2.73744 3.18151 2.89769 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.11449 2.25142 5.83325 0.19665 1.72306 0.42324 1.06398\n- 3 2.77068 5.57433 3.39486 2.83744 4.94713 3.27601 4.05823 4.41090 2.11373 3.88836 4.64340 2.95375 3.77318 3.16178 1.09484 2.31619 3.35645 3.98766 6.01089 4.63554 11 r x - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00731 5.31833 6.04068 0.61958 0.77255 0.76494 0.62616\n- 4 3.02316 5.52564 2.90154 2.71869 4.86796 3.79744 3.07895 4.35131 2.32719 2.66378 4.56721 2.31974 3.69497 1.49816 2.60441 2.83397 3.25415 3.91484 5.95952 3.94961 12 q x - H\n- 2.68617 4.42001 2.77525 2.73178 3.46344 2.40544 3.72493 3.29321 2.67761 2.69308 4.24438 2.90390 2.73764 3.18202 2.89829 2.37881 2.77543 2.98476 4.58102 3.61507\n- 0.40028 1.41769 2.43508 1.35491 0.29837 0.63269 0.75750\n- 5 2.66269 3.80552 4.83649 3.80674 3.53691 3.58278 4.51432 1.76600 4.05233 1.58468 3.01667 4.29564 4.55527 4.21471 2.39435 3.49361 2.87924 2.38111 5.06107 2.95448 19 l x - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14689 5.25350 2.02965 0.61958 0.77255 0.93390 0.49926\n- 6 1.68438 4.77727 3.48656 3.10064 3.51586 2.87220 4.11799 2.88982 2.86786 2.40060 3.57427 3.54841 3.25388 3.28022 2.82526 2.46302 3.17580 2.68311 5.34336 3.43144 20 a x - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03931 5.11557 3.42512 0.61958 0.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07229 5.33992 2.73423 0.61958 0.77255 0.45579 1.00498\n- 237 2.26309 5.52731 2.56288 2.34043 4.87066 2.46970 3.08485 3.74133 2.56974 2.84320 4.56842 2.66667 2.73773 2.90101 2.93761 2.50589 2.90183 3.91702 5.96102 4.55109 787 a x - E\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00730 5.31983 6.04218 0.61958 0.77255 0.42763 1.05570\n- 238 2.09720 5.54459 2.95343 2.55784 4.13493 3.82807 4.01589 3.68819 2.03017 3.36196 4.58719 2.81143 2.29188 2.94689 2.41544 2.44657 2.91759 3.50026 5.98171 4.57524 788 k x - E\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12416 5.38054 2.18784 0.61958 0.77255 0.50647 0.92287\n- 239 2.81665 5.49885 2.12116 2.30932 3.05753 3.77306 3.42074 3.53200 2.02064 3.26680 4.32495 2.70699 2.73465 2.82912 2.83353 2.85110 2.81765 3.88732 5.93396 4.52545 789 k x - E\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03689 5.27264 3.47094 0.61958 0.77255 0.88801 0.53013\n- 240 2.83703 2.80573 2.58699 2.62155 4.76238 3.22191 3.80381 3.43389 2.38373 3.73558 3.07722 2.50490 2.77016 2.70851 2.92621 2.24880 3.07313 3.28330 5.88657 4.48974 790 s x - E\n- 2.68605 4.42347 2.77554 2.73164 3.46367 2.40464 3.72039 3.29361 2.67731 2.69423 4.24811 2.90322 2.73776 3.18192 2.89783 2.37915 2.77520 2.98542 4.58456 3.61427\n- 0.58593 0.83991 4.45123 1.64793 0.21375 0.44578 1.02256\n- 241 2.79771 4.35984 2.79486 2.17919 4.88850 2.91858 3.99317 4.37453 1.85834 2.78731 4.58395 2.41279 4.19962 2.62961 2.21288 2.62955 3.19375 3.93402 5.97590 4.56492 801 k x - C\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03764 5.34335 3.43706 0.61958 0.77255 0.65440 0.73346\n- 242 2.77929 1.14353 3.35974 2.75840 4.45693 3.88196 4.09059 3.86856 2.55605 3.47964 4.29907 2.90202 4.27490 3.24771 3.07126 2.56875 3.28367 3.55318 5.73120 3.53358 802 c x - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01274 5.31845 4.85856 0.61958 0.77255 0.76458 0.62647\n- 243 2.83438 3.97009 3.04075 2.37685 3.75731 3.48017 4.08495 3.18634 2.66779 2.12986 4.24232 3.18948 2.58240 3.25027 2.51439 2.72186 2.63730 3.48834 3.28616 3.68548 803 l x - T\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00735 5.31306 6.03540 0.61958 0.77255 0.78025 0.61303\n- 244 2.20100 3.06414 4.28786 3.34216 3.32535 3.12321 3.57071 2.76707 3.10292 2.42045 3.72548 3.59669 4.49424 3.88063 3.87987 2.53147 2.40495 1.73320 5.21679 3.41651 804 v x - T\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00495 5.31066 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__AG_E2_Prok-E2_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__AG_E2_Prok-E2_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,429 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__AG_E2_Prok-E2_B\n-ACC PF14461.7\n-DESC Prokaryotic E2 family B\n-LENG 134\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 22 15:56:32 2020\n-NSEQ 9\n-EFFN 3.396973\n-CKSUM 3796958067\n-GA 25 25;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.7664 0.71135\n-STATS LOCAL VITERBI -10.6801 0.71135\n-STATS LOCAL FORWARD -4.6767 0.71135\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49971 4.14585 2.89954 2.53611 3.30298 3.00624 3.50365 3.04757 2.76705 2.40317 3.93136 3.08421 3.13205 2.92420 2.97562 2.68762 2.92762 2.74205 4.17388 3.33494\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.00000 *\n- 1 2.23922 2.56810 2.43235 2.94611 4.04741 3.79240 4.03662 3.42941 2.92487 1.82375 3.95843 3.42074 4.18728 3.25836 2.63260 2.43194 3.13872 3.16272 5.41631 4.13709 1 l - - -\n- 2.68644 4.42251 2.77546 2.73149 3.46380 2.40502 3.72521 3.29380 2.67710 2.69273 4.24716 2.90373 2.73766 3.18172 2.89827 2.37871 2.77546 2.98390 4.58503 3.61529\n- 0.41344 1.72362 1.83129 1.19517 0.36047 0.48576 0.95510\n- 2 1.50396 4.81886 3.52333 3.02395 4.25858 2.12024 4.14172 3.62962 3.01297 3.30551 4.15341 3.45279 4.15347 2.17434 3.42343 2.94815 3.13847 2.23427 5.60152 4.32285 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01164 4.85463 5.57697 0.61958 0.77255 0.86019 0.55006\n- 3 2.99341 5.28239 1.77618 1.67606 2.29197 3.70176 3.93174 3.97572 2.80255 3.53042 4.35640 3.20067 4.14106 3.11640 3.28970 2.98588 3.23247 3.63228 5.53621 2.76554 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01164 4.85463 5.57697 0.61958 0.77255 0.86019 0.55006\n- 4 3.13972 5.37927 3.51326 2.90087 4.72314 3.87537 3.93702 4.11954 2.00512 2.02012 4.44712 1.71332 4.24848 3.06581 1.79759 3.13844 3.34067 3.77770 5.75740 4.48591 9 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01164 4.85463 5.57697 0.61958 0.77255 0.30734 1.32953\n- 5 4.32597 5.52956 5.48148 5.15735 2.63615 5.11828 1.89333 4.09280 4.93924 1.67492 4.67937 4.81472 5.41625 4.88144 4.92096 4.47201 4.53860 3.96791 1.35710 1.61759 10 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.48576 0.95510\n- 6 2.23711 4.72512 3.64545 3.08133 3.88340 3.84249 4.08778 3.25338 3.04403 2.06829 3.82755 3.52313 2.85596 3.36481 2.61723 2.14884 2.55003 3.01238 2.76251 4.04439 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.6195'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.48576 0.95510\n- 127 2.89106 5.38325 3.14170 2.18729 4.72114 2.61682 3.85403 4.20158 2.59070 2.83353 4.42632 2.60164 3.01771 2.25149 2.46400 2.07911 3.12225 3.77014 5.82007 4.41409 162 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.48576 0.95510\n- 128 1.93757 5.21131 3.22683 1.70134 4.48407 3.70272 3.90094 3.92135 2.23233 2.64767 4.27329 3.20718 4.09579 3.02869 3.14374 2.44991 3.13023 3.56290 5.68988 2.99572 163 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.48576 0.95510\n- 129 2.38961 5.30159 3.17805 1.95391 4.60801 3.67876 3.87032 2.97624 2.18880 2.84012 4.35287 3.16317 2.65430 2.49446 3.10581 2.26099 3.12072 3.67131 5.75809 4.37223 164 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.48576 0.95510\n- 130 2.96440 5.48556 1.95105 2.21189 4.82524 2.83339 3.91076 4.31500 2.18731 3.78882 4.53183 2.49690 2.21360 3.01319 3.17204 2.91854 2.58353 3.87412 5.91838 4.49789 165 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.48576 0.95510\n- 131 2.89462 5.04050 2.64778 2.77120 4.26396 3.73790 3.94655 2.84297 2.76320 2.65935 4.11604 2.57755 2.64333 2.57141 3.21999 2.40984 3.12612 2.08431 5.55428 4.23166 166 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00981 5.02543 5.74778 0.61958 0.77255 0.48576 0.95510\n- 132 2.03161 4.48336 4.18456 3.60823 2.05301 3.99968 4.26835 2.93558 2.15769 2.67588 3.59510 3.89229 4.37316 3.76826 3.75483 3.27415 3.17282 2.06157 5.04495 2.33672 167 a - - -\n- 2.68656 4.41869 2.77557 2.73088 3.46392 2.40498 3.72532 3.29264 2.67778 2.69323 4.24727 2.90384 2.73777 3.18070 2.89753 2.37924 2.77481 2.98556 4.58515 3.61541\n- 0.21847 2.13351 2.55324 1.86938 0.16749 0.48576 0.95510\n- 133 2.33673 4.39653 4.20224 3.62083 2.56406 3.95542 4.24900 2.85140 3.52041 1.77404 2.61799 3.88157 4.32756 3.76315 2.68668 2.57424 2.22408 2.65261 5.00377 3.80520 176 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09567 4.94786 2.47533 0.61958 0.77255 0.38046 1.15057\n- 134 2.91633 4.36506 4.51042 3.92566 2.51077 2.87038 4.36793 2.75590 3.78597 1.96397 3.47435 4.07747 2.10137 3.98575 3.92536 3.33320 3.15485 1.56427 4.98997 3.79744 177 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00715 4.94438 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__A_Cyclase_AGS_C.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__A_Cyclase_AGS_C.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,411 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__A_Cyclase_AGS_C\n-ACC PF18134.2\n-DESC Adenylyl/Guanylyl and SMODS C-terminal sensor domain\n-LENG 128\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 06:59:23 2020\n-NSEQ 58\n-EFFN 3.040894\n-CKSUM 1458183542\n-GA 20 20;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.8467 0.71221\n-STATS LOCAL VITERBI -10.9966 0.71221\n-STATS LOCAL FORWARD -4.3968 0.71221\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62248 4.16489 3.00238 2.57121 3.31551 2.91320 3.47359 2.80513 2.58089 2.68219 3.79778 2.92044 3.46728 3.04078 2.84980 2.68262 2.85803 2.58901 4.41043 3.40229\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.00000 *\n- 1 2.58974 5.28461 2.65593 2.35309 2.93888 3.35005 3.82785 3.88808 2.29051 2.43891 4.33355 3.04039 3.40559 2.75741 2.50345 2.29837 2.91716 3.65849 5.73629 4.34484 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 2 2.45381 5.35779 2.21490 2.16566 4.06630 3.62434 3.49931 4.18654 2.24147 3.66249 4.39882 2.23809 3.12791 2.76633 2.88127 2.52953 2.86593 3.58194 5.79128 4.19520 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 3 2.40232 4.35261 4.32418 3.73752 2.73765 3.97323 3.24431 2.69322 3.61962 2.36091 3.19218 3.55942 3.79243 3.84128 3.80378 2.69076 1.89760 2.33987 3.08068 2.94914 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 4 2.65858 5.31575 2.66789 1.53372 3.43681 3.63295 3.82337 3.65951 2.49393 3.61254 4.36192 3.10836 2.62686 2.92662 2.54817 2.57554 3.08458 3.69573 5.76046 4.36162 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 5 2.72095 5.35625 3.10836 1.62785 4.69760 3.63196 2.58414 4.17898 2.08727 3.65857 4.39853 3.10131 4.02579 2.37567 2.91731 2.43574 2.89382 3.74503 5.78979 3.88557 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 6 2.70821 4.61566 3.54944 3.13010 1.61884 3.83218 3.77299 3.12102 2.90806 2.78230 3.39806 3.54859 4.21240 3.15723 2.50243 2.74314 2.91005 2.64207 5.19321 2.98423 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.0'..b'.68626 4.42233 2.77527 2.73131 3.46362 2.40521 3.72502 3.29362 2.67749 2.69363 4.24635 2.90355 2.73748 3.18154 2.89809 2.37817 2.77527 2.98526 4.58485 3.61511\n- 0.24922 1.52736 5.65989 0.12873 2.11372 0.48576 0.95510\n- 121 2.52359 5.37287 1.70330 2.35268 4.71318 2.60362 3.51338 4.19731 2.49297 3.67614 4.41596 2.98732 4.03078 2.92674 2.44537 2.44785 2.87158 3.76119 5.80777 4.39704 179 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 122 2.70154 5.21104 3.16930 2.28768 4.49803 3.65324 3.12904 3.21601 2.42403 3.17955 4.08640 3.09162 2.91545 2.65018 1.82569 2.80814 3.08493 3.31437 3.54728 4.30774 180 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 123 2.90308 4.31122 4.65171 4.05378 1.96297 4.04746 3.34445 1.37253 3.87886 2.48550 3.42338 4.13536 4.41248 3.69996 3.96098 3.12073 3.13558 2.03928 4.90758 3.70455 181 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 124 2.80831 5.20864 2.22768 2.49325 3.68873 2.30468 3.09666 2.96221 2.36496 3.39506 4.26528 3.01477 3.02096 2.96616 3.03082 2.84685 2.99329 3.05923 5.67825 3.70970 182 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 125 3.79682 4.98332 5.91655 5.49190 4.41504 5.45285 6.35633 1.52339 5.45410 2.79674 4.12325 5.65223 5.67954 5.74348 5.64377 4.92504 4.06803 0.50694 6.62431 5.37682 183 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 126 2.85400 5.10502 3.02820 2.66738 3.86725 3.67460 3.32917 3.54343 2.36113 3.36984 3.43718 2.13341 2.10253 3.01449 2.93324 2.87467 3.08527 3.02205 5.59733 3.01244 184 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 127 3.81487 5.00316 5.92406 5.49868 4.35917 5.45587 6.33925 0.52978 5.45309 2.72451 4.07178 5.66004 5.67765 5.72077 5.62988 4.92953 4.08563 1.48690 6.57885 5.35254 185 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93755 5.65989 0.61958 0.77255 0.48576 0.95510\n- 128 2.65997 5.33976 2.94053 2.22257 4.67600 3.06422 3.81534 3.52353 2.19407 3.49143 4.38275 2.62069 4.02064 2.69402 2.24100 2.44327 2.63528 3.52846 5.77775 3.06900 186 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00722 4.93406 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Cyclase_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Cyclase_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1037 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__Cyclase_II\n-LENG 338\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 18:53:23 2021\n-NSEQ 99\n-EFFN 4.027313\n-CKSUM 430712142\n-GA 20 20;\n-STATS LOCAL MSV -10.9160 0.70037\n-STATS LOCAL VITERBI -11.8376 0.70037\n-STATS LOCAL FORWARD -5.6040 0.70037\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53623 4.40365 2.72343 2.59064 3.38864 3.02322 3.76332 2.91343 2.52299 2.56375 3.79668 3.00497 3.26688 3.01706 2.87702 2.60814 2.83518 2.76998 4.53163 3.51700\n- 2.68490 4.42327 2.77596 2.73176 3.46355 2.40553 3.72596 3.29289 2.67775 2.69313 4.24352 2.90341 2.73805 3.18164 2.89802 2.37855 2.77515 2.98429 4.58579 3.61605\n- 0.48137 1.75541 1.56433 2.46051 0.08926 0.00000 *\n- 1 2.91351 4.46055 4.16106 3.57986 3.56345 3.97164 4.26210 2.88485 3.45339 2.30741 1.28921 3.86788 3.13893 3.73404 2.83882 3.24881 2.87469 2.32415 5.06899 3.86941 48 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01061 4.94749 5.66983 0.61958 0.77255 0.36744 1.17930\n- 2 1.53765 5.08652 2.95481 2.75641 4.31067 3.78019 3.98773 3.71940 2.80295 2.89286 2.41033 3.14643 2.92498 2.92477 3.00510 2.71638 3.16832 3.18359 5.59924 3.67880 49 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00890 5.12232 5.84467 0.61958 0.77255 0.42308 1.06429\n- 3 2.74158 5.45337 2.35243 2.37154 4.79690 3.32413 3.90706 4.28194 2.40820 3.75799 3.60993 1.85904 4.11303 2.71831 3.02659 2.21400 2.37776 3.84320 5.88689 4.47662 50 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00858 5.15789 5.88024 0.61958 0.77255 0.48576 0.95510\n- 4 2.18068 3.70196 4.88042 4.27034 2.93561 4.15319 4.48309 2.07854 4.07181 1.30948 3.32604 4.29068 3.51703 3.60309 4.10661 3.46132 2.79221 2.26118 4.99923 3.82163 51 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00858 5.15789 5.88024 0.61958 0.77255 0.48576 0.95510\n- 5 2.63767 5.44753 2.94398 2.64079 4.78929 3.71968 2.74473 4.27281 2.28672 3.25367 4.48913 2.79433 3.56635 1.60323 2.99694 2.37061 2.68557 3.83641 5.88211 4.47332 52 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00858 5.15789 5.88024 0.61958 0.77255 0.48576 0.95510\n- 6 2.61131 5.45762 2.94130 2.44927 4.80302 3.71961 3.90676 4.28882 1.78157 3.76273 4.49839 2.53472 4.11348 2.49970 2.34516 2.23681 2.31920 3.84847 5.88976 4.47914 53 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00858 5.15789 5.88024 0.61958 0.77255 0.48576 0.95510\n- 7 2.67553 5.37319 3.23154 2.32824 4.68419 3.73587 3.92665 4.14631 2.23407 2.09462 4.42318 2.82440 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11149 5.83384 0.61958 0.77255 0.54474 0.86748\n- 331 2.44781 5.33740 3.21497 2.56526 3.03747 2.68256 3.56526 3.81939 2.28143 3.20292 4.38852 2.53109 4.10757 2.69295 2.73248 1.93048 3.15642 3.37058 5.79414 4.13225 624 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11149 5.83384 0.61958 0.77255 0.54474 0.86748\n- 332 1.88206 4.83789 3.25824 3.01904 4.00753 3.25808 4.08090 2.59094 2.88478 2.94269 3.93206 3.48537 4.23426 3.32186 3.03224 1.88681 2.82068 2.16646 5.39524 4.12573 625 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14389 5.10476 2.05613 0.61958 0.77255 0.54474 0.86748\n- 333 2.44901 5.15808 3.21621 2.65908 4.19036 2.76719 3.87797 3.21415 2.65546 2.98341 4.22126 2.51015 3.49785 2.82406 2.49716 1.82354 2.92000 3.28529 5.64244 4.28598 626 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10296 4.97123 2.39792 0.61958 0.77255 0.85881 0.55107\n- 334 2.16746 5.19697 2.94873 2.58399 3.69065 2.60700 3.82240 3.93929 2.44721 3.48135 4.25519 3.12080 2.64605 2.94011 2.42343 2.11418 3.06131 3.23541 5.66643 4.29127 627 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10126 4.87962 2.42244 0.61958 0.77255 0.78919 0.60553\n- 335 2.23503 5.06588 3.19540 2.34136 4.31659 2.69113 3.84393 3.74100 2.29329 3.09882 3.47332 3.16272 3.54261 2.76259 3.10177 2.30797 2.60716 2.68314 4.55346 4.21411 628 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11229 4.85564 2.31837 0.61958 0.77255 1.04608 0.43280\n- 336 2.58050 5.25258 2.78980 2.19853 4.58089 3.56209 3.05389 4.05522 2.29028 3.43505 4.29776 2.72824 2.96104 2.85340 2.90396 2.57388 2.10703 2.95564 5.69540 4.29473 629 t - - -\n- 2.68631 4.42238 2.77532 2.73136 3.46367 2.40525 3.72507 3.29350 2.67753 2.69368 4.24624 2.90359 2.73672 3.18159 2.89813 2.37881 2.77465 2.98531 4.58490 3.61516\n- 0.23692 1.87726 2.84838 0.92412 0.50564 0.84149 0.56399\n- 337 2.10912 5.19441 2.57851 2.54456 4.49387 3.23280 3.78880 3.74170 2.06481 3.48046 4.24838 2.92652 3.51398 2.90263 3.02852 2.11684 3.03395 2.65110 5.65659 3.88258 633 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04267 4.80928 3.39270 0.61958 0.77255 1.10730 0.40115\n- 338 2.86952 4.90422 3.32123 2.80180 4.53021 0.88263 4.20450 3.93552 3.00915 3.57124 4.41387 3.41950 4.15619 3.40593 3.03916 2.77749 3.22270 3.09478 5.81197 4.52959 634 g - - -\n- 2.68517 4.42284 2.77554 2.73182 3.46237 2.40482 3.72501 3.29413 2.67771 2.69328 4.24749 2.90341 2.73799 3.18089 2.89785 2.37905 2.77501 2.98578 4.58536 3.61446\n- 0.68139 0.70504 * 1.33185 0.30651 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Cyclase_SMODS.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Cyclase_SMODS.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,519 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Cyclase_SMODS\n-ACC PF18144.2\n-DESC Second Messenger Oligonucleotide or Dinucleotide Synthetase domain\n-LENG 164\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 22 20:37:16 2020\n-NSEQ 34\n-EFFN 2.677002\n-CKSUM 1318667498\n-GA 20 20;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.9892 0.70803\n-STATS LOCAL VITERBI -10.7886 0.70803\n-STATS LOCAL FORWARD -4.3007 0.70803\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63388 4.52259 2.81221 2.64436 3.35110 3.11352 3.75931 2.86044 2.60764 2.62152 3.65117 2.89451 3.31482 3.01430 2.92458 2.52273 2.68228 2.70650 4.48781 3.41956\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.00000 *\n- 1 4.10910 5.53669 5.32216 5.09360 4.12088 4.73232 5.61277 3.43131 4.82232 2.64665 0.29709 5.22919 5.27246 5.16458 4.89115 4.50488 4.47565 3.53700 5.99805 4.83614 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 2 2.64543 5.21262 2.94090 2.55999 4.52892 3.15003 3.80716 3.55737 1.87354 3.51369 4.27909 3.09832 3.55927 2.91991 3.04491 1.92420 2.06942 3.59149 5.68533 4.30241 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 3 2.83421 4.31802 4.26986 3.68424 3.42214 3.93216 3.65869 2.46106 3.56432 1.78995 3.43075 3.90270 3.58609 3.36051 3.75332 3.21709 2.22462 1.54862 4.93048 3.73752 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 4 2.53994 5.22060 2.87527 2.44953 4.52508 3.28134 3.79531 3.30604 2.54819 3.19793 4.27221 2.38304 3.47138 2.40586 2.86011 2.11947 2.87005 2.69183 5.67843 4.29340 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 5 2.40263 5.33191 2.39911 2.23391 4.67544 3.58856 3.78110 4.16116 2.25247 3.63643 4.37355 2.51820 3.98586 2.37722 2.84168 1.95541 2.89444 3.72183 5.76495 4.35346 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 6 2.62109 5.20206 2.44032 2.45252 4.49967 3.60710 3.10335 3.34909 2.47836 3.48682 4.25553 2.95534 3.99932 2.30029 2.81479 2.80061 2.64387 3.56694 3.45116 2.53459 6 q - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89780 2.37888 2.77521 2.98519 4.58478 3.61504\n- '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 157 2.68391 4.62692 3.58252 3.01813 3.77926 3.76972 4.01261 2.02352 2.56736 2.57475 3.39821 2.66160 4.15234 3.29803 3.36256 2.62234 1.87485 2.90517 5.19920 3.94937 172 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 158 2.40341 5.32078 2.40803 2.16887 4.66488 3.14698 3.47683 4.15020 2.13392 3.44870 4.36173 2.48385 3.97968 2.48537 2.83593 2.57609 2.68807 3.37838 5.75401 4.34358 173 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 159 1.98797 5.17176 2.90319 2.26472 4.45018 3.62922 3.83350 3.89071 2.37132 3.44719 4.23321 3.12895 4.02845 2.65927 3.07276 2.84040 2.90434 3.52666 1.93534 4.27983 174 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 160 2.66152 4.24290 4.70384 4.09745 2.74987 4.01401 4.34385 1.98097 3.90843 1.60140 2.85424 4.13813 4.37667 4.06084 3.95776 2.52245 2.55730 2.09811 4.87017 3.69226 175 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 161 2.47013 5.28779 2.91261 2.39957 4.61833 3.59184 3.78033 3.11476 2.11852 3.58676 4.33234 2.47426 3.98498 2.43514 2.33041 2.49670 2.64866 3.16031 5.72917 4.32738 176 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 162 2.69980 5.34279 2.17994 1.64995 4.68432 3.08565 3.79077 3.84630 2.27440 3.64651 4.38553 2.89575 3.99328 2.43959 3.02813 2.79437 2.62572 3.73175 5.77646 4.36397 177 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 163 2.62302 3.38227 3.40275 2.84061 3.96773 3.71414 3.93528 2.95972 1.97014 2.59489 3.87472 3.32138 4.09945 2.67133 2.16354 2.81571 3.05321 2.55762 5.33087 3.64598 178 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01183 4.83896 5.56131 0.61958 0.77255 0.48576 0.95510\n- 164 3.94107 5.79502 3.79909 3.81451 5.36575 4.19474 5.21342 5.41035 4.28377 4.93289 5.95422 0.21321 4.91378 4.57171 4.60254 4.01836 4.39313 4.91147 6.51381 5.30901 179 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00798 4.83511 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Cyclase_new.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Cyclase_new.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1127 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__Cyclase_new\n-LENG 368\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 13:52:50 2021\n-NSEQ 20\n-EFFN 1.616211\n-CKSUM 2704546275\n-GA 20 20;\n-STATS LOCAL MSV -11.1291 0.69978\n-STATS LOCAL VITERBI -12.2343 0.69978\n-STATS LOCAL FORWARD -5.8181 0.69978\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57524 4.57973 2.83355 2.62295 3.47949 3.12503 3.70576 2.76940 2.56233 2.43117 3.64222 3.01878 3.60130 3.02521 2.82814 2.59339 2.84766 2.62324 4.89919 3.43156\n- 2.68632 4.42250 2.77544 2.73112 3.46350 2.40529 3.72450 3.29358 2.67695 2.69332 4.24598 2.90343 2.73752 3.18171 2.89812 2.37874 2.77532 2.98528 4.58502 3.61528\n- 0.39277 2.53442 1.40441 2.16133 0.12236 0.00000 *\n- 1 3.13848 4.61356 4.54507 4.05407 3.29923 4.19757 4.70870 2.31010 3.84551 1.77543 1.18170 4.28645 4.58220 4.12475 4.02648 3.58794 3.42377 2.11464 5.25174 4.08284 23 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14970 4.20494 2.08660 0.61958 0.77255 0.82373 0.57766\n- 2 1.57045 4.27605 3.36918 3.01590 4.26163 3.04590 4.12252 3.66227 3.05936 3.34137 4.16900 3.26563 2.05768 3.36417 3.41398 1.97913 2.76008 3.17050 5.59438 4.35637 24 a - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90333 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.07376 2.76623 4.80301 0.45534 1.00575 0.40374 1.10207\n- 3 2.51211 4.57753 3.31760 2.75145 3.74932 3.58288 3.80468 2.46753 2.41325 2.80341 2.51554 3.21589 3.96639 2.81111 2.55419 2.62220 2.71785 2.87065 5.12966 3.86244 26 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01844 4.39835 5.12069 0.61958 0.77255 0.60834 0.78582\n- 4 2.92022 5.38425 1.55242 2.35694 4.77345 3.41772 3.86598 4.26645 2.76528 3.77410 4.57221 1.75548 3.96887 3.00783 3.30599 2.60829 2.58279 3.83110 5.93534 4.48763 27 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01844 4.39835 5.12069 0.61958 0.77255 0.60834 0.78582\n- 5 3.12335 4.48035 4.71162 4.18964 1.63635 4.21057 4.04575 2.11121 4.02664 2.30132 3.43814 4.18016 4.53760 4.12112 4.09108 3.53003 3.35147 2.37837 4.33888 1.64358 28 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01844 4.39835 5.12069 0.61958 0.77255 0.48737 0.95254\n- 6 2.69061 5.16223 2.60748 2.12972 4.49050 3.46257 3.65679 3.96527 2.40042 3.46018 3.52806 2.26961 3.85963 2.47288 2.72979 2.31255 2.59706 3.54398 5.60464 4.20302 29 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44829 5.17064 0.61958 0.77255 0.53578 0.87998\n- 7 2.55736 5.12842 2.79932 2.40451 4.44702 3.46852 3.65874 3.91359 2.20590 3.16062 4.17696 2.34674 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14479 4.44808 2.09477 0.61958 0.77255 0.53611 0.87952\n- 361 2.70543 5.20389 2.23121 2.13363 4.53340 3.41906 3.65340 4.01645 2.28181 3.50268 4.25385 2.54321 3.41285 2.58502 2.92027 2.15911 2.71949 3.58715 5.64252 4.22715 434 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01989 4.32317 5.04552 0.61958 0.77255 0.53624 0.87934\n- 362 2.57132 4.23462 4.14061 3.56418 3.36047 3.86202 4.18146 1.71340 3.45473 2.09028 3.33494 3.81169 4.22834 3.27418 3.66909 3.15070 2.26267 1.93835 4.90731 3.71132 435 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09106 4.39807 2.59384 0.61958 0.77255 0.60873 0.78535\n- 363 3.50113 4.76779 5.27403 4.72535 3.32216 4.86177 5.24149 1.71630 4.59082 0.82705 3.09064 4.94616 5.01621 4.66066 4.67147 4.23852 3.72946 1.97984 5.45741 4.40545 436 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01982 4.32683 5.04917 0.61958 0.77255 0.69849 0.68783\n- 364 2.75864 5.11782 3.06052 2.33761 4.44860 3.19580 3.65687 3.88257 1.95159 2.67681 4.17347 2.80847 3.90595 2.57336 1.96042 2.74251 2.97746 3.50324 5.53397 4.19536 437 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05859 4.32683 3.13041 0.61958 0.77255 0.69849 0.68783\n- 365 2.64306 4.99156 2.95414 2.09192 4.27662 3.44028 3.27016 3.36861 2.20350 3.27008 3.53254 2.48421 3.83326 2.75636 2.87057 2.28271 2.70041 3.34970 5.46132 4.09193 438 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06035 4.28883 3.10460 0.61958 0.77255 0.74093 0.64754\n- 366 2.36926 4.58857 3.20910 2.64646 3.77243 3.51679 3.73774 2.70308 2.24503 2.82153 3.67885 3.12581 3.90275 2.95408 2.63373 2.58413 2.49264 2.69636 5.13412 3.46480 439 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06935 4.24990 2.94254 0.61958 0.77255 0.78107 0.61233\n- 367 2.46367 4.42207 3.35007 2.78450 3.57487 3.54821 3.35567 2.44478 2.56865 2.49141 3.51996 3.22566 3.93000 2.85001 2.90180 2.59242 2.83830 2.39327 4.98943 3.35462 440 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06491 4.20302 3.03878 0.61958 0.77255 0.82548 0.57630\n- 368 3.14231 4.43956 4.92293 4.37908 2.98793 4.49789 4.91603 1.54071 4.27121 1.83253 3.27158 4.56215 4.75891 4.44613 4.40956 3.85050 3.38344 1.16535 5.34395 4.16627 441 v - - -\n- 2.68593 4.42245 2.77486 2.73131 3.46216 2.40524 3.72515 3.29353 2.67761 2.69375 4.24710 2.90367 2.73723 3.18166 2.89807 2.37907 2.77525 2.98489 4.58497 3.61523\n- 0.62594 0.76520 * 0.88705 0.53081 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__E2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__E2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,536 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__E2\n-LENG 171\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 15:50:59 2021\n-NSEQ 361\n-EFFN 8.303947\n-CKSUM 1090350045\n-GA 20 20;\n-STATS LOCAL MSV -10.8156 0.70742\n-STATS LOCAL VITERBI -11.8436 0.70742\n-STATS LOCAL FORWARD -4.4004 0.70742\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63355 4.37754 2.99497 2.60048 3.46279 2.91009 3.46535 2.99501 2.62674 2.47894 3.77433 3.11327 3.06078 3.03773 2.84042 2.64437 2.83790 2.86387 3.72094 3.30698\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03832 3.67676 4.39911 0.61958 0.77255 0.00000 *\n- 1 2.79833 4.34480 4.00885 3.50610 3.19974 3.82883 4.30222 2.07772 3.33501 1.76521 2.34498 3.80866 4.23675 3.66824 3.58657 3.18935 3.08191 1.77709 5.05116 3.83413 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06463 3.67676 3.28926 0.61958 0.77255 0.48576 0.95510\n- 2 2.17168 4.21972 3.22480 2.78429 3.75197 3.12660 3.83048 2.95432 2.71221 2.73660 3.39079 3.12571 2.89929 3.08371 3.05544 2.49744 2.36361 2.66027 5.16539 3.91775 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06298 3.67596 3.33230 0.61958 0.77255 0.50436 0.92607\n- 3 2.35151 4.30485 3.34901 2.81598 3.24184 3.45661 3.69344 2.68137 2.63155 2.41666 3.39229 3.20614 3.86734 2.81460 2.94350 2.74534 2.79579 2.57296 3.56516 3.39398 3 a - - -\n- 2.68619 4.42164 2.77520 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.20541 2.35909 2.39490 0.45882 0.99975 0.49330 0.94317\n- 4 2.68606 4.32371 3.64303 3.18719 2.59907 3.60201 3.86593 2.38658 3.05555 1.81178 3.26369 3.49282 4.04731 3.39557 3.33132 2.80161 2.97218 2.27953 4.55717 3.07793 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04160 3.59610 4.31845 0.61958 0.77255 0.55933 0.84767\n- 5 2.68816 4.73543 2.96795 2.51424 4.01544 3.37497 3.55161 3.40416 1.87170 2.98763 3.87859 2.96704 3.81160 2.52158 2.27571 2.73864 2.91679 2.96907 5.19914 3.93714 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04059 3.62032 4.34266 0.61958 0.77255 0.55933 0.84767\n- 6 3.01150 4.44027 4.43268 3.86203 2.76924 4.16040 4.44693 2.22322 3.73970 1.63674 1.54678 4.12082 4.45195 3.93116 3.92277 3.46946 3.00580 2.30499 4.98279 3.81914 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02449 4.11768 4.84002 0.61958 0.77255 0.55933 0.84767\n- 7 2.61857 5.02255 2.48612 2.28234 4.32506 3.09752 3.36518 3.78257 2.35601 3.22049 3.47214 2.40585 3.32292 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06873 4.25322 2.95255 0.61958 0.77255 0.82978 0.57296\n- 164 2.48523 5.08496 2.66806 2.25263 4.40233 3.19798 3.61632 3.86782 2.31703 3.37768 4.13562 2.67835 3.81813 2.63862 2.11278 2.50472 2.74080 3.28684 5.53438 4.14221 449 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02101 4.26896 4.99131 0.61958 0.77255 0.90747 0.51675\n- 165 2.47015 4.97692 2.98540 2.30052 4.26271 3.45113 3.48121 3.56022 2.22530 3.06332 4.03675 2.85811 3.68115 2.67295 2.00875 2.60995 2.82540 3.20307 5.44069 4.08550 450 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02143 4.24940 4.97174 0.61958 0.77255 0.72838 0.65911\n- 166 1.83415 4.40012 3.18548 2.53065 3.80793 3.50295 3.29478 3.13368 2.60258 2.80759 3.58700 3.10997 3.80968 2.94222 2.97040 2.41757 2.69630 2.84600 5.16155 3.87432 451 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03519 4.25832 3.89068 0.61958 0.77255 0.84086 0.56447\n- 167 2.40300 4.86416 2.72705 2.33632 4.11748 3.33698 3.49087 3.42886 2.25163 2.79101 3.93072 2.94943 3.53557 2.77125 2.72866 2.57587 2.64111 2.82756 5.35616 4.00919 452 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02268 4.19331 4.91565 0.61958 0.77255 0.85355 0.55495\n- 168 2.33523 4.46456 3.22994 2.63334 3.51881 3.48982 3.72054 3.00727 2.58525 2.56875 3.55935 3.13099 3.16879 2.82558 2.86600 2.66074 2.80752 2.31024 5.02223 3.57404 453 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02564 4.07238 4.79473 0.61958 0.77255 0.66382 0.72336\n- 169 2.41315 4.39693 2.24164 2.36145 3.79360 2.94596 3.70879 3.25792 2.67114 3.03057 3.99741 2.81013 3.60238 2.98243 3.05052 2.34455 2.79937 2.92562 5.17800 3.80547 454 d - - -\n- 2.68621 4.42228 2.77516 2.73126 3.46348 2.40511 3.72481 3.29357 2.67744 2.69354 4.24693 2.90345 2.73742 3.18149 2.89804 2.37887 2.77510 2.98521 4.58480 3.61506\n- 0.12589 2.27020 4.20015 0.98239 0.46907 0.43314 1.04546\n- 170 2.57551 3.81673 3.63542 3.06430 3.34194 3.58467 3.89516 2.07859 2.91088 2.15484 3.29245 3.41582 3.97651 3.26198 2.82361 2.86572 2.69116 2.25524 4.86470 3.64417 470 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03363 3.80496 4.52731 0.61958 0.77255 0.44159 1.03006\n- 171 2.72387 4.91722 3.06661 2.50414 4.23818 2.89732 3.57094 3.63396 1.87312 2.99145 4.00376 2.98618 3.85212 2.52511 2.08603 2.73781 2.93513 3.30513 5.33872 4.06220 471 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02082 3.88229 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__E2_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__E2_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,671 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__E2_II\n-LENG 216\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 15:51:26 2021\n-NSEQ 39\n-EFFN 4.089478\n-CKSUM 900322967\n-GA 20 20;\n-STATS LOCAL MSV -10.7334 0.70445\n-STATS LOCAL VITERBI -11.3381 0.70445\n-STATS LOCAL FORWARD -5.1403 0.70445\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69644 3.86222 2.93456 2.61971 3.20593 2.91128 3.44226 2.85767 2.61688 2.46329 3.70245 3.06228 3.17088 3.07173 2.89418 2.66258 2.93963 2.84736 4.60413 3.28897\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00842 5.17698 5.89932 0.61958 0.77255 0.00000 *\n- 1 4.51322 5.72669 6.28401 5.77606 3.74676 5.78600 6.09834 3.00231 5.50816 1.56421 0.48577 5.99740 5.82581 5.45229 5.46640 5.27294 4.73249 3.30328 6.02612 5.01436 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10667 5.17698 2.34830 0.61958 0.77255 0.48576 0.95510\n- 2 2.24916 5.38072 2.51655 2.38546 4.70905 3.26195 3.87989 2.90310 2.62173 3.67894 4.42604 2.49489 2.94053 2.74658 3.11167 2.02278 2.83238 3.37345 5.82376 4.42308 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00929 5.07960 5.80194 0.61958 0.77255 0.75755 0.63264\n- 3 2.93924 3.72959 3.50731 3.62245 2.78023 2.69913 4.29318 2.04588 3.17329 2.28916 3.59041 2.87947 4.37827 3.78294 3.77636 2.25356 3.17119 2.73649 3.01292 3.03488 3 i - - -\n- 2.68618 4.42314 2.77545 2.73193 3.46403 2.40507 3.72584 3.29370 2.67747 2.69419 4.24779 2.90395 2.73818 3.18187 2.89521 2.37866 2.77479 2.98528 4.57836 3.61480\n- 1.07152 0.92207 1.34777 1.58005 0.23063 0.75755 0.63264\n- 4 2.18404 5.19596 3.08539 1.93344 4.49904 3.14574 3.77543 3.95631 2.38315 3.24404 4.24799 3.06938 3.13011 2.65148 2.76216 2.47453 3.02347 2.84722 5.65461 3.45671 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12002 4.78281 2.25642 0.61958 0.77255 0.73886 0.64943\n- 5 2.82358 4.88123 3.32259 2.20140 4.08352 3.68914 3.90400 3.08348 2.36168 1.84692 3.96365 3.26257 2.88779 3.09055 3.18981 2.41281 2.77222 2.92056 5.41120 4.10863 19 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.85000 5.57235 0.61958 0.77255 1.14778 0.38176\n- 6 2.92956 4.30755 4.80452 4.20021 2.41334 4.10676 4.44224 1.86314 4.01003 1.64511 3.37655 4.23728 4.46083 4.15663 3.35845 3.41793 2.64263 1.70745 4.95051 3.77675 20 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.85000 5.57235 0.61958 0.77255 0.89191 0.52742\n- 7 2.61001 5.27526 2.24904 2.39965 3.38903 3.63131 3.82200 3.46136 2.28128 2.76020 4.32449 2.71257 4.02397'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01156 4.86204 5.58439 0.61958 0.77255 1.13250 0.38894\n- 209 2.28598 4.54583 3.72264 3.15473 3.19621 3.81530 4.06962 2.50835 2.79375 2.07212 3.64940 3.55704 4.19438 2.59361 2.89711 2.76710 2.65691 2.81850 5.12862 2.60128 312 l - - -\n- 2.68661 4.42178 2.77526 2.73129 3.46325 2.40529 3.72557 3.29194 2.67767 2.69300 4.24446 2.90389 2.73802 3.18127 2.89863 2.37909 2.77543 2.98456 4.58540 3.61350\n- 0.51282 0.92271 5.58439 1.44040 0.27028 0.60833 0.78583\n- 210 2.90908 5.42235 2.74420 1.78512 4.76852 3.66894 3.86239 4.25477 1.82716 3.72669 4.46403 2.47701 4.06835 2.72133 2.36244 2.28027 3.14064 3.81384 5.85222 4.44088 321 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04244 5.02125 3.35359 0.61958 0.77255 0.88143 0.53476\n- 211 2.88188 4.84393 3.46403 2.06432 3.03020 3.77545 3.41022 2.66910 2.88295 2.51721 2.89782 2.20642 4.16100 2.83705 2.96661 2.99479 3.11336 2.79299 5.38987 4.10764 322 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98898 5.71132 0.61958 0.77255 0.94118 0.49457\n- 212 2.95988 4.34919 3.82489 4.19530 2.58566 4.12188 4.44929 2.33580 4.00887 1.13691 2.67918 4.24267 4.47948 4.15790 4.05981 3.00497 3.19159 2.18797 4.96924 3.79562 323 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01017 4.98898 5.71132 0.61958 0.77255 0.94118 0.49457\n- 213 2.87244 5.33901 3.13890 2.58274 4.66627 2.90941 3.37262 3.47873 2.08700 3.63648 3.34287 2.49428 4.04599 2.18903 2.37099 2.48621 2.73342 3.72006 5.78232 3.73201 324 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07985 4.98898 2.66028 0.61958 0.77255 0.94118 0.49457\n- 214 2.65602 5.34723 3.11713 2.35461 4.68707 2.80918 3.81773 4.16384 1.80821 3.64683 4.39092 2.67704 3.33539 2.91764 1.85195 2.82899 3.09272 3.73542 5.77991 3.51890 325 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22964 4.92003 1.62011 0.61958 0.77255 1.05257 0.42931\n- 215 2.50373 5.24056 3.03145 2.23965 4.57157 2.68185 3.26238 3.49598 2.02223 3.53881 4.28534 2.75260 3.93939 2.55504 2.29098 2.73740 2.99874 3.17722 5.68079 4.28083 326 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01355 4.70395 5.42629 0.61958 0.77255 1.02061 0.44687\n- 216 2.79923 4.97302 3.21693 2.49064 4.20372 3.20156 3.84224 3.08310 2.08698 2.61511 3.45859 3.17478 3.32637 2.99846 2.50268 2.48281 2.64821 3.30062 5.48086 2.93894 327 k - - -\n- 2.68494 4.42304 2.77549 2.73202 3.46382 2.40565 3.72344 3.29286 2.67707 2.69362 4.24630 2.90361 2.73744 3.18178 2.89752 2.37916 2.77549 2.98502 4.58556 3.61484\n- 1.01000 0.45290 * 1.29073 0.32168 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_SUa-2TM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_SUa-2TM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,866 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Effector_2TM_SUa-2TM\n-ACC PF18179.2\n-DESC SMODS- and Ubiquitin system-associated 2TM effector domain\n-LENG 279\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 07:10:31 2020\n-NSEQ 3\n-EFFN 0.958008\n-CKSUM 1627590755\n-GA 25.00 25.00;\n-TC 26.00 111.20;\n-NC 24.70 24.60;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -11.1095 0.70191\n-STATS LOCAL VITERBI -11.9601 0.70191\n-STATS LOCAL FORWARD -5.3179 0.70191\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.75603 4.34017 3.15376 2.78374 3.01530 3.24283 3.80482 2.51029 2.62837 2.29668 3.57310 2.95181 3.43208 3.14745 2.99011 2.77462 2.87160 2.54646 4.79482 3.14528\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.00000 *\n- 1 3.20018 5.30915 3.65536 2.93030 4.81219 3.79153 3.68259 4.13864 1.14646 3.54191 4.41573 3.31301 4.14471 2.81252 1.52484 3.18525 3.34870 3.81869 5.54889 4.40981 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 2 2.78055 4.54009 3.45078 2.95940 3.07037 3.66690 3.76234 3.03004 2.88163 2.01533 3.63742 2.22798 4.06510 3.22633 3.22096 2.94930 3.01819 2.81734 4.61835 2.21473 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 3 2.85980 4.87995 3.40526 2.76663 4.14792 3.63965 3.70026 2.35695 1.69290 3.08202 3.96243 3.20495 4.00807 2.86796 1.89746 2.92433 3.06076 3.19616 5.31749 4.08474 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 4 3.20018 5.30915 3.65536 2.93030 4.81219 3.79153 3.68259 4.13864 1.14646 3.54191 4.41573 3.31301 4.14471 2.81252 1.52484 3.18525 3.34870 3.81869 5.54889 4.40981 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 5 2.74031 4.32190 3.80478 3.28048 2.16574 3.75043 3.96098 1.99010 3.20511 2.35984 3.38289 2.40481 4.13702 3.48135 3.48305 3.04207 2.98315 2.42972 4.69953 3.31868 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 6 2.76817 4.38639 3.80894 3.21968 3.40152 3.77863 4.01981 2.00072 2.96445 2.23335 2.33962 3.57469 4.13960 3.37475 2.23156 3.05855 2.99812 2.45504 4.97530 3.77219 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02819 3.97877 4.70112 0.61958 0.77255 0.38272 1.14572\n- 272 2.90755 4.56470 3.72076 3.19483 1.90738 3.81517 3.70961 3.06288 2.11673 2.66561 3.65964 3.51506 4.18507 3.38112 3.34319 3.09248 3.13571 2.86705 4.31479 1.97380 291 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 273 2.69366 4.90698 2.21531 2.44281 4.15643 3.44140 3.69014 2.48159 1.93591 3.15255 3.99212 2.96794 3.86972 2.84294 2.91550 2.71548 2.93125 3.18393 5.41309 4.06934 292 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 274 2.93249 5.19967 2.89395 2.54285 4.59633 3.50260 3.73183 4.04520 1.35225 3.54009 4.37865 2.00059 3.97727 2.87511 2.57547 2.90948 3.16936 3.67355 5.62409 4.32046 293 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 275 2.78766 4.98898 3.11481 2.57764 4.26728 3.52006 2.44093 3.73956 2.24740 3.27894 4.10631 3.06329 2.51389 2.81771 1.92874 2.80244 3.01184 3.40071 5.41107 4.10019 294 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 276 3.32358 4.97454 3.75807 3.37295 2.36960 4.01711 1.41460 3.61110 3.19727 3.03370 4.13675 3.63328 4.41118 3.55793 3.45998 3.37677 3.55620 3.42240 4.00732 1.60507 295 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 277 2.75849 4.89754 3.16587 2.61171 4.17648 3.51950 2.38107 3.61591 2.27793 3.18738 4.02500 3.08736 3.92643 2.84049 2.01103 2.79539 2.20731 3.29512 5.36082 4.06411 296 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 278 3.21405 4.49465 5.02579 4.54082 3.67812 4.62249 5.24292 1.04676 4.43393 2.15048 3.46569 4.73702 4.91499 4.68811 4.61511 4.02624 3.48034 1.26600 5.69158 4.48949 297 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16673 4.88907 0.61958 0.77255 0.48576 0.95510\n- 279 3.23225 4.50913 5.03293 4.49957 3.47421 4.62991 5.09502 1.43678 4.38946 1.47741 3.26446 4.70190 4.86474 4.56605 4.53127 3.99913 3.47538 1.33163 5.48064 4.34090 298 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01574 4.15917 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_S_2TMBeta.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_S_2TMBeta.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,569 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Effector_2TM_S_2TMBeta\n-ACC PF18153.2\n-DESC SMODS-associating 2TM, beta-strand rich effector domain\n-LENG 180\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 07:05:38 2020\n-NSEQ 16\n-EFFN 1.988281\n-CKSUM 3947015521\n-GA 31.20 31.20;\n-TC 31.40 31.20;\n-NC 31.10 30.80;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.5520 0.70672\n-STATS LOCAL VITERBI -11.2627 0.70672\n-STATS LOCAL FORWARD -4.8464 0.70672\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64721 4.42587 3.19913 2.76784 3.23972 2.92718 3.76126 2.63654 2.68744 2.38376 3.63443 3.06563 3.51786 3.06270 3.06577 2.55729 2.72513 2.71041 3.93342 3.20539\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.00000 *\n- 1 2.97628 4.71184 5.33723 4.79176 3.63317 4.81310 5.26576 1.29053 4.66484 1.10912 3.43173 4.93575 5.05211 4.79324 4.75068 4.17928 3.67695 1.86757 5.60891 4.49264 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 2 1.66648 4.77069 3.27585 2.72825 4.04574 2.93592 3.86726 3.44335 2.71816 3.08841 3.92702 2.60763 3.99638 3.05656 3.15718 2.33559 2.69518 2.82136 5.37338 3.36278 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 3 2.61820 4.24055 4.66746 4.06973 2.30691 4.02951 4.36554 1.68202 3.89507 1.61808 3.29228 4.13897 4.38205 4.05243 3.96241 2.88447 3.08841 2.15324 4.88924 3.71273 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 4 2.35606 4.19547 4.39827 3.80552 2.90559 3.27617 4.21942 2.15310 3.65919 1.71089 3.30887 3.94497 4.26405 3.85212 3.78538 3.19480 2.17747 2.09244 4.82694 3.64165 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 5 1.43761 4.50060 4.07757 3.71628 4.76428 3.29907 4.70166 4.17313 3.70878 3.86628 4.67108 3.76906 4.06689 3.97745 4.00712 1.07115 2.05509 3.57468 6.10288 4.91792 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 6 2.74869 4.19082 4.34730 3.75554 3.29593 3.38745 4.19180 1.80984 3.61365 2.38114 3.01618 3.90863 4.24266 3.81306 3.75082 2.64151 2.66917 1.63965 4.81533 3.12862 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 173 2.74619 4.19888 4.29675 3.70635 2.09121 3.86145 3.45241 2.01485 3.09384 2.38808 2.90202 3.87536 4.22924 3.77487 3.71886 3.15284 2.68819 2.45017 4.79157 2.37321 226 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 174 3.83394 5.47368 4.64696 4.65786 5.67284 0.15308 5.66300 5.51764 4.93073 5.04151 6.06500 4.81482 4.87541 5.19729 5.02604 4.03491 4.36558 4.90378 6.51121 5.81933 227 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 175 2.73631 5.05271 3.07186 2.23643 4.32590 3.17995 3.73969 3.30725 2.00355 2.88249 4.11316 2.84167 3.93476 2.86638 2.61584 2.53677 2.44051 3.09371 5.53081 3.51299 228 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 176 3.55549 4.83885 5.44221 4.85070 2.00894 4.83508 5.11651 1.69416 4.69123 1.49669 1.49288 4.96862 5.00809 4.67279 4.68062 4.18328 3.76979 2.62897 5.32572 4.25562 229 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 177 2.73950 5.03278 3.08673 2.25520 4.29946 3.55029 3.31385 3.10620 2.36315 2.94950 4.09536 2.45726 3.94116 2.87733 2.61555 2.74905 2.05664 3.08430 5.51474 4.15874 230 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 178 3.03447 3.15280 4.84222 4.26217 2.47356 4.18282 4.33040 2.66323 4.07176 1.11186 3.29656 4.27356 4.51400 4.17686 4.10343 3.49985 3.26354 2.57737 2.45685 3.35594 231 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 179 2.91738 5.30832 3.17324 2.12120 4.67383 3.64975 3.77529 4.10911 1.53923 3.58616 4.36583 3.13101 4.03989 2.88649 2.34367 2.88951 1.96227 3.71426 5.70030 4.36647 232 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62069 5.34304 0.61958 0.77255 0.48576 0.95510\n- 180 3.57478 5.68545 4.12809 3.26914 5.28296 4.13294 3.91183 4.54907 1.34889 3.87814 4.75387 3.61892 4.44873 2.41124 1.00716 3.53804 3.68337 4.22841 5.83242 4.74188 233 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00994 4.61590 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_Sa_NUDIX.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_Sa_NUDIX.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,629 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Effector_2TM_Sa_NUDIX\n-ACC PF18167.2\n-DESC SMODS-associated NUDIX domain\n-LENG 200\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 07:08:50 2020\n-NSEQ 16\n-EFFN 1.582031\n-CKSUM 351559528\n-GA 25.00 25.00;\n-TC 29.90 43.30;\n-NC 20.40 20.20;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.3261 0.70534\n-STATS LOCAL VITERBI -11.2610 0.70534\n-STATS LOCAL FORWARD -4.7381 0.70534\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65639 4.62747 2.88600 2.48137 3.28532 3.06449 3.67015 2.77336 2.58152 2.42918 3.72597 3.10472 3.56602 2.99167 2.71670 2.71984 2.93905 2.68131 4.69576 3.35547\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.00000 *\n- 1 2.43093 5.11519 2.53650 2.13008 3.88735 3.47381 3.66487 3.89053 2.31249 3.09097 4.16472 2.81259 3.37919 2.77302 2.49577 2.49762 2.73503 3.48796 5.56813 3.50858 1 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 2 3.43720 4.65446 5.43815 4.94851 3.88789 4.99149 5.62658 1.05520 4.86874 2.10139 3.64229 5.12031 5.21194 5.08925 5.02081 4.40410 3.69175 1.08073 5.96200 4.77349 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 3 3.82201 5.53676 4.38387 3.81517 5.05403 4.13945 4.44741 4.67726 2.72711 4.08321 5.09893 4.11253 4.64201 3.66659 0.36203 3.89875 4.06567 4.38175 5.91017 4.89126 3 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 4 3.26370 4.54981 5.18673 4.62598 2.25157 4.60351 4.99237 1.49246 4.48573 1.74157 3.31316 4.72940 4.85890 4.59859 4.54564 3.95477 3.49889 1.34887 5.34923 4.19459 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 5 2.50694 4.44781 3.82394 3.61587 4.74157 3.20858 4.66940 4.15897 3.66955 3.88043 4.71599 3.67810 3.99950 3.96403 3.93446 0.64181 2.50526 3.54582 6.08872 4.88261 5 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 6 2.62966 4.21930 4.69481 4.10020 2.44647 4.05075 4.39776 1.74742 3.92740 2.02894 2.63755 4.16649 4.39356 4.08131 3.99052 3.36558 2.78270 1.69665 4.90608 3.73460 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 193 1.65757 4.71388 3.23326 2.74252 4.13763 2.10307 3.90106 3.54057 2.74348 2.81264 4.01346 3.19980 3.95210 2.65960 3.16922 2.49901 2.95693 3.20174 5.44889 4.15179 213 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 194 2.39985 5.25564 2.62640 2.08940 4.58200 3.46770 3.70875 4.06315 2.29284 3.55270 4.30771 2.36762 2.23930 2.63809 2.97788 2.72073 3.00044 3.63745 5.69548 4.28117 214 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 195 3.01397 5.14383 3.08707 2.74264 4.26481 3.63889 1.17163 3.91583 2.53072 3.46299 4.33741 3.22428 4.12067 2.57991 2.84563 3.03542 2.88977 3.59172 5.52108 4.14696 215 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 196 1.47904 4.38792 3.94229 3.58500 4.52227 3.21753 4.55519 3.88421 3.57217 3.61411 4.44505 3.65765 3.97088 3.84820 3.86290 2.20464 1.13953 3.36073 5.88871 4.69994 216 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 197 2.24504 4.59278 3.31826 2.75594 3.28233 3.59361 3.27610 2.89946 2.10413 2.81953 3.68489 3.22453 3.07838 3.05962 2.89251 2.81770 2.91516 2.70713 4.12254 3.36350 217 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 198 2.75499 4.50544 3.56542 3.00039 2.87798 3.70585 2.95920 3.02011 2.17975 2.46594 3.60873 3.40719 4.08298 3.25192 2.96567 2.94949 2.98511 2.79219 3.01163 2.44066 218 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 199 2.66752 4.39344 4.73344 4.17160 3.54731 4.27440 4.68582 1.27624 4.04548 1.72416 3.44467 4.33637 4.60932 4.25533 4.19395 3.60236 2.60720 1.83505 5.25286 4.07054 219 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01723 4.46534 5.18769 0.61958 0.77255 0.48576 0.95510\n- 200 3.04917 4.42275 4.78375 4.18731 2.80238 4.23315 4.54320 1.91624 4.03099 1.20297 2.38318 4.31455 4.52855 3.30502 4.10448 3.54670 3.27417 2.28202 4.99136 3.87006 220 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01163 4.45974 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_Saf_2TM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_2TM_Saf_2TM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,485 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Effector_2TM_Saf_2TM\n-ACC PF18303.2\n-DESC SAVED-fused 2TM effector domain\n-LENG 152\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 07:39:12 2020\n-NSEQ 9\n-EFFN 2.526855\n-CKSUM 3711616313\n-GA 29.50 29.50;\n-TC 29.90 36.30;\n-NC 27.50 29.30;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.1273 0.70920\n-STATS LOCAL VITERBI -10.8156 0.70920\n-STATS LOCAL FORWARD -4.8461 0.70920\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56312 4.50730 3.03044 2.81964 3.13099 2.90698 3.97819 2.51651 2.76689 2.23074 3.59505 3.24755 3.59196 3.21901 2.87321 2.72347 2.87999 2.49004 4.25221 3.62691\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.00000 *\n- 1 2.86203 4.40345 4.10899 3.52399 3.47921 3.92418 4.19757 2.81355 1.76056 2.10277 2.51373 3.81265 4.29113 3.67137 3.62418 3.19968 3.09243 2.05923 2.81479 3.79276 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 2 2.80859 5.21983 2.33558 2.53725 4.52659 3.59335 3.78411 2.72907 1.97401 3.50749 4.27139 2.28529 3.98714 2.89519 2.55304 2.79016 3.03937 3.59038 5.67334 2.89018 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 3 2.36301 4.80603 3.42941 2.86147 4.00131 3.72125 3.00812 3.38325 2.75685 2.03205 3.90281 3.33431 4.10961 3.14707 2.06252 2.95175 2.06371 3.11579 5.34838 4.07231 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 4 3.56058 4.82867 5.54528 4.97430 2.11968 4.90669 5.27810 1.59459 4.82221 1.25813 3.38450 5.06227 5.11904 4.86386 4.83149 4.26469 3.78862 1.55734 5.54181 4.44281 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 5 2.84025 4.95990 1.90085 2.31889 4.17554 3.66028 3.89451 2.53383 2.73233 2.09259 4.04006 3.21128 4.06525 3.06730 3.18889 2.40295 3.07458 3.26172 5.48344 4.16341 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 6 2.88152 4.65098 3.66139 3.10214 2.49145 2.56351 2.68987 3.17019 3.06402 2.85561 3.75400 2.65965 4.20591 3.36932 3.43537 2.52254 3.11280 2.93924 3.21664 2.33137 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01412 4.66287 5.38522 0.61958 0.77255 0.35589 1.20581\n- 145 2.89287 4.38108 4.27761 3.69589 3.49142 3.99685 4.30038 1.80018 2.45790 1.79429 3.47417 3.94155 2.90627 3.82196 3.77908 3.28266 3.12602 1.86827 5.02668 3.83222 154 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 146 2.30830 4.26474 4.49063 3.89684 3.37120 3.97444 4.29729 2.24516 3.74724 2.12991 2.40883 4.02844 4.34089 3.93750 3.86738 2.42999 2.46398 1.75012 4.89811 3.71297 155 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 147 2.82940 5.33377 2.54884 1.60673 4.67350 3.57968 3.78391 4.15761 2.52782 3.63634 4.37831 3.04752 3.98531 2.39734 2.50115 2.41804 2.35556 3.72204 5.76811 4.35671 156 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 148 3.55113 5.43579 4.13757 3.79708 5.20424 4.06392 4.73880 4.76665 3.24568 4.27840 5.20498 4.11971 0.48693 3.96822 2.16733 3.66451 3.92515 4.34695 6.23470 5.13115 157 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 149 2.84444 5.35599 2.47219 1.67233 4.69549 3.58122 3.79533 4.18196 2.22496 3.65864 4.40110 3.04754 3.99351 2.39552 3.04270 2.25594 2.35123 3.74421 5.78952 4.37425 158 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 150 2.83423 5.31196 1.99166 2.21173 4.64748 3.59368 3.78514 4.12222 2.15187 2.22017 4.35765 3.06519 3.99347 2.48353 2.52908 2.79992 3.06484 3.69799 5.74540 4.34641 159 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 151 0.81133 4.73842 4.52873 4.14613 4.01451 3.90948 4.89159 3.05456 4.01836 1.60050 3.95413 4.24757 4.53688 4.31374 4.22045 3.35094 3.45215 2.90817 5.71325 4.51315 160 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79527 5.51762 0.61958 0.77255 0.48576 0.95510\n- 152 2.18647 4.71065 5.04830 4.51705 3.65994 4.47790 5.01512 2.45452 4.37167 0.85990 3.51204 4.64497 4.85125 4.54705 4.49066 3.84249 3.58161 1.82763 5.50465 4.36859 161 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00834 4.79125 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_4TM_S_4TM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_4TM_S_4TM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,902 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Effector_4TM_S_4TM\n-ACC PF18159.2\n-DESC SMODS-associating 4TM effector domain\n-LENG 291\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 07:06:33 2020\n-NSEQ 32\n-EFFN 3.917969\n-CKSUM 2293983241\n-GA 26.90 26.90;\n-TC 30.20 30.20;\n-NC 25.60 25.10;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -11.0438 0.70154\n-STATS LOCAL VITERBI -11.7752 0.70154\n-STATS LOCAL FORWARD -5.2810 0.70154\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42808 4.31524 3.08238 2.77914 3.21599 3.30661 3.84628 2.65533 2.73480 2.31785 3.65557 3.05513 3.52838 2.96734 2.83561 2.70463 2.87057 2.64281 4.09492 3.35562\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.00000 *\n- 1 2.45515 4.24662 2.87974 2.41727 4.77436 3.71294 3.10580 4.25641 2.50313 3.73779 4.47709 1.62942 2.91710 2.99908 2.86468 2.50909 2.64249 3.82253 5.87094 4.46335 1 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 2 2.93775 3.81981 2.14664 1.93741 4.79176 3.27243 3.89863 4.27740 2.33885 3.75231 4.48816 2.60653 3.25426 2.99523 2.72320 2.19097 2.56475 3.83761 5.88028 4.46953 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 3 4.08605 5.25486 6.19215 5.72046 4.20842 5.73616 6.40928 0.50485 5.66023 1.82738 3.92325 5.91070 5.84637 5.76244 5.75300 5.19335 4.33430 2.05184 6.47694 5.38271 3 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 4 2.41165 3.96472 2.85514 3.05796 2.84737 3.87467 3.49786 2.88119 3.03176 2.64854 3.92883 2.82299 2.74529 3.35663 2.24578 3.10133 2.77940 2.59792 5.39392 3.42045 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 5 2.57006 5.43358 3.19315 2.27515 4.77265 3.71425 3.90142 3.61087 2.10541 3.02997 4.47594 2.42712 4.10750 1.99593 2.46176 2.62454 2.53742 3.82102 5.86962 4.46297 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 6 2.48881 5.44240 3.02185 2.40974 4.78411 3.71776 3.90362 4.26596 2.09310 3.38099 4.48445 2.44328 4.11118 2.85419 1.50991 2.65829 3.17475 3.48261 5.87602 4.46958 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.9851'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 284 2.37808 4.48274 4.32125 3.21186 2.30949 4.05520 3.41058 2.93714 3.63631 2.45534 1.60316 3.99063 4.42641 3.87426 3.85340 2.96899 2.36912 2.73878 5.08993 3.26673 314 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 285 2.29514 5.44001 2.68555 2.46882 4.78196 3.71166 2.89267 4.26572 2.44538 3.18762 4.48150 2.08909 4.10508 2.52497 2.72832 2.46289 2.65289 3.10429 5.87456 4.46550 315 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 286 2.05331 5.42602 2.51315 2.21238 3.53004 3.71416 3.50157 4.24170 2.16558 3.72744 4.46906 2.93844 4.10743 2.67518 2.51096 2.90351 2.92358 2.98727 5.86414 3.05529 316 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 287 1.74899 5.30387 2.87245 2.69617 4.59320 2.34232 3.93342 3.52979 2.38426 3.58540 4.36049 3.23282 4.13096 3.05192 2.88996 2.44324 2.38364 3.66437 5.77244 3.14419 317 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 288 1.48044 4.41580 4.59743 4.00291 2.72870 4.10463 4.41832 2.32382 3.85690 2.25514 2.64386 3.47985 4.47201 3.27454 3.98514 3.39936 2.40637 2.37392 5.03163 3.84595 318 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 289 2.21088 5.45205 2.69818 1.71553 4.79760 3.02693 3.89960 4.28407 2.34160 3.75748 4.49274 2.94408 4.10576 2.39116 2.37203 2.68191 2.82257 3.84298 5.88427 4.47273 319 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 290 2.68016 5.42317 2.97784 1.76495 3.64784 3.71466 3.90281 3.61186 2.11976 3.34899 3.69064 2.67452 4.10790 2.09482 3.13259 2.45501 2.94433 3.80830 5.86202 4.45731 320 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00873 5.14153 5.86388 0.61958 0.77255 0.48576 0.95510\n- 291 2.51164 4.42115 4.56398 3.97096 3.16909 4.09784 2.81205 2.34684 3.38920 1.42765 2.65749 3.37866 4.46571 4.02956 3.96925 2.97259 2.80002 2.50739 5.03576 3.29108 321 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00588 5.13869 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_TIR.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Effector_TIR.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1049 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__Effector_TIR\n-LENG 342\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 15:17:09 2021\n-NSEQ 20\n-EFFN 2.700195\n-CKSUM 3704130591\n-GA 60 60;\n-STATS LOCAL MSV -11.1153 0.70029\n-STATS LOCAL VITERBI -11.9948 0.70029\n-STATS LOCAL FORWARD -5.7695 0.70029\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51514 4.59696 2.88483 2.64765 3.31539 2.81339 3.76782 2.83994 2.71773 2.42385 3.72249 3.08183 3.27094 3.09901 2.83420 2.58761 2.83105 2.65478 4.59024 3.75362\n- 2.68599 4.42235 2.77529 2.73133 3.46364 2.40522 3.72504 3.29364 2.67722 2.69365 4.24699 2.90320 2.73749 3.18156 2.89810 2.37896 2.77498 2.98489 4.58487 3.61513\n- 0.27896 2.27562 1.96115 1.28492 0.32389 0.00000 *\n- 1 3.54932 4.90426 5.03525 4.50873 3.25117 4.71208 5.02862 2.43293 4.26209 1.39596 0.99920 4.75663 4.93501 4.45339 4.37893 4.10257 3.78592 2.58109 5.33761 4.21729 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08925 4.40583 2.61486 0.61958 0.77255 0.66875 0.71816\n- 2 2.25333 4.38537 3.61142 3.05025 3.55878 3.64006 3.95712 2.46662 2.99954 2.18317 3.52544 3.43469 2.75486 3.29947 3.34321 2.54647 2.19020 2.66413 5.00999 3.77994 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01740 4.45607 5.17841 0.61958 0.77255 0.75233 0.63727\n- 3 2.79550 5.06294 3.15219 2.59725 4.42541 3.55768 3.74807 3.84752 2.38362 3.38719 4.18765 3.09972 3.96741 2.43687 1.74222 2.26866 2.20991 3.48224 5.55631 4.23585 8 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01740 4.45607 5.17841 0.61958 0.77255 0.75233 0.63727\n- 4 2.51287 4.53364 3.53378 3.11968 4.56260 1.99400 4.25872 4.00536 3.15568 3.63214 4.42687 3.41227 2.67250 3.46151 3.54873 1.39382 2.11728 3.46854 5.84743 4.58821 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01740 4.45607 5.17841 0.61958 0.77255 0.59520 0.80174\n- 5 2.81067 5.31436 2.41147 2.03332 4.64544 3.48871 3.74549 4.13004 1.82849 3.61374 4.37046 2.95563 2.29306 2.85601 3.01879 2.44805 3.04965 3.69981 5.75222 4.33318 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01634 4.51806 5.24041 0.61958 0.77255 0.38630 1.13809\n- 6 3.61073 4.87690 5.47294 4.91038 3.46708 4.96198 5.33733 2.31996 4.76816 0.92692 2.63290 5.08131 5.13049 4.81053 4.81191 4.33055 3.83681 1.35345 5.55609 4.50840 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62719 5.34953 0.61958 0.77255 0.48576 0.95510\n- 7 3.66509 4.92429 5.51209 4.95613 1.29573 4.95765 5.09467 1.59890 4.80361 1.36347 3.20181 5.05381'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02159 4.24231 4.96466 0.61958 0.77255 0.87923 0.53632\n- 335 2.04911 4.29685 3.51448 3.04961 3.69430 3.34363 4.00678 2.93822 2.98878 1.87985 3.65811 3.36348 3.90061 3.32038 3.31426 1.96743 2.83472 2.67760 5.15612 3.91487 632 l - - -\n- 2.68671 4.42278 2.77573 2.72988 3.46237 2.40566 3.72548 3.29305 2.67662 2.69357 4.24743 2.90234 2.73793 3.18200 2.89694 2.37940 2.77547 2.98572 4.58530 3.61556\n- 0.73971 1.08467 1.68883 2.10031 0.13058 0.30058 1.34856\n- 336 2.33343 4.98000 2.55665 2.42130 4.29670 3.43017 3.03668 3.74072 2.45458 3.29694 4.08154 2.95297 2.88621 2.80182 2.93422 2.40324 2.25143 3.36646 5.49412 4.12570 643 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31273 5.03507 0.61958 0.77255 0.66875 0.71816\n- 337 2.42718 4.31031 4.06710 3.52133 3.48603 3.79483 4.25787 2.41945 3.42308 1.60572 3.41929 3.78872 4.22422 3.69639 3.67724 3.11328 2.02804 1.97375 5.07603 3.87862 644 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31273 5.03507 0.61958 0.77255 0.66875 0.71816\n- 338 2.45708 5.39660 1.86965 1.51310 4.72592 3.39135 3.79030 4.21911 2.67273 3.71558 4.50623 2.86345 3.92089 2.92512 3.21433 2.30376 3.14567 3.79005 5.87206 4.41951 645 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31273 5.03507 0.61958 0.77255 0.66875 0.71816\n- 339 2.69049 4.94163 2.96174 2.46769 4.20978 2.94534 3.69466 3.64520 2.17564 3.22493 4.03148 2.60012 2.24597 2.83785 2.91610 2.70615 2.92748 3.30214 5.43811 3.10581 646 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31273 5.03507 0.61958 0.77255 0.66875 0.71816\n- 340 3.69210 5.03626 4.89753 4.56110 3.36899 4.53801 5.08322 2.61569 4.32734 0.47562 3.29182 4.79637 4.91124 4.58532 4.42220 4.19657 3.97333 2.76317 5.38355 4.20156 647 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31273 5.03507 0.61958 0.77255 0.66875 0.71816\n- 341 3.39543 4.72104 4.92253 4.57304 3.71432 4.51573 5.24239 0.65436 4.41208 2.23193 3.60363 4.76178 4.92488 4.72842 4.56228 4.07445 3.69454 1.96036 5.68071 4.44435 648 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02010 4.31273 5.03507 0.61958 0.77255 0.66875 0.71816\n- 342 2.02193 4.32674 3.39357 2.97512 4.24941 3.09814 4.07699 3.65519 2.98964 3.31886 4.13848 3.25828 2.66130 3.30132 3.36489 1.50365 2.25943 3.17972 5.57109 4.32392 649 s - - -\n- 2.68620 4.42255 2.77549 2.73124 3.46324 2.40542 3.72524 3.29384 2.67743 2.69357 4.24719 2.90342 2.73769 3.18042 2.89830 2.37896 2.77460 2.98474 4.58324 3.61533\n- 0.13319 2.08181 * 2.25822 0.11041 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Endonuc_big.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Endonuc_big.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1538 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__Endonuc_big\n-LENG 505\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 12:02:26 2021\n-NSEQ 71\n-EFFN 2.396423\n-CKSUM 126968631\n-GA 25 25;\n-STATS LOCAL MSV -11.6847 0.69798\n-STATS LOCAL VITERBI -12.6015 0.69798\n-STATS LOCAL FORWARD -5.9314 0.69798\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40277 4.53222 2.84764 2.67340 3.31776 2.96370 3.62334 2.95229 2.70697 2.40410 3.75758 3.15985 3.41643 2.97257 2.83971 2.66790 2.80785 2.66301 4.36883 3.59120\n- 2.68609 4.42301 2.77546 2.73133 3.46343 2.40546 3.72477 3.29407 2.67721 2.69306 4.24154 2.90332 2.73655 3.18223 2.89877 2.37875 2.77566 2.98515 4.58553 3.61579\n- 0.39581 1.13107 5.47805 1.91371 0.15962 0.00000 *\n- 1 2.41271 4.50693 3.70133 3.13133 3.64259 3.78138 4.03622 2.99650 3.06154 2.48627 1.68304 3.52901 4.16124 2.88472 2.86781 3.03028 2.40675 2.58512 5.09173 3.86138 19 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 2 1.70191 4.58277 3.66336 3.11027 3.82923 3.70065 4.08708 3.15193 3.06732 2.68688 3.35829 3.50837 2.41203 3.38103 3.43692 2.97503 1.82234 2.81161 5.25840 4.01630 20 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 3 2.78436 5.27107 2.62395 2.22213 4.60589 2.93428 3.74944 4.08492 2.48914 3.36884 3.37825 2.73558 3.26762 1.97109 2.98049 2.27547 2.83458 3.65625 5.70993 4.30480 21 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02560 4.75570 4.09414 0.61958 0.77255 0.48576 0.95510\n- 4 0.92922 4.70300 3.73802 3.31769 4.68084 2.35383 4.43618 4.11488 3.33540 3.75104 4.55600 3.60559 2.44613 3.64830 3.37420 2.55336 3.13394 3.60541 5.98081 4.72855 22 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01303 4.74313 5.46548 0.61958 0.77255 0.46911 0.98232\n- 5 2.79247 4.43501 3.83842 3.26965 3.57781 2.84371 4.09647 2.62266 3.20072 2.58245 3.55905 3.62377 4.19024 3.48900 2.95393 2.56119 2.38061 1.49265 5.04662 3.82819 23 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 6 2.31658 4.50431 3.69219 3.12710 3.65825 2.67122 4.04282 2.34272 3.08044 2.53669 3.62541 3.18367 4.15195 3.38036 3.43026 2.27367 2.14820 2.39440 5.10517 3.87271 24 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 7 1.65762 4.35302 4.09089 3.51996 3.49287 3.85992 3.63225 2.42576 3.42624 2.56699 3.48839 3.79270 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 498 2.68389 5.25906 3.04362 1.81992 3.98483 3.27191 3.20086 4.06677 2.19900 3.55843 3.76268 2.78727 3.95378 2.57317 2.57084 2.45327 2.75311 3.22970 5.69997 4.29756 554 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 499 2.12238 4.95576 3.22651 2.57740 4.36524 3.60016 4.00936 3.77422 2.83724 3.39565 4.22217 3.27555 1.28619 2.98512 3.27551 2.76843 3.05933 3.19796 5.64770 4.33202 555 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 500 1.42752 4.59816 4.19890 3.81343 4.89330 2.79802 4.79748 4.33275 3.79971 3.99966 4.79140 3.86401 4.15798 4.06474 4.10634 0.95896 2.49155 3.52978 6.22031 5.03532 556 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 501 3.12157 2.87372 5.06153 4.45578 1.78725 4.32957 4.66024 2.22063 4.26140 1.30661 2.84526 4.48314 4.63930 4.35289 4.26956 3.65149 3.34958 2.25109 5.07354 3.93716 557 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 502 2.74252 4.26064 4.30387 3.71501 2.94819 3.90620 3.88122 2.40931 3.58804 2.01364 3.25827 3.90499 4.27510 3.80094 3.75405 2.41827 1.73047 2.10285 4.87497 3.68490 558 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01286 4.75570 5.47805 0.61958 0.77255 0.48576 0.95510\n- 503 2.88196 4.25985 4.77089 4.16311 3.14407 3.56441 4.38400 1.91988 3.96820 1.35187 2.61767 4.19083 4.40629 4.10495 4.00202 3.36497 3.11337 2.05021 4.88076 3.05240 559 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03704 4.75570 3.58431 0.61958 0.77255 0.48576 0.95510\n- 504 2.69889 5.29280 2.45143 2.25580 4.63122 3.28981 3.75155 4.11377 2.16860 3.29137 4.33642 2.83683 2.00224 2.49447 2.89610 2.75613 3.02565 3.68010 5.72803 4.31880 560 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16430 4.73184 1.94700 0.61958 0.77255 0.53653 0.87893\n- 505 2.10467 4.38356 3.21172 2.57420 3.60483 3.03142 3.86048 2.65936 2.76889 2.59580 3.58403 2.70757 4.01609 3.09717 3.18317 2.53312 2.68411 2.61705 5.18811 3.91637 561 a - - -\n- 2.68538 4.42272 2.77550 2.73154 3.46392 2.40524 3.72513 3.29344 2.67759 2.69384 4.24693 2.90365 2.73697 3.18153 2.89811 2.37862 2.77484 2.98495 4.58524 3.61550\n- 0.35315 1.21225 * 1.68855 0.20431 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Endonuc_small.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Endonuc_small.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,746 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__Endonuc_small\n-LENG 241\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 12:02:17 2021\n-NSEQ 314\n-EFFN 0.895966\n-CKSUM 3042889618\n-GA 25 25;\n-STATS LOCAL MSV -10.5815 0.70331\n-STATS LOCAL VITERBI -11.5971 0.70331\n-STATS LOCAL FORWARD -4.9374 0.70331\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47782 4.50670 2.93859 2.69625 3.27928 2.94331 3.72050 2.76334 2.70674 2.40548 3.65548 3.18710 3.38656 3.03105 2.98603 2.61436 2.85991 2.58677 4.49256 3.40053\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24683 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02969 3.84189 4.85386 0.59301 0.80444 0.00000 *\n- 1 3.11584 4.59283 4.47679 3.97359 3.24127 4.18103 4.63832 2.28446 3.75625 1.70557 1.26608 4.22682 4.54741 4.04703 3.94625 3.55881 3.39203 2.16468 5.19319 4.01530 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02415 4.13151 4.85386 0.61958 0.77255 0.48576 0.95510\n- 2 2.12414 4.39374 3.25982 2.87538 4.26302 3.12889 4.02788 3.67543 2.92385 3.32796 4.14758 2.80309 3.70024 3.24116 3.31249 1.41957 2.23795 3.21149 5.57220 4.30884 3 s - - -\n- 2.68590 4.42237 2.77518 2.73119 3.46366 2.40521 3.72507 3.29347 2.67734 2.69358 4.24702 2.90356 2.73739 3.18137 2.89804 2.37890 2.77514 2.98522 4.58489 3.61515\n- 0.14612 2.16346 3.86233 1.55456 0.23735 0.48576 0.95510\n- 3 2.65114 5.17544 2.11503 2.18178 4.49420 3.25907 3.62325 3.97323 2.25460 3.46798 4.16273 2.44800 3.80486 2.26426 2.90649 2.63271 2.87791 3.52426 5.61620 4.20049 24 d - - -\n- 2.68603 4.42231 2.77516 2.73129 3.46353 2.40518 3.72483 3.29351 2.67739 2.69358 4.24696 2.90353 2.73739 3.18152 2.89799 2.37890 2.77509 2.98520 4.58483 3.61509\n- 0.21398 1.68883 4.84055 0.71665 0.67019 0.47618 0.97062\n- 4 2.67838 3.64854 4.05686 3.48861 3.08685 3.73437 4.01095 2.42186 3.33532 2.24849 3.26424 3.70595 4.12654 3.59640 3.53893 3.03793 2.85128 2.26490 1.84348 3.30595 33 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12465 4.13151 2.29128 0.61958 0.77255 0.48576 0.95510\n- 5 2.63616 4.85400 2.08901 2.36424 4.45463 3.05469 3.82410 3.92986 2.75730 3.51338 4.33797 2.83167 3.80084 3.00023 3.25418 1.47578 2.98107 3.49005 5.70296 4.31700 34 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03353 4.75587 0.61958 0.77255 0.42542 1.05985\n- 6 3.42131 4.73028 5.00768 4.44164 3.12087 4.69742 4.98872 1.97951 4.28714 0.81216 2.53473 4.71138 4.84605 4.38240 4.39621 4.05201 3.63894 2.30865 5.24907 4.20348 35 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02415 4.13151 4.85386 0.61958 0.77255 0.48576 0.95510\n- 7 2.49050 4.92080 2.94474 2.37278 4.20907 3.42113 3.62214 3.63807 2.14922 3.12625 3.99910 2.8986'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02417 4.13045 4.85279 0.61958 0.77255 0.48702 0.95309\n- 234 1.10603 4.51495 3.14584 2.81044 4.17282 3.26298 4.02714 3.43504 2.64112 3.19999 4.10065 3.23472 3.89158 3.26464 3.17765 2.70657 2.95015 3.08709 5.51322 4.25477 319 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02417 4.13045 4.85279 0.61958 0.77255 0.48702 0.95309\n- 235 3.52264 4.93645 4.25708 3.95487 2.22225 4.20236 3.65802 3.36513 3.73950 2.61767 4.03094 3.97711 4.60914 3.98297 3.88442 3.64730 3.78569 3.26555 3.89047 0.78405 320 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02417 4.13045 4.85279 0.61958 0.77255 0.48702 0.95309\n- 236 2.04257 4.16274 3.21088 2.55139 3.75487 2.37495 3.75716 3.13340 2.65060 2.69407 3.67051 3.12853 3.86580 2.98538 3.06181 2.57435 2.82133 2.85688 5.12638 3.56633 321 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02417 4.13045 4.85279 0.61958 0.77255 0.48702 0.95309\n- 237 2.61696 5.06883 2.77159 2.20728 4.39122 3.40148 3.58924 3.85026 2.03544 3.35625 4.12079 2.79214 3.80184 2.18053 2.55802 2.51070 2.87227 3.22493 5.50700 4.12633 322 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06575 4.13045 3.04575 0.61958 0.77255 0.48702 0.95309\n- 238 2.56640 4.26010 4.02959 3.47364 3.10849 3.77795 4.05196 2.29322 3.31380 2.17698 3.26637 3.72152 4.16748 3.59938 3.53655 3.08611 2.98453 2.15036 1.93661 3.39655 323 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02519 4.08988 4.81223 0.61958 0.77255 0.53288 0.88409\n- 239 3.31779 4.63749 4.91095 4.36819 3.19905 4.59915 4.95618 1.76771 4.21515 0.93096 2.99539 4.62520 4.80281 4.36775 4.35284 3.96356 3.55182 2.00278 5.28574 4.18585 324 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03422 4.08988 4.08029 0.61958 0.77255 0.53288 0.88409\n- 240 2.41331 4.81366 2.85471 2.34165 3.94446 3.40550 3.61684 3.49009 2.38332 3.05541 3.89215 2.74482 3.80229 2.73292 2.68476 2.53747 2.18641 3.12217 5.31188 3.97754 325 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05350 4.08107 3.34667 0.61958 0.77255 0.54234 0.87081\n- 241 2.63395 5.02353 2.83274 2.28529 4.33778 3.40195 3.50726 3.78269 1.77787 3.30219 4.08096 2.77337 3.55908 2.54183 2.58741 2.55267 2.87284 3.24030 5.46216 4.10062 326 k - - -\n- 2.68616 4.42239 2.77514 2.73115 3.46349 2.40507 3.72509 3.29363 2.67750 2.69355 4.24704 2.90348 2.73732 3.18147 2.89806 2.37882 2.77520 2.98526 4.58491 3.61498\n- 0.19315 1.73929 * 1.44935 0.26752 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__HORMA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__HORMA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,494 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__HORMA\n-LENG 157\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 15:46:36 2021\n-NSEQ 20\n-EFFN 1.567383\n-CKSUM 1224884492\n-GA 60 60;\n-STATS LOCAL MSV -10.0386 0.70869\n-STATS LOCAL VITERBI -10.9802 0.70869\n-STATS LOCAL FORWARD -4.6844 0.70869\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.27909 4.26012 2.79292 2.65085 3.72836 2.98305 3.79627 2.83765 2.75183 2.51194 3.75022 3.17711 3.26181 3.09609 2.84028 2.59541 2.71030 2.63476 4.44046 3.95141\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12266 4.45926 2.26471 0.61958 0.77255 0.00000 *\n- 1 2.87845 4.41807 4.06746 3.49576 3.34248 3.94314 4.22393 2.55092 3.34851 1.96019 1.63844 3.81291 4.29032 2.84020 3.59811 3.22898 3.11047 2.02195 5.00623 3.82628 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09622 4.35585 2.53948 0.61958 0.77255 0.63532 0.75453\n- 2 2.49069 4.93802 2.97883 2.19388 4.26724 3.43743 3.68046 3.69872 2.43210 3.26442 4.05892 2.97952 3.85696 2.81369 2.36211 2.05532 2.32479 3.33451 5.46632 4.11654 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02077 4.28040 5.00275 0.61958 0.77255 0.56274 0.84315\n- 3 2.66634 4.73811 3.24368 2.69488 4.11059 3.47799 3.80720 3.29705 2.55552 3.13122 3.96774 3.15799 3.92992 2.98293 2.07705 2.15596 1.88725 3.17339 5.38678 4.09539 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23996 4.35585 1.60688 0.61958 0.77255 0.63532 0.75453\n- 4 2.61844 4.19254 3.79141 3.26023 3.41053 3.61166 4.01450 2.49720 3.13083 2.43850 3.38935 3.55156 4.03408 3.44625 3.39440 2.93244 2.64195 1.35797 4.86770 3.69850 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02394 4.13984 4.86218 0.61958 0.77255 0.85663 0.55268\n- 5 2.08341 4.21021 4.07719 3.51443 3.34408 3.83071 4.18115 1.93972 3.41390 2.28045 3.30774 3.77808 4.20514 3.67085 3.64715 3.12870 2.96410 1.63632 4.92718 3.23043 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02394 4.13984 4.86218 0.61958 0.77255 0.61116 0.78246\n- 6 2.45475 4.90288 3.06541 2.52222 4.25882 3.45527 3.69702 3.67917 2.16532 3.24950 4.05329 3.02562 3.87737 2.83586 2.35760 1.83612 2.59574 3.32159 5.45087 4.12388 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02091 4.27390 4.99625 0.61958 0.77255 0.73092 0.65675\n- 7 3.52289 5.29480 4.06011 3.50914 4.75587 3.90739 4.20248 4.34351 2.51390 3.78607 4.79143 3.82952 4.4047'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12722 0.61958 0.77255 0.56911 0.83478\n- 150 3.24748 5.83669 0.90126 2.31998 5.15352 3.43098 4.06282 4.75509 3.16555 4.23491 5.11576 1.87641 4.09829 3.24504 3.80784 3.11485 3.56523 4.29162 6.34743 4.79813 168 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12722 0.61958 0.77255 0.56911 0.83478\n- 151 2.46924 4.32851 3.63858 3.07023 3.46370 3.09297 3.93391 2.81238 3.01270 2.02478 3.15262 3.44612 2.97167 3.12494 3.34020 2.91581 2.53457 2.10897 4.92510 3.70115 169 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12722 0.61958 0.77255 0.56911 0.83478\n- 152 2.52041 5.17120 2.41072 1.96318 4.49323 2.94279 3.67109 3.96483 1.91503 3.46742 4.22434 2.92696 3.86559 2.77975 2.92198 2.67805 2.94524 2.95288 5.61904 4.21676 170 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12722 0.61958 0.77255 0.56911 0.83478\n- 153 2.07403 4.91765 2.84725 2.11340 4.59918 1.29874 4.04634 4.02480 2.95095 3.63651 4.46592 3.12964 3.98458 3.22895 3.40996 2.82119 3.12913 3.58938 5.85232 4.50935 171 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12722 0.61958 0.77255 0.56911 0.83478\n- 154 3.37825 4.69034 5.11083 4.55335 1.60727 4.61061 4.78881 2.37273 4.40622 1.18560 3.10822 4.67782 4.83420 4.45886 4.45822 3.95610 3.60284 1.89714 5.05492 3.78959 172 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01832 4.40488 5.12722 0.61958 0.77255 0.56911 0.83478\n- 155 2.70509 4.41966 3.58413 2.52883 2.67779 3.68217 3.92315 2.87265 2.92728 1.79250 3.17172 3.41704 4.05708 3.25507 2.44578 2.93131 2.93523 2.67209 4.98255 3.74646 173 l - - -\n- 2.68595 4.42240 2.77515 2.73138 3.46369 2.40490 3.72509 3.29369 2.67756 2.69370 4.24705 2.90362 2.73754 3.18129 2.89791 2.37887 2.77534 2.98509 4.58239 3.61518\n- 0.28164 1.60654 3.10383 1.12422 0.39290 0.43696 1.03845\n- 156 2.11313 4.79383 3.14044 2.62446 4.07675 2.16188 3.78767 3.47491 2.21304 2.44860 3.93943 2.91403 3.93781 2.96264 3.01546 2.76246 2.94684 3.16418 5.37046 4.06307 179 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01801 4.42168 5.14403 0.61958 0.77255 0.45067 1.01390\n- 157 2.69569 4.80995 3.14636 2.44696 3.20647 3.53866 3.75338 3.43853 2.56509 2.89260 3.89618 3.09917 3.40814 2.92439 2.49035 1.70096 2.92892 3.13687 5.33064 4.01544 180 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01170 4.45363 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Jab.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Jab.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,656 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__Jab\n-LENG 211\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 09:34:26 2021\n-NSEQ 973\n-EFFN 10.530094\n-CKSUM 2273258641\n-GA 20 20;\n-STATS LOCAL MSV -10.6131 0.70472\n-STATS LOCAL VITERBI -11.4697 0.70472\n-STATS LOCAL FORWARD -5.2111 0.70472\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65822 4.44754 2.91957 2.62512 3.40137 2.80610 3.36785 2.78276 2.69221 2.54185 3.71277 3.08964 3.28215 3.04225 2.81765 2.58177 2.82537 2.77434 4.15594 3.59924\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06560 3.60533 3.31552 0.61958 0.77255 0.00000 *\n- 1 2.73687 4.34294 3.84186 3.37314 3.15569 3.69019 4.18855 2.15610 3.16480 1.76413 2.39033 3.67819 4.13946 3.54665 3.41765 3.07418 3.03883 2.00298 4.98733 3.72425 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04221 3.58195 4.30429 0.61958 0.77255 0.50180 0.92999\n- 2 2.03820 4.29182 2.74149 2.56054 3.91181 2.95548 3.79868 3.27924 2.67242 3.05723 3.98565 2.35907 3.62464 3.05581 3.00641 2.45119 2.73363 2.91158 5.28460 3.95448 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06692 3.58195 3.29922 0.61958 0.77255 0.50180 0.92999\n- 3 2.74188 4.30342 3.91735 3.48512 3.22271 3.72731 4.29905 1.71301 3.30023 1.86408 3.18633 3.76579 4.19593 3.67939 3.54916 3.13542 3.05698 1.78244 5.06600 3.76352 3 i - - -\n- 2.68618 4.42225 2.77520 2.73124 3.46354 2.40513 3.72495 3.29351 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37886 2.77516 2.98519 4.58477 3.61503\n- 0.09629 2.55146 4.28061 0.50345 0.92745 0.51740 0.90651\n- 4 2.89940 4.41532 4.05733 3.52738 3.08822 3.96755 4.29902 2.01124 3.31479 1.43253 2.80284 3.86055 4.30979 3.66493 3.56556 3.30862 3.15717 1.96152 4.99191 3.74413 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04089 3.61298 4.33533 0.61958 0.77255 0.51740 0.90651\n- 5 2.53327 4.53672 2.85973 2.27152 3.80236 3.27963 3.63128 3.05972 2.41174 2.84003 3.60019 2.94213 3.75776 2.78490 2.77665 2.34237 2.80251 2.87410 5.13935 3.83733 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04036 3.62581 4.34816 0.61958 0.77255 0.51740 0.90651\n- 6 2.41656 4.62275 2.82256 2.38701 3.90583 3.11145 3.58308 3.28436 2.20600 2.91981 3.61678 2.91448 3.75632 2.76628 2.54906 2.62081 2.80268 2.98508 5.17728 3.88747 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03970 3.64195 4.36430 0.61958 0.77255 0.51740 0.90651\n- 7 2.27270 2.98935 3.31044 2.85087 3.66127 3.01266 3.81844 2.98776 2.55903 2.72887 3.61038 3.14845 3.3644'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04465 3.52701 4.24936 0.61958 0.77255 0.49784 0.93610\n- 204 2.67764 4.77001 2.65178 2.21966 4.08358 3.26290 3.55048 3.48171 2.06129 3.08362 3.96372 2.76937 3.75979 2.73309 2.31089 2.69555 2.92702 3.17411 5.26589 3.97820 755 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04368 3.54854 4.27089 0.61958 0.77255 0.51190 0.91469\n- 205 2.49547 4.27500 3.30055 2.87844 3.14097 3.32240 3.80582 2.51852 2.71863 2.30211 3.32473 3.13307 3.84649 3.15544 3.01202 2.70641 2.70940 2.33625 4.84682 3.44898 756 l - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29348 2.67741 2.69355 4.24690 2.90347 2.73738 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.10297 2.67364 3.54567 0.53085 0.88698 0.49527 0.94009\n- 206 2.54901 4.62793 2.19809 2.23896 3.92649 3.05663 3.62536 3.39402 2.40240 3.08290 4.02013 2.64847 3.66048 2.85473 2.89270 2.59002 2.87523 3.06951 5.25883 3.87823 758 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04636 3.49017 4.21252 0.61958 0.77255 0.51032 0.91705\n- 207 2.32076 4.21728 3.17591 2.81833 3.26782 3.14474 3.80449 2.74137 2.69215 2.46311 3.54664 3.14495 3.45656 3.11927 2.89886 2.56140 2.73827 2.45172 4.96068 3.61047 759 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04646 3.48804 4.21038 0.61958 0.77255 0.49628 0.93852\n- 208 2.50045 4.17041 2.95916 2.75909 3.40360 2.89279 3.70372 2.98667 2.54330 2.59885 3.76272 3.09572 3.51836 3.09652 2.29913 2.66883 2.88127 2.76535 4.71308 3.52076 760 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04905 3.43510 4.15745 0.61958 0.77255 0.50180 0.92999\n- 209 2.51178 4.32712 2.39082 2.28700 3.65752 2.91925 3.68672 3.06265 2.61083 2.84435 3.90974 2.87907 3.55320 3.00645 2.91671 2.62502 2.87802 2.79816 4.95471 3.72089 761 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04905 3.43510 4.15745 0.61958 0.77255 0.50180 0.92999\n- 210 2.27372 4.06300 2.92025 2.77643 3.57410 2.60061 3.83570 2.91160 2.77126 2.72361 3.83073 3.06008 3.50477 3.20596 3.00798 2.45704 2.53543 2.62613 4.94744 3.71687 762 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04905 3.43510 4.15745 0.61958 0.77255 0.50180 0.92999\n- 211 2.29114 4.16138 2.81294 2.67123 3.46577 2.87766 3.75706 3.04740 2.67452 2.85723 3.90396 2.81827 3.56717 3.12212 2.93741 2.33885 2.72478 2.73150 4.91979 3.51471 763 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03328 3.41933 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__OGG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__OGG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,665 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__OGG\n-LENG 214\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 16:04:27 2021\n-NSEQ 10\n-EFFN 0.874023\n-CKSUM 2343053447\n-GA 100 100;\n-STATS LOCAL MSV -10.3453 0.70452\n-STATS LOCAL VITERBI -11.2503 0.70452\n-STATS LOCAL FORWARD -4.9653 0.70452\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45252 4.05323 2.99595 2.67362 3.17478 3.05104 3.64936 2.68941 2.67298 2.46515 3.67270 3.10771 3.69328 3.08365 2.91774 2.66619 2.90595 2.57401 4.13692 3.53292\n- 2.68620 4.42228 2.77522 2.73126 3.46356 2.40515 3.72497 3.29357 2.67743 2.69357 4.24626 2.90349 2.73742 3.18149 2.89787 2.37889 2.77522 2.98503 4.58479 3.61506\n- 0.41191 2.09474 1.53938 0.50350 0.92738 0.00000 *\n- 1 2.98068 4.52705 4.06524 3.65970 3.21394 3.84511 4.39140 2.39100 3.42701 1.80627 1.34978 3.93539 4.30569 3.80784 3.63061 3.33139 3.28622 2.39887 5.05681 3.81995 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03093 3.88731 4.60966 0.61958 0.77255 0.61949 0.77266\n- 2 2.54541 4.29682 3.37833 2.59780 3.03805 3.50526 3.77932 2.56692 2.77772 2.50615 3.41007 3.23757 3.89702 3.09111 3.14097 2.53050 2.40340 2.37053 4.89814 3.65535 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02923 3.94281 4.66516 0.61958 0.77255 0.65842 0.72912\n- 3 2.04881 4.38617 3.16363 2.70193 3.19716 3.26167 3.79615 3.18267 2.71472 2.87233 3.73571 2.70776 3.78638 3.03962 3.11125 2.02893 2.76592 2.86958 5.15692 3.86818 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02923 3.94281 4.66516 0.61958 0.77255 0.65842 0.72912\n- 4 2.41923 4.84651 2.80155 2.35940 4.14560 3.34189 3.18932 3.57729 2.39250 3.15668 3.96662 2.62924 2.87558 2.51472 2.84172 2.44395 2.84662 3.22899 5.37193 4.02448 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02923 3.94281 4.66516 0.61958 0.77255 0.65842 0.72912\n- 5 2.38575 4.49150 3.17091 2.61220 3.68758 3.44474 3.67970 2.78596 2.53325 2.55908 3.59803 3.07882 3.83916 2.65327 2.70647 2.50981 2.56380 2.79299 5.05281 3.78124 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02923 3.94281 4.66516 0.61958 0.77255 0.46489 0.98941\n- 6 2.14154 4.22739 3.76080 3.19313 3.34023 3.68756 3.98756 2.11472 3.10914 2.29397 2.91322 3.53174 4.06234 3.02983 3.39980 2.96039 2.87856 2.00396 4.87618 3.66747 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02573 4.06865 4.79100 0.61958 0.77255 0.54129 0.87227\n- 7 2.68563 5.06617 2.36962 2.14631 4.39264 3.32597 3.65951 3.85125 2.49074 3.39214 4.18541 2.37811 3.8065'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02446 4.11876 4.84110 0.61958 0.77255 0.48576 0.95510\n- 207 2.46417 5.13023 2.17300 2.28545 4.45041 3.01601 3.62228 3.92252 2.40278 3.42867 4.19720 2.42345 3.80341 2.40156 2.62883 2.63707 2.91537 3.51159 5.58512 4.17873 213 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02446 4.11876 4.84110 0.61958 0.77255 0.48576 0.95510\n- 208 2.64230 4.78447 2.93435 2.46966 4.00387 3.00847 3.67523 3.44269 2.33802 3.05768 3.88940 2.37002 3.35515 2.84718 2.92119 2.68684 2.88242 3.13097 5.29408 2.51693 214 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02446 4.11876 4.84110 0.61958 0.77255 0.48576 0.95510\n- 209 2.59996 4.60261 2.88821 2.57777 3.79743 3.46950 3.69457 3.18152 2.54597 2.30084 3.69393 3.06521 3.86201 2.66722 2.74912 2.39889 2.83291 2.49014 5.14367 3.85378 215 l - - -\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40518 3.72468 3.29333 2.67746 2.69349 4.24695 2.90352 2.73732 3.18131 2.89806 2.37892 2.77509 2.98523 4.58482 3.61508\n- 0.30682 1.80738 2.30126 0.66580 0.72126 0.48576 0.95510\n- 210 2.13782 4.90493 2.59357 2.34926 4.19169 3.36596 3.15633 3.62862 2.38586 3.19521 3.99149 2.64233 3.78619 2.74057 2.66338 2.60938 2.62440 3.27054 5.40172 4.04092 218 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08388 4.02199 2.77193 0.61958 0.77255 0.50561 0.92416\n- 211 2.47066 4.18218 4.11352 3.54294 3.25446 3.85206 4.17119 1.94032 3.43429 1.97892 3.21396 3.79756 4.20488 3.67950 3.65174 3.14681 2.95425 1.66975 4.87027 3.08495 219 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02709 4.01802 4.74037 0.61958 0.77255 0.59187 0.80585\n- 212 2.68276 4.20588 3.97297 3.42162 2.10816 3.11469 4.01897 2.44543 3.31831 1.87147 3.21478 3.67671 4.12196 3.56475 3.54774 3.03848 2.93024 2.10673 4.69495 3.38816 220 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09210 4.01802 2.65928 0.61958 0.77255 0.59187 0.80585\n- 213 2.59398 4.81766 2.50035 2.35783 4.13104 3.31833 3.64240 3.55284 2.46814 2.81866 3.97173 2.25691 3.78034 2.79747 2.93691 2.39577 2.59377 3.20667 5.38453 4.03256 221 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16040 3.95480 2.04767 0.61958 0.77255 0.64843 0.73995\n- 214 2.44472 4.48255 3.00858 2.59746 4.05421 3.17576 3.73928 3.47752 2.49349 3.10269 3.94579 3.01459 3.01864 2.93330 2.49022 1.87037 2.78245 3.09990 5.32712 4.04221 222 s - - -\n- 2.68603 4.42249 2.77514 2.73106 3.46377 2.40527 3.72479 3.29327 2.67751 2.69337 4.24713 2.90336 2.73763 3.18149 2.89808 2.37901 2.77483 2.98542 4.58407 3.61527\n- 0.37170 1.16976 * 1.63336 0.21725 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Phospholipase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Phospholipase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1013 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__Phospholipase\n-LENG 330\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 12:26:33 2021\n-NSEQ 844\n-EFFN 2.308456\n-CKSUM 2455646777\n-GA 50 50;\n-STATS LOCAL MSV -11.0149 0.70055\n-STATS LOCAL VITERBI -12.2372 0.70055\n-STATS LOCAL FORWARD -5.4542 0.70055\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40927 4.48528 2.95481 2.71515 3.29097 2.70099 3.69265 2.83061 2.68152 2.41825 3.66967 3.07998 3.36445 3.08348 2.97717 2.63197 2.79200 2.75955 4.81486 3.59869\n- 2.68609 4.42234 2.77512 2.73135 3.46355 2.40514 3.72511 3.29362 2.67752 2.69356 4.24589 2.90334 2.73734 3.18148 2.89811 2.37898 2.77522 2.98491 4.58477 3.61519\n- 0.52261 1.96098 1.32310 1.78022 0.18465 0.00000 *\n- 1 2.49079 4.76119 2.71188 2.34306 4.00188 2.85998 3.48265 3.34731 2.38345 2.93900 3.41850 2.83637 3.73627 2.65588 2.83601 2.51138 2.75927 3.07733 5.26468 3.92903 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07065 3.93600 3.02228 0.61958 0.77255 0.47715 0.96903\n- 2 2.62626 4.20450 3.88227 3.09748 3.28704 3.64091 4.00822 2.46931 3.22704 2.29548 1.82229 3.55996 4.03079 3.35730 3.48443 2.91172 2.73851 2.25346 4.72748 3.38502 28 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01831 4.40502 5.12737 0.61958 0.77255 0.56312 0.84264\n- 3 2.55574 4.55279 2.83938 2.30463 4.29905 3.29381 3.67524 3.63535 2.35275 3.22923 3.69008 2.74542 2.73198 2.72517 2.87787 2.27558 2.63180 3.11004 5.49117 4.07543 29 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02180 4.43479 4.63508 0.61958 0.77255 0.51379 0.91186\n- 4 2.59456 5.01155 2.73610 2.19045 4.37938 3.37994 3.46821 3.75835 2.33649 3.23436 3.68087 2.54071 3.67404 2.65649 2.88367 2.48665 2.46957 3.36731 4.70049 3.27144 30 e - - -\n- 2.68617 4.42344 2.77557 2.73088 3.46413 2.40560 3.72455 3.29380 2.67771 2.69385 4.24792 2.90397 2.73581 3.18077 2.89710 2.37910 2.77520 2.98539 4.58288 3.61532\n- 1.03368 0.74827 1.76540 2.32304 0.10311 0.48765 0.95210\n- 5 2.56341 5.18585 2.53000 2.11885 4.39188 2.92303 3.53551 3.81239 2.13384 3.43007 3.59887 2.75320 3.50503 2.57992 2.77648 2.56324 2.78460 3.43272 5.62480 4.16657 91 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15419 4.51713 2.02517 0.61958 0.77255 0.53293 0.88402\n- 6 2.64306 5.11046 2.82359 2.32344 4.51442 3.29683 3.62389 3.86875 1.81050 3.44806 3.99977 2.44255 3.47099 2.63659 2.41016 2.60284 2.89436 3.53904 5.61653 4.21484 92 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06639 4.48506 2.93830 0.61958 0.77255 0.57560 0.82638\n- 7 2.65186 4.76408 2.83763 2.40053 4.36318 3.38308 3.70313 3.27568 2.17298 3.22559 3.90761 2.972'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03706 4.36545 3.74353 0.61958 0.77255 0.58910 0.80929\n- 323 2.44453 5.05365 2.90576 2.28023 4.17410 3.35527 3.18585 3.71669 2.07202 3.24259 4.10540 2.72073 3.26038 2.66746 2.62782 2.52951 2.86408 3.42223 5.51119 3.40590 683 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.32210 4.48164 0.61958 0.77255 0.61036 0.78341\n- 324 2.48559 5.02228 2.86411 2.25283 4.23642 3.06820 3.46717 3.69356 2.28260 3.17728 3.95005 2.44243 3.69388 2.57932 2.75816 2.46174 2.64000 3.22954 5.48332 4.10206 684 e - - -\n- 2.68613 4.42210 2.77518 2.73122 3.46350 2.40516 3.72499 3.29351 2.67741 2.69352 4.24696 2.90346 2.73737 3.18149 2.89805 2.37889 2.77516 2.98522 4.58470 3.61507\n- 0.24818 1.64072 3.65195 0.60555 0.78916 0.61180 0.78170\n- 325 2.49623 4.41660 3.10669 2.55076 3.66852 3.28072 3.71212 2.97825 2.46583 2.52531 3.50878 3.07570 3.59157 2.81155 2.79919 2.61278 2.67920 2.47636 5.10464 3.78621 690 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08913 4.15881 2.66425 0.61958 0.77255 0.62058 0.77140\n- 326 2.53668 4.99383 2.85161 2.18059 4.29571 3.16997 3.57959 3.72687 2.19089 3.26490 4.05065 2.77860 3.00113 2.57593 2.57868 2.42960 2.82564 3.36198 5.45121 4.00442 691 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04852 4.06722 3.49881 0.61958 0.77255 0.67368 0.71300\n- 327 2.51537 5.00938 2.74489 2.01376 4.26182 3.09616 3.25326 3.77099 2.26478 3.29607 4.06444 2.71652 3.70104 2.65115 2.71849 2.42557 2.76454 3.33005 5.46659 4.08020 692 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04620 4.04580 3.58785 0.61958 0.77255 0.69382 0.69248\n- 328 2.31203 4.80606 2.79568 2.30131 4.11914 3.16116 3.50349 3.50336 2.27362 3.09288 3.86504 2.84976 3.63949 2.68324 2.59066 2.52523 2.67802 3.12564 5.33910 3.98569 693 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07057 3.99311 3.00184 0.61958 0.77255 0.68777 0.69855\n- 329 2.34368 4.82182 2.73810 2.22810 4.08047 3.18744 3.44414 3.43421 2.31182 3.07246 3.82188 2.85919 3.65444 2.67736 2.79551 2.46545 2.70965 3.09118 5.31352 3.96372 694 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03961 3.92033 3.96339 0.61958 0.77255 0.69266 0.69363\n- 330 2.51034 4.60067 2.45051 2.33422 3.81302 3.22466 3.60635 3.26161 2.43260 2.79837 3.79781 2.82824 3.65970 2.77722 2.83969 2.52130 2.78664 2.93677 5.19230 3.86218 695 e - - -\n- 2.68603 4.42240 2.77528 2.73125 3.46369 2.40511 3.72483 3.29354 2.67753 2.69366 4.24705 2.90347 2.73722 3.18160 2.89800 2.37880 2.77496 2.98527 4.58492 3.61518\n- 0.21029 1.66256 * 1.74848 0.19121 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__QueC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__QueC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,587 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__QueC\n-LENG 188\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 16:10:38 2021\n-NSEQ 14\n-EFFN 0.878418\n-CKSUM 491115842\n-GA 60 60;\n-STATS LOCAL MSV -10.4215 0.70609\n-STATS LOCAL VITERBI -11.2370 0.70609\n-STATS LOCAL FORWARD -4.4543 0.70609\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50844 3.65372 3.02211 2.71790 3.26864 2.79571 3.71398 2.74923 2.76379 2.47166 3.66031 3.14320 3.51360 3.09402 3.05403 2.58315 2.86645 2.59971 4.94188 3.27030\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.00000 *\n- 1 3.25592 4.67805 4.59303 4.07103 3.14483 4.36140 4.68462 2.30002 3.83419 1.43347 1.30191 4.34835 4.64570 4.10240 4.00582 3.73378 3.50125 2.38960 5.14712 3.97816 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12623 4.12133 2.27918 0.61958 0.77255 0.48576 0.95510\n- 2 2.30564 4.61941 3.04244 2.51708 3.49217 3.40044 3.34955 3.26447 2.51308 2.90775 3.74839 2.50493 3.44649 2.85746 2.95035 2.64034 2.36953 2.96797 5.18698 3.88166 2 a - - -\n- 2.68624 4.42241 2.77535 2.73110 3.46370 2.40521 3.72510 3.29352 2.67736 2.69371 4.24608 2.90351 2.73735 3.18130 2.89779 2.37888 2.77495 2.98534 4.58493 3.61519\n- 0.38581 1.49482 2.34541 1.38036 0.28967 0.59072 0.80728\n- 3 2.67994 4.95782 2.91409 2.40786 4.26316 3.41179 3.23298 3.69097 2.20480 3.22758 4.03608 2.50367 3.81801 2.28530 2.28008 2.67754 2.69611 3.33905 5.39134 4.06853 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02959 3.93093 4.65328 0.61958 0.77255 0.67061 0.71620\n- 4 2.56410 4.73136 2.76594 2.30421 3.96485 3.38478 3.60088 3.37368 2.28585 2.67317 3.46502 2.92511 3.39440 2.75993 2.85707 2.36515 2.79680 3.05987 5.24143 3.91454 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02959 3.93093 4.65328 0.61958 0.77255 0.59254 0.80502\n- 5 2.44270 4.87307 2.53645 2.34551 4.17566 3.34714 3.60183 3.60870 2.15914 3.18067 3.97725 2.70192 3.77259 2.73781 2.86131 2.33797 2.66141 3.01190 5.39110 4.03153 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02812 3.98125 4.70360 0.61958 0.77255 0.53146 0.88611\n- 6 2.37506 4.93607 2.67618 2.34782 4.21868 3.37745 3.59995 3.65865 1.89497 3.21671 4.00871 2.70097 3.42485 2.73039 2.82995 2.61354 2.85043 3.29653 5.41429 3.56024 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02647 4.04082 4.76317 0.61958 0.77255 0.43512 1.04182\n- 7 2.62927 5.09568 2.64474 2.06541 4.42046 3.37579 3.25699 3.89327 2.24128 3.39025 4.14477 2.67758 3.44666 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 181 3.30812 5.11535 3.82624 3.29405 4.53431 3.73867 4.03584 4.09971 2.37969 3.57053 4.57038 3.63144 4.23475 3.24921 0.65697 3.38416 3.56067 3.81438 5.51960 4.41440 195 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 182 2.74693 4.98268 3.07931 2.37040 4.28430 3.50319 3.62793 3.69549 2.07360 3.23911 4.05481 3.01510 3.89088 2.76383 1.74769 2.46591 2.96162 3.35745 5.40765 3.52818 196 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 183 2.08217 4.69079 3.12265 2.43524 3.90659 3.47836 3.67007 3.29242 2.25326 2.58409 3.42102 3.04794 3.86457 2.85091 2.50072 2.70214 2.85656 3.00565 5.20673 3.91310 197 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 184 3.32160 4.66078 4.86584 4.32016 2.47775 4.52981 4.72858 2.24876 4.18908 0.87970 2.94452 4.53872 4.73938 4.28253 4.30240 3.87831 3.54788 2.15324 5.01823 3.78559 198 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 185 2.61628 4.94506 2.71859 2.14754 4.22226 2.96434 3.61142 3.66354 2.39208 3.00964 4.01053 2.45899 3.79965 2.73956 2.87221 2.48321 2.53835 3.29998 5.42426 3.63268 199 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 4.12133 4.84367 0.61958 0.77255 0.48576 0.95510\n- 186 2.28201 2.84352 3.25949 2.21469 3.69913 3.14653 3.77970 2.83152 2.69877 2.75662 3.62504 3.16386 3.87529 3.02673 3.09915 2.53110 2.81693 2.79288 5.08864 3.82487 200 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13906 4.12133 2.17508 0.61958 0.77255 0.48576 0.95510\n- 187 2.28866 4.51386 3.14333 2.60125 3.75778 3.13410 3.70164 2.88792 2.43933 2.62929 3.66170 3.06949 3.40138 2.91640 2.98736 2.23015 2.79436 2.85741 5.11479 3.83399 201 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18174 4.00959 1.91027 0.61958 0.77255 0.60249 0.79285\n- 188 2.37825 4.20151 3.48790 2.93660 2.78442 3.18362 3.77819 2.68678 2.87585 2.23725 3.32344 3.30487 3.90425 3.17283 3.19976 2.60078 2.76906 2.47011 4.72961 3.08935 202 l - - -\n- 2.68632 4.42253 2.77522 2.73114 3.46362 2.40516 3.72522 3.29382 2.67727 2.69353 4.24629 2.90333 2.73728 3.18134 2.89801 2.37880 2.77522 2.98546 4.58504 3.61481\n- 0.42144 1.06741 * 1.66857 0.20889 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Sensing_SAVED.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Sensing_SAVED.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,594 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Sensing_SAVED\n-ACC PF18145.2\n-DESC SMODS-associated and fused to various effectors sensor domain\n-LENG 189\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 07:02:40 2020\n-NSEQ 97\n-EFFN 8.948700\n-CKSUM 352681787\n-GA 25 25;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.1049 0.70606\n-STATS LOCAL VITERBI -11.0467 0.70606\n-STATS LOCAL FORWARD -4.6847 0.70606\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42681 4.51525 2.99576 2.72842 3.25379 2.89328 3.55354 2.76367 2.82755 2.43535 3.85203 3.16967 3.15725 3.02348 2.86985 2.65394 2.87593 2.65296 4.35107 3.44882\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00423 5.86346 6.58580 0.61958 0.77255 0.00000 *\n- 1 2.99139 4.83331 4.04489 2.99397 2.52272 4.56741 4.25117 2.07802 4.40275 1.17523 3.27157 4.65753 3.09185 3.18462 4.48514 3.57686 3.65496 2.48765 3.89435 3.89385 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00423 5.86346 6.58580 0.61958 0.77255 0.48576 0.95510\n- 2 2.60216 5.79572 3.42332 2.24196 5.12324 4.10826 3.67370 3.11673 2.35166 2.07681 4.84102 3.29784 3.42857 2.53247 2.35015 2.47660 3.55889 3.69476 4.68062 2.62230 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00423 5.86346 6.58580 0.61958 0.77255 0.48576 0.95510\n- 3 2.66339 4.67938 2.31121 2.07687 5.18481 3.21014 4.02549 4.29169 2.41078 3.82886 4.20826 3.05348 2.78209 2.52745 1.82482 2.94726 2.79344 3.95568 6.27064 4.85902 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00423 5.86346 6.58580 0.61958 0.77255 0.48576 0.95510\n- 4 2.42112 5.81713 2.69819 2.41285 3.33003 3.49884 3.59807 3.80855 2.01561 2.46298 3.84739 3.33370 4.49672 2.15302 2.38305 3.00026 3.35645 3.22165 6.25486 4.24555 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00423 5.86346 6.58580 0.61958 0.77255 0.48576 0.95510\n- 5 2.52166 4.16908 5.39627 4.78059 2.11580 4.10484 4.93162 2.04921 3.81772 1.58257 3.49216 4.76175 4.96149 4.69473 3.75286 3.90931 2.45197 1.72037 5.42406 3.78945 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00423 5.86346 6.58580 0.61958 0.77255 0.48576 0.95510\n- 6 2.02251 5.83794 3.04598 2.40470 5.18381 3.15184 3.71457 3.57410 1.83816 3.14690 4.87839 2.66068 4.13774 2.65968 2.37067 2.88655 2.79406 4.22901 6.27014 3.38782 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04367 5.75355 3.22994 0.61958 0.77255 0.85684 0.55252\n- 182 2.95127 5.75689 2.70072 2.66224 5.10224 2.02051 4.20631 3.77273 1.98781 3.48966 4.79748 3.33835 2.92494 2.78501 2.32535 2.36841 2.52873 3.78067 6.18941 4.77830 275 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00482 5.73279 6.45514 0.61958 0.77255 0.32023 1.29456\n- 183 6.03776 6.83334 6.72906 6.76659 1.36216 6.38016 3.60697 5.56270 6.51937 4.63138 3.61236 5.85254 6.61354 6.05818 6.24001 5.79979 6.21321 5.53173 4.95624 0.44211 276 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00430 5.84631 6.56866 0.61958 0.77255 0.59343 0.80392\n- 184 2.65528 4.96358 3.60634 2.00956 5.04717 4.10834 4.29963 2.76458 1.99091 4.02818 3.55955 3.45530 2.57063 2.75218 2.70647 2.48309 2.95745 2.52047 6.19375 3.78363 277 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00430 5.84631 6.56866 0.61958 0.77255 0.52221 0.89945\n- 185 2.66610 3.73327 3.66131 2.55678 4.04035 4.13569 4.11585 4.36975 2.37941 3.92954 4.71414 3.63742 1.31521 3.08501 3.03837 2.96212 3.39198 4.00721 2.21089 4.01650 278 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00427 5.85320 6.57554 0.61958 0.77255 0.44658 1.02113\n- 186 1.50976 4.55276 4.23112 3.66543 4.28312 2.23687 4.61260 3.30174 3.62382 3.35566 3.87121 3.40220 4.73668 3.92986 3.37058 2.18477 1.88489 2.26717 5.72035 4.48143 279 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00423 5.86346 6.58580 0.61958 0.77255 0.48576 0.95510\n- 187 2.67214 3.42492 5.45207 4.83677 2.06284 4.64783 4.98322 1.35123 4.61978 1.49787 3.48378 4.81526 5.00718 4.74530 4.62228 3.96089 3.70416 2.25037 3.74989 4.29334 280 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01149 5.86346 4.75754 0.61958 0.77255 0.48576 0.95510\n- 188 2.79370 5.13560 2.60923 2.28991 3.70718 3.79351 4.28609 4.10856 2.12909 3.06849 4.85797 3.27680 4.49159 2.53788 2.79091 2.17925 2.14628 2.65402 6.25242 4.14073 281 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00426 5.85622 6.57857 0.61958 0.77255 0.45742 1.00217\n- 189 4.80560 6.00161 6.83455 6.26011 2.43261 6.24111 6.57740 0.98486 6.13007 1.23516 2.37364 6.42684 6.27074 5.98154 6.05522 5.64013 5.01350 2.18965 6.56172 5.60890 282 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00285 5.86208 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Sensing_TPALS.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__Sensing_TPALS.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,723 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__Sensing_TPALS\n-ACC PF18178.2\n-DESC TIR- and PNP-associating SLOG family\n-LENG 232\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 23 02:46:04 2020\n-NSEQ 6\n-EFFN 1.250977\n-CKSUM 2082752490\n-GA 25 25;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.4405 0.70366\n-STATS LOCAL VITERBI -11.4513 0.70366\n-STATS LOCAL FORWARD -5.2801 0.70366\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44162 4.51170 2.98241 2.64282 3.47630 2.69787 3.80422 2.74770 2.71000 2.34190 3.66568 3.18950 3.38566 3.11804 2.92353 2.67669 2.87874 2.52769 4.67076 3.91002\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.00000 *\n- 1 3.59786 4.87275 5.25996 4.73104 3.24197 4.89920 5.22916 1.85364 4.54859 0.69109 3.03071 4.97331 5.04051 4.63424 4.62609 4.29734 3.82479 2.33740 5.40731 4.33452 1 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 2 2.25532 4.77440 3.09460 2.27040 2.51006 3.51265 3.73445 3.38322 1.96159 3.01995 3.86378 3.07867 3.91514 2.91454 2.96083 2.75202 2.92113 3.09114 5.29062 3.97941 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 3 2.60565 4.71039 2.95286 2.73995 4.63336 1.50854 4.09920 4.11320 3.01336 3.70403 4.50982 1.94984 3.90500 3.28806 3.45342 2.03703 3.01859 3.58424 5.88371 4.55618 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 4 3.02862 5.33406 3.24454 1.93085 4.76396 3.67643 3.70876 4.14961 1.75739 3.58088 4.39970 3.15835 4.06097 2.82755 1.47747 2.99416 3.21703 3.78058 5.63894 4.38907 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 5 2.73156 4.62315 3.41022 2.86288 2.37076 3.58604 3.82654 3.23554 2.65887 2.88427 3.78276 3.28711 4.01082 3.10460 1.76006 2.31286 2.98438 2.97735 5.05751 3.69676 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 6 3.43397 4.69829 5.19978 4.69625 3.47814 4.81784 5.27094 0.91446 4.53587 1.52708 3.28223 4.90623 5.03098 4.72040 4.66053 4.22200 3.68007 1.92704 5.56672 4.41182 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 225 1.42042 4.28878 3.87406 3.43449 3.97805 3.30032 4.32232 3.11147 3.38610 3.01536 3.92633 3.59245 3.96279 3.66761 3.67426 2.02549 2.89471 1.76007 5.43418 4.22820 235 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 226 2.00503 4.88054 3.06216 2.00715 4.13858 3.49978 3.70688 3.53478 2.45406 2.58285 3.96696 3.04122 3.90158 2.85952 2.40003 2.73274 2.93037 3.21665 5.38510 4.06272 236 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 227 2.65834 4.84459 2.55586 2.50401 4.09217 2.73190 3.69517 3.49787 2.48769 2.65927 3.92879 3.01983 3.87715 2.84858 2.20565 2.69582 2.89282 2.66011 5.35802 4.02692 237 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 228 2.82369 4.28093 4.27853 3.71425 3.41940 3.96470 4.33619 1.63474 3.60323 1.97326 3.36169 3.94925 4.33301 3.84829 3.81232 2.22444 3.06962 1.77580 5.03320 3.83545 238 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 229 3.31992 4.56681 5.24141 4.76533 3.83345 4.80550 5.47687 1.10008 4.67492 2.29241 3.60100 4.94294 5.07604 4.92831 4.84873 4.22182 3.58506 1.04379 5.87989 4.67011 239 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 230 2.81772 5.33258 1.88551 1.92962 4.64773 2.70581 2.71679 4.13875 2.56645 3.62872 4.40230 2.86965 3.89257 2.85636 3.09032 2.33101 3.06636 3.71169 5.77754 4.33978 240 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 231 3.54004 4.80339 5.28009 4.74772 3.29988 4.88609 5.24978 1.46863 4.58529 0.87787 3.08266 4.97159 5.03686 4.67140 4.66303 4.27867 3.76930 2.19566 5.44602 4.37118 241 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31805 5.04040 0.61958 0.77255 0.48576 0.95510\n- 232 3.63137 4.91014 5.18851 4.69091 1.84698 4.79894 4.71850 2.49034 4.53636 0.78682 3.05178 4.80501 4.96666 4.53326 4.57064 4.18398 3.84938 2.68396 4.86499 3.45577 242 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01350 4.31156 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__TGT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__TGT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,992 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__TGT\n-LENG 323\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Dec 3 16:10:48 2021\n-NSEQ 21\n-EFFN 2.586548\n-CKSUM 2357426024\n-GA 60 60;\n-STATS LOCAL MSV -10.9857 0.70071\n-STATS LOCAL VITERBI -11.9654 0.70071\n-STATS LOCAL FORWARD -5.5866 0.70071\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57727 4.31482 2.89510 2.62418 3.23483 3.04268 3.68691 2.74727 2.70949 2.40823 3.65757 3.11328 3.38017 3.02073 2.97251 2.62614 2.83487 2.66283 4.44600 3.40235\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26785 4.81287 1.48345 0.61958 0.77255 0.00000 *\n- 1 3.62432 4.93223 5.30451 4.74178 3.35174 4.88882 5.22304 2.42803 4.56907 1.40374 0.98640 4.96452 5.06254 4.64872 4.64713 4.25414 3.84986 2.27243 5.46417 4.41826 1 m - - -\n- 2.68649 4.42271 2.77566 2.73053 3.46350 2.40559 3.72417 3.29371 2.67740 2.69369 4.24627 2.90338 2.73786 3.18092 2.89788 2.37866 2.77566 2.98425 4.58523 3.61493\n- 1.08861 0.73418 1.69599 1.25351 0.33617 0.35460 1.20884\n- 2 2.73842 5.06811 2.62715 2.36936 4.34537 3.05288 3.29955 3.10138 2.37276 3.34392 2.52424 2.54694 3.93462 2.86340 2.77292 2.73936 2.74088 3.06414 5.54361 4.17783 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01462 4.62863 5.35098 0.61958 0.77255 0.81757 0.58250\n- 3 2.82155 4.25379 4.42996 3.83879 2.90207 3.95285 3.28290 1.93757 3.69026 1.38501 3.29254 3.98873 4.31067 3.88287 3.81993 3.25036 2.39605 2.44473 4.84971 3.65638 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01462 4.62863 5.35098 0.61958 0.77255 0.81757 0.58250\n- 4 1.16813 1.89706 3.99482 3.52081 4.03382 3.47313 3.37080 3.41472 3.44559 3.13385 4.01110 3.70770 4.10690 3.73912 3.73418 2.51887 3.03565 3.08161 5.46826 4.25630 10 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01462 4.62863 5.35098 0.61958 0.77255 0.81757 0.58250\n- 5 3.21854 5.52644 3.55196 2.58063 5.00095 3.87714 3.84342 4.37073 1.26011 3.76496 4.58171 3.35246 4.23572 1.79385 1.89564 3.17978 3.39233 3.99581 5.79008 4.56633 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01462 4.62863 5.35098 0.61958 0.77255 0.81757 0.58250\n- 6 2.73997 4.01700 3.04544 2.02525 4.41206 3.53539 3.72776 3.37924 2.34079 3.40066 4.17227 3.02623 3.27231 2.50303 2.15993 2.55791 2.72975 3.48083 5.58161 3.42253 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01462 4.62863 5.35098 0.61958 0.77255 0.81757 0.58250\n- 7 2.42448 4.90789 3.24056 2.69265 3.32407 3.59270 3.84308 3.61131 2.60801 3.22362 4.04929 2.87589 4.00987 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49397 5.21632 0.61958 0.77255 0.91370 0.51256\n- 316 2.57986 4.43348 4.92945 4.35357 3.43778 4.36615 4.74370 1.84900 4.20702 1.46303 2.54534 4.46741 4.66753 4.35698 4.29207 3.69605 3.33483 1.48800 5.20572 4.05547 404 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49397 5.21632 0.61958 0.77255 0.91370 0.51256\n- 317 2.69827 3.91024 3.03031 2.32060 4.29826 3.11422 3.12373 3.30796 2.08327 2.79200 4.08159 3.00512 3.89452 2.45224 2.69147 2.37202 2.92914 3.37510 5.49724 4.13393 405 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49397 5.21632 0.61958 0.77255 0.91370 0.51256\n- 318 2.33263 4.81695 3.14491 2.29845 4.03540 3.15248 3.75396 3.07235 2.57734 2.53106 3.89512 2.84325 3.93247 2.71072 3.03056 2.25529 2.69520 2.85504 5.33577 4.01849 406 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49397 5.21632 0.61958 0.77255 0.91370 0.51256\n- 319 2.16521 4.85944 3.12018 2.28066 4.08816 3.53555 3.74141 2.83824 2.38708 3.11332 3.93365 3.07664 3.92495 2.65773 2.77508 2.55531 2.51268 2.69057 5.36913 4.04322 407 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49397 5.21632 0.61958 0.77255 0.91370 0.51256\n- 320 2.70218 4.49790 3.47371 2.90685 3.65136 2.11372 3.88932 3.01215 2.60796 2.07196 3.15317 3.33939 4.03081 3.17678 2.91515 2.88702 2.71446 2.54841 5.07103 3.82433 408 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49397 5.21632 0.61958 0.77255 0.91370 0.51256\n- 321 2.43754 4.79835 3.15817 1.95104 4.01207 2.88811 3.76171 2.80747 2.59100 2.61072 3.87818 3.10824 3.37244 2.69778 3.04073 2.75951 2.92769 2.82638 5.32121 4.00851 409 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49397 5.21632 0.61958 0.77255 0.91370 0.51256\n- 322 2.73302 5.20566 2.14890 1.81402 4.53107 3.09672 3.69320 4.00655 2.45060 3.50329 4.25609 2.70330 3.88885 2.79964 2.68398 2.69868 2.73603 2.92323 5.65040 4.24499 410 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19559 4.49397 1.79290 0.61958 0.77255 0.72314 0.66403\n- 323 2.44168 4.23588 3.82499 3.24970 2.49953 2.67483 3.98594 2.40946 3.17099 2.43771 3.34732 3.56615 4.08044 3.43651 3.03832 2.67776 2.89190 2.32883 4.83501 2.82800 411 v - - -\n- 2.68635 4.42242 2.77536 2.73062 3.46300 2.40506 3.72462 3.29371 2.67741 2.69372 4.24706 2.90310 2.73756 3.18163 2.89796 2.37892 2.77536 2.98535 4.58494 3.61520\n- 0.75393 0.63585 * 0.39764 1.11445 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__TRIP13.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__TRIP13.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,935 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CBASS__TRIP13\n-LENG 304\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 15 10:10:28 2021\n-NSEQ 550\n-EFFN 2.093887\n-CKSUM 2779018564\n-GA 100 100;\n-STATS LOCAL MSV -11.1255 0.70118\n-STATS LOCAL VITERBI -11.9110 0.70118\n-STATS LOCAL FORWARD -5.4761 0.70118\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36485 4.51425 2.88839 2.63977 3.51457 2.93694 3.69892 2.86075 2.68832 2.32851 3.69253 3.14496 3.40784 3.03766 2.80521 2.68561 2.79489 2.63303 4.85402 3.94502\n- 2.68585 4.42341 2.77551 2.73144 3.46428 2.40580 3.72502 3.29391 2.67728 2.69383 4.23793 2.90299 2.73765 3.18159 2.89819 2.37859 2.77482 2.98535 4.58558 3.61577\n- 0.83156 0.69782 2.70365 2.10086 0.13051 0.00000 *\n- 1 2.29545 4.83085 2.98524 2.51970 3.88284 3.30809 3.61598 3.26535 2.61358 2.91560 2.85447 3.01519 2.82290 2.91006 2.82506 2.62299 2.61858 2.76654 5.35121 4.03698 191 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06421 4.58068 2.95753 0.61958 0.77255 0.59336 0.80401\n- 2 2.59005 5.17821 2.69790 2.28645 4.50482 3.21506 3.58322 3.95264 2.30289 3.45176 4.16704 2.71713 3.80132 2.73088 2.77797 2.02458 2.21084 3.52870 5.62210 4.22221 192 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02009 4.53533 4.69240 0.61958 0.77255 0.51354 0.91224\n- 3 2.68941 4.42456 3.61070 2.95270 3.45048 3.64648 3.97232 2.63803 2.90525 1.70905 2.99234 3.07819 3.76682 2.77393 3.26761 2.87399 2.79095 2.46875 5.00939 3.57921 193 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01730 4.59506 4.95464 0.61958 0.77255 0.45091 1.01349\n- 4 2.54689 5.20255 2.37751 2.41436 4.52602 3.47728 3.71554 3.99711 2.40973 3.24401 3.90191 2.70482 2.30777 2.43959 2.94924 2.42572 2.82939 3.52976 5.64858 4.25074 194 p - - -\n- 2.68607 4.42230 2.77506 2.73120 3.46359 2.40516 3.72499 3.29359 2.67745 2.69353 4.24694 2.90347 2.73741 3.18145 2.89805 2.37889 2.77518 2.98520 4.58482 3.61508\n- 0.07240 2.73112 5.36178 0.89218 0.52723 0.49972 0.93319\n- 5 2.68384 5.25998 2.64809 1.95610 4.60271 3.35282 3.71118 4.08779 1.87145 3.56407 4.30193 2.73246 3.53173 2.67767 2.78853 2.26629 2.79879 3.64950 5.69338 4.28247 200 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01443 4.64149 5.36383 0.61958 0.77255 0.47556 0.97163\n- 6 2.58789 3.44328 4.43225 3.83475 3.15668 2.19118 4.20453 2.20048 3.67743 1.68795 3.29203 3.80543 3.99499 3.86064 3.78463 3.18372 2.98269 2.15082 4.42223 3.60965 201 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.64991 5.37226 0.61958 0.77255 0.48576 0.95510\n- 7 3.43488 4.71627 5.34238 4.78527 1.34640 4.75896 5.07175 1.47172 4.63997 1.92298 3.36748 4.87841 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01457 4.63210 5.35445 0.61958 0.77255 0.51481 0.91034\n- 297 2.65356 5.02008 3.18838 2.63861 4.35559 3.39417 3.81567 3.71181 2.46436 3.30081 4.15500 3.11063 1.74052 2.95528 2.06041 2.71126 2.76576 3.42442 5.55839 4.22925 558 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 4.63210 3.84638 0.61958 0.77255 0.51481 0.91034\n- 298 2.47839 4.77966 3.02503 2.63626 3.97837 3.39318 3.81917 3.19894 2.52123 2.36255 3.79686 3.13475 2.73253 2.85256 2.89443 2.77526 2.76502 2.24866 5.31141 4.01128 559 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.61533 4.29847 0.61958 0.77255 0.54586 0.86594\n- 299 2.54098 4.37593 3.69704 3.09914 2.18463 3.64000 3.97566 2.56251 2.87027 2.44492 2.50143 3.53861 4.02136 2.54123 3.19428 2.95829 2.96287 2.55306 4.96749 3.74707 560 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24814 4.60651 1.56180 0.61958 0.77255 0.56160 0.84465\n- 300 2.50243 5.10062 2.88320 1.99233 4.41659 3.15925 3.55808 3.41182 2.26170 3.35301 4.14924 2.83304 3.39506 2.59811 2.49301 2.60382 2.65180 3.34448 5.55086 4.15874 561 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08415 4.37721 2.68610 0.61958 0.77255 0.40631 1.09692\n- 301 2.73481 5.25409 2.06198 1.96347 4.58733 2.36579 3.52338 4.07046 2.43218 3.55429 4.22861 2.81416 3.79114 2.71737 2.86939 2.66332 2.79555 3.60072 5.69125 4.27818 562 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05196 4.54099 3.21950 0.61958 0.77255 0.63759 0.75197\n- 302 2.60989 5.03575 2.93598 2.21924 4.27804 2.31472 3.43023 3.75482 2.12426 3.37334 4.17557 2.94478 3.77985 2.69249 2.55377 2.60271 2.77039 3.15446 5.57928 4.10518 563 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18320 4.51366 1.85510 0.61958 0.77255 0.70305 0.68335\n- 303 2.38925 5.08747 2.80943 2.23581 4.35483 3.32554 3.35153 3.81694 1.93108 3.30142 4.06056 2.92131 3.77166 2.67194 2.65920 2.37255 2.78135 3.23976 5.53863 4.14807 564 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12214 4.34687 2.28251 0.61958 0.77255 0.87769 0.53741\n- 304 2.31405 4.99472 2.90212 2.34635 4.23321 3.17247 3.54444 3.55113 2.23046 3.19248 3.93851 2.85060 3.63315 2.28005 2.55336 2.58005 2.76499 3.28029 5.46099 4.08758 565 k - - -\n- 2.68575 4.42220 2.77524 2.73135 3.46371 2.40521 3.72468 3.29370 2.67713 2.69367 4.24701 2.90362 2.73747 3.18158 2.89767 2.37891 2.77528 2.98516 4.58494 3.61520\n- 0.59794 0.79838 * 0.70504 0.68140 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__bacHORMA_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__bacHORMA_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,534 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__bacHORMA_1\n-ACC PF18138.2\n-DESC Bacterial HORMA domain family 1\n-LENG 169\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 20 06:59:31 2020\n-NSEQ 19\n-EFFN 2.555908\n-CKSUM 3794726811\n-GA 60 60;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.9090 0.70758\n-STATS LOCAL VITERBI -10.7869 0.70758\n-STATS LOCAL FORWARD -4.6093 0.70758\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46682 4.70354 2.81833 2.68112 3.45934 2.84897 3.77206 3.01593 2.64123 2.61123 3.72743 3.08107 3.69127 3.07862 2.84063 2.50486 2.58022 2.76277 4.44492 3.21392\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.00000 *\n- 1 2.80633 4.72459 2.69346 2.86828 3.89613 3.19514 3.94133 2.89665 2.84642 2.95253 1.93993 3.33935 4.09766 2.75614 3.26209 2.74509 2.63673 3.01842 5.27785 2.62230 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 2 2.21542 4.70205 3.66695 3.16334 4.20187 3.59482 4.22240 3.59747 3.14507 3.27751 4.13097 3.53503 4.14657 3.46609 3.53383 1.28262 1.79635 3.26211 5.57568 3.17210 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 3 2.55095 4.50557 3.76684 3.20507 2.95723 2.74902 4.07054 3.00063 3.15161 2.55116 3.61674 3.58657 4.19826 3.03649 3.48452 2.66215 3.05967 2.78103 5.05636 1.55869 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 4 2.70625 4.64424 4.08956 3.66749 4.69319 2.63675 4.66865 4.09567 3.64916 3.78314 4.60460 3.81731 4.18923 3.93456 3.97854 1.26873 1.22401 2.90406 6.04512 4.83582 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07044 4.80388 2.81642 0.61958 0.77255 0.48576 0.95510\n- 5 2.40200 4.31650 4.07592 3.49581 2.87211 3.85838 4.14805 2.29304 3.40180 2.30117 3.42908 3.19872 4.23051 3.64865 3.14858 2.42734 2.33808 2.23667 4.92195 2.72835 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01298 4.74642 5.46876 0.61958 0.77255 0.41655 1.07680\n- 6 2.16218 4.61991 4.34430 4.04115 4.97569 3.42649 4.97592 4.38034 4.03412 4.09048 4.89570 3.99150 4.22224 4.28312 4.28691 1.62733 0.78616 3.74802 6.32628 5.16795 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 162 1.70389 5.10243 3.13127 2.09172 4.85412 1.24607 4.24884 4.31016 3.13903 3.88871 4.69076 3.35100 4.17529 3.41614 3.61116 2.67941 3.29360 3.83407 6.08502 4.73433 167 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 163 3.67903 4.94618 5.64338 5.05159 2.82333 4.99251 5.31808 1.77812 4.89013 0.95799 2.18750 5.15462 5.15761 4.85749 4.86076 4.34819 3.89505 1.97672 5.50692 4.47661 168 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 164 2.57940 5.30133 2.73178 2.09117 4.63882 3.04176 3.77029 4.12004 2.51097 3.60371 4.34512 2.38625 3.97402 2.13270 3.00354 2.24527 2.74650 3.05460 5.73900 4.33146 169 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 165 3.91865 5.88469 4.60920 3.63651 5.55434 4.38651 4.11288 4.79101 1.66870 4.09157 5.00590 3.91360 4.70092 3.24177 0.57852 3.89045 3.99732 4.49826 6.00334 4.97816 170 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 166 2.02319 5.23873 3.09734 2.54687 4.57470 3.59423 3.79459 4.03801 1.95425 3.54883 4.30737 2.38960 3.99382 2.90288 2.75598 2.14787 2.42206 3.62995 5.70471 4.31807 171 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 167 2.81252 5.28929 2.25907 2.50903 4.62218 3.58167 3.77797 4.09863 1.91216 3.59045 3.74818 2.43471 3.98022 2.88011 3.01092 2.11013 2.31889 3.67415 5.73225 4.32914 172 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 168 3.00512 4.36757 4.87954 4.29878 2.11678 4.15139 4.28503 2.07050 4.09392 2.46795 3.45505 4.25851 4.50429 4.20219 4.10570 3.46660 3.23597 1.48703 3.54132 2.07691 173 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01225 4.80388 5.52622 0.61958 0.77255 0.48576 0.95510\n- 169 2.63004 5.26778 3.15792 2.59595 4.59828 2.31718 3.80939 3.43148 2.00334 3.55752 4.32603 2.49104 4.03188 2.92029 1.79623 2.84772 3.09423 3.65339 5.70720 4.34067 174 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00826 4.79989 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__bacHORMA_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CBASS__bacHORMA_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,525 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME CBASS__bacHORMA_2\n-ACC PF18173.2\n-DESC Bacterial HORMA domain 2\n-LENG 166\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 23 10:02:16 2020\n-NSEQ 5\n-EFFN 0.600586\n-CKSUM 30342609\n-GA 60 60;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.1871 0.70785\n-STATS LOCAL VITERBI -10.9930 0.70785\n-STATS LOCAL FORWARD -4.6195 0.70785\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52594 4.49500 2.87567 2.82020 3.43554 2.78113 3.78528 2.80276 2.74191 2.45801 3.71575 3.15973 3.35492 3.20223 2.95145 2.59147 2.72706 2.57548 3.99301 3.32976\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.00000 *\n- 1 2.11364 4.31116 3.78379 3.32189 3.43861 3.55209 4.17457 2.47910 3.18498 2.17130 1.83796 3.60169 4.06488 3.53165 3.45262 2.92819 2.96266 2.34906 5.10544 3.89321 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 2 2.25647 4.18850 3.34888 3.03746 4.13143 2.98731 4.10644 3.46111 3.04144 3.21489 4.08360 3.25113 3.70097 3.37630 3.35502 1.76845 1.57258 3.01350 5.50013 4.26231 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 3 2.03760 4.34240 3.12617 2.74489 4.10911 3.08646 3.90341 3.50316 2.79463 3.16982 4.00126 2.59415 3.71610 3.11905 3.18489 2.00244 2.04704 3.07945 5.42901 4.16076 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 4 2.86493 4.38780 4.22465 3.89017 3.60307 3.79802 4.67957 2.04817 3.75904 2.27773 3.55747 4.06839 4.35464 4.11373 3.96457 3.30620 3.22480 0.93888 5.39960 4.13561 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 5 1.54248 4.47196 3.25084 2.81209 4.04167 3.25153 3.84896 3.37119 2.54188 3.05716 3.95619 3.17675 3.82252 3.06451 2.19646 2.64576 2.86361 3.03514 5.33961 4.08930 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 6 2.16485 4.19338 3.86560 3.42409 3.70994 3.41301 4.29671 2.31968 3.34230 2.55043 3.60773 3.62275 4.00898 3.65429 3.61590 2.81253 2.42136 1.43329 5.30113 4.08896 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 159 2.61460 4.78958 2.69202 2.40763 4.24246 3.24785 3.71957 3.71146 2.51499 3.29575 4.12802 2.46699 3.79176 2.48179 2.92860 1.77021 2.91886 3.32882 5.48148 4.13342 163 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 160 1.98673 4.23406 3.67708 3.18677 3.61757 3.44033 4.09853 2.03583 3.11037 2.51646 3.53426 3.48039 3.97156 3.43199 3.42051 2.79502 2.17016 2.24508 5.15657 3.93376 164 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 161 1.90317 4.16755 3.35564 3.00023 4.20349 2.39451 4.08634 3.60601 3.04189 3.28627 4.10756 3.21747 3.66212 3.33548 3.38866 1.65711 2.20043 3.09684 5.53869 4.31314 165 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 162 3.35177 4.81160 3.94473 3.68776 2.29750 3.91415 3.65337 3.35101 3.54321 2.78634 4.01861 3.81255 4.38640 3.83196 3.71212 3.48126 3.63884 3.22499 3.94397 0.85406 166 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 163 3.17283 4.57453 4.26132 3.79519 2.13414 4.07108 3.53584 3.01592 3.60120 2.12798 3.62293 3.82425 4.40309 3.77571 3.75155 3.39154 3.39649 2.89154 1.96607 1.70657 167 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 164 2.68782 4.68795 3.29576 2.77097 4.15626 3.40216 3.73196 3.49504 2.24174 3.11647 4.01719 3.16485 3.89382 2.91282 1.56897 2.77802 2.29142 3.18101 5.34148 4.10521 168 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 165 2.80686 4.99906 3.16304 2.57229 4.35966 3.51868 3.58035 3.74023 1.85209 3.25277 4.08630 3.03794 3.90090 2.39982 1.82727 2.81259 2.59952 3.40899 5.38403 4.13358 169 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02919 3.94443 4.66678 0.61958 0.77255 0.48576 0.95510\n- 166 2.08085 4.72316 2.97331 2.52693 4.16090 3.32587 3.68155 3.56758 2.36020 3.16820 4.00326 2.40473 3.81204 2.84674 2.14532 2.65565 2.88148 3.21500 5.37275 4.07380 170 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01974 3.93498 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CapRel__CapRel.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/CapRel__CapRel.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1145 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME CapRel__CapRel\n-LENG 374\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 14:23:04 2022\n-NSEQ 100\n-EFFN 0.540161\n-CKSUM 2374760636\n-GA 50 50;\n-STATS LOCAL MSV -11.2281 0.69969\n-STATS LOCAL VITERBI -12.2233 0.69969\n-STATS LOCAL FORWARD -5.6188 0.69969\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56743 4.18838 2.91003 2.66713 3.39629 3.01094 3.60091 2.79607 2.52290 2.36296 3.69259 3.06146 3.60315 3.08632 2.82807 2.67526 2.86585 2.68796 4.67731 3.44818\n- 2.68619 4.42228 2.77526 2.73125 3.46361 2.40511 3.72466 3.29361 2.67736 2.69358 4.24635 2.90347 2.73746 3.18150 2.89807 2.37886 2.77514 2.98523 4.58479 3.61487\n- 0.12714 2.86961 2.76987 1.57824 0.23110 0.00000 *\n- 1 2.94970 4.50259 4.02239 3.61421 3.19730 3.81520 4.35523 2.37039 3.38357 1.79604 1.42736 3.89475 4.27590 3.76725 3.59181 3.29604 3.25463 2.37351 5.03458 3.79398 32 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04687 3.84713 3.71108 0.61958 0.77255 0.53425 0.88215\n- 2 2.61755 4.39614 3.28316 3.17793 4.31953 0.79279 4.30001 3.91011 3.35375 3.56908 4.54502 3.44763 3.78600 3.68115 3.59353 2.78845 3.09574 3.44612 5.42450 4.42033 33 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03269 3.83294 4.55529 0.61958 0.77255 0.54613 0.86557\n- 3 2.50157 4.58174 2.62916 2.46713 4.16699 3.07942 3.81700 3.72676 2.69541 3.36574 4.23251 1.65407 3.72891 3.03803 3.08634 2.25928 2.88722 3.29667 5.48011 4.10405 34 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03269 3.83294 4.55529 0.61958 0.77255 0.54613 0.86557\n- 4 2.81676 5.21288 2.16421 1.39704 4.48875 3.20386 3.67537 3.96270 2.57371 3.51330 4.37602 2.69652 3.78619 2.71175 3.06398 2.74747 3.09274 3.59048 5.69062 4.26195 35 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03269 3.83294 4.55529 0.61958 0.77255 0.53619 0.87941\n- 5 2.80019 4.33716 4.12527 3.74850 3.47313 3.77306 4.54370 1.99004 3.59433 2.11851 3.43027 3.95787 4.30103 3.95814 3.81837 3.23071 3.14529 1.12290 5.28797 3.99913 36 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03245 3.83992 4.56227 0.61958 0.77255 0.54033 0.87361\n- 6 3.20098 4.70314 3.79058 3.51429 2.29537 3.79253 3.60471 3.21482 3.37274 2.67704 3.89336 3.68401 4.26734 3.68659 3.56294 3.34075 3.48762 3.08390 3.93773 1.02168 37 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03966 3.83992 4.05187 0.61958 0.77255 0.54033 0.87361\n- 7 2.79585 5.11056 2.44797 1.72160 4.39136 3.28160 3.63983 3.84918 2.37836 3.38261 4.24804 2.78913 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87036 4.59271 0.61958 0.77255 0.51412 0.91137\n- 367 3.12300 4.58537 4.30728 3.86257 3.06156 4.13793 4.50583 2.14325 3.61055 0.97912 3.02509 4.14076 4.49611 3.95150 3.80075 3.56297 3.39582 2.22519 5.01878 3.73804 398 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87036 4.59271 0.61958 0.77255 0.51412 0.91137\n- 368 2.65318 4.97522 1.86600 2.20925 4.40296 3.18928 3.68131 3.86579 2.58778 3.42879 4.24796 2.42979 3.75166 2.84056 3.10183 2.24587 2.71601 3.46043 5.62318 4.21581 399 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87036 4.59271 0.61958 0.77255 0.51412 0.91137\n- 369 2.96235 5.05728 3.34517 2.72398 4.47770 3.58399 3.57381 3.83861 1.43075 3.31081 4.18687 3.13323 3.96793 2.71579 1.66478 2.96846 3.14177 3.52654 5.37724 4.19464 400 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87036 4.59271 0.61958 0.77255 0.51412 0.91137\n- 370 2.99243 4.81031 3.12354 2.88323 3.28316 3.44564 1.14696 3.69503 2.72633 3.18927 4.23202 3.29266 3.99803 3.24942 2.99219 3.06312 3.29570 3.43019 4.74825 3.23407 401 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.87036 4.34860 0.61958 0.77255 0.50875 0.91941\n- 371 3.05261 4.43521 4.49177 3.97642 3.26081 4.27014 4.67149 1.37637 3.80427 1.51339 3.10971 4.25247 4.57038 4.08698 4.00894 3.63202 3.22391 1.82911 5.21578 4.02062 402 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03144 3.87119 4.59354 0.61958 0.77255 0.51338 0.91247\n- 372 2.68985 5.02856 2.39824 2.32567 4.35516 3.27231 3.57198 3.79036 1.87881 3.30982 4.11408 2.85208 3.79474 2.68749 2.25423 2.66709 2.91981 3.41920 5.46183 4.11775 403 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21150 3.87119 1.77315 0.61958 0.77255 0.51338 0.91247\n- 373 2.48535 4.55221 2.71203 2.42968 4.06155 3.14466 3.68632 3.45322 2.38730 3.10326 3.95868 2.30913 3.57953 2.88260 2.85238 2.51850 2.41388 3.09467 5.33805 4.03203 404 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05245 3.69722 3.63807 0.61958 0.77255 0.64172 0.74736\n- 374 2.59293 4.56649 2.93702 2.24158 3.79468 3.34322 3.65082 3.02490 2.30643 2.69109 3.69847 2.99235 3.81230 2.85837 2.76443 2.69214 2.84042 2.46341 5.14114 3.85434 405 e - - -\n- 2.68616 4.42227 2.77521 2.73121 3.46356 2.40498 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.20428 1.68865 * 0.39337 1.12324 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Charlie_gp32__gp32.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Charlie_gp32__gp32.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,542 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Charlie_gp32__gp32\n-LENG 173\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:43 2023\n-NSEQ 12\n-EFFN 1.104492\n-CKSUM 2871079398\n-GA 50 50;\n-STATS LOCAL MSV -10.5790 0.70723\n-STATS LOCAL VITERBI -11.2591 0.70723\n-STATS LOCAL FORWARD -4.4078 0.70723\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44249 3.91483 2.91534 2.74672 3.51714 2.59995 3.85972 3.00523 2.79948 2.69882 3.70281 3.15870 2.96800 3.15766 2.97301 2.64095 2.72304 2.65465 3.81636 3.48727\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10087 3.97547 2.56169 0.61958 0.77255 0.00000 *\n- 1 2.99462 4.53823 4.08421 3.68000 3.22175 3.85829 4.40761 2.40059 3.44635 1.81144 1.31701 3.95352 4.31897 3.82602 3.64787 3.34718 3.30051 2.41049 5.06697 3.83167 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03038 3.90499 4.62733 0.61958 0.77255 0.55238 0.85702\n- 2 1.80481 4.13087 3.40842 3.05782 4.08770 2.96025 4.09589 3.38044 3.05660 3.15199 4.01099 3.25017 3.67124 3.36953 3.37381 2.04901 1.72079 2.93983 5.46069 4.24286 2 t - - -\n- 2.68517 4.42093 2.77509 2.73090 3.46391 2.40550 3.72470 3.29364 2.67763 2.69392 4.24727 2.90357 2.73738 3.18183 2.89789 2.37897 2.77500 2.98513 4.58514 3.61540\n- 0.29720 1.39706 4.62733 2.14864 0.12402 0.55238 0.85702\n- 3 2.81488 5.12739 1.33421 2.23723 4.43879 3.23875 3.73937 3.96091 2.64204 3.52001 4.38925 2.79171 3.81856 2.91703 2.70923 2.77164 3.10421 3.58371 5.64619 4.24806 26 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07954 3.90499 2.87674 0.61958 0.77255 0.55238 0.85702\n- 4 1.33282 4.10820 3.44616 3.15001 4.04757 2.96296 4.17101 3.12172 3.13468 3.03307 3.98033 3.30405 3.69042 3.46459 3.41852 2.42053 2.21259 2.75080 5.48049 4.26701 27 a - - -\n- 2.68511 4.42257 2.77551 2.73109 3.46353 2.40528 3.72526 3.29386 2.67772 2.69365 4.24721 2.90378 2.73733 3.18142 2.89832 2.37875 2.77504 2.98491 4.58364 3.61535\n- 0.50541 1.55786 1.68117 2.14573 0.12441 0.48650 0.95393\n- 5 2.08803 4.26400 3.62286 3.16695 3.42471 3.44913 4.06825 2.43479 3.03247 2.17420 2.31820 3.47002 3.96936 3.39809 3.31741 2.82500 2.88364 2.29126 5.07222 3.84294 46 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75274 4.47509 0.61958 0.77255 0.66984 0.71701\n- 6 1.48159 4.06657 3.23936 2.99143 4.04987 2.86184 4.07060 3.32871 3.03572 3.13528 4.02771 3.17476 3.59961 3.35892 3.33093 1.95263 2.62311 2.88460 5.44033 4.20090 47 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.75274 4.47509 0.61958 0.77255 0.66984 0.71701\n- 7 2.47837 4.41600 3.02936 2.62181 3.66049 2.54806 2.96731 3.15478 2.57669 2.83278 3.72081 3.04515'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02152 4.24525 4.96760 0.61958 0.77255 0.48576 0.95510\n- 166 3.08987 0.42088 4.66762 4.50369 4.43260 3.61905 5.07147 3.65852 4.34127 3.54705 4.68568 4.39594 4.35222 4.67207 4.39314 3.35990 3.58867 3.37252 5.74729 4.71272 239 C - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02152 4.24525 4.96760 0.61958 0.77255 0.48576 0.95510\n- 167 2.76389 5.05530 3.09699 2.52054 4.37582 3.52484 3.64995 3.79421 1.96748 2.87419 4.12120 3.02633 3.90952 1.90950 2.38319 2.40477 2.97990 3.43768 5.47591 4.16101 240 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02152 4.24525 4.96760 0.61958 0.77255 0.48576 0.95510\n- 168 3.32605 5.00283 3.97551 3.87952 4.81641 3.67014 4.91108 4.47781 3.97280 4.05497 5.13115 4.14141 0.35673 4.34896 4.16114 3.50866 3.79925 4.07661 5.88182 4.94707 241 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02152 4.24525 4.96760 0.61958 0.77255 0.48576 0.95510\n- 169 4.02990 5.25676 4.70754 4.51725 3.15125 4.18900 4.43923 4.09074 4.24417 3.41344 4.70350 4.59744 4.74022 4.61092 4.30070 4.22978 4.35287 3.99009 0.38190 3.13662 242 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02152 4.24525 4.96760 0.61958 0.77255 0.48576 0.95510\n- 170 2.76248 5.06121 3.09227 2.31011 4.38184 3.52399 3.64689 3.79889 2.01850 3.32324 4.12293 3.02201 3.90727 2.29060 2.02367 2.75759 2.97773 2.60274 5.47876 4.16252 243 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02152 4.24525 4.96760 0.61958 0.77255 0.48576 0.95510\n- 171 2.81177 4.79439 3.39997 2.76971 3.98087 3.63557 3.72478 3.39377 1.71759 2.34207 3.87393 3.21473 4.00250 2.91554 2.08386 2.89627 3.01924 3.12625 3.42358 3.97258 244 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02152 4.24525 4.96760 0.61958 0.77255 0.48576 0.95510\n- 172 2.79594 4.29934 4.07703 3.50515 3.34893 3.90041 4.20499 2.03314 3.38977 2.18297 2.71753 3.79947 4.25194 2.74195 3.63336 3.18698 3.03027 1.52416 4.96848 3.77843 245 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13418 4.24525 2.19611 0.61958 0.77255 0.48576 0.95510\n- 173 1.70973 4.16189 3.24800 3.04407 4.27344 1.48535 4.18239 3.62754 3.17405 3.37252 4.23565 3.23698 3.66296 3.46391 3.48080 2.40054 2.71573 3.11364 5.60977 4.40205 246 g - - -\n- 2.68622 4.42230 2.77524 2.73128 3.46358 2.40499 3.72499 3.29359 2.67745 2.69359 4.24694 2.90351 2.73744 3.18151 2.89749 2.37891 2.77524 2.98523 4.58481 3.61508\n- 0.28380 1.39802 * 0.49087 0.94699 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_1__drmD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_1__drmD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3098 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DISARM_1__drmD\n-LENG 1025\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 16:16:01 2021\n-NSEQ 269\n-EFFN 3.107193\n-CKSUM 647028152\n-GA 90 90;\n-STATS LOCAL MSV -12.7601 0.69553\n-STATS LOCAL VITERBI -13.9806 0.69553\n-STATS LOCAL FORWARD -6.5192 0.69553\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48553 4.59661 2.88306 2.51301 3.45092 3.04841 3.62961 2.96802 2.63535 2.40752 3.74211 3.10223 3.40343 2.92261 2.70549 2.67753 2.81899 2.70774 4.62095 3.75678\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09493 3.56597 2.77586 0.61958 0.77255 0.00000 *\n- 1 2.69819 4.33217 3.62639 3.24348 3.12356 3.50122 4.06206 2.28308 3.01111 1.84830 2.36977 3.54782 4.00837 3.44957 3.24756 2.98691 3.02252 2.22697 4.87783 3.57063 1 l - - -\n- 2.68619 4.42226 2.77517 2.73124 3.46355 2.40512 3.72496 3.29355 2.67742 2.69352 4.24691 2.90348 2.73741 3.18146 2.89802 2.37887 2.77521 2.98513 4.58465 3.61504\n- 0.06243 3.07715 4.23853 0.88041 0.53548 0.51788 0.90580\n- 2 2.25225 4.14404 2.95453 2.74059 3.78297 2.90181 3.86103 3.07474 2.73981 2.81889 3.84198 3.04355 2.63568 3.15014 3.02740 2.41848 2.48921 2.75193 5.18723 3.92894 18 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05496 3.51618 3.73940 0.61958 0.77255 0.51788 0.90580\n- 3 2.22151 4.32563 2.68865 2.42093 3.87215 2.99529 3.73990 3.17347 2.56267 2.94383 3.89257 2.90542 3.63840 2.93423 2.88376 2.32525 2.74808 2.84575 5.24685 3.93054 19 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04558 3.50680 4.22915 0.61958 0.77255 0.52365 0.89736\n- 4 2.60523 4.53588 2.98707 2.60094 3.22237 3.34558 3.28200 3.15541 2.31185 2.73695 3.70506 3.01933 3.81146 2.86790 2.45071 2.73255 2.89216 2.91192 4.68845 3.01683 20 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04558 3.50680 4.22915 0.61958 0.77255 0.52365 0.89736\n- 5 2.56729 4.39749 3.21598 2.79933 3.45707 3.28714 3.70857 2.65688 2.38409 2.48967 3.59809 3.15828 3.80755 2.99221 2.29155 2.72720 2.87612 2.63760 4.93185 3.59557 21 r - - -\n- 2.68593 4.42174 2.77512 2.73128 3.46370 2.40523 3.72495 3.29353 2.67780 2.69262 4.24727 2.90391 2.73750 3.18184 2.89722 2.37902 2.77517 2.98532 4.58511 3.61554\n- 0.15488 2.04859 4.22915 3.23756 0.04005 0.52365 0.89736\n- 6 2.02829 4.13667 3.08671 2.77791 3.77349 2.91591 3.85315 2.98780 2.72275 2.78614 3.58774 3.07481 3.05328 3.12384 3.02827 2.41024 2.64719 2.66920 5.19914 3.93072 143 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06933 3.54204 3.26955 0.61958 0.77255 0.52365 0.89736\n- 7 2.53328 4.37399 3.06104 2.75512 3.22436 3.40735 3.71638 2.63060 2.65066 2.28248 3.40053 3.16275 3.'..b'.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29336 2.67742 2.69356 4.24684 2.90347 2.73740 3.18147 2.89801 2.37888 2.77518 2.98519 4.58478 3.61504\n- 0.11110 2.86863 3.02882 0.43023 1.05085 0.53309 0.88380\n- 1018 2.49120 5.03786 2.88777 2.17224 4.34926 2.75624 3.44194 3.76800 2.22763 3.32419 4.09143 2.77018 3.73100 2.54541 2.41367 2.56102 2.75407 3.41110 5.48722 4.10770 2214 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21761 4.15359 1.71563 0.61958 0.77255 0.60336 0.79180\n- 1019 2.49463 4.52618 3.01323 2.55124 3.71857 2.54669 3.65408 2.95618 2.43618 2.76711 3.62187 2.99412 3.81750 2.86506 2.85841 2.65202 2.71550 2.72974 4.65189 3.72604 2215 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03818 3.92192 4.03672 0.61958 0.77255 0.50778 0.92088\n- 1020 2.24473 4.74128 2.94902 2.38955 3.98432 2.62779 3.63359 3.39387 2.42265 2.95822 3.83025 2.88441 3.81188 2.79374 2.64443 2.63106 2.64854 3.01724 5.00178 3.93943 2216 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02586 4.06370 4.78604 0.61958 0.77255 0.62877 0.76196\n- 1021 2.48005 4.57187 3.00351 2.31602 3.77569 3.04051 3.60746 3.16808 2.40519 2.78905 3.46881 2.97320 3.78326 2.77159 2.76285 2.56157 2.69569 2.85572 4.52383 3.80666 2217 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.80724 4.52958 0.61958 0.77255 0.62877 0.76196\n- 1022 2.41592 4.30118 3.27482 2.70379 3.41424 3.13671 3.60372 2.78482 2.65311 2.37860 3.42686 3.15504 3.83737 2.96521 2.97261 2.69418 2.75072 2.30834 4.89403 3.64222 2218 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03521 3.75983 4.48217 0.61958 0.77255 0.61631 0.77638\n- 1023 2.47799 4.71049 2.91150 2.42830 4.02270 3.27324 3.57256 3.41110 2.08421 3.01050 3.85698 2.93097 3.78198 2.62412 2.36490 2.51849 2.85178 3.04966 5.23209 3.95285 2219 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03766 3.69376 4.41611 0.61958 0.77255 0.58913 0.80926\n- 1024 2.28229 4.25993 2.74975 2.59942 3.72580 2.75230 3.77037 2.77680 2.67109 2.80650 3.75834 2.98554 3.66191 3.03628 3.01745 2.49172 2.71385 2.66137 5.14800 3.83286 2220 a - - -\n- 2.68615 4.42226 2.77520 2.73124 3.46354 2.40507 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.13109 2.22174 4.23770 0.45875 0.99987 0.52887 0.88982\n- 1025 2.63510 4.41586 3.28331 2.86892 3.33190 3.35820 3.74285 2.74560 2.46376 2.06461 3.51876 3.22727 3.86074 3.05842 2.42720 2.81037 2.93223 2.59411 4.85975 3.50610 2222 l - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69342 4.24690 2.90347 2.73740 3.18147 2.89801 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.13516 2.06813 * 0.43251 1.04661 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_1__drmMI.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_1__drmMI.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4148 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DISARM_1__drmMI\n-LENG 1375\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 15:04:14 2021\n-NSEQ 251\n-EFFN 2.332443\n-CKSUM 4225306361\n-GA 90 20;\n-STATS LOCAL MSV -13.2340 0.69492\n-STATS LOCAL VITERBI -14.2504 0.69492\n-STATS LOCAL FORWARD -7.1764 0.69492\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45872 4.52475 2.92443 2.56875 3.39197 2.93902 3.69451 2.99227 2.69618 2.36365 3.71456 3.12751 3.39854 3.01899 2.79614 2.66534 2.82455 2.68230 4.33196 3.56875\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04716 3.47363 4.19597 0.61958 0.77255 0.00000 *\n- 1 2.64645 4.30050 3.53654 3.18174 3.12297 3.40884 4.00863 2.30471 2.94583 1.90924 2.59746 3.48005 3.94312 3.40298 3.17987 2.91881 2.98549 2.23047 4.84530 3.51568 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04716 3.47363 4.19597 0.61958 0.77255 0.48576 0.95510\n- 2 2.20495 4.22266 2.83829 2.63781 3.74366 2.95985 3.79350 3.04204 2.61658 2.75510 3.79437 2.98340 3.35836 2.93958 2.90742 2.45477 2.64632 2.74690 5.18594 3.87717 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77518 2.98518 4.58477 3.61503\n- 0.07874 3.17728 3.38079 0.59233 0.80528 0.48576 0.95510\n- 3 2.15880 4.04999 2.87616 2.74352 3.67749 2.31066 3.83754 3.08077 2.79666 2.86692 3.92070 3.03203 3.46988 3.20169 3.04160 2.42459 2.70098 2.74854 4.98301 3.79722 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06377 3.45448 3.50071 0.61958 0.77255 0.47861 0.96666\n- 4 2.44097 4.28484 3.16546 2.77869 3.46833 3.00251 3.73642 2.80755 2.51084 2.49076 3.31575 3.12447 3.74989 3.03123 2.67893 2.61339 2.77846 2.58283 4.94965 3.61125 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04667 3.48372 4.20607 0.61958 0.77255 0.49464 0.94107\n- 5 2.43186 4.38811 3.15810 2.71767 3.60960 3.28597 3.68929 2.87129 2.32896 2.57261 3.32840 3.10030 3.78938 2.93525 2.46582 2.67020 2.81519 2.65138 5.03249 3.74681 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04535 3.51170 4.23404 0.61958 0.77255 0.49464 0.94107\n- 6 2.58463 4.37777 3.34183 2.81026 3.46028 3.45379 3.73403 2.67883 2.45044 2.26079 3.03952 3.20540 3.87954 3.00050 2.62689 2.77224 2.76461 2.50594 4.95241 3.68733 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04272 3.57017 4.29252 0.61958 0.77255 0.48025 0.96398\n- 7 2.92885 4.49183 4.42005 3.87205 3.45544 4.02759 4.49049 2.61506 3.72038 2.30574 0.98200 4.08313 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04187 3.58991 4.31226 0.61958 0.77255 0.48576 0.95510\n- 1368 2.30845 4.63367 2.36147 2.20258 4.05383 3.01732 3.63672 3.43455 2.47880 3.09285 3.95656 2.68037 3.68315 2.83594 2.89869 2.57047 2.79997 3.09487 5.34593 4.01423 3173 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04249 3.57540 4.29775 0.61958 0.77255 0.48576 0.95510\n- 1369 2.45245 4.48206 2.59859 2.37445 3.94162 3.01858 3.56764 3.37728 2.48631 3.03278 3.90266 2.63928 3.67225 2.83926 2.85153 2.49623 2.47227 3.02890 5.25415 3.93793 3174 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04287 3.56680 4.28915 0.61958 0.77255 0.48576 0.95510\n- 1370 2.52775 4.48355 2.61491 2.44431 3.44072 3.03306 3.47441 3.18276 2.47263 2.80108 3.77790 2.89554 3.71800 2.89268 2.78619 2.61851 2.83023 2.90107 4.88205 3.29202 3175 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04691 3.47874 4.20108 0.61958 0.77255 0.48576 0.95510\n- 1371 2.59505 4.46847 2.60212 2.48935 3.24708 3.08890 2.78619 3.29074 2.48793 2.87977 3.89627 2.92097 3.67219 2.95065 2.78324 2.67941 2.92074 3.01517 4.68691 3.22520 3176 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04742 3.46809 4.19044 0.61958 0.77255 0.48576 0.95510\n- 1372 2.59816 4.52399 2.52908 2.09271 3.75544 3.06478 3.65709 3.16861 2.45447 2.84870 3.90433 2.85647 3.66625 2.83513 2.76276 2.67652 2.92808 2.91878 5.09803 3.79556 3177 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04742 3.46809 4.19044 0.61958 0.77255 0.48576 0.95510\n- 1373 2.43634 4.30567 2.64188 2.31755 3.78983 2.61280 3.70109 3.20906 2.53643 2.94488 3.93928 2.90312 3.56931 2.98932 2.76483 2.55538 2.81541 2.89567 5.06275 3.83597 3178 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04783 3.45966 4.18201 0.61958 0.77255 0.48576 0.95510\n- 1374 2.31308 4.10456 3.07504 2.89540 3.54392 2.92459 3.92416 2.70604 2.83491 2.52798 3.70152 3.15985 3.60834 3.27846 3.07312 2.51565 2.27633 2.47501 5.03004 3.77037 3179 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04783 3.45966 4.18201 0.61958 0.77255 0.48576 0.95510\n- 1375 2.24979 4.09515 2.91872 2.76995 3.53003 2.83996 3.83110 3.02140 2.77695 2.80652 3.87767 3.04605 3.54280 3.20116 3.02939 2.06605 2.69967 2.70701 4.96652 3.62652 3180 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03245 3.44428 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_2__drmE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_2__drmE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2405 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DISARM_2__drmE\n-LENG 794\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 15:04:07 2021\n-NSEQ 15\n-EFFN 1.314697\n-CKSUM 1987067443\n-GA 90 90;\n-STATS LOCAL MSV -12.5267 0.69622\n-STATS LOCAL VITERBI -13.3904 0.69622\n-STATS LOCAL FORWARD -6.7666 0.69622\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67028 4.51006 2.81868 2.58780 3.29445 3.23109 3.79850 2.69707 2.57265 2.34683 3.67234 2.96550 3.57536 3.09704 2.87855 2.67721 2.91489 2.62528 4.70848 3.33183\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.36706 4.34814 1.22314 0.61958 0.77255 0.00000 *\n- 1 3.08786 4.49528 4.51770 3.96068 3.16993 4.26721 4.60858 2.13068 3.81343 1.47550 1.74741 4.23855 4.54365 4.02888 4.00230 3.59839 3.32532 1.86614 5.12178 3.99436 1 l - - -\n- 2.68604 4.42325 2.77467 2.73147 3.46271 2.40535 3.72595 3.29367 2.67760 2.69249 4.24790 2.90359 2.73690 3.18246 2.89728 2.37903 2.77488 2.98569 4.58577 3.61603\n- 0.37664 1.18738 4.73077 2.85405 0.05934 0.83867 0.56614\n- 2 2.76540 4.45439 3.67031 3.24397 3.42298 3.61751 4.12797 2.68073 3.10536 1.30879 3.41794 3.57854 2.56354 3.48487 3.38053 3.01917 3.06900 2.57884 5.07048 3.81536 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02735 4.00843 4.73077 0.61958 0.77255 0.40643 1.09668\n- 3 2.90638 4.29368 4.59154 4.00153 3.16164 4.08350 4.38961 2.00791 3.85176 1.38413 2.65929 4.14258 4.39815 4.00175 3.95251 3.39342 3.13477 2.05178 4.88489 2.56728 33 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28454 5.00688 0.61958 0.77255 0.57244 0.83045\n- 4 2.64597 4.94910 2.55358 2.42105 4.22279 3.44409 3.65094 3.17890 2.04302 3.22516 4.01644 2.65518 3.84199 2.78111 2.89850 2.25000 2.87885 2.78116 5.43394 4.07412 34 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28454 5.00688 0.61958 0.77255 0.57244 0.83045\n- 5 2.83499 4.26446 4.38494 3.81529 2.29685 3.98695 4.33003 2.27098 3.69142 1.97452 3.26250 4.00660 4.34231 3.90189 3.85894 3.29703 2.33005 1.52754 4.93501 3.72467 35 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28454 5.00688 0.61958 0.77255 0.57244 0.83045\n- 6 2.66696 4.84161 2.65612 2.48821 4.10265 3.44915 3.71974 3.51856 2.54677 2.11584 3.95385 2.54860 3.18470 2.88152 3.00971 2.23668 2.91187 3.19577 5.38153 4.04701 36 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02068 4.28454 5.00688 0.61958 0.77255 0.57244 0.83045\n- 7 2.44370 5.23273 2.16286 2.31673 4.56600 2.99630 3.70144 4.04735 2.51257 3.54753 4.31774 2.03943 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31786 5.04020 0.61958 0.77255 0.52866 0.89013\n- 787 2.86095 5.03165 3.17823 2.66579 4.31157 3.57855 2.78697 3.79815 2.32935 3.34242 4.17812 3.14415 1.72834 2.90872 2.08847 2.88304 3.09220 3.46199 5.46867 4.15966 945 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31786 5.04020 0.61958 0.77255 0.52866 0.89013\n- 788 1.82140 4.52466 3.31805 2.82875 3.92763 3.41179 3.91760 3.29913 2.81762 2.28679 3.84842 2.79014 3.92161 3.15148 3.21393 1.91536 2.89416 2.99060 5.29755 4.02748 946 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31786 5.04020 0.61958 0.77255 0.52866 0.89013\n- 789 3.00345 5.32761 2.86229 1.16047 4.69086 3.55438 3.81061 4.13846 2.41847 3.62956 4.46452 3.06694 4.03316 2.95097 2.07001 2.96468 3.23824 3.76511 5.73393 4.41187 947 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.31786 5.04020 0.61958 0.77255 0.52866 0.89013\n- 790 2.76772 4.31493 4.10646 3.58665 3.47120 2.55806 4.28989 2.42737 3.47650 1.62753 3.42628 3.83054 4.24447 3.75309 3.71013 3.13813 3.04736 1.57382 5.07152 3.86370 948 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11781 4.31786 2.32474 0.61958 0.77255 0.52866 0.89013\n- 791 2.71351 4.43200 3.66963 3.19858 2.68507 1.53247 4.00615 2.89045 3.14503 2.21290 3.59059 3.52289 4.08661 3.45022 3.45657 2.94280 3.01221 2.69934 4.87152 3.47060 949 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17639 4.22208 1.91705 0.61958 0.77255 0.64620 0.74241\n- 792 2.90832 2.62462 4.58055 4.02154 3.30978 4.12383 4.53840 1.57128 3.87730 1.61012 3.20362 4.19349 4.46024 4.08703 4.02579 3.45980 3.15756 1.89278 5.07854 3.89748 950 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02566 4.07135 4.79370 0.61958 0.77255 0.78976 0.60506\n- 793 3.32026 4.63836 4.89026 4.36222 3.18635 4.58937 4.93698 1.61300 4.18954 0.98508 3.00098 4.61622 4.79932 4.36232 4.32572 3.96565 3.55580 2.07998 5.26526 4.13823 951 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02566 4.07135 4.79370 0.61958 0.77255 0.78976 0.60506\n- 794 3.68796 4.91226 4.68872 4.38527 1.03379 4.43635 3.50977 3.34905 4.22713 2.66884 3.94428 4.12123 4.74294 4.18170 4.24752 3.80932 3.90982 3.28229 3.64498 1.38720 952 f - - -\n- 2.68610 4.42254 2.77460 2.73049 3.46383 2.40529 3.72524 3.29383 2.67733 2.69384 4.24719 2.90308 2.73769 3.18176 2.89830 2.37891 2.77549 2.98497 4.58393 3.61489\n- 0.44845 1.01781 * 1.51524 0.24815 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_2__drmMII.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM_2__drmMII.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1136 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DISARM_2__drmMII\n-LENG 371\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 16:16:09 2021\n-NSEQ 43\n-EFFN 2.238708\n-CKSUM 971391363\n-GA 90 90;\n-STATS LOCAL MSV -11.1980 0.69972\n-STATS LOCAL VITERBI -12.3875 0.69972\n-STATS LOCAL FORWARD -5.6308 0.69972\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58523 4.36258 2.95026 2.61337 3.24538 2.86799 3.66630 2.85236 2.61670 2.56698 3.73056 3.04665 3.20254 3.03112 2.81478 2.65727 2.88682 2.68373 4.79269 3.36448\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.34310 4.30089 1.28418 0.61958 0.77255 0.00000 *\n- 1 3.09773 4.58476 4.31611 3.82461 3.13613 4.12407 4.49645 2.28894 3.57317 1.58332 1.40905 4.10981 4.47766 3.90831 3.77189 3.51238 3.36296 2.33611 5.07068 3.84983 1 m - - -\n- 2.68563 4.42180 2.77499 2.73142 3.46428 2.40545 3.72546 3.29283 2.67789 2.69234 4.24462 2.90444 2.73751 3.18294 2.89733 2.37947 2.77581 2.98468 4.58285 3.61322\n- 0.46153 1.36626 2.16614 3.38879 0.03433 0.59738 0.79906\n- 2 2.49443 4.63028 3.22235 2.65896 3.84016 3.51963 3.73381 3.22088 2.32688 2.87655 2.18905 3.13156 3.46565 2.94035 2.52693 2.58879 2.88501 2.94894 5.17375 3.89847 115 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02195 4.22567 4.94802 0.61958 0.77255 0.65496 0.73285\n- 3 2.65276 4.90265 3.01496 2.23444 4.15865 2.68319 3.66747 3.58292 2.12894 3.16822 2.94073 2.72719 3.85988 2.80697 2.83225 2.67278 2.75652 2.90898 5.39340 4.04862 116 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02004 4.31582 5.03817 0.61958 0.77255 0.55575 0.85247\n- 4 2.42517 4.85252 3.14895 2.59004 4.07717 3.55379 3.76161 3.32569 2.06492 3.10505 2.74359 2.64586 3.94315 2.92514 2.85325 2.29392 2.78318 2.83803 5.36697 4.04587 117 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 4.53629 5.25864 0.61958 0.77255 0.62793 0.76292\n- 5 2.71429 5.17245 2.73550 2.22695 4.49735 3.49345 3.68230 3.96806 1.78748 3.15415 4.21899 2.84016 3.46967 2.78613 2.66711 2.68642 2.29938 3.55232 5.61641 3.74727 118 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 4.53629 5.25864 0.61958 0.77255 0.40614 1.09726\n- 6 2.80669 4.19817 4.64075 4.03531 3.09589 3.33656 4.29033 2.10628 3.84942 1.80083 2.25730 4.08416 4.32535 4.00073 3.90267 3.27291 3.03847 2.16884 4.81348 2.17878 119 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01377 4.68772 5.41007 0.61958 0.77255 0.48576 0.95510\n- 7 2.47398 4.71121 3.36374 2.80112 3.52899 3.66232 3.88557 2.64742 2.40989 2.94175 3.80176 3.10777 4.'..b'.68608 4.42240 2.77535 2.73112 3.46369 2.40518 3.72510 3.29346 2.67756 2.69344 4.24705 2.90362 2.73728 3.18162 2.89816 2.37884 2.77517 2.98455 4.58492 3.61519\n- 0.13317 2.12779 5.18827 1.49366 0.25431 0.52244 0.89911\n- 364 2.73692 5.22853 2.78107 1.83474 4.56322 2.49651 3.68578 4.04328 2.12244 3.52794 4.27709 2.73524 3.88470 2.79017 2.62184 2.35926 2.97073 3.61464 5.66464 4.25626 819 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01722 4.46592 5.18827 0.61958 0.77255 0.52244 0.89911\n- 365 2.55498 4.78427 2.90107 2.59422 3.72953 2.64207 3.17805 2.77748 2.51372 3.03054 3.86313 3.10001 3.73248 2.92657 2.76313 2.20519 2.91619 2.96957 4.18859 3.99432 820 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04537 4.46592 3.41539 0.61958 0.77255 0.52244 0.89911\n- 366 2.67957 5.16450 2.73950 2.12361 4.50108 3.44474 3.20683 3.97860 1.94050 3.46378 4.20905 2.61758 3.58148 2.73684 2.53971 2.64498 2.44698 3.55092 5.59946 4.19696 821 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07026 4.37421 2.89581 0.61958 0.77255 0.56500 0.84017\n- 367 2.63144 4.46478 3.35310 2.78594 3.62510 3.56319 3.79539 2.51797 2.41489 2.53058 3.56334 3.08575 3.94578 3.06332 2.64462 2.62649 2.64267 2.21909 5.03047 3.77654 822 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02121 4.25950 4.98185 0.61958 0.77255 0.63122 0.75917\n- 368 2.35458 4.91613 2.98579 2.42933 4.18089 2.91759 3.30806 3.08609 2.30059 3.18559 3.98066 2.85411 3.45962 2.60174 2.54513 2.64684 2.59660 3.26320 5.40016 4.04770 823 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02121 4.25950 4.98185 0.61958 0.77255 0.63122 0.75917\n- 369 2.63860 5.07232 2.54759 2.05350 4.38606 3.41595 3.61234 3.22991 2.25637 3.36398 4.12244 2.70907 3.44675 2.72071 2.66534 2.42429 2.60318 3.44621 5.52388 4.13187 824 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12801 4.25950 2.24407 0.61958 0.77255 0.63122 0.75917\n- 370 2.60931 4.94901 2.44288 2.21412 3.86244 3.18875 3.60048 3.67744 2.24635 3.23278 4.01987 2.86909 3.78447 2.72846 2.86718 2.24644 2.53191 3.30923 5.43072 4.05812 825 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05816 4.05277 3.24088 0.61958 0.77255 0.60159 0.79394\n- 371 2.59153 4.36131 3.36723 2.58644 3.48688 3.53501 3.76745 2.38082 2.65694 2.21321 3.41794 3.22999 3.91518 3.04905 2.73745 2.79162 2.82291 2.39910 4.94650 3.70370 826 l - - -\n- 2.68624 4.42272 2.77554 2.73096 3.46374 2.40536 3.72541 3.29303 2.67739 2.69314 4.24736 2.90306 2.73774 3.18107 2.89825 2.37906 2.77508 2.98508 4.58370 3.61485\n- 0.37826 1.15534 * 2.23976 0.11259 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM__drmA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM__drmA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4109 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DISARM__drmA\n-LENG 1362\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 16:15:44 2021\n-NSEQ 345\n-EFFN 4.282494\n-CKSUM 2153258361\n-GA 90 90;\n-STATS LOCAL MSV -13.0068 0.69494\n-STATS LOCAL VITERBI -14.3807 0.69494\n-STATS LOCAL FORWARD -7.3041 0.69494\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49320 4.39262 2.88818 2.60255 3.38733 2.84476 3.73650 2.97479 2.71501 2.49566 3.74842 3.11940 3.20318 3.03758 2.74193 2.65756 2.79315 2.69941 4.55563 3.51099\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04942 3.42783 4.15017 0.61958 0.77255 0.00000 *\n- 1 2.54654 4.22591 3.34977 3.07605 3.12601 3.20245 3.91767 2.40316 2.86138 2.06399 2.98777 3.35613 3.79670 3.34207 3.08198 2.78884 2.92184 2.29137 4.76892 3.41425 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04942 3.42783 4.15017 0.61958 0.77255 0.48576 0.95510\n- 2 2.30845 4.16181 3.16708 2.96621 3.28974 3.05265 3.91875 2.43808 2.85533 2.28339 3.53476 3.23529 3.70615 3.31316 3.08837 2.62410 2.82088 2.33932 4.89216 3.53377 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05985 3.42783 3.66363 0.61958 0.77255 0.48576 0.95510\n- 3 2.52146 4.09504 3.11779 2.96093 3.13228 2.91186 3.81330 2.59014 2.85776 2.09087 3.54900 3.25063 3.54691 3.32003 3.03841 2.74715 2.92290 2.44330 4.58285 3.33667 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04993 3.41790 4.14025 0.61958 0.77255 0.49153 0.94595\n- 4 2.54853 4.12682 3.21839 3.03267 2.68106 3.00464 3.80982 2.52532 2.97086 2.16377 3.46638 3.30909 3.62376 3.37476 3.16391 2.78227 2.93958 2.39794 4.49154 3.14102 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04993 3.41790 4.14025 0.61958 0.77255 0.49153 0.94595\n- 5 2.50872 4.11721 2.79417 2.41276 3.42325 2.80680 3.72255 2.85799 2.68070 2.57491 3.77086 3.04797 3.44706 3.14311 2.89412 2.68482 2.89849 2.64681 4.68860 3.57099 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04993 3.41790 4.14025 0.61958 0.77255 0.49153 0.94595\n- 6 2.49563 4.15528 3.21669 3.01739 3.13520 3.05046 3.87969 2.33026 2.88075 2.18488 3.47661 3.29099 3.68078 3.34368 3.08778 2.72816 2.89570 2.33108 4.70370 3.36902 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04993 3.41790 4.14025 0.61958 0.77255 0.49153 0.94595\n- 7 2.39937 3.98028 2.91906 2.80344 3.38563 2.69510 3.75955 2.90464 2.79985 2.55824 3.76492 3.10684 2.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03612 3.73486 4.45721 0.61958 0.77255 0.52597 0.89399\n- 1355 2.39346 4.66455 2.70467 2.14358 4.03898 2.73341 3.62981 3.42612 2.40142 3.00567 3.90837 2.87114 3.74142 2.81221 2.62977 2.60909 2.83723 3.09746 5.30168 3.99196 3400 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03736 3.70150 4.42384 0.61958 0.77255 0.51587 0.90877\n- 1356 2.67147 4.93776 2.48299 2.15399 4.22860 3.16522 3.57246 3.65405 2.26403 3.21579 4.04878 2.78294 3.60815 2.20709 2.65167 2.65775 2.91443 3.31126 5.41150 4.06700 3401 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03706 3.70958 4.43192 0.61958 0.77255 0.49116 0.94653\n- 1357 2.40143 4.40681 2.66204 2.45148 3.90779 2.44720 3.54976 3.43422 2.45689 3.07691 3.95378 2.81692 3.64611 2.92492 2.78196 2.45735 2.76642 3.05673 5.23128 3.89940 3402 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55732 4.27967 0.61958 0.77255 0.50244 0.92901\n- 1358 2.59390 4.62141 2.74373 2.40315 3.99995 3.06379 3.57657 3.40935 2.10129 3.03343 3.91738 2.81922 3.73433 2.77386 2.28995 2.65619 2.87363 3.09278 5.21431 3.93674 3403 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04458 3.52842 4.25077 0.61958 0.77255 0.50244 0.92901\n- 1359 2.43950 4.40328 2.60714 2.36944 3.95654 2.40971 3.70307 3.34922 2.39578 3.05796 3.98117 2.87029 3.62603 2.94740 2.83433 2.53867 2.80778 3.00176 5.23424 3.96742 3404 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04500 3.51934 4.24168 0.61958 0.77255 0.50244 0.92901\n- 1360 2.42252 4.31116 2.76267 2.59207 3.51902 3.00581 3.70696 3.02971 2.44664 2.73649 3.81872 2.96458 3.64726 2.91803 2.77975 2.48727 2.80937 2.76715 4.97346 3.58734 3405 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04902 3.43569 4.15804 0.61958 0.77255 0.50244 0.92901\n- 1361 2.15358 4.06551 3.01192 2.87725 3.38738 2.85082 3.86638 2.69320 2.85449 2.44669 3.67480 3.15593 3.52667 3.29036 3.06428 2.57328 2.80133 2.48666 4.81455 3.59947 3406 a - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72491 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18144 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.07262 2.91444 4.14689 0.56912 0.83477 0.48947 0.94921\n- 1362 2.30652 4.19045 3.25009 2.99611 3.31566 3.12768 3.93828 2.47187 2.83023 2.23362 3.28255 3.26684 3.76182 3.30115 3.07175 2.64366 2.82177 2.31150 4.95227 3.59492 3408 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03318 3.42249 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM__drmB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM__drmB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1868 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DISARM__drmB\n-LENG 615\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 16:15:49 2021\n-NSEQ 345\n-EFFN 2.550545\n-CKSUM 1690727149\n-GA 90 90;\n-STATS LOCAL MSV -12.2243 0.69712\n-STATS LOCAL VITERBI -13.5950 0.69712\n-STATS LOCAL FORWARD -6.0772 0.69712\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50721 3.70861 2.96444 2.56338 3.40220 2.91630 3.57147 3.01515 2.67755 2.50857 3.73147 3.07913 3.26640 3.04135 2.80370 2.60618 2.83037 2.77429 4.40708 3.61891\n- 2.68615 4.42227 2.77517 2.73124 3.46354 2.40511 3.72497 3.29356 2.67741 2.69355 4.24659 2.90349 2.73742 3.18148 2.89803 2.37887 2.77518 2.98520 4.58479 3.61505\n- 0.09208 2.76090 3.69971 0.96254 0.48114 0.00000 *\n- 1 2.75921 4.25225 4.15855 3.57438 3.34980 3.85070 4.15289 2.50829 3.35147 2.22314 1.39295 3.69357 4.22105 3.68780 3.55550 2.96214 2.97423 2.26406 4.87065 3.64634 18 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.57578 4.19024 0.61958 0.77255 0.48698 0.95316\n- 2 2.27915 4.74928 3.21603 2.67309 3.94194 3.45089 3.76914 3.03896 2.63128 2.87277 3.05833 2.95128 3.95487 2.99447 3.06943 2.18543 2.04301 3.02163 5.28661 3.99280 19 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05343 4.61181 3.16784 0.61958 0.77255 0.50152 0.93042\n- 3 2.49401 5.22159 2.43428 2.26989 4.30408 3.09617 3.65078 3.99144 2.25967 3.52351 3.81366 2.57766 3.59374 2.57003 2.60092 2.48790 2.60447 3.52814 5.65899 4.02557 20 k - - -\n- 2.68549 4.42324 2.77415 2.73100 3.46402 2.40536 3.72542 3.29333 2.67754 2.69321 4.24739 2.90379 2.73742 3.18136 2.89852 2.37913 2.77517 2.98521 4.58576 3.61516\n- 1.18609 0.85667 1.30928 2.05237 0.13746 0.57194 0.83110\n- 4 2.59068 5.07904 2.80774 2.17372 3.86030 3.25797 3.20247 3.73223 2.07861 3.36969 3.87461 2.74107 3.50942 2.63330 2.72312 2.50806 2.85512 3.41776 5.53252 3.42128 67 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26867 4.34774 1.50208 0.61958 0.77255 0.58352 0.81629\n- 5 2.53521 4.97389 2.86458 2.30228 3.84003 3.46379 3.52900 3.47574 2.28758 3.00625 3.57918 2.20585 3.80611 2.69945 2.82750 2.46091 2.83767 3.22917 5.45212 4.00379 68 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08013 4.36338 2.74463 0.61958 0.77255 0.73970 0.64867\n- 6 2.54047 4.92364 3.03765 2.45715 3.67849 3.50567 3.53130 3.33437 2.01842 3.09418 3.51243 2.88814 3.44890 2.81868 2.25467 2.65753 2.86670 3.22887 5.41774 3.54118 69 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.45357 4.39494 0.61958 0.77255 0.61676 0.77586\n- 7 2.37477 5.05463 3.05714 2.50011 4.15370 3.53228 3.55162 3.66556 2.33052 3.25365 4.01764 2.52184 3.48'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01395 4.67532 5.39767 0.61958 0.77255 0.48576 0.95510\n- 608 3.12895 4.49762 4.77653 4.24023 1.08502 4.21242 4.09732 2.87244 4.06299 2.25432 3.59085 4.21064 4.32691 4.16681 4.11481 3.52630 2.99309 2.74158 2.93021 2.41467 1306 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01395 4.67532 5.39767 0.61958 0.77255 0.48576 0.95510\n- 609 2.39761 5.21051 2.82720 2.14095 4.44835 2.94008 3.58672 3.96078 2.10592 3.45536 4.25388 2.89348 2.89688 2.63612 2.60796 2.51489 2.88629 3.27943 5.64921 4.24449 1307 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02581 4.58497 4.18163 0.61958 0.77255 0.48576 0.95510\n- 610 2.58768 5.15397 2.60808 2.03098 4.16351 2.59820 3.52401 3.66232 2.22684 3.39765 4.20092 2.87698 3.67152 2.76253 2.78680 2.45900 2.77217 3.30950 5.27462 4.10214 1308 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01974 4.51386 4.75686 0.61958 0.77255 0.50479 0.92541\n- 611 2.55149 4.47783 3.26009 2.54035 3.58857 3.32616 3.55929 2.72429 2.73334 2.05541 3.15622 3.17577 3.64514 3.04684 3.02012 2.75893 2.79679 2.59013 4.52954 3.65512 1309 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01886 4.37618 5.09853 0.61958 0.77255 0.51035 0.91701\n- 612 2.57345 4.72090 2.66102 2.41488 3.93576 3.30336 3.44647 3.26092 2.48421 2.62345 3.79866 2.86862 3.60308 2.82374 2.87291 2.62341 2.73244 2.59850 4.87762 3.46831 1310 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07602 4.19091 2.84604 0.61958 0.77255 0.51035 0.91701\n- 613 2.50463 4.41467 3.15196 2.59106 3.62987 3.10884 3.64582 3.04124 2.54830 2.26950 3.59625 2.85013 3.75103 2.90841 2.68606 2.61957 2.79328 2.71589 5.05243 3.73810 1311 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02774 3.99472 4.71707 0.61958 0.77255 0.57063 0.83279\n- 614 2.49820 4.60119 2.80598 2.29679 3.60733 3.24681 3.62213 3.19622 2.44525 2.49849 3.64104 2.94849 3.79436 2.80983 2.86553 2.60903 2.77661 2.82837 5.13050 3.69154 1312 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11979 3.89444 2.38017 0.61958 0.77255 0.56145 0.84486\n- 615 2.58010 4.32090 3.37007 2.97346 2.94915 3.32310 3.71342 2.65689 2.63972 2.17194 3.41234 3.27666 3.84910 3.16182 2.81278 2.77523 2.90480 2.45858 4.23114 3.08963 1313 l - - -\n- 2.68617 4.42216 2.77520 2.73122 3.46355 2.40512 3.72495 3.29353 2.67740 2.69355 4.24686 2.90347 2.73740 3.18146 2.89802 2.37888 2.77519 2.98519 4.58478 3.61502\n- 0.06511 2.76399 * 0.75965 0.63079 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM__drmC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DISARM__drmC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,818 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DISARM__drmC\n-LENG 265\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 16 16:15:55 2021\n-NSEQ 315\n-EFFN 7.627945\n-CKSUM 3495211942\n-GA 40 40;\n-STATS LOCAL MSV -10.6637 0.70236\n-STATS LOCAL VITERBI -11.6925 0.70236\n-STATS LOCAL FORWARD -5.1145 0.70236\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.31759 4.66378 3.03313 2.61445 3.54332 2.94343 3.64355 2.91715 2.73950 2.38882 3.73096 3.08063 3.39022 3.10190 2.84591 2.57666 2.80708 2.57758 4.65106 3.73252\n- 2.68616 4.42229 2.77516 2.73117 3.46357 2.40516 3.72498 3.29351 2.67744 2.69355 4.24693 2.90350 2.73740 3.18150 2.89801 2.37881 2.77523 2.98511 4.58480 3.61507\n- 0.29594 2.54198 1.72902 1.13523 0.38765 0.00000 *\n- 1 2.50118 4.26503 3.32555 2.74663 3.46854 3.30071 3.79716 2.63411 2.70940 2.44672 2.66267 3.22091 3.85517 3.09883 3.03082 2.64334 2.77804 2.31256 4.94729 3.69484 12 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17595 3.66420 1.99722 0.61958 0.77255 0.42080 1.06863\n- 2 3.56933 4.92587 5.27038 4.40938 3.74340 4.79132 5.23277 2.45502 4.52827 2.23654 0.71749 4.89831 5.09648 4.73474 4.64374 4.15527 3.82088 2.00392 5.66896 4.54177 13 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07851 4.96113 2.68089 0.61958 0.77255 0.57322 0.82944\n- 3 2.66924 5.27922 2.83292 2.38271 4.59797 3.53595 3.80772 3.58654 2.51338 3.44890 4.32690 2.78808 3.23408 2.74173 2.45185 2.00279 2.28763 3.60970 3.46716 4.33350 14 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14369 4.89382 2.06866 0.61958 0.77255 0.49497 0.94055\n- 4 2.35433 5.25647 2.64330 2.37555 3.88516 2.98467 3.78343 4.04389 2.52904 3.20066 4.14552 2.55464 2.88667 2.82699 2.82178 2.20589 2.60339 3.35381 5.70496 4.31013 15 s - - -\n- 2.68611 4.42184 2.77559 2.73112 3.46408 2.40537 3.72523 3.29313 2.67755 2.69372 4.24652 2.90275 2.73764 3.18174 2.89731 2.37853 2.77542 2.98504 4.58514 3.61559\n- 1.33325 0.60742 1.65220 1.33573 0.30512 0.81069 0.58798\n- 5 2.48017 5.38345 2.90035 2.61008 4.67331 3.40197 3.42802 3.07243 2.64909 2.94613 2.16044 2.97738 3.14280 2.89469 2.57062 2.46506 2.97845 3.35239 5.85068 3.74822 37 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18284 5.30272 1.81941 0.61958 0.77255 1.10205 0.40375\n- 6 2.61975 5.45203 2.19166 1.95174 4.79626 3.56524 3.39627 3.67742 2.43747 3.61303 3.74232 2.83735 2.91647 2.72050 2.70574 2.43175 2.73894 3.84221 5.29480 4.47477 38 e - - -\n- 2.68619 4.42226 2.77521 2.73121 3.46355 2.40511 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73736 3.18147 2.89802 2.37885 2.77521 2.98519 4.58459 3.61504\n- 0.01839 4.17207 5.87906 0.70522 0.68122 0.87527 0.53914\n- 7 2.58522 5.50351 2.62103 2.16593 4.84015 3.16998 3.97789 3.16754 2.21054 3.29668 3.37615 3.17418 3.275'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02863 3.96340 4.68574 0.61958 0.77255 0.61944 0.77272\n- 258 1.96978 4.14058 3.31011 2.88117 3.70147 3.09298 3.88653 2.68930 2.81235 2.70076 3.64277 3.17678 3.31673 3.16788 3.13837 2.37929 2.66273 2.42819 5.14353 3.89822 633 a - - -\n- 2.68579 4.42372 2.77540 2.73169 3.46401 2.40522 3.72568 3.29334 2.67747 2.69252 4.24493 2.90254 2.73813 3.18032 2.89837 2.37936 2.77587 2.98526 4.58273 3.61446\n- 0.29590 1.41270 4.37016 3.92380 0.01996 0.54828 0.86262\n- 259 2.53221 4.36406 3.43832 2.88237 3.44625 3.54042 3.78445 2.67789 2.51843 1.89988 3.21566 3.27773 3.93556 3.07315 2.75359 2.83217 2.85975 2.50429 4.93680 3.69812 755 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03524 3.75905 4.48139 0.61958 0.77255 0.47237 0.97690\n- 260 2.61370 4.38551 3.20936 3.03530 4.03288 3.07963 4.11914 3.55245 3.08344 3.19047 4.23837 3.35148 1.06865 3.47595 3.33864 2.77859 3.04732 3.21054 5.24733 4.15338 756 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13879 3.75905 2.24165 0.61958 0.77255 0.52458 0.89600\n- 261 2.55705 4.29315 3.39356 2.95901 2.80972 3.41687 3.77314 2.51646 2.83801 2.21548 3.42266 3.06125 3.90657 3.21583 3.14082 2.77681 2.86083 2.25754 4.63658 3.16410 757 l - - -\n- 2.68606 4.42226 2.77521 2.73124 3.46355 2.40514 3.72483 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.18369 1.87303 4.25796 0.39607 1.11768 0.53406 0.88242\n- 262 2.71531 4.32306 3.80108 3.28094 3.25066 3.71507 4.14053 2.12930 3.09094 1.75728 2.81162 3.62127 4.12820 3.46807 3.37015 3.05339 2.82419 1.96136 5.02971 3.79801 759 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04167 3.59455 4.31690 0.61958 0.77255 0.56033 0.84635\n- 263 2.69485 4.93196 1.84951 1.90196 4.23160 3.06910 3.62698 3.65930 2.58768 3.30808 4.21821 2.63691 3.67682 2.82738 3.07533 2.66166 2.99562 3.32272 5.48728 4.10185 760 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04295 3.56498 4.28733 0.61958 0.77255 0.56033 0.84635\n- 264 2.70299 4.31159 3.80605 3.39121 3.19165 3.62561 4.20029 2.08277 3.18430 1.75840 3.21926 3.67039 4.12256 3.58914 3.43177 3.04728 3.03001 1.75598 4.99533 3.66040 761 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04295 3.56498 4.28733 0.61958 0.77255 0.56033 0.84635\n- 265 2.42430 4.20156 3.30902 2.98222 3.35409 3.20508 3.91242 2.23557 2.83242 2.38158 3.52762 3.27056 3.80574 3.27065 3.10138 2.45858 2.79959 2.28761 4.95275 3.57467 762 i - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90342 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.06166 2.81678 * 0.54940 0.86108 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT6__DRT6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT6__DRT6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1655 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT6__DRT6\n-LENG 544\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 26 13:56:14 2022\n-NSEQ 30\n-EFFN 2.178955\n-CKSUM 57299826\n-GA 250 250;\n-STATS LOCAL MSV -12.0592 0.69763\n-STATS LOCAL VITERBI -12.7243 0.69763\n-STATS LOCAL FORWARD -6.0457 0.69763\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56996 4.49461 2.93240 2.61277 3.23075 3.16558 3.64548 2.75569 2.59428 2.44191 3.74735 3.03170 3.39889 3.03931 2.92364 2.56998 2.84073 2.77388 4.25182 3.37555\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20841 4.68604 1.72090 0.61958 0.77255 0.00000 *\n- 1 3.60767 5.07581 4.81088 4.49810 3.67169 4.36287 5.08976 2.92192 4.22799 2.20559 0.54450 4.68569 4.86236 4.58386 4.35010 3.99996 3.94469 2.99455 5.56368 4.36937 1 M - - -\n- 2.68569 4.42278 2.77521 2.73153 3.46375 2.40566 3.72473 3.29368 2.67651 2.69361 4.24694 2.90339 2.73728 3.18185 2.89777 2.37882 2.77508 2.98536 4.58530 3.61556\n- 0.68733 0.84822 2.67500 1.54661 0.23949 0.33277 1.26208\n- 2 2.32482 4.99863 2.60743 2.33832 4.25338 3.55846 3.75943 3.36350 2.54522 2.90860 2.42051 2.91080 3.56275 2.74886 3.01583 2.30009 2.97173 3.33976 5.48971 4.14095 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01457 4.63221 5.35455 0.61958 0.77255 0.58829 0.81031\n- 3 2.74795 5.08360 3.07362 2.27603 4.36571 3.54935 3.74083 3.02084 2.25138 3.05953 4.14228 2.40575 3.94044 2.86379 2.04319 2.63474 2.69324 3.12180 5.55448 4.18952 13 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01457 4.63221 5.35455 0.61958 0.77255 0.42661 1.05762\n- 4 2.76325 4.30226 4.02514 3.16979 3.07001 3.82943 3.69144 2.30689 3.02258 1.40479 3.41401 3.72917 4.20188 3.31235 3.59560 2.87981 2.85255 2.35243 4.90643 3.70433 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68604 5.40838 0.61958 0.77255 0.48576 0.95510\n- 5 2.59568 5.26682 2.80500 2.04377 4.60680 3.55341 3.73667 3.70648 1.56146 3.56504 4.31160 3.02481 3.94862 2.83769 2.29323 2.62336 3.01638 3.65527 5.69796 4.30054 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68604 5.40838 0.61958 0.77255 0.48576 0.95510\n- 6 2.39639 5.26618 2.21549 2.23623 4.60858 3.18200 3.40154 4.09250 2.13602 3.32219 4.30787 2.88144 3.92832 2.67240 2.25758 2.57378 2.99325 3.65545 5.69993 4.29074 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68604 5.40838 0.61958 0.77255 0.48576 0.95510\n- 7 4.01324 5.21871 5.86487 5.29727 2.40089 5.37107 5.52080 2.21638 5.16078 0.52527 3.12180 5.48811 5.37657'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04456 4.40638 3.46143 0.61958 0.77255 0.89293 0.52671\n- 537 2.18990 5.27425 2.08782 1.79310 4.59288 3.43455 3.26955 4.07463 2.53181 3.57294 4.34113 2.90513 3.89581 2.84355 3.04332 2.27565 3.03230 3.65461 5.72560 4.30343 713 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08083 4.38059 2.73131 0.61958 0.77255 0.85652 0.55276\n- 538 2.73494 5.22590 2.37003 1.66487 4.55468 3.43507 3.67156 3.62958 2.05186 3.52082 4.27739 2.90288 3.86493 2.44616 2.91814 2.69136 2.97077 3.60888 5.66015 4.24940 714 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34710 5.06945 0.61958 0.77255 0.95087 0.48842\n- 539 2.64237 4.30349 3.17841 2.88951 2.79957 3.36266 3.91079 2.61242 2.83117 1.92044 3.01476 3.42885 4.02513 3.28584 3.07416 2.90057 2.87415 2.34061 4.89322 3.66981 715 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34710 5.06945 0.61958 0.77255 0.59766 0.79872\n- 540 2.70076 5.15018 2.17442 2.20338 4.00843 3.21625 3.67402 3.60265 2.31618 3.25000 4.19752 2.63101 3.57823 2.77900 2.65298 2.55306 2.61149 3.29166 5.59805 4.20259 716 d - - -\n- 2.68636 4.42381 2.77490 2.72947 3.46338 2.40592 3.72574 3.29223 2.67702 2.69261 4.24439 2.90332 2.73848 3.18230 2.89892 2.37900 2.77593 2.98498 4.58526 3.61465\n- 0.68291 0.76134 3.58218 2.50037 0.08562 0.69829 0.68803\n- 541 2.50493 4.57648 2.76356 2.65191 3.36117 3.16054 3.85206 2.77928 2.77828 2.44187 3.67059 3.26531 4.00324 2.93761 2.94743 2.53963 2.70551 2.61231 3.59777 3.47271 776 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18852 4.51533 1.82713 0.61958 0.77255 0.68534 0.70102\n- 542 2.56931 5.00305 2.69989 2.18702 4.28743 3.04989 3.66438 3.32234 2.43303 3.28451 4.06588 2.83356 3.45989 2.78748 2.91231 2.13863 2.58193 2.95817 5.48063 4.11202 777 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01877 4.38083 5.10317 0.61958 0.77255 0.91874 0.50920\n- 543 2.55325 5.04666 2.59276 2.32102 3.78382 2.40802 3.65254 3.52024 2.31126 3.33068 4.10159 2.71208 3.85080 2.76832 2.71764 2.54843 2.58664 3.41044 5.51088 4.13206 778 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01877 4.38083 5.10317 0.61958 0.77255 0.78026 0.61302\n- 544 3.24542 4.68391 4.42137 3.93617 2.23010 4.20372 3.87268 2.78226 3.81290 2.66683 3.75382 4.02380 3.54232 3.97326 3.98208 3.51527 3.47819 2.95752 4.18489 0.94660 779 y - - -\n- 2.68608 4.42245 2.77539 2.73111 3.46323 2.40504 3.72514 3.29341 2.67741 2.69345 4.24709 2.90356 2.73705 3.18166 2.89820 2.37880 2.77539 2.98538 4.58440 3.61523\n- 0.43924 1.03431 * 0.86237 0.54846 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT7__DRT7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT7__DRT7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5441 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT7__DRT7\n-LENG 1806\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 26 14:01:16 2022\n-NSEQ 20\n-EFFN 1.997070\n-CKSUM 1694351327\n-GA 500 500;\n-STATS LOCAL MSV -13.5248 0.69450\n-STATS LOCAL VITERBI -14.6881 0.69450\n-STATS LOCAL FORWARD -7.4504 0.69450\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71813 4.48024 2.93271 2.57066 3.15011 3.26374 3.71002 2.66556 2.51450 2.36972 3.72536 2.88035 3.66109 3.03540 3.02199 2.60748 2.87238 2.76843 4.65227 3.26687\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04487 4.62380 3.37966 0.61958 0.77255 0.00000 *\n- 1 3.74268 5.19934 4.95389 4.66396 3.78742 4.46454 5.23339 3.05336 4.39060 2.31690 0.46023 4.83582 4.97512 4.74295 4.49763 4.13757 4.08769 3.13601 5.67940 4.49303 1 M - - -\n- 2.68680 4.42303 2.77507 2.73063 3.46397 2.40566 3.72481 3.29228 2.67693 2.69350 4.24615 2.90345 2.73817 3.18142 2.89820 2.37918 2.77472 2.98513 4.58555 3.61377\n- 0.97486 1.23651 1.10155 2.16648 0.12169 0.54092 0.87279\n- 2 2.63335 5.01543 2.45653 2.07514 4.30906 3.40706 3.61456 3.24753 2.20247 2.90173 4.07216 2.65964 3.80982 2.73266 2.86113 2.41693 2.86598 3.37804 5.47906 4.09892 30 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02259 4.19739 4.91974 0.61958 0.77255 0.89012 0.52866\n- 3 2.64712 4.95053 2.95032 2.12466 4.23043 3.43838 3.64591 3.21170 2.40995 3.22973 4.02145 2.28176 3.83884 2.77607 2.63246 2.46199 2.42034 3.30721 5.43463 4.07684 31 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.84441 0.56179\n- 4 2.65718 5.04140 2.33527 2.21408 4.33767 3.43595 3.63988 2.90974 2.40088 3.32577 4.09822 2.69264 3.83618 2.75683 2.46929 2.44433 2.65139 3.40583 5.50524 4.12515 32 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02025 4.30534 5.02769 0.61958 0.77255 0.62836 0.76242\n- 5 2.50465 5.08060 2.31835 2.43373 4.42320 3.45756 3.70878 3.87963 2.48268 3.41329 4.18483 1.94323 3.29820 2.82754 2.96983 2.52995 2.65487 3.07234 5.58971 4.20577 33 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43810 5.16044 0.61958 0.77255 0.76948 0.62223\n- 6 2.67711 4.45810 3.45996 2.69958 3.60476 3.63008 3.32277 2.33497 2.85308 1.92521 3.55808 2.94062 4.01179 2.92461 3.22679 2.59818 2.90864 2.52681 5.03087 3.78532 34 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01771 4.43810 5.16044 0.61958 0.77255 0.40410 1.10135\n- 7 2.75542 4.17232 4.45835 3.86057 2.90161 3.89672 4.21134 1.99727 3.69917 1.92523 3.26602 3.96783 4.25'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62380 5.34614 0.61958 0.77255 0.48576 0.95510\n- 1799 3.29415 5.28805 3.83783 3.14978 4.24890 3.98940 3.91282 3.97986 2.10562 3.49101 4.38434 3.53906 4.34418 3.11037 1.19325 3.33243 3.46742 3.70310 5.43648 1.76302 2093 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62380 5.34614 0.61958 0.77255 0.48576 0.95510\n- 1800 2.82463 4.29236 4.27912 3.69639 3.00375 3.94382 4.25843 1.67925 3.56834 2.42492 3.39508 3.91709 4.30826 3.80643 2.35709 3.23456 2.54700 1.77172 4.95016 3.75604 2094 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62380 5.34614 0.61958 0.77255 0.48576 0.95510\n- 1801 2.73986 5.19744 2.78526 2.18411 4.52131 3.16889 3.70971 3.99209 1.99335 2.35506 4.24399 2.78682 3.35786 2.62765 2.70086 2.71232 2.97095 3.57670 5.64249 3.53086 2095 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01469 4.62380 5.34614 0.61958 0.77255 0.48576 0.95510\n- 1802 3.32241 6.00748 1.96390 0.94620 5.28828 3.55751 4.11072 4.84259 3.15184 4.29289 5.13534 1.91981 4.18921 3.27159 3.78168 3.18147 3.61197 4.37742 6.43482 4.88274 2096 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09668 4.62380 2.49690 0.61958 0.77255 0.48576 0.95510\n- 1803 2.72921 4.43399 3.62674 3.05936 3.53519 3.70787 2.71414 2.93120 2.97507 1.83706 3.53897 3.45388 4.08750 3.02166 3.31019 2.50239 2.75804 2.70908 2.69792 3.73766 2097 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05735 4.54305 3.09902 0.61958 0.77255 0.62566 0.76552\n- 1804 2.38484 5.18967 2.91445 2.27981 4.52265 2.75864 3.71683 3.98910 1.94382 3.49656 4.25931 2.01187 3.90929 2.82866 2.94660 2.72547 2.73899 3.57910 5.65099 4.25723 2098 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01660 4.50231 5.22465 0.61958 0.77255 0.68580 0.70055\n- 1805 2.75736 5.24560 2.11885 1.71565 4.57282 3.47942 3.70858 3.40171 2.47225 3.54335 4.29592 2.47394 3.90095 2.81563 2.71970 2.51243 2.99299 3.62754 5.68617 4.27457 2099 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20852 4.50231 1.73087 0.61958 0.77255 0.68580 0.70055\n- 1806 2.65848 4.75834 3.12785 2.56401 3.97523 3.50809 3.70823 2.98678 1.96679 2.69918 3.09439 2.62290 3.89496 2.88123 2.70554 2.49248 2.88793 3.07733 5.27361 3.96599 2100 k - - -\n- 2.68603 4.42259 2.77553 2.73142 3.46387 2.40535 3.72528 3.29388 2.67636 2.69372 4.24635 2.90318 2.73736 3.18180 2.89800 2.37860 2.77534 2.98552 4.58510 3.61465\n- 0.62619 0.76491 * 1.21313 0.35277 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT7__DRT7_small.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT7__DRT7_small.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2537 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT7__DRT7_small\n-LENG 838\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 26 14:01:24 2022\n-NSEQ 14\n-EFFN 1.151855\n-CKSUM 3350241074\n-GA 500 500;\n-STATS LOCAL MSV -12.4890 0.69606\n-STATS LOCAL VITERBI -13.3789 0.69606\n-STATS LOCAL FORWARD -6.3589 0.69606\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70824 4.39665 2.93395 2.60259 3.09378 3.14064 3.76128 2.70713 2.58792 2.38903 3.58257 2.99269 3.66784 3.02174 2.96305 2.68861 2.90611 2.70221 4.56385 3.11701\n- 2.68634 4.42198 2.77512 2.73115 3.46382 2.40531 3.72495 3.29342 2.67769 2.69338 4.24445 2.90347 2.73767 3.18138 2.89786 2.37897 2.77510 2.98533 4.58421 3.61482\n- 0.70121 1.55759 1.22632 1.73642 0.19377 0.00000 *\n- 1 2.57649 4.58208 3.06902 2.37060 3.78112 3.43069 3.64893 3.16269 2.34681 2.60433 2.86035 2.77179 3.82586 2.84998 2.87317 2.51349 2.80777 2.88822 5.11539 3.82819 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93169 4.65404 0.61958 0.77255 0.81448 0.58496\n- 2 2.66787 4.88796 2.56916 2.40174 4.15760 3.38486 3.62228 3.14757 1.68327 3.14929 3.99114 2.91751 3.82044 2.77302 2.73042 2.68241 2.90523 3.20638 5.37362 4.03733 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02957 3.93169 4.65404 0.61958 0.77255 0.66805 0.71889\n- 3 2.28908 4.77028 2.22525 2.41781 4.03999 3.36805 3.66698 3.42967 2.50418 3.06537 2.85333 2.68100 3.81219 2.83329 2.96639 2.64720 2.85774 3.11203 5.32823 3.99238 18 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02713 4.74947 0.61958 0.77255 0.74208 0.64650\n- 4 2.57171 4.53438 3.14768 2.45581 3.71769 3.14713 3.68071 2.84520 2.42813 2.76705 3.62445 3.06817 3.84665 2.89711 2.74015 2.47683 2.80286 2.50784 5.07851 3.32721 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02713 4.74947 0.61958 0.77255 0.51124 0.91567\n- 5 2.48801 4.44470 3.35156 2.77979 3.60338 3.54947 3.77279 2.78154 2.52517 2.48397 2.35631 2.96089 3.93052 3.04150 2.59402 2.78861 2.84909 2.72383 5.00630 3.75653 20 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16678 4.88913 0.61958 0.77255 0.61011 0.78371\n- 6 2.88306 5.44751 1.54529 1.93167 4.74904 3.32733 3.74814 4.25565 2.42485 3.73633 4.53468 2.32269 3.87639 2.88690 3.20686 2.50814 3.14568 3.82119 5.88603 4.41360 21 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02330 4.16678 4.88913 0.61958 0.77255 0.61011 0.78371\n- 7 2.66740 5.11581 2.30496 2.31355 4.43138 3.08900 3.61736 3.89991 2.11930 3.00871 4.17168 2.47990 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26937 4.99172 0.61958 0.77255 0.48576 0.95510\n- 831 3.38985 4.67291 5.17060 4.60317 2.82454 4.70987 5.03311 1.68625 4.47816 0.94828 3.01977 4.79228 4.88304 4.52262 4.53991 4.06445 3.61181 2.02523 5.28066 4.20222 915 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26937 4.99172 0.61958 0.77255 0.48576 0.95510\n- 832 2.45822 4.48041 3.32462 2.46782 3.64169 3.55649 3.79092 2.34148 2.38175 2.41907 3.21043 3.21455 3.93977 3.05173 3.11754 2.57048 2.70613 2.75661 5.04542 3.78622 916 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26937 4.99172 0.61958 0.77255 0.48576 0.95510\n- 833 2.65599 4.95121 3.00109 2.43980 4.22679 3.13780 3.64308 3.65792 2.02263 2.68988 3.51039 2.60995 3.84869 2.59353 2.53100 2.49429 2.88453 3.30459 5.42309 4.07318 917 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26937 4.99172 0.61958 0.77255 0.48576 0.95510\n- 834 2.62004 4.27518 3.61247 3.04135 3.10405 3.62762 3.33303 2.47816 2.57338 2.02151 3.38135 3.41318 4.00456 2.95705 3.29970 2.63691 2.85167 2.42361 3.88759 3.63776 918 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26937 4.99172 0.61958 0.77255 0.48576 0.95510\n- 835 2.62582 4.62644 2.97505 2.48793 3.39374 3.50802 3.72772 2.93924 2.59538 2.63858 3.31401 2.68556 3.89438 2.75169 2.81096 2.46408 2.85728 2.69662 5.16594 3.42341 919 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26937 4.99172 0.61958 0.77255 0.48576 0.95510\n- 836 2.41750 4.97294 2.94270 2.13587 4.25381 2.89315 3.63795 3.69505 2.40637 2.98207 3.60590 2.33120 3.41410 2.61220 2.88278 2.63993 2.87292 3.32933 5.44947 4.08282 920 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05774 4.26937 3.16740 0.61958 0.77255 0.48576 0.95510\n- 837 2.62363 4.00027 2.62765 2.12884 4.23384 2.88742 3.62298 3.31287 2.25090 3.23172 3.45799 2.71994 3.81883 2.74701 2.68540 2.62391 2.85489 3.30977 5.43036 4.06419 921 e - - -\n- 2.68605 4.42261 2.77486 2.73071 3.46390 2.40539 3.72495 3.29366 2.67718 2.69378 4.24726 2.90324 2.73765 3.18161 2.89821 2.37914 2.77539 2.98508 4.58342 3.61404\n- 0.61574 1.16803 1.90530 1.68349 0.20546 0.53261 0.88447\n- 838 2.61064 4.93158 2.65167 2.21707 4.20289 3.38752 3.60241 3.64339 2.22834 2.93325 3.99495 2.52985 3.79325 2.73208 2.85462 2.37256 2.84364 3.28342 5.40714 3.21798 937 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01718 4.07233 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT8__DRT8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT8__DRT8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1604 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT8__DRT8\n-LENG 527\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 26 14:16:35 2022\n-NSEQ 20\n-EFFN 2.485352\n-CKSUM 3466764182\n-GA 200 200;\n-STATS LOCAL MSV -11.6526 0.69778\n-STATS LOCAL VITERBI -12.6408 0.69778\n-STATS LOCAL FORWARD -6.0418 0.69778\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54175 4.50460 2.87623 2.58367 3.19905 3.23325 3.65648 2.75239 2.61077 2.38820 3.72660 3.04894 3.54961 3.05551 2.83430 2.61954 2.88176 2.75486 4.58412 3.36719\n- 2.68611 4.42236 2.77530 2.73134 3.46365 2.40524 3.72505 3.29365 2.67734 2.69366 4.24427 2.90336 2.73750 3.18157 2.89768 2.37898 2.77511 2.98529 4.58488 3.61514\n- 0.61912 2.06835 1.09306 0.93542 0.49828 0.00000 *\n- 1 2.26889 4.35008 3.87121 3.42329 3.72867 3.49427 4.25346 2.96094 3.31658 2.71081 1.26661 3.64448 4.07428 3.63861 3.57895 2.42453 2.98055 2.72501 5.23926 4.02656 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01877 4.38070 5.10304 0.61958 0.77255 0.80415 0.59324\n- 2 2.68871 4.33550 3.69731 3.12615 2.97451 3.70050 3.96554 2.36809 2.70040 2.04670 2.70829 3.09632 4.07727 2.96476 3.38153 2.39441 2.92046 2.60152 4.92658 3.70572 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01688 4.48595 5.20830 0.61958 0.77255 0.50102 0.93118\n- 3 2.81792 4.89453 3.29720 2.49414 4.11352 3.66167 3.84950 3.07490 1.49486 3.12236 2.31742 3.22504 4.04761 3.02496 3.00801 2.88599 2.74780 3.19535 5.40775 4.11205 10 k - - -\n- 2.68610 4.42235 2.77506 2.73133 3.46317 2.40522 3.72504 3.29324 2.67733 2.69364 4.24699 2.90303 2.73749 3.18156 2.89810 2.37896 2.77529 2.98528 4.58486 3.61513\n- 0.10966 2.30944 5.39389 1.09281 0.40838 0.70011 0.68623\n- 4 2.75906 4.52371 3.56771 2.68763 3.66846 3.71947 3.96563 2.33615 2.52673 1.70689 3.62465 3.05978 3.41567 3.27159 3.32605 2.95966 2.72766 2.55032 5.10008 3.85774 16 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67154 5.39389 0.61958 0.77255 0.70011 0.68623\n- 5 2.38814 5.02513 2.83515 2.38972 4.28398 3.56921 3.76896 2.70743 2.38816 2.73987 4.08981 3.08269 3.33923 2.67853 3.02312 2.34625 2.32284 3.36854 5.51331 4.16143 17 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67154 5.39389 0.61958 0.77255 0.70011 0.68623\n- 6 2.52390 5.21532 2.58283 1.69615 4.53815 3.53877 3.72997 4.00743 2.04377 2.81156 4.26267 3.01538 3.93376 2.83475 2.71687 2.73409 2.99253 3.12902 5.66070 4.26473 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67154 5.39389 0.61958 0.77255 0.70011 0.68623\n- 7 2.34610 5.26702 2.25144 2.28595 4.60987 3.53029 3.19153 4.09383 2.07190 3.57058 4.30895 2.99838 3.926'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01252 4.78285 5.50520 0.61958 0.77255 0.48576 0.95510\n- 520 3.61722 4.90765 5.18861 4.74014 2.14634 4.63244 4.13710 2.44142 4.54643 2.35051 3.88601 4.54067 4.94430 4.53760 4.52976 3.96738 3.83963 3.17160 0.98127 2.31397 616 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01252 4.78285 5.50520 0.61958 0.77255 0.48576 0.95510\n- 521 1.84221 3.04890 3.14493 3.70176 3.03416 3.91216 4.21716 2.46308 3.57898 2.15360 2.94317 3.90141 4.28139 3.79563 3.75291 2.58926 3.03803 2.06784 4.89033 3.69925 617 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01252 4.78285 5.50520 0.61958 0.77255 0.48576 0.95510\n- 522 2.61849 5.05448 3.16616 2.60861 4.31205 3.21176 3.81561 3.20954 1.53384 2.69808 4.12232 3.13384 3.47499 2.73389 3.06149 2.63091 2.53974 3.39761 5.54595 4.19883 618 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01252 4.78285 5.50520 0.61958 0.77255 0.48576 0.95510\n- 523 2.45755 5.29365 2.23783 2.33670 4.62351 3.57479 3.77700 4.10083 2.37674 3.59279 4.34031 2.54346 3.97731 2.88001 3.01841 1.73527 2.79182 3.67649 5.73534 3.62113 619 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08649 4.78285 2.59713 0.61958 0.77255 0.48576 0.95510\n- 524 2.56770 3.79944 3.15888 2.60100 3.45577 3.16606 3.79832 3.65058 2.02809 3.24812 4.05676 2.02091 3.98536 2.94447 2.63191 2.79725 2.70532 2.97774 5.48617 4.14730 620 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01347 4.70983 5.43217 0.61958 0.77255 0.63402 0.75599\n- 525 2.53203 5.12910 3.08081 2.52383 3.71388 2.85744 2.89664 3.86512 1.80177 3.40962 3.60132 3.06011 3.08904 2.61846 2.74481 2.76098 2.99862 3.12019 5.59685 4.22374 621 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15068 4.70983 2.03354 0.61958 0.77255 0.63402 0.75599\n- 526 2.72438 5.08870 2.51692 2.47550 2.87425 2.56276 3.71591 3.82591 2.30835 3.36984 3.50527 2.75160 3.91294 2.47180 2.95988 2.33431 2.95593 3.44896 5.55675 4.18214 622 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22859 4.57458 1.63970 0.61958 0.77255 0.84111 0.56428\n- 527 2.28863 4.96359 3.12491 2.55457 4.24373 3.53617 3.70029 3.65702 1.58174 3.22981 4.04183 3.06152 3.92524 2.84062 2.51255 2.76108 2.69153 3.32297 5.43356 3.33067 623 k - - -\n- 2.68624 4.42195 2.77520 2.73106 3.46436 2.40567 3.72361 3.29301 2.67787 2.69269 4.24592 2.90365 2.73729 3.18104 2.89840 2.37914 2.77560 2.98442 4.58341 3.61586\n- 0.52685 0.89273 * 2.12980 0.12654 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT8__DRT8b.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT8__DRT8b.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,731 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT8__DRT8b\n-LENG 236\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 26 14:50:01 2022\n-NSEQ 30\n-EFFN 2.698975\n-CKSUM 346096561\n-GA 50 50;\n-STATS LOCAL MSV -10.4693 0.70349\n-STATS LOCAL VITERBI -11.3583 0.70349\n-STATS LOCAL FORWARD -4.9210 0.70349\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55786 4.33278 2.98686 2.61428 3.17409 3.05855 3.82123 2.74061 2.70951 2.38903 3.66912 2.95738 3.40325 3.01223 2.90735 2.57957 2.89245 2.70204 4.60477 3.52725\n- 2.68621 4.42266 2.77541 2.73147 3.46395 2.40540 3.72535 3.29320 2.67726 2.69330 4.24073 2.90336 2.73734 3.18168 2.89788 2.37897 2.77530 2.98559 4.58518 3.61544\n- 0.40292 1.29216 2.86542 1.38584 0.28783 0.00000 *\n- 1 2.70428 4.44174 4.08653 3.50633 3.22167 3.93896 4.21164 2.83580 3.37759 2.02192 1.34593 3.81121 4.30422 2.81772 3.28334 3.21304 3.11624 2.67249 5.02699 3.82822 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03506 4.79060 3.64415 0.61958 0.77255 0.60652 0.78799\n- 2 2.84624 4.49347 3.84118 3.26518 3.31041 3.84138 3.29726 1.18531 2.87351 2.69628 3.60089 3.28343 4.21731 3.45577 2.93184 3.10808 3.07483 2.75996 5.06173 3.83369 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01270 4.76824 5.49058 0.61958 0.77255 0.65036 0.73785\n- 3 3.23121 5.53626 1.42769 2.73583 5.24406 3.61735 4.37043 4.80338 3.42097 4.33683 5.18051 3.27585 4.29548 3.55645 3.98943 0.91670 3.60868 4.28097 6.46120 5.00521 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01270 4.76824 5.49058 0.61958 0.77255 0.65036 0.73785\n- 4 2.67058 5.16081 3.06075 1.27591 4.48599 3.62456 3.93067 3.13439 2.73203 3.47997 4.29996 3.17334 2.14718 3.07457 3.19945 2.91191 3.15418 3.51657 5.71902 4.36044 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01270 4.76824 5.49058 0.61958 0.77255 0.65036 0.73785\n- 5 2.82080 5.15514 3.14973 2.58615 4.44581 3.08944 3.34623 3.88455 2.11538 2.83836 4.21480 3.11532 4.00625 2.91918 1.68000 2.42757 2.79877 3.22469 5.61766 4.25940 12 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01270 4.76824 5.49058 0.61958 0.77255 0.65036 0.73785\n- 6 2.61309 5.22761 2.79757 2.37309 4.54128 3.57624 3.77384 4.00500 2.36443 3.52011 4.27957 3.05797 3.97372 2.31081 3.01128 2.36635 1.68407 3.24012 5.68157 4.29057 13 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01270 4.76824 5.49058 0.61958 0.77255 0.65036 0.73785\n- 7 3.50645 4.79017 5.40157 4.84780 1.16190 4.81746 5.09221 2.14877 4.69958 1.94948 3.44483 4.93054 5.05981 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84520 5.56755 0.61958 0.77255 0.48576 0.95510\n- 229 2.91226 4.48650 5.11831 4.53523 3.12159 4.42592 4.81226 1.38961 4.36034 1.99289 2.92209 4.57337 4.75260 4.50808 4.40413 3.75621 2.98440 1.33299 5.27816 4.10460 269 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84520 5.56755 0.61958 0.77255 0.48576 0.95510\n- 230 2.81164 3.78493 3.48094 2.92511 3.99756 2.06715 4.00443 3.10458 2.90169 3.05278 3.91119 3.38235 4.11787 2.71419 3.31742 1.76436 2.36038 2.76692 5.36977 4.09563 270 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84520 5.56755 0.61958 0.77255 0.48576 0.95510\n- 231 2.64538 5.31899 2.01601 2.22136 4.65928 3.23651 3.78070 3.58850 2.51854 3.62226 4.36124 2.70189 3.98579 2.56376 2.65030 2.10496 2.69766 3.70712 5.75444 4.34573 271 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84520 5.56755 0.61958 0.77255 0.48576 0.95510\n- 232 2.56456 5.31800 2.47773 2.00722 4.65975 2.99621 3.45387 4.14344 2.51335 3.24269 4.35958 2.34865 3.48414 2.74329 2.34062 2.77874 2.83436 3.31778 5.75262 4.34357 272 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84520 5.56755 0.61958 0.77255 0.48576 0.95510\n- 233 2.81496 5.24224 2.69243 2.23311 3.64222 3.05780 3.79312 3.46736 2.54232 2.85515 4.29182 2.34809 3.99485 2.68547 2.67731 2.12145 2.87822 3.61482 5.69542 3.65744 273 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84520 5.56755 0.61958 0.77255 0.48576 0.95510\n- 234 2.57059 4.51698 3.42135 2.71840 2.40090 3.81760 4.07562 2.57299 3.13300 2.04957 3.62170 2.98471 3.55589 3.42876 3.10587 3.06596 2.55976 2.43163 5.10272 3.36130 274 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01175 4.84520 5.56755 0.61958 0.77255 0.48576 0.95510\n- 235 2.81992 4.95631 2.97173 2.70341 4.17737 3.66592 3.50897 2.64977 2.57569 3.20676 4.03230 3.21443 4.05469 3.03903 2.00890 1.99074 2.79651 2.66511 5.47110 3.56247 275 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17063 4.84520 1.90381 0.61958 0.77255 0.48576 0.95510\n- 236 2.76061 5.16567 2.65465 2.21842 4.46969 3.55074 3.43843 2.90429 2.38607 3.11037 4.21755 2.81265 3.94327 2.85390 1.92524 2.56590 2.99167 3.08795 5.62332 4.23945 276 r - - -\n- 2.68625 4.42266 2.77531 2.73083 3.46187 2.40538 3.72502 3.29344 2.67782 2.69379 4.24557 2.90326 2.73781 3.18134 2.89774 2.37902 2.77491 2.98560 4.58518 3.61485\n- 0.44901 1.01683 * 1.29759 0.31909 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT9__DRT9.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT9__DRT9.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1520 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT9__DRT9\n-LENG 499\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 26 14:03:41 2022\n-NSEQ 20\n-EFFN 1.098633\n-CKSUM 475834153\n-GA 300 300;\n-STATS LOCAL MSV -11.7977 0.69804\n-STATS LOCAL VITERBI -12.6010 0.69804\n-STATS LOCAL FORWARD -6.2333 0.69804\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57942 4.52635 2.94974 2.68087 3.16691 3.06667 3.68248 2.73262 2.55975 2.44258 3.67265 3.02662 3.53059 3.04200 2.85154 2.59031 2.94862 2.71987 4.63579 3.27903\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02159 4.24222 4.96457 0.61958 0.77255 0.00000 *\n- 1 3.30716 4.80506 4.47440 4.11241 3.43183 4.12757 4.76210 2.64772 3.85664 1.98337 0.81113 4.33925 4.60371 4.22100 4.01501 3.68734 3.62699 2.69420 5.31195 4.10038 1 m - - -\n- 2.68618 4.42233 2.77503 2.73131 3.46344 2.40521 3.72503 3.29331 2.67749 2.69363 4.24698 2.90321 2.73748 3.18155 2.89809 2.37866 2.77528 2.98527 4.58485 3.61511\n- 0.73993 1.42526 1.26441 0.64264 0.74634 0.48576 0.95510\n- 2 2.61612 4.31710 3.56937 3.04214 3.40725 3.54195 3.89646 2.66550 2.81194 1.64224 3.40072 3.39221 3.97908 3.23728 2.87941 2.64980 2.88338 2.38789 4.93131 3.67722 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02992 3.92005 4.64240 0.61958 0.77255 0.44764 1.01925\n- 3 2.57369 4.84046 2.99188 1.78227 4.08283 3.45266 3.65438 3.07055 2.26545 2.73039 3.91184 2.98264 3.85104 2.69314 2.84468 2.68245 2.87991 3.16158 5.33453 4.00817 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02352 4.15742 4.87977 0.61958 0.77255 0.58783 0.81088\n- 4 2.63702 5.08238 2.55466 2.20781 4.40520 3.39643 3.59165 3.63613 1.90050 3.18812 4.13209 2.53529 3.79814 2.54924 2.71087 2.60855 2.86779 3.46166 5.52301 4.13228 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02352 4.15742 4.87977 0.61958 0.77255 0.50597 0.92362\n- 5 2.18647 4.99982 2.80587 2.23260 4.29500 3.41306 3.60712 3.50841 2.19940 3.14918 4.05532 2.90387 3.42234 2.36739 2.73078 2.53925 2.85435 3.36360 5.46265 4.08668 13 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02254 4.19974 4.92208 0.61958 0.77255 0.53928 0.87507\n- 6 3.33061 4.61854 5.06731 4.51699 2.79789 4.65059 4.95263 1.20204 4.39025 1.32022 3.06509 4.70895 4.84645 4.48041 4.48193 4.00845 3.55879 2.08508 5.23392 4.06865 14 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02254 4.19974 4.92208 0.61958 0.77255 0.53928 0.87507\n- 7 2.62964 4.96426 2.95098 1.92957 4.24847 3.42719 3.61516 3.46189 2.11940 3.08670 4.02302 2.79578 3.8184'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02159 4.24222 4.96457 0.61958 0.77255 0.48576 0.95510\n- 492 2.58775 4.61125 3.14364 2.65902 3.95756 2.72598 3.80711 3.37381 2.67430 3.02244 3.86543 2.94298 3.87759 3.00995 3.09988 1.76041 2.56753 3.05638 5.29498 2.92727 552 s - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73728 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.23068 2.91721 1.88439 0.45361 1.00877 0.48576 0.95510\n- 493 2.59497 4.61497 2.90862 2.54851 3.79052 3.45609 3.67909 3.19967 2.53747 2.30401 3.70250 2.59743 3.85000 2.67043 2.96900 2.60230 2.82743 2.82134 5.13773 3.12426 554 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02529 4.08564 4.80799 0.61958 0.77255 0.47817 0.96736\n- 494 2.62189 5.04756 2.77515 2.28298 4.35885 3.05901 3.15275 3.56808 2.12964 3.33750 4.09812 2.60659 3.79716 2.42740 2.82789 2.36257 2.85331 3.42013 5.49970 3.78727 555 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02277 4.18931 4.91165 0.61958 0.77255 0.55166 0.85800\n- 495 3.55074 5.03855 4.05628 3.71720 2.19588 4.21441 2.33816 3.67800 3.53133 3.04832 4.21593 3.83898 4.58983 3.81395 3.73443 3.59593 3.78072 3.51987 3.85093 0.90339 556 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04720 4.18931 3.47543 0.61958 0.77255 0.55166 0.85800\n- 496 2.45608 5.02015 2.55776 2.13455 4.32113 3.39633 3.42115 3.77792 2.28080 3.04059 3.74155 2.49649 3.79580 2.71235 2.84134 2.36645 2.85099 3.38716 5.47950 4.09501 557 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16543 4.88778 0.61958 0.77255 0.57897 0.82206\n- 497 3.01740 4.60804 3.90330 3.44982 2.31538 3.88490 3.69304 3.15496 3.37468 2.73662 3.77408 3.66640 4.29434 3.61297 3.63453 2.34932 3.27494 2.96265 4.11424 1.24992 558 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17718 4.16543 1.91835 0.61958 0.77255 0.57897 0.82206\n- 498 2.61672 4.94366 2.42292 2.32435 4.23028 2.65681 3.60438 3.67395 2.26338 3.23194 4.02489 2.86202 3.78371 2.73687 2.75744 2.27217 2.85575 3.30870 5.43121 3.68833 559 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09914 4.01541 2.57243 0.61958 0.77255 0.61835 0.77399\n- 499 2.55826 4.43895 2.69748 2.49015 3.18310 3.31295 3.70915 2.71470 2.63344 2.66239 3.19583 2.99925 3.86111 2.95887 3.03978 2.70428 2.78990 2.60847 4.36076 3.73003 560 e - - -\n- 2.68637 4.42244 2.77523 2.73113 3.46341 2.40511 3.72495 3.29348 2.67747 2.69360 4.24709 2.90329 2.73739 3.18166 2.89820 2.37875 2.77508 2.98531 4.58496 3.61451\n- 0.34148 1.24035 * 1.37099 0.29283 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_1__drt1a.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_1__drt1a.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3716 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT_1__drt1a\n-LENG 1231\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:52 2021\n-NSEQ 100\n-EFFN 0.747681\n-CKSUM 1719181994\n-GA 20 20;\n-STATS LOCAL MSV -13.2383 0.69513\n-STATS LOCAL VITERBI -14.1708 0.69513\n-STATS LOCAL FORWARD -7.4586 0.69513\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54382 4.31810 2.87601 2.68794 3.28176 3.08843 3.66775 2.74950 2.62067 2.41591 3.67333 3.05690 3.48731 3.04015 2.90834 2.64768 2.87856 2.66771 4.17654 3.44627\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03446 4.03697 4.12136 0.61958 0.77255 0.00000 *\n- 1 3.09892 4.62439 4.22094 3.82881 3.28542 3.95272 4.52775 2.47708 3.58752 1.85873 1.10650 4.08616 4.41644 3.96039 3.77390 3.46321 3.40849 2.50085 5.14565 3.91998 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02678 4.02929 4.75163 0.61958 0.77255 0.49397 0.94213\n- 2 2.98643 5.07958 3.30675 2.76295 4.48302 3.60007 3.66755 3.85705 1.10029 3.35939 4.25127 3.18001 4.01816 2.81674 2.15292 3.00109 3.19121 3.45970 5.45178 4.24024 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05605 4.02929 3.30432 0.61958 0.77255 0.49397 0.94213\n- 3 2.66521 4.49340 3.54783 3.05376 3.41017 3.68705 3.96602 2.64917 2.82562 1.44377 3.35152 3.44780 4.08942 2.66904 3.11278 3.00694 3.02592 2.58332 5.02610 3.78179 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02756 4.00080 4.72315 0.61958 0.77255 0.52329 0.89788\n- 4 3.23840 4.56911 4.79376 4.26063 3.19112 4.50849 4.86746 1.55618 4.09797 1.10516 3.00716 4.52037 4.73536 4.28992 4.25321 3.87364 3.47651 1.97295 5.24485 4.10844 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03362 4.00080 4.21606 0.61958 0.77255 0.52329 0.89788\n- 5 2.65705 5.24026 1.75357 2.10750 4.54371 3.27384 3.67428 4.02032 2.47755 3.54033 4.34597 2.12530 3.80588 2.81709 3.08933 2.70758 2.97082 3.50563 5.71425 4.27627 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02773 3.99491 4.71726 0.61958 0.77255 0.48153 0.96191\n- 6 2.68037 5.11671 2.46247 2.06943 4.44165 3.36342 3.59340 3.90227 1.81400 3.40173 4.17753 2.83861 3.45944 2.71095 2.56813 2.64281 2.91356 3.49944 5.54746 4.16196 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02357 4.74591 0.61958 0.77255 0.49999 0.93277\n- 7 2.89199 5.04305 3.12019 2.62763 4.10152 3.54232 3.64944 3.76472 1.24119 3.27874 4.15917 3.08742 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02692 4.02406 4.74641 0.61958 0.77255 0.50013 0.93255\n- 1224 2.72064 4.56991 3.33731 3.18239 4.29441 3.24860 4.31259 3.86188 3.25827 3.52370 4.50713 3.37820 0.80972 3.64514 3.52876 2.87697 3.17285 3.45325 5.54762 4.37136 1391 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02692 4.02406 4.74641 0.61958 0.77255 0.50013 0.93255\n- 1225 0.81556 4.27383 3.62201 3.42310 4.20863 3.09377 4.42647 3.35724 3.44340 3.23162 4.24879 3.53263 3.84758 3.77110 3.68182 2.62384 2.91184 2.98526 5.62058 4.43848 1392 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02692 4.02406 4.74641 0.61958 0.77255 0.50013 0.93255\n- 1226 2.74972 4.58444 3.21668 3.23254 4.56024 0.65403 4.44404 4.14955 3.50015 3.80741 4.74315 3.53139 3.95360 3.79214 3.77758 2.90677 3.22963 3.64719 5.68482 4.63541 1393 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02692 4.02406 4.74641 0.61958 0.77255 0.50013 0.93255\n- 1227 2.88258 4.31114 4.27914 3.73179 1.71648 3.96402 3.96227 2.44538 3.60585 2.00179 3.07990 3.88723 4.29502 3.77903 3.76704 3.26678 3.11190 2.10103 4.38047 2.49410 1394 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06795 4.02406 3.04043 0.61958 0.77255 0.50013 0.93255\n- 1228 2.36764 4.84585 2.82278 2.40801 4.21916 3.33680 3.65187 3.64373 2.25702 3.21920 4.03400 2.09747 3.80287 2.80178 2.67258 2.35404 2.88562 3.28376 5.42384 4.08992 1395 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05078 3.98415 3.47691 0.61958 0.77255 0.54030 0.87365\n- 1229 3.01825 4.97654 3.47238 2.91555 4.36523 3.58680 3.72508 3.81018 2.01023 3.31825 4.25552 3.28701 4.03559 2.90089 1.06995 3.06820 3.24338 3.51666 5.37602 4.19434 1396 r - - -\n- 2.68619 4.42224 2.77520 2.73123 3.46354 2.40510 3.72498 3.29353 2.67735 2.69357 4.24685 2.90342 2.73742 3.18147 2.89803 2.37889 2.77521 2.98519 4.58469 3.61496\n- 0.18436 2.93691 2.15990 1.20946 0.35433 0.56122 0.84516\n- 1230 2.86674 4.98670 3.05462 2.59877 4.37475 3.46977 3.59826 3.78178 1.33630 3.29830 4.16904 2.91094 3.91055 2.75218 2.17660 2.87721 3.08415 3.45580 5.38596 4.14706 1443 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03213 3.84988 4.57222 0.61958 0.77255 0.65495 0.73287\n- 1231 2.75043 4.80150 2.93511 2.53437 3.59254 3.44174 2.06706 3.46359 2.20197 3.04000 3.92849 2.94081 3.88036 2.84451 2.62950 2.79147 2.98127 3.17650 4.97303 3.33868 1444 h - - -\n- 2.68619 4.42227 2.77520 2.73122 3.46352 2.40514 3.72492 3.29351 2.67740 2.69352 4.24692 2.90348 2.73741 3.18144 2.89802 2.37887 2.77520 2.98518 4.58479 3.61503\n- 0.02649 3.64407 * 1.12737 0.39139 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_1__drt1b.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_1__drt1b.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,614 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT_1__drt1b\n-LENG 197\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:52 2021\n-NSEQ 100\n-EFFN 1.693726\n-CKSUM 2734622097\n-GA 20 20;\n-STATS LOCAL MSV -10.7593 0.70553\n-STATS LOCAL VITERBI -11.3298 0.70553\n-STATS LOCAL FORWARD -4.8351 0.70553\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46686 4.22940 3.08042 2.66474 3.14528 3.24437 3.62376 2.75892 2.62497 2.40455 3.57854 3.11573 3.70279 3.02749 3.05743 2.61744 2.82825 2.69325 3.99316 3.22834\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04535 3.51170 4.23405 0.61958 0.77255 0.00000 *\n- 1 2.69354 4.32940 3.61836 3.23755 3.12342 3.49335 4.05705 2.28421 3.00474 1.85306 2.39082 3.54156 4.00270 3.44490 3.24114 2.98080 3.01902 2.22653 4.87506 3.56582 1 l - - -\n- 2.68617 4.42229 2.77505 2.73126 3.46351 2.40523 3.72493 3.29330 2.67729 2.69340 4.24707 2.90350 2.73745 3.18156 2.89807 2.37897 2.77529 2.98527 4.58388 3.61497\n- 0.06292 3.06847 4.23405 2.48148 0.08732 0.48576 0.95510\n- 2 2.89507 4.42277 4.03488 3.51048 3.07325 3.94261 4.27756 2.11307 3.30008 1.48507 2.36429 3.84157 4.28989 3.64495 3.54603 3.28532 3.15261 2.06881 4.97062 3.73941 115 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03968 3.64251 4.36485 0.61958 0.77255 0.48576 0.95510\n- 3 2.51401 4.67477 2.70775 2.26907 4.06473 3.00582 3.60133 3.46876 2.30938 3.07507 3.92495 2.72855 3.73547 2.78104 2.38196 2.51764 2.84489 3.13443 5.29319 3.99471 116 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03968 3.64251 4.36485 0.61958 0.77255 0.48576 0.95510\n- 4 2.54316 4.22530 3.49280 2.95867 2.91867 3.50803 3.81387 2.65336 2.87759 2.37872 2.38277 3.01177 3.91936 3.19543 3.19467 2.70623 2.74433 2.45066 4.78242 3.50301 117 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03222 3.84694 4.56929 0.61958 0.77255 0.48576 0.95510\n- 5 2.51715 4.69204 2.74530 2.17041 4.08765 3.25849 3.67250 3.47903 2.40750 3.10841 3.94778 2.90094 3.76570 2.84952 2.90177 2.07297 2.47867 3.13857 5.35642 4.03704 118 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03222 3.84694 4.56929 0.61958 0.77255 0.48576 0.95510\n- 6 2.59884 4.80588 2.61455 2.34153 4.07425 3.14465 3.60566 3.49269 2.26487 2.79224 3.92150 2.28699 3.77069 2.76464 2.84663 2.62027 2.84437 3.09242 5.32653 3.98408 119 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03222 3.84694 4.56929 0.61958 0.77255 0.48576 0.95510\n- 7 2.91949 4.31661 4.44214 3.87550 3.28257 4.13009 4.48757 1.63363 3.76076 1.81684 2.22808 4.11630 4.438'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 190 2.59824 4.47494 2.79178 2.55950 3.27034 3.13610 2.55360 3.30824 2.45298 2.86979 3.88026 2.97455 3.48561 2.95572 2.73514 2.69026 2.91989 3.03270 4.70957 3.25190 1513 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 191 2.58974 4.48515 2.81679 2.57776 3.22599 3.17108 2.66401 3.23887 2.44549 2.81543 3.84463 2.98469 3.73854 2.95927 2.72545 2.68579 2.82365 2.97791 4.70409 3.21377 1514 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 192 2.61614 4.49028 2.74457 2.54757 3.58377 3.10769 3.67180 3.20128 2.42665 2.74110 3.84760 2.97391 3.69656 2.17065 2.69622 2.71368 2.94903 2.97538 4.96577 3.64145 1515 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 193 2.63483 4.47809 2.81880 2.58208 3.77308 3.10922 3.66265 3.19375 1.78857 2.87331 3.92074 2.99878 3.68520 2.92884 2.56511 2.73801 2.95529 2.94024 5.03005 3.80229 1516 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 194 2.67807 4.29442 3.71918 3.34469 3.16696 3.56580 4.16442 1.83025 3.14410 1.90643 3.22811 3.62344 4.08165 3.56199 3.38692 3.01292 3.01403 1.94927 4.96162 3.60890 1517 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 195 2.72629 4.32322 3.50440 3.21524 3.05885 3.37976 3.99346 2.34784 2.99790 1.57936 3.31400 3.51094 3.92939 3.46248 3.21005 2.99978 3.06939 2.27129 4.73556 3.37383 1518 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 196 2.44297 4.35458 2.73768 2.56329 3.53626 3.01700 3.70884 3.16457 2.58028 2.81070 3.92556 2.31503 3.65518 3.03002 2.87751 2.56345 2.82598 2.86454 4.96799 3.55581 1519 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04564 3.50550 4.22784 0.61958 0.77255 0.49631 0.93847\n- 197 2.63430 4.31540 3.45874 3.14671 3.15643 3.39217 3.99865 2.32807 2.92601 1.74283 3.32775 3.44470 3.94796 3.39868 3.16204 2.89573 2.88806 2.22832 4.86538 3.48889 1520 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03095 3.49081 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_2__drt2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_2__drt2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1298 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT_2__drt2\n-LENG 425\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:53 2021\n-NSEQ 100\n-EFFN 0.625610\n-CKSUM 2125520021\n-GA 100 100;\n-STATS LOCAL MSV -11.5604 0.69887\n-STATS LOCAL VITERBI -12.5211 0.69887\n-STATS LOCAL FORWARD -5.5462 0.69887\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57824 4.31900 2.96272 2.73017 3.11337 3.09659 3.60703 2.79900 2.51673 2.43741 3.63554 3.03780 3.52697 3.10643 2.83777 2.62769 2.92674 2.71717 4.70448 3.21454\n- 2.68618 4.42226 2.77520 2.73123 3.46352 2.40513 3.72495 3.29354 2.67741 2.69354 4.24687 2.90347 2.73739 3.18145 2.89800 2.37887 2.77520 2.98517 4.58478 3.61502\n- 0.03169 3.81881 4.68406 0.86335 0.54774 0.00000 *\n- 1 3.04080 4.57587 4.14579 3.74654 3.24890 3.90091 4.46106 2.43349 3.50955 1.83068 1.21685 4.01285 4.36252 3.88587 3.70429 3.39896 3.34812 2.44982 5.10128 3.87061 22 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 2 2.57564 4.85243 2.79939 2.16101 4.11750 3.36863 3.58173 3.54726 2.25972 3.04120 3.87701 2.76921 3.47203 2.67563 2.82902 2.33112 2.72853 2.95120 5.34108 3.98795 23 e - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46349 2.40513 3.72495 3.29354 2.67739 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98516 4.58477 3.61503\n- 0.04680 3.31088 4.68406 0.58524 0.81413 0.48576 0.95510\n- 3 2.52466 4.47959 2.92059 2.46808 3.87934 3.39915 3.62984 3.22762 2.41247 2.89920 3.74894 2.78169 3.79916 2.74245 2.90008 2.12265 2.64788 2.98271 5.18815 3.47449 26 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04751 3.96171 3.59829 0.61958 0.77255 0.48576 0.95510\n- 4 2.60977 5.00424 2.64156 2.23600 4.31043 3.35167 3.39501 3.76298 2.19430 3.28623 4.06250 2.49088 3.31264 2.65599 2.42224 2.58848 2.81515 3.32802 5.45304 4.07619 27 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02922 3.94342 4.66576 0.61958 0.77255 0.47471 0.97304\n- 5 2.60428 4.98396 2.50142 1.95465 4.27463 3.34240 3.49007 3.53188 2.20821 3.26514 4.04596 2.83068 3.60050 2.69746 2.83177 2.45925 2.73704 3.34621 5.44836 3.98116 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 6 2.57646 4.79250 2.77911 2.39531 3.98684 3.37424 2.64698 3.46188 2.43150 3.06366 3.88948 2.76910 2.75810 2.78778 2.87965 2.61275 2.84733 3.14047 5.27136 3.54945 29 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 7 2.50315 4.44704 3.07694 2.50030 3.80272 3.29118 3.66680 3.16558 2.43951 2.50309 3.69337 2.89590 2.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95686 4.67921 0.61958 0.77255 0.49058 0.94745\n- 418 2.93781 4.97955 3.32016 2.78088 4.38131 3.55257 3.65498 3.81060 1.96590 3.32352 4.21072 3.01823 3.98825 2.81652 1.23622 2.97126 3.15719 3.49264 5.38462 4.16963 447 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95686 4.67921 0.61958 0.77255 0.49058 0.94745\n- 419 3.25842 4.62261 4.61407 4.11991 1.94352 4.35348 4.32281 2.32505 3.97669 1.09043 2.98339 4.29596 4.61003 4.10441 4.10814 3.71688 3.49055 2.42448 4.59958 3.14341 448 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95686 4.67921 0.61958 0.77255 0.49058 0.94745\n- 420 2.72930 5.04215 2.84222 2.32281 4.35335 3.41531 2.69987 3.78514 2.15722 3.30336 4.11198 2.69948 3.83482 2.09145 2.48443 2.71152 2.94975 3.42531 5.45031 4.12276 449 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95686 4.67921 0.61958 0.77255 0.49058 0.94745\n- 421 2.61761 5.14655 2.40534 1.90671 4.45821 3.31451 3.60289 3.92566 2.03239 3.43074 4.21556 2.45852 3.78321 2.72865 2.75884 2.64794 2.93689 3.52280 5.58601 4.18227 450 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95686 4.67921 0.61958 0.77255 0.49058 0.94745\n- 422 3.02613 5.15319 2.52510 0.91115 4.51019 3.32936 3.92397 3.98089 2.81520 3.58463 4.55534 2.98266 3.93807 3.13812 3.23248 3.00020 3.33114 3.65617 5.66589 4.38862 451 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95686 4.67921 0.61958 0.77255 0.49058 0.94745\n- 423 3.15058 4.48303 4.74171 4.18063 2.98615 4.42993 4.75765 1.45503 4.06812 1.33153 2.76018 4.43112 4.65082 4.21156 4.21805 3.76692 3.37873 1.95660 5.15312 4.03499 452 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95686 4.67921 0.61958 0.77255 0.49058 0.94745\n- 424 2.61385 5.03887 2.59331 1.87461 4.33579 3.28988 3.40941 3.79194 2.29715 3.12708 4.10112 2.56810 3.77103 2.58991 2.76111 2.56541 2.87326 3.40534 5.49155 4.10454 453 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03946 3.95686 3.93384 0.61958 0.77255 0.49058 0.94745\n- 425 2.81913 5.06176 2.90349 2.51624 4.43580 3.48607 3.58734 3.83391 1.50555 3.33045 4.15855 2.95351 3.89237 2.72028 2.00999 2.77973 3.02620 3.48545 5.44132 4.17211 454 k - - -\n- 2.68623 4.42231 2.77515 2.73104 3.46357 2.40519 3.72501 3.29355 2.67736 2.69357 4.24696 2.90347 2.73742 3.18152 2.89807 2.37885 2.77505 2.98524 4.58483 3.61509\n- 0.25285 1.49873 * 0.71603 0.67078 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_3__drt3a.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_3__drt3a.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2660 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT_3__drt3a\n-LENG 879\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:53 2021\n-NSEQ 100\n-EFFN 2.316284\n-CKSUM 1862363401\n-GA 20 20;\n-STATS LOCAL MSV -12.9524 0.69592\n-STATS LOCAL VITERBI -13.3143 0.69592\n-STATS LOCAL FORWARD -5.7669 0.69592\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64362 4.28781 2.90695 2.78784 3.04723 2.97020 3.81937 2.65013 2.58093 2.37868 3.73435 2.98659 3.56720 3.27543 2.88955 2.63066 2.96427 2.62598 4.89231 3.22550\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60082 5.32316 0.61958 0.77255 0.00000 *\n- 1 3.75213 5.20802 4.96374 4.67541 3.79568 4.47159 5.24337 3.06274 4.40191 2.32492 0.45492 4.84622 4.98295 4.75401 4.50790 4.14715 4.09771 3.14604 5.68754 4.50175 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60082 5.32316 0.61958 0.77255 0.48576 0.95510\n- 2 4.09259 5.36894 5.36253 5.05762 3.59678 4.90710 5.50559 2.87833 4.83413 0.31807 3.48054 5.27691 5.25159 5.00996 4.86926 4.65936 4.36909 3.09281 5.67441 4.55040 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60082 5.32316 0.61958 0.77255 0.48576 0.95510\n- 3 3.39614 6.00642 1.21818 2.44606 5.32909 3.56122 4.20221 4.94129 3.31684 4.40861 5.29249 1.13095 4.23405 3.38495 3.96947 3.25691 3.71625 4.46774 6.51571 4.95696 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60082 5.32316 0.61958 0.77255 0.48576 0.95510\n- 4 3.76377 5.62882 3.68355 3.51275 4.90899 4.06354 4.65149 4.73458 3.29512 4.14746 5.21487 3.95637 4.66293 0.35907 3.53674 3.80965 4.08943 4.42989 6.05203 4.84384 4 Q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60082 5.32316 0.61958 0.77255 0.48576 0.95510\n- 5 2.58392 4.52058 3.98648 3.70764 4.76983 3.30619 4.72235 4.17195 3.72289 3.88636 4.71216 3.76934 4.08267 4.01105 4.00091 1.24633 1.06051 3.58447 6.11756 4.92247 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60082 5.32316 0.61958 0.77255 0.48576 0.95510\n- 6 4.34853 5.54289 5.26599 5.15922 0.31044 4.75622 4.42519 3.85896 5.06941 3.07539 4.49913 4.93166 5.23120 5.04665 5.00745 4.54206 4.66592 3.89367 4.54780 2.86142 6 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01503 4.60082 5.32316 0.61958 0.77255 0.48576 0.95510\n- 7 2.85362 4.75527 4.05299 3.96399 4.93953 3.48152 5.01113 4.59842 4.09604 4.27371 5.16489 4.01031 4.28'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 872 2.50209 4.19600 2.83406 2.67777 3.46093 2.89614 3.71361 2.91761 2.27704 2.62875 3.78807 3.04332 3.52867 3.09050 2.79608 2.66407 2.88386 2.69411 4.77707 3.57902 1080 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 873 2.53307 4.20189 2.72860 2.27499 3.50994 2.86659 3.71417 2.91660 2.62700 2.64531 3.80907 3.00425 3.49959 3.09196 2.86542 2.68821 2.90930 2.69652 4.78350 3.63827 1081 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 874 2.55251 4.15159 3.18792 3.00339 3.10924 3.01141 3.84370 2.53204 2.86724 1.99085 3.50050 3.29250 3.63397 3.33709 3.05920 2.78283 2.94375 2.39910 4.62194 3.32672 1082 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 875 2.48797 4.13189 2.95067 2.77011 3.36569 2.85487 3.70980 2.95077 2.59122 2.56593 3.74842 3.10064 3.48782 3.12493 2.39103 2.66376 2.87707 2.73481 4.67342 3.49333 1083 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 876 2.35435 4.09123 3.03167 2.87954 3.41439 2.89239 3.87903 2.67914 2.82700 2.44691 3.66486 3.15561 3.56834 3.27659 3.04725 2.55905 2.48997 2.47099 4.88047 3.63085 1084 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 877 2.13121 4.06995 3.01566 2.87833 3.40538 2.85846 3.87501 2.69374 2.85638 2.45598 3.67884 3.15533 3.53624 3.29106 3.06994 2.56481 2.79466 2.48422 4.84038 3.61948 1085 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 878 2.61993 4.26550 3.08207 2.87808 2.88353 3.11114 3.68622 2.70304 2.77154 2.30043 3.55154 3.20768 3.69959 3.22740 2.99662 2.80499 2.97493 2.56318 4.43377 2.63475 1086 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04944 3.42744 4.14978 0.61958 0.77255 0.48576 0.95510\n- 879 2.53307 4.20189 2.72860 2.27499 3.50994 2.86659 3.71417 2.91660 2.62700 2.64531 3.80907 3.00425 3.49959 3.09196 2.86542 2.68821 2.90930 2.69652 4.78350 3.63827 1087 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.41154 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_3__drt3b.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_3__drt3b.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2021 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT_3__drt3b\n-LENG 666\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:54 2021\n-NSEQ 100\n-EFFN 0.637817\n-CKSUM 648107650\n-GA 20 20;\n-STATS LOCAL MSV -11.9487 0.69680\n-STATS LOCAL VITERBI -13.1487 0.69680\n-STATS LOCAL FORWARD -6.1098 0.69680\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70640 4.27887 2.91576 2.66013 3.03558 3.16549 3.72059 2.64185 2.58030 2.35007 3.62174 3.07028 3.61908 3.18794 2.96916 2.69527 2.95813 2.59398 4.80925 3.13296\n- 2.68626 4.42230 2.77526 2.73126 3.46332 2.40525 3.72496 3.29312 2.67731 2.69349 4.24678 2.90336 2.73754 3.18160 2.89798 2.37888 2.77530 2.98518 4.58492 3.61478\n- 0.12313 3.16513 2.60852 2.52867 0.08313 0.00000 *\n- 1 2.76299 4.40290 3.75976 3.34443 3.27396 3.63133 4.13534 2.49267 3.11849 2.07894 1.57204 3.51448 4.12325 3.53809 3.35620 3.05119 3.07311 2.40478 4.97281 3.67001 401 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03141 3.87203 4.59438 0.61958 0.77255 0.54072 0.87307\n- 2 2.91576 5.01062 3.06233 2.58649 4.40014 3.48762 3.62876 3.77775 1.23986 3.30572 4.20040 3.07207 3.93642 2.78650 2.22444 2.92689 3.13277 3.46634 5.40579 4.18258 402 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03141 3.87203 4.59438 0.61958 0.77255 0.54072 0.87307\n- 3 2.82402 4.32093 4.04459 3.56284 3.27870 3.89768 4.28084 1.35322 3.39198 2.10520 3.31005 3.72333 4.29736 3.74050 3.63169 3.25148 3.09290 1.88486 5.00522 3.55167 403 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03141 3.87203 4.59438 0.61958 0.77255 0.54072 0.87307\n- 4 2.92969 4.97011 3.14080 2.70219 4.35178 3.48577 3.66624 3.76463 1.16682 3.29605 4.21613 3.12740 3.94893 2.83506 2.24340 2.95588 3.15925 3.46050 5.38034 4.16657 404 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04150 3.87203 3.92034 0.61958 0.77255 0.53554 0.88032\n- 5 2.85678 4.33985 4.15894 3.69830 3.38027 3.94179 4.44697 1.26104 3.51050 2.08693 3.29717 3.81483 4.36577 3.87497 3.74217 3.32406 3.14533 1.80100 5.17177 3.88322 405 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03161 3.86578 4.58813 0.61958 0.77255 0.54608 0.86563\n- 6 2.63185 4.73102 2.89847 2.53434 4.21366 3.28697 3.69069 3.62845 1.72702 3.22839 4.08562 2.98856 3.81154 2.86505 2.63208 2.01711 2.92845 3.26931 5.39978 4.10778 406 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03161 3.86578 4.58813 0.61958 0.77255 0.54608 0.86563\n- 7 2.96602 4.92952 3.14157 2.76429 4.31442 3.45619 3.75553 3.74327 1.04746 3.30982 4.27163 3.18906 3.957'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 659 2.96225 4.92545 3.13750 2.76109 4.30939 3.45281 3.75333 3.73799 1.05332 3.30549 4.26759 3.18602 3.95397 2.94547 2.42981 3.00498 3.21636 3.44641 5.36858 4.17980 1066 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 660 2.94304 5.05166 2.48322 1.04100 4.39653 3.26713 3.85307 3.84826 2.73224 3.46717 4.44176 2.92692 3.87121 3.06901 3.13989 2.92660 3.24722 3.53326 5.57016 4.29249 1067 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 661 3.14309 4.60864 4.17193 3.81180 3.13167 3.96822 4.47097 2.33520 3.57966 0.88876 3.15816 4.08833 4.40550 3.95060 3.75748 3.53791 3.43786 2.36969 5.00692 3.72769 1068 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 662 2.99327 4.83303 3.48282 2.99625 4.18485 3.48327 3.81657 3.72586 2.23328 3.24378 4.24431 3.35679 3.98644 3.03749 0.99520 3.07800 3.26001 3.45029 5.27235 4.11464 1069 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 663 2.40696 4.25199 3.41851 3.17009 3.95935 3.09161 4.18823 3.08515 3.11285 2.94903 4.00031 3.38118 3.79453 3.50824 3.37202 2.60811 1.19056 2.78130 5.39811 4.17600 1070 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 664 1.69378 4.21568 3.21312 2.93001 4.09416 2.99044 4.04729 3.39504 2.97410 3.14089 4.04605 3.19319 1.94926 3.31024 3.29938 2.44982 2.72943 2.98148 5.45892 4.22418 1071 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 665 3.23144 4.72486 3.82217 3.54957 2.29380 3.81746 3.61362 3.24219 3.40740 2.69892 3.91838 3.71010 4.29159 3.71606 3.59332 3.36920 3.51809 3.11224 3.93712 0.98414 1072 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 3.86155 4.58389 0.61958 0.77255 0.49962 0.93334\n- 666 2.94304 5.05166 2.48322 1.04100 4.39653 3.26713 3.85307 3.84826 2.73224 3.46717 4.44176 2.92692 3.87121 3.06901 3.13989 2.92660 3.24722 3.53326 5.57016 4.29249 1073 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02148 3.85128 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_4__drt4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_4__drt4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1625 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT_4__drt4\n-LENG 534\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:47:54 2021\n-NSEQ 99\n-EFFN 0.510590\n-CKSUM 1859707892\n-GA 60 60;\n-STATS LOCAL MSV -11.7796 0.69770\n-STATS LOCAL VITERBI -12.8472 0.69770\n-STATS LOCAL FORWARD -6.0839 0.69770\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64379 4.04286 2.80972 2.71885 3.20669 3.01067 3.62887 2.69842 2.69807 2.40323 3.68592 2.97696 3.42443 3.23808 2.99657 2.66775 2.91833 2.64944 4.46206 3.20959\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69356 4.24628 2.90347 2.73740 3.18147 2.89801 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.29772 2.43996 1.77006 0.43447 1.04301 0.00000 *\n- 1 2.72338 4.34677 4.01347 3.46781 2.96421 3.90457 4.23509 2.06088 3.34998 1.70618 2.21804 3.79720 4.24655 3.62646 3.61201 3.21679 3.07362 2.07607 4.94469 3.73501 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70500 4.42735 0.61958 0.77255 0.62329 0.76826\n- 2 2.85437 4.36585 3.94179 3.48130 3.06453 3.87573 4.17238 1.54675 3.30171 1.90276 3.18739 3.78383 4.26384 3.65692 3.54342 3.24660 3.11910 2.00933 4.83549 3.22278 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70500 4.42735 0.61958 0.77255 0.62329 0.76826\n- 3 3.04549 4.50930 4.09684 3.70401 1.57191 3.92882 3.83907 2.45485 3.57350 1.79520 3.21808 3.85753 4.32529 3.79095 3.75514 3.34943 3.32125 2.45054 4.15874 2.55265 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70500 4.42735 0.61958 0.77255 0.62329 0.76826\n- 4 2.72964 5.01122 1.46673 2.11123 4.32630 3.08189 3.69900 3.88361 2.71543 3.50023 4.39787 2.52045 3.71761 2.90319 3.24183 2.68875 3.05548 3.49947 5.60028 4.15968 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70500 4.42735 0.61958 0.77255 0.62329 0.76826\n- 5 2.77195 5.04150 2.14012 1.47004 4.34699 3.14558 3.67374 3.78195 2.59351 3.40363 4.30411 2.69831 3.74322 2.86439 3.06638 2.72876 3.06384 3.43727 5.56920 4.18707 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70500 4.42735 0.61958 0.77255 0.62329 0.76826\n- 6 2.82723 4.76741 2.99192 2.65627 4.11488 3.32604 3.68672 3.53549 1.29751 3.14221 4.12126 3.08517 3.84539 2.89430 2.43112 2.88531 3.09785 3.25558 5.24592 4.03703 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70500 4.42735 0.61958 0.77255 0.62329 0.76826\n- 7 2.82765 4.66278 3.30231 2.86100 3.97452 3.33696 3.72678 3.51134 2.20726 3.05884 4.07195 3.22957 3.8553'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 527 2.89918 4.33328 4.30833 3.82319 3.34705 4.05908 4.60035 1.46585 3.68151 1.89036 3.20670 4.09216 4.44183 3.99277 3.91824 3.43982 3.18162 1.50072 5.25614 4.02612 534 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 528 2.25464 4.16959 3.09020 2.90536 3.93367 2.90254 4.01623 3.43941 2.96867 3.17349 4.11674 3.14987 3.63066 3.33126 3.25506 1.33268 2.72500 3.00709 5.31948 4.01773 535 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 529 3.08212 4.52936 4.03671 3.72922 1.28283 3.79501 3.82848 2.63005 3.64098 2.03740 3.38643 3.85879 4.26158 3.85110 3.79642 3.35614 3.38564 2.60880 4.13122 2.52079 536 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 530 2.73763 5.01988 2.36090 1.97849 4.33133 3.21168 3.62052 3.77609 2.30051 3.34697 4.20457 2.04511 3.76219 2.79164 2.81459 2.70521 3.00562 3.42262 5.52200 4.14930 537 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 531 2.74123 5.08422 1.54585 2.08665 4.40194 3.09858 3.68342 3.95214 2.68604 3.53499 4.41041 2.31933 3.72464 2.87405 3.22450 2.68643 3.05582 3.55580 5.65872 4.20331 538 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 532 3.04952 4.59717 3.62861 3.33664 2.32385 3.66442 3.56965 3.07968 3.19820 2.56973 3.77205 3.55321 4.14478 3.53948 3.40933 3.19882 3.33731 2.94431 3.96005 1.24562 539 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 533 2.68017 3.24951 4.04802 3.48264 2.68850 3.78021 4.10010 2.14211 3.37225 1.87662 2.55935 3.73819 4.13913 3.60665 3.59042 3.08397 2.92479 2.09625 4.75656 3.52366 540 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03636 3.72812 4.45047 0.61958 0.77255 0.60742 0.78692\n- 534 1.77077 4.11071 3.21010 2.91168 3.95002 2.92352 3.98518 3.22595 2.91654 2.91772 3.92839 3.14775 3.62457 3.26224 3.22785 1.83287 2.63982 2.82782 5.34808 4.09085 541 a - - -\n- 2.68609 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29337 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89798 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.11297 2.23661 * 0.59415 0.80304 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_5__drt5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DRT_5__drt5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1505 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DRT_5__drt5\n-LENG 494\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:48:37 2021\n-NSEQ 100\n-EFFN 0.857544\n-CKSUM 1757983476\n-GA 100 100;\n-STATS LOCAL MSV -11.7056 0.69809\n-STATS LOCAL VITERBI -12.7253 0.69809\n-STATS LOCAL FORWARD -5.8519 0.69809\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61718 4.51891 2.89003 2.64972 3.06728 3.07628 3.64067 2.74724 2.65066 2.35998 3.63322 3.04493 3.56536 3.07187 2.95536 2.64886 2.92047 2.68244 4.52834 3.29000\n- 2.68621 4.42240 2.77535 2.73138 3.46339 2.40525 3.72510 3.29365 2.67734 2.69360 4.24541 2.90359 2.73711 3.18161 2.89806 2.37878 2.77489 2.98533 4.58492 3.61518\n- 0.36194 2.00922 1.77443 1.64564 0.21429 0.00000 *\n- 1 2.57878 4.27718 3.49469 2.93570 3.41996 3.54894 3.82950 2.57624 2.63458 2.42331 2.25559 3.18410 3.94224 3.16150 3.11451 2.82019 2.73478 2.33154 4.89303 3.66389 28 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02992 3.92000 4.64235 0.61958 0.77255 0.43573 1.04069\n- 2 2.52113 4.52879 3.05306 2.52856 3.71436 3.39476 3.69904 3.09693 2.58655 2.76676 2.74560 2.95489 3.79339 2.92058 3.00782 2.44308 2.39763 2.83177 5.08265 3.48034 29 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02581 4.06559 4.78794 0.61958 0.77255 0.51839 0.90506\n- 3 2.51114 4.95970 2.72856 2.34462 4.26630 3.25403 3.61557 3.70939 2.24995 3.26078 4.05044 2.53466 3.79613 2.67580 2.74828 2.01955 2.78996 3.33774 5.45373 4.08540 30 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02581 4.06559 4.78794 0.61958 0.77255 0.51839 0.90506\n- 4 2.23336 4.25632 3.61569 3.12188 3.75733 3.32265 4.06568 2.67695 3.05290 2.74805 3.68700 3.40574 3.89810 3.37400 3.37924 2.58331 1.58288 2.30711 5.22209 3.99544 31 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02581 4.06559 4.78794 0.61958 0.77255 0.51839 0.90506\n- 5 2.39686 4.22398 3.55722 2.86619 3.12449 3.57501 3.83977 2.26428 2.86783 2.28315 3.33099 3.35999 3.95262 3.21618 2.94028 2.67889 2.74702 2.28439 4.81868 3.59604 32 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02581 4.06559 4.78794 0.61958 0.77255 0.51839 0.90506\n- 6 2.72759 5.37013 1.66121 1.82171 4.66867 3.29280 3.69815 4.16782 2.46425 3.65566 4.45318 2.60588 3.83229 2.62907 3.13373 2.62546 3.08579 3.74111 5.80946 4.34762 33 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02581 4.06559 4.78794 0.61958 0.77255 0.51839 0.90506\n- 7 3.52022 4.82305 4.53985 4.19941 0.92907 4.32355 3.57017 3.18951 4.05234 2.55069 3.81338 4.05932 4.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 487 2.98025 4.36283 4.19725 3.99863 3.56868 4.22392 4.73132 1.17742 3.90051 2.21096 3.42540 4.24621 4.58002 4.18123 4.12600 3.58391 3.24510 1.43500 5.38415 4.16186 537 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 488 1.54262 4.39547 3.22069 2.78885 3.98109 2.78657 3.90064 3.38102 2.79913 3.05082 3.89783 3.16444 3.79498 3.13141 3.09839 2.13990 2.79191 3.01691 5.33163 3.76525 538 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 489 2.65644 5.10023 2.36533 1.97823 4.41672 3.13891 3.63647 3.88293 2.45278 3.40791 4.19073 2.62371 3.79781 2.76391 2.90465 2.08469 2.68928 3.48395 5.58238 4.17688 539 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 490 2.27157 1.55344 3.96220 3.51518 3.74330 2.94880 4.24883 2.94222 3.38925 2.73293 3.71926 3.55703 3.83367 3.66693 3.60918 2.44574 2.61715 2.46788 5.21693 4.02849 540 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 491 2.68642 4.06542 4.60693 4.08520 3.61841 4.19113 4.77940 1.57727 3.98274 2.27302 3.45916 4.28587 4.57034 4.24685 4.19390 3.55475 3.21611 1.08928 5.41882 4.21097 541 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 492 2.67715 4.88568 3.05838 2.45739 4.16677 3.46559 3.61376 3.35194 1.62769 3.14320 3.73651 2.92070 3.85204 2.64696 2.58353 2.63002 2.75004 3.24306 5.34428 4.03705 542 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 493 2.71894 5.10774 2.69690 2.31241 4.43982 3.26331 3.60651 3.88351 1.61724 3.38560 4.17289 2.67921 3.83343 2.67252 2.49925 2.62675 2.94581 3.49603 5.52798 4.17131 543 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02587 4.06349 4.78584 0.61958 0.77255 0.51933 0.90367\n- 494 2.74062 4.06029 4.17577 3.33154 2.92939 3.87368 4.18149 2.09948 3.48506 1.47162 2.89429 3.83563 4.21321 3.70207 3.67927 3.16616 2.91416 2.09391 4.83426 3.66122 544 l - - -\n- 2.68613 4.42230 2.77511 2.73123 3.46355 2.40516 3.72500 3.29351 2.67742 2.69356 4.24695 2.90347 2.73742 3.18150 2.89796 2.37889 2.77516 2.98518 4.58482 3.61497\n- 0.14370 2.01102 * 0.90650 0.51741 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DarTG__DarG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DarTG__DarG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,725 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME DarTG__DarG\n-LENG 234\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Oct 13 12:07:27 2021\n-NSEQ 28\n-EFFN 3.817871\n-CKSUM 2562087340\n-GA 35 35;\n-STATS LOCAL MSV -10.4257 0.70358\n-STATS LOCAL VITERBI -11.5653 0.70358\n-STATS LOCAL FORWARD -4.8192 0.70358\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36661 4.27119 3.02377 2.64801 3.54150 2.66015 3.70560 2.80580 2.68098 2.55915 3.67916 3.11286 3.25142 3.13556 2.95554 2.66290 2.85287 2.60064 4.76818 3.54387\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16427 4.79953 1.94313 0.61958 0.77255 0.00000 *\n- 1 3.82158 5.27182 5.03550 4.75895 3.85696 4.52310 5.31636 3.13224 4.48468 2.38468 0.41802 4.92220 5.04018 4.83495 4.58318 4.21736 4.17128 3.22033 5.74753 4.56603 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07944 4.64957 2.70607 0.61958 0.77255 0.57434 0.82799\n- 2 2.74707 4.77537 2.96548 1.86657 3.96924 3.62140 3.83841 3.04726 2.69495 2.75129 3.12003 3.20467 3.29886 3.03405 2.87194 2.83557 2.97849 3.08242 3.77149 2.65304 2 e - - -\n- 2.68589 4.41987 2.77476 2.73104 3.46407 2.40748 3.72634 3.29382 2.67820 2.68932 4.24223 2.90402 2.73782 3.18212 2.89606 2.37987 2.77716 2.98447 4.58107 3.61480\n- 1.05388 0.78629 1.63022 3.15891 0.04340 0.76036 0.63017\n- 3 2.47678 4.48296 3.52814 2.96212 2.42788 3.67887 3.92510 2.99205 2.42706 2.69754 2.68336 3.38618 3.15625 2.81582 3.29018 2.53737 2.94949 2.76073 3.65071 3.81521 83 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09058 4.56777 2.57417 0.61958 0.77255 1.01456 0.45030\n- 4 2.70002 5.06867 3.00089 2.30665 3.32089 3.49396 3.22156 3.80921 2.10233 3.35069 4.12502 2.74306 2.97790 2.80731 2.92838 2.09917 2.63657 3.43042 5.53517 4.16007 84 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49393 5.21628 0.61958 0.77255 1.08853 0.41055\n- 5 2.69246 4.36371 3.65456 3.08456 3.49273 3.69301 3.95361 2.38381 2.78389 2.18855 3.46892 3.46577 3.41916 2.55297 3.35613 2.94457 2.58925 2.24237 4.95203 2.83839 85 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49393 5.21628 0.61958 0.77255 1.08853 0.41055\n- 6 2.55144 5.14363 2.94491 2.28213 4.45434 2.33047 3.69562 3.91550 2.10492 3.43452 4.19936 2.20682 3.40263 2.80799 2.93206 2.70241 2.95759 3.51695 5.59937 3.52497 86 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01674 4.49393 5.21628 0.61958 0.77255 0.79657 0.59943\n- 7 2.77584 4.94196 2.45036 2.63993 4.17072 2.47091 3.82157 3.58188 2.33075 2.95633 2.79845 3.15519 4.004'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 227 2.74785 4.44490 3.64040 3.21420 3.42350 3.59622 4.10619 2.68171 3.07700 1.35033 3.42211 3.55213 2.55233 3.45897 3.35544 2.99685 3.05206 2.57430 5.06295 3.80444 524 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 228 2.82638 5.32085 1.70599 1.77050 4.63737 3.23953 3.71204 4.13002 2.65539 3.64567 4.46715 2.71672 3.81426 2.86535 3.21274 2.15158 3.10296 3.71387 5.81673 4.35197 525 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 229 2.80466 4.99084 3.11784 2.58026 4.39564 2.57781 3.61860 3.78710 1.77514 3.30165 4.13528 3.04529 3.90578 2.75764 1.82574 2.81437 3.02331 3.44267 5.42660 4.17176 526 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 230 2.71018 4.27275 3.92948 3.40197 3.43880 3.75904 4.21215 1.72225 3.30664 2.24321 3.35233 3.70729 2.79710 3.60713 3.58509 3.08128 2.98270 1.73908 5.07610 3.86106 527 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 231 2.19159 4.51727 3.28137 2.76680 3.72727 3.49595 3.78093 2.95665 2.13036 2.05463 3.64138 3.19784 3.92466 3.01703 2.86917 2.79525 2.89775 2.72971 5.12547 3.86995 528 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 232 2.53447 4.46268 3.14388 2.68309 3.75258 3.35599 3.77307 3.13668 2.64973 2.82577 2.46588 2.46893 3.83878 3.01385 3.03018 2.20535 2.82150 2.85462 5.13510 3.84936 529 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 233 2.55760 4.73250 2.16113 2.41175 4.26862 3.21273 3.76025 3.68497 2.64019 3.30439 4.12747 2.90903 3.77321 2.93039 3.11207 2.09956 2.05911 3.28876 5.53119 4.17959 530 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70785 0.61958 0.77255 0.67195 0.71481\n- 234 1.96895 4.29200 3.96628 3.45301 3.48074 3.72542 4.27809 2.20072 3.35133 1.85267 3.37834 3.73788 4.18403 3.65713 3.62819 3.06949 3.00237 1.72629 5.15323 3.94063 531 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01893 3.97644 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DarTG__DarT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DarTG__DarT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,632 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME DarTG__DarT\n-ACC PF14487.8\n-DESC ssDNA thymidine ADP-ribosyltransferase, DarTG__DarT\n-LENG 201\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Feb 19 20:33:36 2021\n-NSEQ 47\n-EFFN 5.596741\n-CKSUM 3589462576\n-GA 52.50 52.50;\n-TC 22.60 22.80;\n-NC 21.60 22.00;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.4543 0.70529\n-STATS LOCAL VITERBI -11.4578 0.70529\n-STATS LOCAL FORWARD -4.7919 0.70529\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59175 4.22581 2.94556 2.67294 3.21963 3.08530 3.50027 2.77768 2.72803 2.52530 3.72049 2.94155 3.29964 3.05418 2.84559 2.66487 2.88332 2.65670 4.39632 3.26459\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.00000 *\n- 1 3.88891 2.98991 5.61282 5.13755 1.63787 4.93935 3.30152 3.66770 4.92264 2.53666 4.32727 4.91834 5.27622 4.93004 4.88384 4.26987 4.11543 2.96968 2.96190 0.92728 1 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 2 3.51197 5.63967 2.85797 3.32160 3.36191 4.28188 0.91632 4.32482 3.26520 3.82883 4.73028 3.79866 4.67255 3.64006 2.18868 3.52139 3.73939 4.02444 5.30894 2.33867 2 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 3 3.86865 5.17633 5.80511 5.22053 1.54491 5.08293 5.24553 1.00679 5.02559 1.82442 3.20487 5.21734 5.33845 5.03925 4.99544 4.41793 4.08964 3.16513 5.51464 2.68977 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 4 3.03809 3.81085 3.11001 3.87622 3.91678 4.20408 4.58517 2.62325 3.79469 2.98864 3.90774 4.15296 4.61898 4.05092 4.05112 3.02633 0.90339 2.11485 5.41172 4.20752 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 5 2.63686 5.61460 2.40920 2.56986 4.95805 3.86788 1.32663 4.44386 2.46977 3.91893 4.65650 2.52712 3.24611 3.15995 2.97208 3.06558 2.99659 4.00453 6.04733 4.63560 5 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 6 2.56663 4.55134 4.97171 4.36607 2.82921 4.30657 4.63254 1.51468 3.70458 2.47154 3.17508 4.41983 4.67159 4.34068 2.75624 2.41600 3.38542 1.63582 5.17192 3.99233 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.9851'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00652 5.43230 6.15465 0.61958 0.77255 0.53560 0.88024\n- 194 2.73746 4.29195 2.93932 1.74003 4.19964 3.87130 3.64873 2.95386 2.69679 2.95836 4.54313 2.62452 4.26374 3.05717 2.14766 2.54515 3.13112 3.18606 5.94898 3.41680 252 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00652 5.43230 6.15465 0.61958 0.77255 0.45581 1.00494\n- 195 2.67408 4.68010 4.39050 3.19371 3.26770 3.14364 3.16554 1.68704 3.72259 2.68539 3.79208 4.09842 3.98180 3.97483 2.66402 3.27473 3.16014 1.51849 5.28407 4.08134 253 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 196 2.26141 5.46917 2.87328 2.31687 4.01421 3.88391 3.18097 3.03590 2.02540 3.75269 3.19659 2.89589 4.27601 3.03090 2.39807 3.07766 3.31967 2.71675 3.48987 3.69495 254 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 197 2.72390 5.38187 3.27902 2.88459 4.64623 3.49772 4.10317 3.47310 2.78773 3.16612 3.33655 2.88031 1.35890 2.94259 2.93275 2.51903 2.76815 3.40039 5.86618 4.51001 255 p - - -\n- 2.68574 4.42045 2.77572 2.73100 3.46308 2.40535 3.72547 3.29310 2.67793 2.69407 4.24742 2.90217 2.73707 3.18179 2.89771 2.37896 2.77539 2.98570 4.58529 3.61485\n- 0.53178 0.89076 6.16634 0.68916 0.69715 0.48576 0.95510\n- 198 2.74757 5.59802 2.04163 2.06399 3.73014 2.41533 2.68833 4.42989 2.47345 3.90347 4.63866 2.43777 4.25242 2.88926 3.27435 2.40056 2.96472 3.98888 6.03040 4.61893 258 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 199 3.15628 4.53729 5.07756 4.46528 2.59324 4.32098 4.65077 2.50858 3.09667 2.19629 2.30111 4.46922 4.68474 4.39808 3.48244 3.63053 3.38840 2.42383 1.53768 2.71866 259 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 200 3.75178 5.09372 5.44287 4.92140 1.41901 4.83647 4.64920 2.91678 4.72949 2.69411 4.12017 4.83706 5.17093 3.03842 4.74806 4.15787 3.97895 2.88855 4.92367 0.95434 260 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00644 5.44400 6.16634 0.61958 0.77255 0.48576 0.95510\n- 201 3.15371 4.61359 3.34127 4.08782 1.49745 3.48079 3.63974 2.73112 3.95765 2.19609 3.21838 4.26882 4.63343 4.16672 3.42738 3.55456 3.38571 2.86657 5.21027 1.70115 261 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00434 5.44189 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dazbog__DzbA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dazbog__DzbA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1202 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Dazbog__DzbA\n-LENG 393\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:50 2021\n-NSEQ 81\n-EFFN 2.081360\n-CKSUM 2596406699\n-GA 10 10;\n-STATS LOCAL MSV -11.5881 0.69936\n-STATS LOCAL VITERBI -12.4026 0.69936\n-STATS LOCAL FORWARD -5.5602 0.69936\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59681 4.56175 2.88391 2.57727 3.28230 3.08683 3.81734 2.75408 2.58498 2.36784 3.60372 2.99091 3.66029 2.91675 2.84757 2.64755 2.86793 2.78153 4.93624 3.40588\n- 2.68628 4.42261 2.77584 2.73101 3.46325 2.40579 3.72489 3.29285 2.67747 2.69342 4.24167 2.90315 2.73742 3.18172 2.89796 2.37896 2.77477 2.98552 4.58557 3.61563\n- 1.05916 1.18441 1.05748 2.09591 0.13120 0.00000 *\n- 1 2.40904 4.77556 2.93235 2.49276 4.00287 3.46166 3.67006 3.16583 2.30224 3.02943 2.97313 2.88467 3.85200 2.55835 2.93675 2.41333 2.49160 3.10137 5.28810 3.96419 33 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23351 4.95586 0.61958 0.77255 0.35087 1.21765\n- 2 3.05842 4.42415 4.86308 4.26459 2.18956 4.24906 4.56563 2.32109 3.80042 1.71304 1.52593 4.35493 4.55674 4.21077 4.14862 3.56494 3.28560 2.14381 5.01189 3.87216 34 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01513 4.59461 5.31695 0.61958 0.77255 0.59309 0.80434\n- 3 2.70002 4.70635 3.02542 1.91323 4.51334 3.52904 3.61003 3.42070 1.59263 3.48032 4.23749 2.76096 3.92100 2.72522 2.75334 2.72577 2.89999 3.56895 5.62961 4.24362 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01513 4.59461 5.31695 0.61958 0.77255 0.59309 0.80434\n- 4 2.77973 3.73802 4.88281 4.29723 2.84775 4.21485 4.58907 1.25089 4.12482 2.20684 3.40546 4.34782 4.55246 4.28293 4.18164 3.53923 3.20923 1.55084 5.08172 3.72387 36 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01513 4.59461 5.31695 0.61958 0.77255 0.59309 0.80434\n- 5 2.31130 4.38255 3.71840 3.14764 3.31517 3.73460 3.74273 2.02979 2.44148 2.08639 3.48908 3.52011 4.11172 3.22499 3.21235 2.77926 2.79994 2.52803 4.97273 3.55590 37 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02351 4.59461 4.33316 0.61958 0.77255 0.59309 0.80434\n- 6 2.57773 4.23470 2.83377 2.85550 4.53121 1.86954 4.06877 3.97408 2.90832 3.56885 4.36011 3.18180 3.98553 3.23097 3.35393 1.34657 2.85239 3.51214 5.77769 4.46209 38 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01525 4.58635 5.30870 0.61958 0.77255 0.58207 0.81812\n- 7 2.65733 5.08453 2.79272 2.41703 3.92064 3.52644 3.15907 2.89266 1.93336 3.11985 4.14105 2.84239'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01435 4.64730 5.36964 0.61958 0.77255 0.49728 0.93696\n- 386 1.89972 4.53539 3.52187 2.86184 2.68112 3.69769 3.94103 3.05049 2.69138 2.33555 3.48108 3.39019 3.57321 2.84607 3.29991 2.65418 2.84401 2.81537 5.10770 3.07040 529 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02506 4.64730 4.18904 0.61958 0.77255 0.49728 0.93696\n- 387 2.66141 5.23820 2.75101 2.01544 4.05932 3.19073 3.70438 3.87871 2.23216 3.38485 4.28040 2.62538 3.91012 2.50545 2.25929 2.44238 2.82264 3.62581 5.67418 4.26676 530 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23746 4.63674 1.60108 0.61958 0.77255 0.51765 0.90614\n- 388 2.51469 5.05120 2.90825 2.44165 4.34572 3.48256 3.50721 3.79176 1.77081 3.33106 3.38640 2.97567 3.87347 2.74626 2.34795 2.50423 2.71340 3.41477 5.51211 3.98393 531 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01809 4.41737 5.13971 0.61958 0.77255 0.83546 0.56858\n- 389 2.52402 4.23607 3.98621 3.41050 3.32334 3.77449 4.07053 2.60718 3.30964 2.18106 3.17629 3.68687 4.14936 3.56541 3.54896 3.05443 2.35995 2.18113 4.84244 1.88006 532 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12525 4.41737 2.24755 0.61958 0.77255 0.83546 0.56858\n- 390 2.58386 5.02229 2.73886 2.24278 4.31642 3.29161 3.63259 3.38702 2.25511 3.04984 3.86076 2.79568 3.83180 2.37121 2.55253 2.63398 2.67696 3.03825 5.48649 4.10917 533 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06841 4.31223 2.94275 0.61958 0.77255 0.94052 0.49499\n- 391 2.45071 4.91364 2.79835 2.38846 4.17638 3.37879 3.64416 3.60689 2.33503 2.87804 3.36855 2.95727 3.83734 2.60642 2.62459 2.09348 2.81237 3.25938 5.39897 4.04597 534 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06700 4.26492 2.98089 0.61958 0.77255 0.98125 0.46975\n- 392 2.61920 4.78144 2.96440 2.25019 3.45526 3.45743 3.66348 3.33127 2.40839 2.73144 3.16796 2.74639 3.84713 2.25469 2.92801 2.66423 2.85038 3.10716 5.29044 3.96447 535 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02208 4.22000 4.94235 0.61958 0.77255 1.01679 0.44903\n- 393 2.54355 4.58785 3.18128 2.48337 3.39189 3.26763 3.72399 2.88221 2.32920 2.82112 3.67589 2.64067 3.88781 2.93696 3.02903 2.61470 2.75118 2.54814 5.13170 3.27685 536 k - - -\n- 2.68623 4.42236 2.77525 2.73121 3.46334 2.40509 3.72505 3.29344 2.67741 2.69353 4.24558 2.90347 2.73744 3.18148 2.89812 2.37893 2.77531 2.98526 4.58488 3.61479\n- 0.60292 0.79234 * 0.36294 1.18950 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dazbog__DzbB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dazbog__DzbB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1046 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Dazbog__DzbB\n-LENG 341\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:50 2021\n-NSEQ 81\n-EFFN 9.299377\n-CKSUM 3045475097\n-GA 10 10;\n-STATS LOCAL MSV -10.9720 0.70030\n-STATS LOCAL VITERBI -12.2762 0.70030\n-STATS LOCAL FORWARD -5.3947 0.70030\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70737 4.34177 2.88564 2.56144 3.10500 3.06677 3.62735 2.70269 2.66855 2.36756 3.87530 2.94625 3.39881 3.12218 2.96999 2.53627 2.93897 2.82559 4.93805 3.25433\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01899 5.88932 4.13279 0.61958 0.77255 0.00000 *\n- 1 5.13356 6.32749 7.12659 6.62266 4.36780 6.49467 6.94667 3.49820 6.40808 2.34581 0.23699 6.81860 6.50414 6.21234 6.30445 5.99490 5.36993 3.20702 6.72617 5.77064 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05459 5.87452 2.98943 0.61958 0.77255 0.58182 0.81843\n- 2 2.17596 4.27285 3.17940 2.44701 3.70312 3.82977 3.40373 3.86495 2.45148 2.77478 4.81366 2.09697 2.48140 3.37644 3.30873 2.31130 2.63139 3.77649 6.21218 4.27076 2 n - - -\n- 2.68621 4.42311 2.77422 2.73004 3.46440 2.40589 3.72501 3.29228 2.67724 2.69409 4.24606 2.90160 2.73782 3.18181 2.89887 2.37962 2.77562 2.98561 4.58563 3.61308\n- 0.62613 1.14339 1.91999 1.04455 0.43363 0.84469 0.56158\n- 3 2.61303 4.69556 5.26060 4.64808 3.21674 4.49001 4.82441 1.63597 4.43931 1.00257 3.80539 4.64481 3.81219 4.57467 3.82061 3.80120 3.10048 2.34665 5.32257 4.14696 6 l - - -\n- 2.68628 4.42402 2.77499 2.73291 3.46311 2.40581 3.72602 3.29012 2.67689 2.69188 4.24890 2.90099 2.73874 3.18345 2.89873 2.38053 2.77465 2.98339 4.58275 3.61374\n- 1.02238 0.57730 2.54019 1.70296 0.20107 1.01334 0.45099\n- 4 2.27104 5.29672 3.68752 2.78772 4.50506 4.06858 3.97087 2.72355 2.48655 1.92568 3.65953 3.01080 3.91637 3.05197 3.29044 2.80203 1.98921 3.31685 5.82113 3.04847 33 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27066 5.63402 1.45434 0.61958 0.77255 1.27228 0.32877\n- 5 2.85786 5.57088 2.39067 2.35135 4.91645 3.39207 3.13322 4.40284 2.10480 3.64007 4.61146 2.83268 3.65535 3.11551 3.08191 1.54845 2.55098 3.96180 6.00323 4.59187 34 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39405 6.11639 0.61958 0.77255 1.78873 0.18293\n- 6 2.84485 5.56075 3.31144 2.38885 4.90034 2.29054 3.44721 4.38207 2.76452 3.46279 4.60388 1.59287 3.40589 3.12594 2.61538 2.04055 3.29602 3.94867 5.99730 4.58998 35 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00677 5.39405 6.11639 0.61958 0.77255 1.78873 0.18293\n- 7 3.05821 5.56043 2.84456 1.87868 4.10045 1.98453 2.71362 3.63522 2.46883 3.86420 4.03651 3.11676'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00459 5.78134 6.50368 0.61958 0.77255 0.59054 0.80750\n- 334 3.37737 4.12083 5.33414 4.71967 3.84549 4.54718 4.88104 1.56875 3.61254 1.19195 2.59348 4.70717 4.91054 4.63927 3.86641 3.50623 3.00316 1.99214 5.37664 4.20050 652 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00459 5.78134 6.50368 0.61958 0.77255 0.59054 0.80750\n- 335 2.58547 3.43809 2.74710 2.84868 2.02116 2.70906 3.31061 3.39364 2.75904 2.28606 3.91518 3.13840 4.52555 3.02740 3.61478 2.76921 2.65607 3.77690 5.96320 3.56149 653 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 5.78134 4.49848 0.61958 0.77255 0.59054 0.80750\n- 336 2.66955 5.74248 2.96096 2.85452 5.07145 4.05083 3.52496 2.36223 2.17673 3.55791 4.78740 2.61882 4.44392 3.34134 2.74934 1.68080 2.33277 3.14901 6.18492 4.78390 654 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03986 5.77166 3.32529 0.61958 0.77255 0.55054 0.85953\n- 337 3.25942 5.65749 2.67940 2.29516 1.96820 3.69852 3.41928 3.83858 2.86868 3.28441 4.71004 2.02853 3.73353 3.35691 3.32528 2.93234 3.29609 3.65537 6.11757 2.10225 655 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03415 5.74662 3.49408 0.61958 0.77255 0.76386 0.62711\n- 338 2.85584 4.63573 2.81003 2.28089 4.13420 4.01783 3.25986 2.62397 1.93975 2.74942 4.75631 2.96533 3.95704 2.97480 2.95560 2.26921 2.69046 3.32444 6.15359 3.64774 656 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16393 5.71737 1.91113 0.61958 0.77255 0.88595 0.53158\n- 339 2.73008 5.65682 2.48424 2.23456 5.00202 2.90573 3.34443 3.37417 2.11964 2.54328 4.69744 3.11901 3.26197 2.01393 2.89000 2.95679 3.11383 3.79102 6.08942 4.67838 657 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24548 5.54602 1.54285 0.61958 0.77255 1.33484 0.30544\n- 340 2.88638 4.64074 4.20200 3.01922 3.27898 3.26106 4.37718 2.43973 3.28000 1.49942 3.09545 3.30406 2.43377 3.81920 3.33161 3.36431 2.66166 2.53512 5.23985 4.03003 658 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04545 5.30792 3.23185 0.61958 0.77255 1.28031 0.32566\n- 341 2.57558 5.54585 2.59507 2.37918 4.89001 3.14557 3.20811 3.05024 2.06066 3.39698 4.58675 3.03416 3.73848 2.24206 2.69930 2.43433 3.02694 3.01747 5.97908 4.56868 659 k - - -\n- 2.68427 4.42720 2.77647 2.73036 3.46427 2.40702 3.72962 3.28720 2.67825 2.69196 4.24123 2.90313 2.73965 3.17863 2.90014 2.37861 2.77602 2.98295 4.58302 3.61816\n- 1.28906 0.32232 * 2.57717 0.07903 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DdmDE__DdmE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DdmDE__DdmE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2039 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DdmDE__DdmE\n-LENG 672\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Sep 5 13:04:41 2022\n-NSEQ 20\n-EFFN 2.026367\n-CKSUM 2576190125\n-GA 20 20;\n-STATS LOCAL MSV -11.8294 0.69678\n-STATS LOCAL VITERBI -13.0299 0.69678\n-STATS LOCAL FORWARD -6.4106 0.69678\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58643 4.48814 2.94064 2.58752 3.28309 3.11940 3.60408 2.83167 2.56793 2.37130 3.72098 3.11459 3.40863 2.93012 2.92900 2.66851 2.85348 2.70851 4.73014 3.30878\n- 2.68640 4.42270 2.77564 2.73117 3.46399 2.40557 3.72539 3.29357 2.67763 2.69350 4.24201 2.90391 2.73730 3.18030 2.89845 2.37865 2.77464 2.98497 4.58522 3.61548\n- 0.51655 1.28322 2.06923 1.64501 0.21445 0.00000 *\n- 1 2.69545 4.34551 3.77439 3.22028 3.48345 3.01316 4.02648 2.86977 3.13468 2.58976 1.75629 3.55279 4.09872 3.43213 3.43208 2.06008 2.95078 2.64980 3.62826 3.72312 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14474 4.50448 2.08995 0.61958 0.77255 0.69905 0.68727\n- 2 2.69212 4.77848 3.13292 2.59532 3.99478 3.52896 2.96171 2.36848 2.29999 3.02974 3.86736 2.79328 3.92550 2.92220 2.97050 2.00328 2.92441 3.10254 5.29842 3.99152 11 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01881 4.37855 5.10089 0.61958 0.77255 0.67612 0.71047\n- 3 2.70323 5.13144 2.33034 2.41723 4.48074 2.57212 3.69070 3.94881 2.44611 3.45872 4.21691 2.95846 3.18437 2.80056 2.23692 2.32937 2.65690 3.53423 5.61492 4.22099 12 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01744 4.45335 5.17570 0.61958 0.77255 0.76594 0.62530\n- 4 2.70830 4.25767 3.96399 3.39234 3.39208 3.76773 4.09157 2.34805 3.30259 2.43835 2.79689 3.67968 2.69080 3.56239 3.55563 2.44001 2.94956 1.65694 4.90090 3.69700 13 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01744 4.45335 5.17570 0.61958 0.77255 0.76594 0.62530\n- 5 2.93033 4.52575 3.82989 2.78084 3.31082 3.90425 4.10917 2.80210 3.22274 1.08187 3.44741 3.70001 4.28113 3.56482 3.48911 3.21513 3.16251 2.68367 4.91534 2.95229 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01744 4.45335 5.17570 0.61958 0.77255 0.76594 0.62530\n- 6 2.52808 4.40374 3.85265 3.42295 4.20308 3.32022 4.37734 3.44947 3.37459 3.25937 4.14228 3.60330 4.00119 3.67846 3.68460 1.89638 1.12955 2.46411 5.61662 4.40136 15 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01744 4.45335 5.17570 0.61958 0.77255 0.76594 0.62530\n- 7 2.61602 4.67528 3.25396 2.89827 4.48213 3.33199 4.11831 3.91419 2.98539 3.54154 4.35527 2.18285 3.9591'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63409 5.35643 0.61958 0.77255 0.48576 0.95510\n- 665 2.40479 5.26951 2.50008 1.87541 4.61223 3.03549 3.71670 4.09678 2.12494 3.57261 4.31233 2.98745 3.92120 2.39003 2.41939 2.72324 2.99431 3.65920 5.70149 4.29108 775 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63409 5.35643 0.61958 0.77255 0.48576 0.95510\n- 666 2.31975 4.52003 3.57964 3.00884 3.66205 3.72019 3.96003 2.38353 2.92971 2.49367 2.74175 3.42895 4.09945 2.89296 1.89729 2.96276 2.86510 2.78744 5.09491 3.85582 776 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63409 5.35643 0.61958 0.77255 0.48576 0.95510\n- 667 2.53838 5.13343 3.06204 2.14352 4.43202 3.54847 3.25813 3.88148 2.30864 2.41730 4.18795 3.03874 3.93960 2.12072 2.54291 2.74581 2.98654 3.49924 5.59135 3.40944 777 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63409 5.35643 0.61958 0.77255 0.48576 0.95510\n- 668 2.73986 5.14946 2.71649 2.13112 4.45464 3.00854 3.51359 3.44175 2.31408 3.05196 3.52889 3.01498 3.02538 2.83275 2.30028 2.72269 2.76164 3.15464 5.60674 4.22132 778 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63409 5.35643 0.61958 0.77255 0.48576 0.95510\n- 669 2.50972 4.37500 3.81149 3.24059 2.39713 3.77623 3.19045 2.85132 3.17180 1.80257 3.48252 3.58938 3.41787 2.71002 3.47400 3.03584 2.98632 2.64073 4.93465 2.82031 779 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01454 4.63409 5.35643 0.61958 0.77255 0.48576 0.95510\n- 670 2.15902 5.20813 2.49667 2.45027 4.53545 3.00435 3.71058 4.00893 2.12792 3.50590 3.54893 2.74391 3.91439 2.56955 2.83922 2.50752 2.48236 3.58930 5.65187 4.25200 780 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25369 4.63409 1.54013 0.61958 0.77255 0.48576 0.95510\n- 671 2.68014 5.09062 2.71688 2.40304 4.39884 3.45876 3.65794 3.85772 2.11597 3.38071 4.14546 2.66779 3.85704 2.33202 2.89301 2.17960 2.65096 2.78770 5.54876 4.16293 781 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18128 4.39883 1.87404 0.61958 0.77255 0.82934 0.57330\n- 672 2.64037 4.96756 2.62555 2.06284 3.44736 2.70655 3.63708 3.68324 2.41498 2.90777 4.03009 2.92647 3.82780 2.52365 2.89448 2.45743 2.87335 3.32056 5.44470 4.07733 782 e - - -\n- 2.68540 4.42257 2.77490 2.73099 3.46386 2.40531 3.72527 3.29386 2.67773 2.69387 4.24650 2.90332 2.73737 3.18179 2.89796 2.37854 2.77552 2.98510 4.58509 3.61535\n- 0.41556 1.07872 * 1.51037 0.24952 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3446 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Detocs__dtcA\n-LENG 1141\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Nov 22 11:37:46 2022\n-NSEQ 210\n-EFFN 17.396393\n-CKSUM 358683192\n-GA 30 30;\n-STATS LOCAL MSV -13.0724 0.69529\n-STATS LOCAL VITERBI -13.8884 0.69529\n-STATS LOCAL FORWARD -6.8411 0.69529\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71148 4.43887 2.83032 2.54314 3.11919 3.22967 3.82540 2.60661 2.60598 2.29679 4.03334 2.83736 3.65608 3.20671 2.90906 2.50160 2.98368 2.89441 4.73370 3.30937\n- 2.68779 4.42316 2.77758 2.73316 3.46387 2.40793 3.72646 3.29132 2.67335 2.69333 4.21431 2.90332 2.73932 3.18197 2.89780 2.37907 2.77545 2.98643 4.58556 3.61215\n- 1.26800 0.94085 1.11380 2.11001 0.12924 0.00000 *\n- 1 3.40229 5.42828 3.34900 3.13918 3.11373 3.98415 3.88851 2.79872 2.02022 2.47608 1.55730 3.13276 3.66028 3.33838 3.25235 3.10582 3.25232 2.90661 5.96352 3.58050 64 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27098 5.93255 1.44936 0.61958 0.77255 1.44136 0.26998\n- 2 2.08138 5.49049 3.24638 3.07819 3.35101 4.07970 3.89327 2.60675 2.17810 3.02237 3.12748 3.05886 3.20578 3.24282 2.24383 2.44968 2.84334 3.24599 5.98629 4.15371 65 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01838 5.72548 4.20294 0.61958 0.77255 1.88883 0.16399\n- 3 2.88205 4.77303 3.35161 2.87353 3.90339 4.04748 3.92968 3.38360 1.24962 3.23688 4.20277 3.09040 3.69709 3.34951 2.05671 2.75449 2.51916 3.74680 6.12725 4.74094 66 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08083 5.74509 2.59757 0.61958 0.77255 1.24337 0.34025\n- 4 2.89325 4.63324 3.44007 2.93898 3.08073 3.56237 3.50106 3.33701 1.52746 3.25814 3.93931 2.57518 4.12304 3.00007 2.06328 2.76099 2.82338 3.83957 6.20054 3.93401 67 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04275 5.83674 3.24588 0.61958 0.77255 1.56497 0.23458\n- 5 2.83717 5.76700 3.46347 2.95330 3.97695 4.11672 3.17158 3.06999 1.74044 2.82418 4.04419 2.72452 3.01783 3.13875 2.05747 2.71235 2.55713 3.37851 6.21809 4.30725 68 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17321 5.86579 1.85658 0.61958 0.77255 1.45018 0.26726\n- 6 2.89748 5.45905 2.84755 3.15534 3.66415 3.61832 4.03422 2.72024 1.97196 2.36425 3.31092 2.28197 3.38805 3.49497 2.81096 2.88161 2.94469 2.51125 5.96835 4.16493 69 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09986 5.77747 2.38660 0.61958 0.77255 1.32549 0.30880\n- 7 3.15107 5.73511 3.39002 3.02978 3.82269 3.06822 3.51894 3.10596 1.75186 2.91034 4.07235 2.19202 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03945 6.33043 3.29945 0.61958 0.77255 1.14061 0.38511\n- 1134 3.12175 4.98127 2.51754 2.46368 4.67245 2.44232 3.24775 2.43857 2.49509 2.54760 4.20728 2.60275 4.27187 3.35966 3.22631 2.47638 3.23466 2.92740 4.30684 3.43375 1954 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01479 6.21872 4.36675 0.61958 0.77255 1.32268 0.30982\n- 1135 2.44370 5.78589 3.41999 2.58529 2.68160 3.23264 4.56322 2.38190 2.85514 1.98035 3.60973 2.86390 3.48846 2.99627 3.06114 2.84885 2.82158 2.94541 6.27950 4.39121 1955 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04108 6.16048 3.26671 0.61958 0.77255 1.36998 0.29318\n- 1136 2.93249 5.03203 2.77457 2.51085 3.92543 3.23391 4.46014 2.77435 2.39292 2.28901 3.84280 2.75343 3.82067 2.87237 3.04835 2.13999 2.52634 3.11484 6.38344 4.13028 1956 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01688 6.10385 4.23343 0.61958 0.77255 1.49919 0.25272\n- 1137 2.52042 5.95403 3.04060 2.13433 4.01962 3.11609 3.59368 2.83023 2.47840 3.21949 3.72319 3.14836 3.31782 3.12834 2.58644 2.57274 2.72656 2.76020 6.39302 3.01391 1957 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18777 6.08054 1.77839 0.61958 0.77255 1.53977 0.24135\n- 1138 2.76010 5.84660 2.58087 1.77879 5.19185 2.55265 4.29629 4.07076 2.62953 3.43582 4.88722 2.29710 3.81999 3.26353 2.45801 2.51560 2.90087 3.15160 6.27918 3.31003 1958 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01479 5.87947 4.43271 0.61958 0.77255 1.84811 0.17142\n- 1139 2.77763 4.78246 2.46528 2.02056 3.48731 3.31141 3.68144 3.40801 2.42305 3.45364 4.30926 2.06898 3.78416 2.82027 2.60163 2.65108 2.95804 3.89232 6.26492 3.67983 1959 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07859 5.85944 2.62106 0.61958 0.77255 1.93932 0.15525\n- 1140 2.40556 5.77663 2.78480 1.87910 4.04425 3.32476 3.65136 3.56017 2.77090 3.41657 4.81789 2.95595 3.34350 2.66102 2.93210 2.38602 2.45592 3.38074 6.21069 2.87358 1960 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07503 5.77531 2.67100 0.61958 0.77255 2.04463 0.13861\n- 1141 2.59052 5.62523 2.16880 2.23517 4.35765 2.90749 3.50374 2.92577 2.73886 2.94897 3.71520 2.26686 3.56533 3.09873 3.35750 2.41551 2.80438 3.53043 6.06842 4.24883 1961 d - - -\n- 2.68550 4.41814 2.77437 2.72913 3.46550 2.40613 3.72540 3.29180 2.67927 2.69349 4.24883 2.90297 2.73924 3.18227 2.89805 2.37786 2.77563 2.98454 4.58726 3.61426\n- 1.44081 0.27015 * 1.48421 0.25706 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,473 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Detocs__dtcB\n-LENG 150\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Nov 22 11:37:46 2022\n-NSEQ 178\n-EFFN 2.740509\n-CKSUM 1036608726\n-GA 40 40;\n-STATS LOCAL MSV -9.7918 0.70941\n-STATS LOCAL VITERBI -10.6869 0.70941\n-STATS LOCAL FORWARD -4.6425 0.70941\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66186 4.56412 2.82314 2.54222 3.32547 3.06296 3.79764 2.67141 2.57371 2.38426 3.53997 3.10037 3.62099 3.03425 3.04850 2.60821 2.82615 2.68138 4.68342 3.44226\n- 2.68645 4.42258 2.77535 2.73141 3.46375 2.40541 3.72511 3.29341 2.67747 2.69364 4.23851 2.90308 2.73763 3.18167 2.89811 2.37892 2.77523 2.98538 4.58498 3.61524\n- 0.47991 1.07279 3.24145 0.98566 0.46711 0.00000 *\n- 1 2.69621 4.35276 4.08872 3.44512 3.21392 3.88525 4.04519 2.42202 2.75258 2.22083 1.69070 3.62622 3.78953 3.66667 3.18275 3.04743 2.95923 2.31260 4.95744 3.66071 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01209 4.81723 5.53958 0.61958 0.77255 0.46873 0.98296\n- 2 2.81749 5.31232 2.85526 2.43367 4.65201 3.59289 3.39177 3.81024 1.59133 3.49705 3.77323 2.41714 3.88619 2.70809 2.29363 2.71475 2.90953 3.70013 5.74751 4.24118 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01177 4.84427 5.56662 0.61958 0.77255 0.50714 0.92184\n- 3 2.97267 3.51384 5.00530 4.41638 3.26048 4.15079 4.67432 1.14252 4.23400 2.12690 3.46493 4.44413 4.64134 4.38991 4.27740 3.53268 3.14962 1.56670 5.16686 3.98339 11 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01177 4.84427 5.56662 0.61958 0.77255 0.50714 0.92184\n- 4 3.51647 4.61782 5.40286 4.81949 3.36401 4.86436 5.14672 2.44626 4.66058 0.51482 3.29180 4.96264 5.07512 4.70665 4.69985 4.20550 3.83863 2.62193 5.42731 3.73072 12 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01177 4.84427 5.56662 0.61958 0.77255 0.50714 0.92184\n- 5 3.60272 4.86184 5.59025 5.03070 3.33425 4.98203 5.38642 1.10781 4.89073 1.26907 3.47997 5.13251 5.19411 4.95529 4.91937 4.34644 3.83450 1.71371 5.65904 4.27436 13 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01177 4.84427 5.56662 0.61958 0.77255 0.50714 0.92184\n- 6 3.04333 4.85207 5.71967 5.26502 4.31610 5.21808 6.02331 1.18272 5.20926 2.77718 4.04957 5.40475 5.48218 5.48374 5.38404 4.65476 3.90723 0.75742 6.39432 5.15673 14 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01177 4.84427 5.56662 0.61958 0.77255 0.50714 0.92184\n- 7 3.72270 6.34010 2.38316 0.42905 5.66280 3.80465 4.47046 5.26575 3.61046 4.72358 5.64313 3.28210 4.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83109 5.55344 0.61958 0.77255 0.54612 0.86558\n- 143 2.64619 5.04859 2.61658 2.05891 4.31599 3.31606 3.77303 3.82403 1.97565 3.35248 4.01041 2.73567 3.97856 2.74242 2.77737 2.22466 2.62207 3.55881 5.73996 4.33319 190 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83109 5.55344 0.61958 0.77255 0.54612 0.86558\n- 144 2.60611 4.13020 4.49192 3.89486 2.64515 3.95845 4.03461 2.06025 3.09292 1.79773 3.18261 3.70017 4.32534 3.57122 3.85236 2.86807 2.78754 2.15433 4.86951 2.78885 191 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83109 5.55344 0.61958 0.77255 0.54612 0.86558\n- 145 2.94370 4.38117 4.87541 4.27582 3.27463 4.20393 4.54430 1.39799 4.09324 1.34519 3.04907 4.32881 4.54563 4.23722 3.80817 3.37356 3.17994 2.16568 5.03943 3.87382 192 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01192 4.83109 5.55344 0.61958 0.77255 0.54612 0.86558\n- 146 2.63719 4.80504 2.71032 2.07440 4.64595 3.09685 3.66278 3.68064 1.99147 3.44678 4.00015 2.63798 3.87987 2.70241 2.47808 2.46755 2.95249 3.44059 5.74239 3.89105 193 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04685 4.83109 3.27558 0.61958 0.77255 0.54612 0.86558\n- 147 2.59914 5.01534 2.69038 2.00711 4.63347 3.01031 3.75950 3.92026 2.05846 3.41335 3.79583 2.66840 3.65716 2.78145 2.74309 2.32129 2.74202 3.53742 5.72976 4.18588 194 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03768 4.79658 3.54998 0.61958 0.77255 0.61942 0.77275\n- 148 2.41562 3.81386 4.37059 3.38264 3.03055 3.74083 3.96505 2.08416 3.47790 1.77521 3.16489 3.36292 4.28616 3.77238 3.58712 2.91253 2.91968 2.04617 4.86176 3.22491 195 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13544 4.77156 2.13536 0.61958 0.77255 0.66797 0.71897\n- 149 2.69716 5.03490 2.89399 2.23179 3.60257 3.13414 3.66555 2.86907 2.24791 2.60167 3.92511 2.72670 3.87010 2.70356 2.70995 2.59984 2.90468 3.33790 4.81711 4.00020 196 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15609 4.65042 2.00277 0.61958 0.77255 0.86137 0.54919\n- 150 2.55893 4.82943 2.90569 2.32093 3.89162 2.88881 3.52924 3.30808 2.16170 2.88640 4.08174 2.58906 3.71508 2.71355 2.79271 2.56980 2.81953 3.24114 4.81425 3.83696 197 k - - -\n- 2.68623 4.42155 2.77515 2.73098 3.46351 2.40514 3.72508 3.29344 2.67713 2.69363 4.24685 2.90314 2.73767 3.18170 2.89816 2.37883 2.77526 2.98530 4.58500 3.61535\n- 0.65438 0.73348 * 1.08387 0.41292 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1250 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Detocs__dtcC\n-LENG 409\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Nov 22 11:37:47 2022\n-NSEQ 161\n-EFFN 3.817657\n-CKSUM 2364101949\n-GA 40 40;\n-STATS LOCAL MSV -11.2121 0.69911\n-STATS LOCAL VITERBI -12.1709 0.69911\n-STATS LOCAL FORWARD -5.8409 0.69911\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42710 4.22945 2.83602 2.62058 3.40534 2.97978 3.75840 2.70510 2.60668 2.48488 3.58965 3.13679 3.49155 3.08148 3.03667 2.60350 2.86903 2.64727 4.67490 3.57123\n- 2.68633 4.42244 2.77543 2.73138 3.46385 2.40547 3.72524 3.29343 2.67719 2.69378 4.23628 2.90372 2.73739 3.18185 2.89819 2.37910 2.77517 2.98513 4.58494 3.61542\n- 0.53357 0.95077 3.61013 0.77840 0.61459 0.00000 *\n- 1 2.84474 4.36120 4.87216 4.26282 3.08792 4.14348 4.47536 1.95314 4.06429 1.85560 1.42652 3.84258 4.29421 4.20860 4.09811 3.36977 2.97920 2.32011 4.98790 3.81109 14 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00914 5.09576 5.81810 0.61958 0.77255 0.55974 0.84713\n- 2 2.88351 5.42186 3.00010 2.50003 4.76371 3.69788 3.78291 3.69469 1.43765 3.72445 4.46389 2.30625 4.09107 2.79282 2.21778 2.62207 3.11089 3.33800 5.85523 4.44917 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00914 5.09576 5.81810 0.61958 0.77255 0.55974 0.84713\n- 3 2.87178 4.64837 5.25617 4.68617 3.39025 4.61098 5.02596 0.94662 4.52692 2.60492 3.80160 4.03855 4.94460 4.70432 4.59931 3.94571 3.33969 1.35372 5.52277 4.33115 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00914 5.09576 5.81810 0.61958 0.77255 0.55974 0.84713\n- 4 4.09861 5.33988 6.00264 5.42335 3.68319 4.80342 5.77202 2.39327 5.26858 0.38923 3.08632 5.59791 5.53991 5.20302 5.24572 4.82724 4.31080 2.73017 5.85735 4.87508 17 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00914 5.09576 5.81810 0.61958 0.77255 0.55974 0.84713\n- 5 3.36117 4.98028 5.80195 5.27294 3.44200 5.20800 5.71832 0.91090 5.15583 1.59722 3.85875 5.36967 5.43943 5.28991 5.22085 4.59027 3.98687 1.51436 6.03257 4.88671 18 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00914 5.09576 5.81810 0.61958 0.77255 0.55974 0.84713\n- 6 2.65486 4.42456 4.95602 4.35357 3.27064 4.24214 4.58721 1.95530 3.71507 1.94637 3.32042 4.38023 4.59909 4.31195 4.20198 3.36018 3.21242 1.08316 5.09724 3.91782 19 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00914 5.09576 5.81810 0.61958 0.77255 0.55974 0.84713\n- 7 3.05791 5.85488 1.30999 1.15766 4.21896 3.80437 3.20959 4.67069 3.05156 4.14670 4.92808 3.25988 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10241 5.82476 0.61958 0.77255 0.54032 0.87361\n- 402 2.35931 4.05798 4.99961 4.39277 2.93657 4.23950 4.58439 1.28647 4.18956 1.67072 3.32640 4.39454 4.59599 4.32775 4.21052 3.33532 3.22363 2.09008 5.07749 3.90096 558 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10241 5.82476 0.61958 0.77255 0.54032 0.87361\n- 403 2.83225 4.73367 2.86319 1.88686 4.32927 3.69777 3.55539 3.50968 2.00762 3.08788 3.87977 2.91524 3.76187 2.77686 2.26017 2.70728 2.78491 3.61472 5.84222 3.71237 559 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10241 5.82476 0.61958 0.77255 0.54032 0.87361\n- 404 2.74641 5.42595 2.62300 2.24513 4.34722 3.39381 3.47152 3.82449 2.26339 3.44218 4.28405 2.33532 4.08698 2.50548 2.14551 2.41793 2.96195 3.57249 5.26661 4.04807 560 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01560 5.10241 4.66697 0.61958 0.77255 0.54032 0.87361\n- 405 2.84775 4.56767 3.32026 2.59497 2.93385 2.73145 3.20924 3.08068 2.68951 2.29655 3.27680 3.27640 4.09244 3.03424 3.36116 2.90643 3.03460 2.88172 4.74034 2.25244 561 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01372 5.09594 4.89264 0.61958 0.77255 0.52700 0.89251\n- 406 2.56535 4.36767 3.96830 4.09530 2.40938 3.52955 4.20243 2.39631 3.92661 1.42035 2.99386 3.81292 3.85152 3.84391 3.63972 3.24058 3.13795 2.39877 4.07885 2.86528 562 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12114 5.09790 2.22578 0.61958 0.77255 0.55355 0.85545\n- 407 2.48136 5.31657 2.71388 2.35646 3.58156 3.41662 3.57785 3.36578 2.19404 2.90355 4.36424 2.78163 3.39783 2.71612 2.85701 2.19822 2.81017 3.27534 5.22626 4.20270 563 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07309 4.98695 2.75421 0.61958 0.77255 0.81988 0.58068\n- 408 2.62869 4.88039 2.80904 2.10983 3.14598 3.38523 3.82137 3.63693 2.19123 3.22361 4.33311 2.86267 2.98786 2.80262 2.64981 2.37034 2.84397 3.36611 5.22576 3.99006 564 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20717 4.92471 1.71559 0.61958 0.77255 0.93343 0.49956\n- 409 2.62382 4.50559 2.70561 2.57822 3.36087 3.35628 3.87584 2.61330 2.62901 2.17752 3.86613 2.90300 3.91201 2.89085 3.11008 2.48326 2.91097 2.68690 5.31927 4.02789 565 l - - -\n- 2.68618 4.42215 2.77499 2.73094 3.46340 2.40547 3.72499 3.29324 2.67740 2.69323 4.24712 2.90322 2.73798 3.18124 2.89779 2.37903 2.77531 2.98528 4.58464 3.61522\n- 0.88138 0.53479 * 1.32236 0.30993 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC_REase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC_REase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1019 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Detocs__dtcC_REase\n-LENG 332\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jan 17 16:49:24 2023\n-NSEQ 2\n-EFFN 0.441406\n-CKSUM 3698077644\n-GA 20 20;\n-STATS LOCAL MSV -11.4079 0.70051\n-STATS LOCAL VITERBI -12.1759 0.70051\n-STATS LOCAL FORWARD -5.7458 0.70051\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62452 4.51356 2.85584 2.65673 3.23678 3.05750 3.77175 2.56502 2.63140 2.35669 3.74800 2.90506 3.48752 3.19119 3.10322 2.64301 2.96059 2.55099 4.57406 3.51404\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.00000 *\n- 1 2.93447 4.49077 4.00094 3.59165 3.18953 3.80014 4.33737 2.36065 3.36195 1.79172 1.46812 3.87455 4.26110 3.74721 3.57248 3.27850 3.23920 2.36130 5.02386 3.78122 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 2 2.99573 4.42822 4.26930 3.88405 3.34439 4.01597 4.62120 1.13621 3.71124 1.94073 3.28784 4.13582 4.45231 4.06474 3.91308 3.50756 3.29603 1.84711 5.22519 3.95898 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 3 2.93175 5.01609 3.30827 2.70291 4.42334 3.55641 3.56342 3.78878 1.50872 3.27345 4.15240 3.11382 3.94633 2.70882 1.65202 2.94314 3.11624 3.47994 5.35039 4.16251 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 4 2.99573 4.42822 4.26930 3.88405 3.34439 4.01597 4.62120 1.13621 3.71124 1.94073 3.28784 4.13582 4.45231 4.06474 3.91308 3.50756 3.29603 1.84711 5.22519 3.95898 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 5 3.10495 4.58121 4.11596 3.75646 3.11980 3.92355 4.42652 2.32239 3.52462 0.93343 3.15854 4.03626 4.36733 3.90389 3.70780 3.49033 3.40162 2.34773 4.98170 3.69422 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 6 2.96644 4.35175 4.48685 3.99289 3.42689 4.19879 4.74728 1.42390 3.86579 1.95508 3.26246 4.24571 4.55380 4.15601 4.09072 3.57829 3.24103 1.33485 5.35358 4.13776 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 7 2.77235 4.32844 4.06156 3.72410 3.51772 3.67588 4.53398 2.05550 3.59115 2.21328 3.49065 3.92099'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 325 2.93175 5.01609 3.30827 2.70291 4.42334 3.55641 3.56342 3.78878 1.50872 3.27345 4.15240 3.11382 3.94633 2.70882 1.65202 2.94314 3.11624 3.47994 5.35039 4.16251 325 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 326 2.77235 4.32844 4.06156 3.72410 3.51772 3.67588 4.53398 2.05550 3.59115 2.21328 3.49065 3.92099 4.23952 3.95461 3.80788 3.17721 3.13539 1.08447 5.29418 4.02259 326 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 327 3.01235 4.45514 4.29895 3.77763 2.03266 4.08592 4.21217 2.29176 3.64699 1.60215 2.10398 4.01678 4.39274 3.84295 3.83479 3.42181 3.25213 2.34017 4.63859 3.24921 327 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 328 2.63948 4.52031 3.08072 2.72626 3.52536 3.38760 3.78543 2.97352 2.64977 2.00384 3.71077 2.20990 3.89308 3.07903 2.98038 2.77796 2.93231 2.75398 5.00992 3.62408 328 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 329 2.68704 4.68073 2.68567 2.56697 4.03724 3.15448 3.88657 3.73860 2.78689 3.39091 4.34707 1.24135 3.80450 3.15993 3.13941 2.75642 3.06783 3.36542 5.34851 3.98938 329 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 330 2.61835 4.64627 3.01351 2.60323 4.08960 3.31617 3.69935 3.38007 1.81305 3.06281 3.95742 3.03990 3.82361 2.88417 2.61810 2.69991 2.12714 3.07073 5.32314 4.05728 330 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 331 3.10495 4.58121 4.11596 3.75646 3.11980 3.92355 4.42652 2.32239 3.52462 0.93343 3.15854 4.03626 4.36733 3.90389 3.70780 3.49033 3.40162 2.34773 4.98170 3.69422 331 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03289 3.82692 4.54927 0.61958 0.77255 0.48576 0.95510\n- 332 2.71399 4.51912 3.35328 2.84678 3.65783 3.55931 3.80553 2.07972 1.96113 2.55095 3.59234 3.26209 3.97714 3.04909 2.77591 2.89217 2.95809 2.51804 5.10879 3.84659 332 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02226 3.81629 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC_TOPRIM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC_TOPRIM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1115 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Detocs__dtcC_TOPRIM\n-LENG 364\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jan 17 16:49:38 2023\n-NSEQ 8\n-EFFN 1.144531\n-CKSUM 3735355830\n-GA 20 20;\n-STATS LOCAL MSV -11.3203 0.69984\n-STATS LOCAL VITERBI -12.1562 0.69984\n-STATS LOCAL FORWARD -5.6309 0.69984\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63042 4.48752 2.80665 2.60606 3.26418 3.13096 3.75866 2.61593 2.52817 2.36914 3.69228 2.97892 3.63196 3.05313 3.06668 2.70728 2.90793 2.68930 4.29645 3.44448\n- 2.68626 4.42233 2.77527 2.73131 3.46362 2.40520 3.72502 3.29362 2.67748 2.69363 4.24423 2.90307 2.73747 3.18154 2.89808 2.37880 2.77527 2.98526 4.58485 3.61511\n- 0.55528 1.54694 1.54556 0.67290 0.71381 0.00000 *\n- 1 2.72867 4.26245 3.91991 3.35426 2.53925 3.77632 3.08450 2.57062 3.24094 1.88337 2.17390 3.63834 4.12864 3.49783 3.48450 3.05625 2.95826 2.45480 4.60473 3.25378 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02664 4.03454 4.75688 0.61958 0.77255 0.35780 1.20136\n- 2 3.35649 4.64992 5.09992 4.53548 3.26958 4.67413 5.02420 1.31689 4.39373 1.46065 1.88186 4.74093 4.86478 4.48995 4.48304 4.02823 3.58226 2.15102 5.32060 4.24909 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 3 2.68766 4.97894 2.94664 2.47061 4.37285 3.42458 3.70430 3.81047 1.83943 3.35774 4.15001 2.55579 3.87027 2.83577 2.85535 1.99826 2.46875 3.42534 5.53713 4.18782 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 4 3.28457 4.54280 5.16823 4.68879 3.77300 4.74207 5.39363 1.02084 4.59151 2.23439 3.54763 4.87243 5.01974 4.84306 4.76633 4.15406 3.55000 1.18290 5.80947 4.60439 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 5 3.62998 4.98575 4.82131 4.48057 3.33718 4.47805 5.01614 2.57825 4.24630 0.50768 3.26780 4.71949 4.85680 4.51690 4.35061 4.12376 3.91212 2.71436 5.33961 4.14800 7 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 6 3.37891 4.65566 5.10303 4.60863 3.48107 4.74287 5.20759 0.89517 4.44036 1.65511 3.29988 4.82356 4.98041 4.65998 4.58248 4.14956 3.62998 1.87346 5.54636 4.36429 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 7 3.13480 4.58967 4.65852 4.35098 3.87437 4.11889 5.09713 2.11887 4.22648 2.50263 3.79476 4.4740'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 357 2.89822 3.05559 4.75493 4.17159 2.72731 4.13858 4.50332 1.68229 4.01083 1.69172 3.21055 4.25368 4.46068 4.16098 4.08041 3.46314 3.13356 1.65744 4.98115 3.81282 386 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 358 2.82649 4.28858 4.22684 2.87418 2.35222 3.94619 4.22894 1.89134 3.54097 1.58028 3.17859 3.89719 4.28519 3.76059 3.73627 3.23938 3.05699 2.31404 4.86852 3.66597 387 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 359 2.67949 5.07875 2.92366 2.19994 4.39497 2.96604 3.63099 3.84749 2.00166 3.36459 4.13544 2.27304 3.84287 2.74478 2.52583 2.65969 2.90874 2.98902 5.52433 4.15088 388 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 360 2.71525 5.01368 2.90506 1.87769 4.27208 3.46003 3.67485 3.72444 2.03575 3.28349 4.08555 2.96388 3.87661 2.81187 2.85716 2.43345 2.94717 3.37137 5.46988 2.64391 389 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 361 3.03363 2.77947 4.66553 4.15681 3.33357 4.07983 4.65374 2.37165 3.95335 0.90086 3.25728 4.28524 4.50852 4.18434 4.08643 3.48484 3.32886 2.32754 5.16414 3.97261 390 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 362 2.39991 5.07927 2.04991 2.36015 4.38179 2.92614 3.66027 3.83751 2.24443 2.84006 4.14982 2.58570 3.84243 2.78223 2.93203 2.66614 2.92513 3.44995 5.55137 4.16319 391 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26568 4.98803 0.61958 0.77255 0.48576 0.95510\n- 363 2.68787 4.43201 3.43974 2.47186 3.57164 3.63550 3.89659 1.89706 2.86647 2.13068 3.52381 2.79368 4.02535 3.20309 3.22031 2.90117 2.92219 2.57758 5.02956 3.78388 392 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20117 4.26568 1.78270 0.61958 0.77255 0.48576 0.95510\n- 364 2.63597 4.87050 2.27235 2.38795 3.17536 3.38553 3.65192 3.55883 2.47706 3.15068 3.96835 2.91670 3.81981 2.49580 2.95012 2.11889 2.87907 3.22346 5.36293 3.99759 393 s - - -\n- 2.68636 4.42243 2.77537 2.73121 3.46372 2.40513 3.72512 3.29303 2.67736 2.69354 4.24613 2.90287 2.73757 3.18164 2.89766 2.37891 2.77537 2.98536 4.58495 3.61521\n- 0.42855 1.05398 * 1.09166 0.40896 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC_hydrolase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Detocs__dtcC_hydrolase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1196 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Detocs__dtcC_hydrolase\n-LENG 391\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Jan 17 16:49:14 2023\n-NSEQ 23\n-EFFN 1.457153\n-CKSUM 892419590\n-GA 40 40;\n-STATS LOCAL MSV -11.3576 0.69938\n-STATS LOCAL VITERBI -12.2519 0.69938\n-STATS LOCAL FORWARD -6.0483 0.69938\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63656 4.28269 2.96104 2.70841 3.14585 2.98604 3.60880 2.64973 2.62687 2.37507 3.64309 3.04103 3.57303 3.10422 3.02116 2.65360 2.86685 2.60355 4.43240 3.48053\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41230 5.13464 0.61958 0.77255 0.00000 *\n- 1 3.34306 4.69628 4.96062 4.40786 3.35844 4.57387 4.95526 2.26297 4.24283 1.68325 1.17894 4.62778 4.83219 4.41252 4.37572 3.92711 3.58330 1.81138 5.35463 4.24545 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22735 4.41230 1.65427 0.61958 0.77255 0.48576 0.95510\n- 2 2.48479 4.42399 3.34244 2.79060 3.58252 3.17197 3.39233 2.16972 2.75182 2.36321 3.52993 2.69204 3.54149 3.07634 3.13378 2.78628 2.84472 2.70928 4.99848 3.74621 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02236 4.20731 4.92966 0.61958 0.77255 0.35409 1.21003\n- 3 2.75925 5.12507 2.78983 2.48989 4.44865 3.52408 3.68383 3.88836 1.41430 3.40458 3.49542 3.01450 3.91610 2.80022 2.43239 2.57763 2.98318 3.50683 5.55826 4.20726 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41230 5.13464 0.61958 0.77255 0.48576 0.95510\n- 4 2.90279 4.26882 4.70312 4.11663 2.84597 4.10049 4.39982 1.57578 3.95119 1.94538 3.23785 4.19514 4.43228 4.09912 4.02263 3.41659 3.13535 1.67239 4.87465 2.55889 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41230 5.13464 0.61958 0.77255 0.48576 0.95510\n- 5 3.71680 4.97867 5.39416 4.86914 3.27235 5.02066 5.34174 1.99582 4.67748 0.59426 3.05645 5.11156 5.13752 4.73504 4.73479 4.43144 3.94139 2.45507 5.46704 4.40755 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41230 5.13464 0.61958 0.77255 0.48576 0.95510\n- 6 3.39650 4.63752 5.33776 4.87072 3.87817 4.89040 5.58619 0.82992 4.77846 2.31330 3.64019 5.04377 5.15658 5.02785 4.94629 4.31681 3.66359 1.32187 5.95668 4.75114 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01818 4.41230 5.13464 0.61958 0.77255 0.48576 0.95510\n- 7 3.36425 4.62045 5.27594 4.81138 3.90584 4.82784 5.53735 1.53076 4.71532 2.36980 3.67771 4.9834'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02027 4.30433 5.02668 0.61958 0.77255 0.63447 0.75548\n- 384 2.38960 4.12634 4.00734 3.42401 2.61606 3.14688 4.01208 2.31080 3.31666 2.00230 3.23951 3.66346 3.45382 3.54974 3.52364 2.99552 2.65258 2.30382 4.73547 2.93809 404 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02027 4.30433 5.02668 0.61958 0.77255 0.63447 0.75548\n- 385 2.25088 3.37035 4.28520 3.69013 2.78100 3.50558 4.08658 2.47616 3.53941 1.68558 2.95868 3.82151 4.13502 3.72817 3.65842 3.06602 2.86864 2.07700 4.68614 3.30125 405 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02027 4.30433 5.02668 0.61958 0.77255 0.63447 0.75548\n- 386 2.44155 3.50892 4.45175 3.87327 3.33050 3.96650 4.33604 1.89209 3.73737 1.52219 3.28783 4.02429 4.32578 3.93862 3.87619 3.27826 2.74162 1.90756 4.93323 3.74890 406 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02027 4.30433 5.02668 0.61958 0.77255 0.63447 0.75548\n- 387 2.29189 3.53888 4.30811 3.71267 2.89280 3.77771 4.09431 2.08300 3.55867 1.71610 3.17406 3.83629 4.14315 3.74440 3.67178 2.93995 2.87430 2.28231 4.68437 2.89544 407 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02027 4.30433 5.02668 0.61958 0.77255 0.63447 0.75548\n- 388 2.49480 4.20502 3.83717 3.26055 2.93263 3.69309 3.95290 2.66930 2.95965 2.40090 3.31551 3.56245 4.06589 3.43310 2.92093 2.96294 2.87488 2.13623 3.88434 2.13060 408 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02027 4.30433 5.02668 0.61958 0.77255 0.63447 0.75548\n- 389 2.49996 4.20707 3.78252 3.20723 3.32355 3.44231 3.54916 2.38282 2.98977 1.90142 3.31759 3.52729 4.04614 3.39618 3.40380 2.62684 2.74532 2.22766 4.80680 3.02148 409 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06864 4.30433 2.94071 0.61958 0.77255 0.63447 0.75548\n- 390 2.46071 3.50057 4.20300 3.61169 2.16335 3.74343 4.05254 2.40027 3.47218 2.06722 3.17827 3.29847 4.11085 3.67265 3.61358 3.03711 2.85348 2.00248 4.67674 3.19574 410 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02127 4.25696 4.97931 0.61958 0.77255 0.58850 0.81004\n- 391 2.63057 3.72338 4.42047 3.81724 2.64469 3.26531 4.09911 2.24387 3.63889 1.76425 3.14416 3.88296 4.14469 3.80115 3.70765 3.08408 2.86265 1.96299 3.93376 2.97533 411 l - - -\n- 2.68645 4.42252 2.77546 2.73144 3.46296 2.40521 3.72521 3.29256 2.67756 2.69356 4.24587 2.90325 2.73746 3.18163 2.89805 2.37897 2.77514 2.98501 4.58432 3.61489\n- 0.43379 1.04425 * 1.26122 0.33311 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DmdDE__DdmD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/DmdDE__DdmD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3485 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DmdDE__DdmD\n-LENG 1154\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Sep 5 13:04:46 2022\n-NSEQ 56\n-EFFN 2.812988\n-CKSUM 1764858537\n-GA 20 20;\n-STATS LOCAL MSV -13.0407 0.69526\n-STATS LOCAL VITERBI -14.0686 0.69526\n-STATS LOCAL FORWARD -7.1392 0.69526\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61231 4.55545 2.91977 2.55085 3.21341 3.16854 3.68662 2.79467 2.53781 2.42164 3.69762 2.92826 3.57063 2.93624 2.93858 2.64833 2.81509 2.79844 4.74241 3.34768\n- 2.68649 4.42205 2.77333 2.73214 3.45835 2.40752 3.72603 3.29141 2.67739 2.69272 4.24140 2.90381 2.73685 3.18103 2.89832 2.37986 2.77524 2.98582 4.58767 3.61628\n- 0.43228 1.09581 4.09189 3.09181 0.04648 0.00000 *\n- 1 3.93990 5.17442 5.87280 5.28384 3.16497 5.29201 5.58954 1.92466 5.14062 1.25161 1.06093 5.44663 5.36889 5.03598 5.09313 4.66531 4.14603 2.62458 5.65896 4.68287 101 m - - -\n- 2.68621 4.42228 2.77515 2.73126 3.46357 2.40516 3.72497 3.29339 2.67744 2.69358 4.24693 2.90313 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.13153 2.36720 3.52329 0.25176 1.50251 0.51721 0.90680\n- 2 2.81396 5.28363 3.07884 1.98196 4.61253 3.59365 3.50194 3.59349 2.03786 3.58156 4.32875 3.06777 3.98663 2.09011 2.87098 2.20265 2.71539 3.35150 5.72569 3.71428 103 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83797 5.56031 0.61958 0.77255 0.57682 0.82481\n- 3 2.46649 5.31614 2.74211 1.84081 3.96982 3.29173 3.77422 4.14227 2.28308 3.37641 4.35761 2.41879 3.98017 2.33816 2.83897 2.56052 2.77315 3.70522 5.75053 4.34124 104 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83797 5.56031 0.61958 0.77255 0.57682 0.82481\n- 4 2.54171 4.61058 2.89466 2.67095 3.75854 3.77325 4.01702 1.85107 2.99714 2.04606 3.71002 3.46587 4.15482 2.97157 3.37679 2.66216 2.91166 2.62513 5.18325 3.60230 105 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83797 5.56031 0.61958 0.77255 0.57682 0.82481\n- 5 3.72610 5.00685 5.61853 5.02185 2.76957 4.99266 5.24044 2.06912 4.85617 0.60969 2.87235 5.13027 5.15254 4.81039 4.82654 4.34056 3.93620 2.88548 5.42336 3.52641 106 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83797 5.56031 0.61958 0.77255 0.57682 0.82481\n- 6 2.58466 5.31368 2.71246 1.98568 4.65515 3.04522 3.77408 3.67571 2.10156 3.38670 4.35530 2.39444 3.98004 2.52722 2.80468 2.45969 3.04277 3.37565 5.74852 3.87187 107 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03767 4.83797 3.53873 0.61958 0.77255 0.57682 0.82481\n- 7 2.48740 5.30897 2.82193 2.19932 4.65206 3.57718 3.76461 4.13646 1.99622 3.20954 4.35026 2.35198 3.121'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79566 5.51801 0.61958 0.77255 0.63881 0.75061\n- 1147 3.96568 5.17304 5.91906 5.34947 3.12773 5.38365 5.69977 1.08810 5.22276 0.91971 3.03081 5.53652 5.42621 5.11125 5.18197 4.77717 4.17489 2.64291 5.71754 4.73291 1621 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79566 5.51801 0.61958 0.77255 0.63881 0.75061\n- 1148 2.80726 3.62280 4.05302 3.47446 3.00808 3.34883 4.15664 2.40966 3.18171 1.76349 3.27314 2.84980 4.24331 3.49051 2.82269 2.88153 2.55687 2.32819 4.95593 3.75277 1622 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79566 5.51801 0.61958 0.77255 0.63881 0.75061\n- 1149 2.71749 5.30072 2.95250 1.81259 4.64236 2.93979 3.76060 4.12529 1.87118 3.35934 4.34258 2.63157 3.96703 2.76869 2.48398 2.67687 2.88689 3.44607 5.73495 4.32692 1623 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01236 4.79566 5.51801 0.61958 0.77255 0.63881 0.75061\n- 1150 2.50977 3.76426 3.64316 1.95308 3.33156 3.77327 4.02287 2.96201 2.81461 2.30649 3.65122 3.12934 4.15338 3.34098 3.39861 2.91223 2.91742 2.72879 2.46020 3.63930 1624 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03220 4.79566 3.75419 0.61958 0.77255 0.63881 0.75061\n- 1151 2.55213 3.43958 3.96971 3.49072 2.75467 3.47101 4.27329 2.04756 3.80235 1.62369 2.83556 4.04983 4.31534 3.96761 3.87503 3.25272 2.73753 2.30648 4.82564 3.14000 1625 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02859 4.77607 3.92408 0.61958 0.77255 0.67637 0.71021\n- 1152 2.78380 4.34213 2.78338 2.28058 3.95513 2.84689 3.16528 3.21619 2.47921 2.96803 4.20174 2.32634 3.97457 2.53789 3.01988 2.65208 2.91185 3.50523 5.61402 3.02385 1626 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11772 4.76028 2.27795 0.61958 0.77255 0.70514 0.68130\n- 1153 2.32727 5.21919 2.91134 1.89293 4.54651 3.33911 3.71948 4.02025 2.21536 2.85024 4.26482 2.42748 3.92317 2.51099 2.95135 2.72147 2.74039 3.60031 5.66233 3.90606 1627 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15692 4.65676 1.99709 0.61958 0.77255 0.73152 0.65620\n- 1154 2.62211 4.23098 3.23556 2.57544 3.01025 3.27108 3.55632 3.11066 2.55506 2.70549 3.60865 2.66270 3.97653 2.79715 2.84152 2.33139 2.48688 3.05899 5.28491 3.68019 1628 s - - -\n- 2.68619 4.42159 2.77504 2.73072 3.46379 2.40536 3.72495 3.29352 2.67707 2.69379 4.24692 2.90340 2.73760 3.18103 2.89817 2.37881 2.77548 2.98545 4.58516 3.61493\n- 0.67638 0.71020 * 1.07592 0.41701 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd_ABCDEFGH__DptF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd_ABCDEFGH__DptF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1700 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd_ABCDEFGH__DptF\n-LENG 559\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:17 2021\n-NSEQ 1333\n-EFFN 3.821371\n-CKSUM 3949183457\n-GA 100 100;\n-STATS LOCAL MSV -11.9229 0.69751\n-STATS LOCAL VITERBI -12.8048 0.69751\n-STATS LOCAL FORWARD -6.1904 0.69751\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68497 4.59715 2.87963 2.58037 3.14901 3.07398 3.67062 2.78154 2.54616 2.36847 3.75530 2.87467 3.51622 3.02257 3.00473 2.56788 2.87726 2.80747 5.03377 3.39241\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29353 2.67740 2.69355 4.24688 2.90346 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.08500 3.36125 3.06194 0.67161 0.71516 0.00000 *\n- 1 2.68949 4.33842 3.66058 3.24382 3.05661 3.56348 4.04931 2.20030 3.00343 1.82236 2.66976 3.54932 4.04956 3.43653 3.25203 2.98331 3.00689 2.16024 4.86115 3.50587 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05919 3.48408 3.61985 0.61958 0.77255 0.50401 0.92660\n- 2 2.32072 4.24183 2.86194 2.64000 3.64214 2.80903 3.74367 2.97027 2.57163 2.78904 3.77460 2.99397 3.64612 2.98102 2.81354 2.48032 2.71578 2.66487 5.07697 3.72921 11 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04723 3.47212 4.19447 0.61958 0.77255 0.51122 0.91571\n- 3 2.45859 4.31460 3.04100 2.73948 3.51493 3.17672 3.75814 2.70126 2.42733 2.50004 3.65793 3.09585 3.75935 3.04870 2.78511 2.56570 2.76199 2.52256 5.01409 3.64914 12 k - - -\n- 2.68620 4.42228 2.77522 2.73125 3.46351 2.40515 3.72492 3.29348 2.67741 2.69356 4.24688 2.90349 2.73741 3.18147 2.89802 2.37886 2.77517 2.98512 4.58469 3.61494\n- 0.11527 2.61952 3.32310 1.11491 0.39742 0.51122 0.91571\n- 4 2.46827 4.34925 3.07087 2.67915 3.57453 3.17413 3.68921 2.89196 2.37991 2.59391 3.24110 3.06597 3.65723 2.91676 2.67449 2.62975 2.78581 2.65845 5.00569 3.70386 27 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05089 3.48995 3.95727 0.61958 0.77255 0.52364 0.89737\n- 5 2.48372 4.48077 2.56912 2.31523 3.89138 2.80567 3.65100 3.29977 2.39059 2.98858 3.92286 2.83926 3.66401 2.77871 2.74275 2.56838 2.82518 2.95553 5.21451 3.89311 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04658 3.48564 4.20799 0.61958 0.77255 0.52622 0.89364\n- 6 2.53041 4.33937 3.16903 2.66822 3.33951 3.37251 3.65480 2.70544 2.51879 2.43682 3.28161 3.12395 3.82855 2.95458 2.85984 2.70388 2.77483 2.51256 4.57189 3.43973 29 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04546 3.50943 4.23178 0.61958 0.77255 0.52622 0.89364\n- 7 2.44925 4.30161 3.18342 2.65608 3.56113 3.31941 3.72133 2.74204 2.57191 2.57480 2.99321 3.06'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01063 4.94566 5.66801 0.61958 0.77255 0.49691 0.93754\n- 552 2.66771 4.38938 3.34766 2.48901 3.59140 3.23743 3.86309 2.64563 2.89346 2.48169 2.45469 3.20331 4.05716 3.24600 3.26208 2.83970 2.81649 2.04614 5.02979 3.60590 1739 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.54095 4.16597 0.61958 0.77255 0.49133 0.94626\n- 553 2.56956 4.98837 2.74850 1.96394 4.04481 3.08212 3.42491 3.66699 2.24327 3.26460 4.04360 2.60078 3.76110 2.65688 2.79816 2.56731 2.79283 3.19420 5.45005 4.06871 1740 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02550 4.07766 4.80001 0.61958 0.77255 0.51233 0.91403\n- 554 2.53415 4.60547 2.72359 2.39509 3.96811 2.82722 3.30522 3.39812 2.33212 3.01502 3.86784 2.74079 3.72611 2.80790 2.65676 2.48236 2.73812 3.06985 5.24010 3.93529 1741 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04007 3.63297 4.35532 0.61958 0.77255 0.51233 0.91403\n- 555 2.22374 4.02252 3.25727 2.95922 3.52797 3.04183 3.86927 2.59700 2.83929 2.52999 3.59808 3.21740 3.71137 3.24686 3.11940 2.51207 2.69505 2.12443 5.06664 3.74981 1742 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04562 3.50592 4.22826 0.61958 0.77255 0.51233 0.91403\n- 556 2.59396 4.54365 2.61195 2.31390 3.88773 3.05809 3.62557 3.23823 2.10057 2.95885 3.93519 2.87270 3.68650 2.86090 2.60041 2.67075 2.90725 2.95743 5.15552 3.88147 1743 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04698 3.47716 4.19951 0.61958 0.77255 0.51233 0.91403\n- 557 2.40495 4.15095 3.32361 3.09291 3.26853 3.10404 3.99422 2.40912 2.96459 2.20127 3.47256 3.33190 3.75158 3.40263 3.19148 2.66485 2.83750 2.03677 4.90675 3.56027 1744 v - - -\n- 2.68618 4.42193 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.09626 2.57273 4.17053 0.52237 0.89922 0.49860 0.93492\n- 558 2.33378 4.21244 2.69477 2.56228 3.65613 2.69957 3.73230 3.26644 2.63612 3.01625 3.99888 2.47037 3.53713 3.06175 2.91916 2.46756 2.75359 2.90839 4.99765 3.67986 1746 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04770 3.46232 4.18467 0.61958 0.77255 0.50401 0.92660\n- 559 2.51993 4.09153 3.11390 2.95861 3.13367 2.90596 3.81151 2.59359 2.85743 2.09665 3.55178 3.24840 3.54162 3.31917 3.03729 2.74545 2.92189 2.44596 4.58021 3.33744 1747 l - - -\n- 2.68618 4.42225 2.77518 2.73123 3.46354 2.40511 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.04946 3.03130 * 0.62524 0.76600 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd_ABCDEFGH__DptG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd_ABCDEFGH__DptG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1391 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd_ABCDEFGH__DptG\n-LENG 456\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:18 2021\n-NSEQ 1169\n-EFFN 6.907581\n-CKSUM 3900533747\n-GA 100 100;\n-STATS LOCAL MSV -11.6124 0.69850\n-STATS LOCAL VITERBI -12.6454 0.69850\n-STATS LOCAL FORWARD -5.3897 0.69850\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70735 4.61583 2.91130 2.54024 3.03613 3.12895 3.77280 2.88579 2.51170 2.32890 3.72901 2.92180 3.55885 2.99130 2.94121 2.61167 2.89284 2.85278 4.82939 3.29225\n- 2.68619 4.42226 2.77517 2.73121 3.46355 2.40514 3.72490 3.29352 2.67742 2.69356 4.24663 2.90348 2.73739 3.18148 2.89802 2.37888 2.77517 2.98520 4.58478 3.61504\n- 0.45783 2.91429 1.16123 0.83274 0.57068 0.00000 *\n- 1 2.61135 4.28954 3.53593 2.92980 3.39111 3.58645 3.86872 2.49843 2.73928 2.24700 2.26327 3.36537 3.97572 3.19918 3.12298 2.86742 2.64124 2.37618 4.91155 3.68952 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03207 3.85180 4.57414 0.61958 0.77255 0.71632 0.67050\n- 2 2.53332 4.32277 3.31250 2.75444 3.39202 3.47534 3.66036 2.80735 2.69823 2.54279 2.95374 2.96578 3.86608 3.02674 3.06804 2.66688 2.24342 2.57711 4.89143 3.44316 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03066 3.89605 4.61840 0.61958 0.77255 0.71632 0.67050\n- 3 2.55479 4.37762 3.33305 2.71352 3.53752 3.51272 3.76066 2.88330 2.69834 2.56351 2.42121 3.14408 3.69691 2.99390 2.96791 2.65690 2.42504 2.56690 4.95364 3.70561 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02577 4.06715 4.78950 0.61958 0.77255 0.71632 0.67050\n- 4 2.57342 4.87842 2.26084 2.26677 4.22784 3.22719 3.62139 3.64168 2.38054 3.22711 3.02218 2.74699 3.81460 2.66814 2.87261 2.52237 2.71874 3.30482 5.42784 3.87716 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02246 4.20307 4.92542 0.61958 0.77255 0.62670 0.76433\n- 5 2.64490 4.92027 2.87073 2.21528 3.81480 3.46032 3.50902 3.43262 2.19258 3.14739 2.90894 2.49398 3.85113 2.75708 2.81365 2.53208 2.87613 3.21211 5.07645 3.84276 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02246 4.32181 4.71737 0.61958 0.77255 0.56477 0.84047\n- 6 2.61865 4.51311 2.93700 2.54415 2.91474 3.27393 3.74208 2.99018 2.64873 2.74001 2.60533 3.10125 3.50993 2.97867 3.05859 2.60769 2.83036 2.84322 5.16764 3.21929 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01698 4.48022 5.20256 0.61958 0.77255 0.41298 1.08376\n- 7 2.84626 4.57048 3.87271 3.50407 3.36544 4.10879 4.38431 2.79562 3.15963 2.60694 1.05453 3.42'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00605 5.50587 6.22822 0.61958 0.77255 0.53693 0.87837\n- 449 2.89290 4.92903 3.96264 3.13980 4.07530 4.11852 4.36326 2.58680 2.86839 3.04271 3.59039 3.82225 4.49915 1.30813 3.72018 3.16116 3.30452 1.62503 5.50539 4.26204 1004 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00609 5.49944 6.22178 0.61958 0.77255 0.52510 0.89525\n- 450 5.68131 6.50622 6.31461 6.34113 2.53402 6.01913 4.36849 5.25918 6.11485 4.32903 5.74516 4.50807 6.26889 5.70952 5.87334 5.44801 5.86759 5.22109 4.63826 0.18387 1005 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00608 5.50101 6.22336 0.61958 0.77255 0.47869 0.96652\n- 451 3.98379 5.31868 6.04837 5.57068 4.60402 5.54013 6.18880 2.38045 5.38993 2.91717 4.39070 5.70223 5.82369 4.11220 5.52817 4.95755 4.33616 0.30372 6.59736 5.38381 1006 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00604 5.50794 6.23029 0.61958 0.77255 0.47788 0.96784\n- 452 3.41295 5.70641 3.72790 3.00190 4.88093 4.07545 3.31221 4.63638 1.00703 4.05584 4.86470 3.53425 4.52672 3.22666 1.42118 3.30318 3.31959 3.68607 6.17896 4.85849 1007 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00603 5.51050 6.23285 0.61958 0.77255 0.48576 0.95510\n- 453 2.78499 5.37726 3.36933 2.81025 4.67927 3.41686 3.60056 4.10899 1.63784 3.88173 4.62706 3.10139 2.17874 3.07446 2.75258 1.93945 2.81712 3.71685 6.02395 3.50737 1008 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00618 5.48467 6.20702 0.61958 0.77255 0.48576 0.95510\n- 454 3.09642 4.67870 5.22505 4.62872 3.33419 4.51676 4.87772 1.15846 4.44189 2.53373 3.80976 4.58019 4.87284 4.59624 4.48659 3.53562 1.44341 2.08030 5.38639 4.20476 1009 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03333 5.44512 3.55897 0.61958 0.77255 0.48576 0.95510\n- 455 2.54218 4.13040 3.66130 3.09640 2.74450 3.36045 3.83875 2.30731 3.00967 2.21942 2.85385 3.42192 3.95214 3.28923 3.29146 2.74174 2.77878 2.30501 4.67267 3.30652 1010 l - - -\n- 2.68617 4.42228 2.77523 2.73126 3.46355 2.40516 3.72495 3.29348 2.67744 2.69353 4.24693 2.90350 2.73739 3.18150 2.89798 2.37880 2.77514 2.98520 4.58480 3.61503\n- 0.33663 1.85626 2.04352 0.69468 0.69161 0.50845 0.91987\n- 456 2.49384 4.49384 2.83003 2.51596 3.95124 2.86837 3.63595 3.43181 2.29064 3.05939 3.94134 2.71844 3.69763 2.84990 2.21685 2.58268 2.81913 3.08187 5.20091 3.91148 1016 r - - -\n- 2.68601 4.42230 2.77519 2.73113 3.46359 2.40518 3.72499 3.29359 2.67746 2.69355 4.24695 2.90352 2.73744 3.18151 2.89799 2.37888 2.77514 2.98511 4.58482 3.61508\n- 0.20279 1.69527 * 0.94839 0.48999 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd_ABCDEFGH__DptH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd_ABCDEFGH__DptH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5189 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd_ABCDEFGH__DptH\n-LENG 1722\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:16 2021\n-NSEQ 2862\n-EFFN 3.687441\n-CKSUM 2828200342\n-GA 20 20;\n-STATS LOCAL MSV -13.6656 0.69456\n-STATS LOCAL VITERBI -15.0227 0.69456\n-STATS LOCAL FORWARD -7.2370 0.69456\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65435 4.60569 2.91427 2.54031 3.20978 3.03829 3.70670 2.81899 2.56039 2.41415 3.74781 2.95030 3.51279 2.97023 3.00248 2.60197 2.84347 2.74642 4.67260 3.35720\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04939 3.42838 4.15072 0.61958 0.77255 0.00000 *\n- 1 2.54837 4.22757 3.35358 3.07807 3.12585 3.20667 3.91927 2.40064 2.86242 2.06076 2.98092 3.35844 3.79982 3.34295 3.08334 2.79119 2.92296 2.28959 4.77055 3.41588 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04939 3.42838 4.15072 0.61958 0.77255 0.48576 0.95510\n- 2 2.44535 4.17799 3.10992 2.91948 3.18419 3.03079 3.83080 2.60996 2.79601 2.22661 3.59194 3.20369 3.67503 3.27007 3.02063 2.57717 2.85231 2.43272 4.73976 3.35169 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04939 3.42838 4.15072 0.61958 0.77255 0.48576 0.95510\n- 3 2.31799 4.17143 3.01668 2.80149 3.37045 2.98917 3.79299 2.81291 2.68227 2.64393 3.59805 3.02923 3.65369 3.15946 2.93783 2.39182 2.73550 2.55462 4.90186 3.46953 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04899 3.43630 4.15864 0.61958 0.77255 0.48576 0.95510\n- 4 2.55625 4.31406 3.17410 2.89633 3.15271 3.26060 3.80607 2.41612 2.64515 2.25347 3.48101 3.22959 3.83182 3.19795 2.94787 2.75930 2.90590 2.37188 4.77314 3.26430 4 l - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29353 2.67741 2.69354 4.24690 2.90346 2.73740 3.18147 2.89800 2.37886 2.77520 2.98519 4.58477 3.61501\n- 0.05521 3.26787 4.15864 0.71963 0.66735 0.48576 0.95510\n- 5 2.50762 4.31407 2.87708 2.64774 3.54866 3.02089 3.67133 3.05429 2.30658 2.71227 3.80075 3.01910 3.62590 2.98340 2.39645 2.64492 2.86422 2.80936 4.89637 3.62304 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04867 3.44274 4.16508 0.61958 0.77255 0.48576 0.95510\n- 6 2.51427 4.33561 2.84271 2.62007 3.57787 3.03077 3.66651 3.06309 2.24871 2.73287 3.81217 3.00117 3.63391 2.96952 2.46246 2.64600 2.86721 2.81547 4.92333 3.64621 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04867 3.44274 4.16508 0.61958 0.77255 0.48576 0.95510\n- 7 2.32606 4.21924 3.41622 3.07193 3.34460 3.26223 3.99701 2.36286 2.87357 2.14348 3.09954 3.349'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04943 3.42772 4.15006 0.61958 0.77255 0.48576 0.95510\n- 1715 2.46146 3.98151 2.63418 2.73546 3.31589 2.67367 3.70828 2.86766 2.79903 2.57818 3.78887 3.07471 3.32734 3.21189 2.97780 2.65816 2.87339 2.64371 4.52614 3.45596 5105 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05034 3.40975 4.13210 0.61958 0.77255 0.48576 0.95510\n- 1716 2.49677 4.01525 3.04065 2.91581 3.16151 2.78451 3.77368 2.66417 2.85477 2.21249 3.60648 3.20852 3.42945 3.30460 3.01531 2.72118 2.90750 2.50139 4.51647 3.35572 5106 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05034 3.40975 4.13210 0.61958 0.77255 0.48576 0.95510\n- 1717 2.49011 4.01635 2.86857 2.58974 3.32270 2.72388 3.72503 2.80660 2.75509 2.49508 3.72993 3.10065 3.37054 3.20764 2.93292 2.69031 2.89411 2.60673 4.56424 3.49037 5107 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05034 3.40975 4.13210 0.61958 0.77255 0.48576 0.95510\n- 1718 2.43555 4.05039 3.06832 2.93144 3.19433 2.84858 3.82270 2.62766 2.86999 2.31597 3.59236 3.20600 3.50587 3.31514 3.05356 2.65524 2.85839 2.36060 4.62943 3.39771 5108 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05034 3.40975 4.13210 0.61958 0.77255 0.48576 0.95510\n- 1719 2.41679 4.02771 2.99483 2.87374 3.27568 2.79287 3.80629 2.69650 2.83870 2.39336 3.65109 3.16124 3.45591 3.28356 3.02198 2.62902 2.69344 2.50762 4.64837 3.47429 5109 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05034 3.40975 4.13210 0.61958 0.77255 0.48576 0.95510\n- 1720 2.46854 4.09057 3.11032 2.95322 3.15271 2.91635 3.82810 2.47542 2.85962 2.26407 3.54843 3.23186 3.56192 3.31621 3.05011 2.69129 2.88031 2.41717 4.63252 3.35973 5110 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05034 3.40975 4.13210 0.61958 0.77255 0.48576 0.95510\n- 1721 2.43404 3.93897 2.92967 2.82796 3.30378 2.65296 3.73773 2.84494 2.82184 2.48825 3.73019 3.12973 3.00325 3.25619 2.97551 2.64596 2.85770 2.63501 4.51620 3.48248 5111 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05034 3.40975 4.13210 0.61958 0.77255 0.48576 0.95510\n- 1722 2.49677 4.01525 3.04065 2.91581 3.16151 2.78451 3.77368 2.66417 2.85477 2.21249 3.60648 3.20852 3.42945 3.30460 3.01531 2.72118 2.90750 2.50139 4.51647 3.35572 5112 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.39357 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1154 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd__DndA\n-LENG 377\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:13 2021\n-NSEQ 363\n-EFFN 0.994240\n-CKSUM 4374665\n-GA 100 100;\n-STATS LOCAL MSV -11.2403 0.69963\n-STATS LOCAL VITERBI -12.1348 0.69963\n-STATS LOCAL FORWARD -5.7533 0.69963\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41196 4.35606 3.06426 2.65769 3.47375 2.80292 3.57916 2.75697 2.73694 2.43489 3.62251 3.05771 3.50668 3.10004 2.98608 2.60084 2.77867 2.55494 5.00690 3.67370\n- 2.68614 4.42224 2.77522 2.73127 3.46357 2.40512 3.72496 3.29351 2.67744 2.69355 4.24637 2.90349 2.73742 3.18149 2.89801 2.37887 2.77521 2.98514 4.58465 3.61503\n- 0.07508 2.85137 4.22899 1.13009 0.39009 0.00000 *\n- 1 2.82032 4.41120 4.05593 3.55024 3.37239 3.79889 4.28479 2.50927 3.34103 2.07773 1.35015 3.81422 4.05437 3.69300 3.52781 3.11389 3.11028 2.29401 5.08077 3.87043 43 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11957 4.17952 2.32904 0.61958 0.77255 0.49471 0.94096\n- 2 2.38652 4.40852 3.28626 2.74219 3.73179 3.38027 3.80877 3.08086 2.71664 2.77586 3.65721 3.06516 3.35943 3.05858 3.08978 2.46957 2.02123 2.34604 5.11889 3.86021 44 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02530 4.08525 4.80760 0.61958 0.77255 0.42790 1.05520\n- 3 2.33259 4.23506 3.54943 3.03296 3.36408 3.58915 3.77954 2.44343 2.96090 2.20756 3.30571 3.36365 3.74524 3.26840 3.27328 2.74932 2.46465 2.09500 4.83183 3.61206 45 v - - -\n- 2.68595 4.42253 2.77497 2.73137 3.46369 2.40525 3.72505 3.29363 2.67769 2.69371 4.24711 2.90366 2.73708 3.18160 2.89784 2.37883 2.77478 2.98499 4.58514 3.61533\n- 0.20854 1.71980 4.69643 2.19076 0.11859 0.49110 0.94663\n- 4 3.72323 5.08580 4.30906 4.10603 2.37633 4.20158 3.80860 3.69368 3.95583 3.06502 4.33780 4.12463 4.67263 4.18489 4.07147 3.82466 4.01390 3.58001 4.02842 0.57519 69 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02297 4.18072 4.90307 0.61958 0.77255 0.48626 0.95430\n- 5 3.41007 4.78826 4.79176 4.25456 3.03685 4.52836 4.69918 2.39506 3.96672 0.69895 2.90931 4.50165 4.75900 4.20920 4.10283 3.90264 3.63966 2.55762 4.72538 3.78670 70 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02289 4.18417 4.90652 0.61958 0.77255 0.48895 0.95003\n- 6 3.35874 5.49890 0.55704 2.58716 4.92579 3.47803 4.24999 4.59233 3.39957 4.14846 5.14466 3.15516 4.15343 3.49735 3.94981 3.29337 3.70767 4.20161 6.02945 4.76160 71 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02289 4.18417 4.90652 0.61958 0.77255 0.48895 0.95003\n- 7 2.37835 2.72002 3.67065 3.09807 3.09393 3.61848 3.54340 2.68091 3.02980 2.41067 3.11128 2.87969 3.99540 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02447 4.11848 4.84083 0.61958 0.77255 0.43921 1.03436\n- 370 2.43100 4.96551 2.70766 1.97972 4.41264 3.26164 3.57563 3.88417 2.22249 3.38451 4.13738 2.54725 3.79460 2.57841 2.67251 2.45840 2.82012 3.45728 5.53363 4.09434 457 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02283 4.18673 4.90908 0.61958 0.77255 0.48576 0.95510\n- 371 2.48293 4.76516 2.96455 2.28416 4.09600 3.33203 3.59564 3.47623 2.20302 3.08062 3.94015 2.78473 3.81670 2.69036 2.35186 2.55863 2.55890 3.12156 5.38810 4.03357 458 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02367 4.18673 4.80373 0.61958 0.77255 0.48576 0.95510\n- 372 2.85322 4.35888 4.62911 4.06372 3.21022 4.22769 4.59601 1.51746 3.93949 1.41375 3.20023 4.25996 4.53238 4.09068 4.09128 3.45722 3.22860 1.82978 5.12346 3.96285 459 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09279 4.18591 2.61169 0.61958 0.77255 0.48679 0.95347\n- 373 2.26662 4.87442 2.89165 2.28773 4.20371 3.16746 3.55430 3.61978 2.10493 3.11878 3.93206 2.84735 3.79602 2.64944 2.59394 2.47324 2.81089 3.21074 5.24097 4.03696 460 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02449 4.11760 4.83995 0.61958 0.77255 0.56597 0.83889\n- 374 2.45878 4.99220 2.78634 2.25093 4.29250 3.11539 3.49483 3.62022 2.25998 3.23898 3.99827 2.78899 3.78317 2.39537 2.51752 2.44295 2.78772 3.35867 5.32647 3.93649 461 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02449 4.11760 4.83995 0.61958 0.77255 0.56597 0.83889\n- 375 2.89719 4.34321 4.51033 3.92604 2.75323 4.10522 4.37266 2.18138 3.79560 1.18229 2.58136 4.11819 4.39696 3.94192 3.92417 3.41210 3.16762 2.32555 4.85263 3.16264 462 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02449 4.11760 4.83995 0.61958 0.77255 0.56597 0.83889\n- 376 2.54703 4.65677 3.12467 2.55717 3.86258 3.44549 3.67254 3.12305 2.39931 2.52018 3.38794 3.04885 3.85847 2.36683 2.45253 2.59752 2.81058 2.91474 5.17949 3.88592 463 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22852 4.11760 1.67127 0.61958 0.77255 0.56597 0.83889\n- 377 2.47763 4.45436 3.10999 2.55082 3.57581 3.13082 3.62407 2.89244 2.51784 2.64736 3.53460 3.03531 3.13563 2.86035 2.85377 2.54207 2.70616 2.75638 4.88411 3.71363 464 a - - -\n- 2.68591 4.42236 2.77519 2.73127 3.46353 2.40512 3.72499 3.29356 2.67749 2.69360 4.24699 2.90353 2.73739 3.18148 2.89798 2.37887 2.77515 2.98518 4.58488 3.61509\n- 0.32479 1.28259 * 1.02063 0.44686 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1349 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd__DndB\n-LENG 442\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:13 2021\n-NSEQ 1324\n-EFFN 4.457207\n-CKSUM 3318514401\n-GA 23 23;\n-STATS LOCAL MSV -11.7068 0.69867\n-STATS LOCAL VITERBI -12.3814 0.69867\n-STATS LOCAL FORWARD -6.1321 0.69867\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50663 4.50511 2.93128 2.62511 3.30089 3.04583 3.70728 2.79387 2.63035 2.44625 3.68154 2.98952 3.48022 3.00096 2.82626 2.61047 2.84299 2.72995 4.48126 3.53100\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05061 3.40459 4.12694 0.61958 0.77255 0.00000 *\n- 1 2.46315 4.01127 3.02738 2.90331 3.17339 2.78061 3.77545 2.66805 2.84530 2.32721 3.50628 3.19054 3.43156 3.29461 3.01133 2.68379 2.88013 2.49892 4.53987 3.36692 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05061 3.40459 4.12694 0.61958 0.77255 0.48576 0.95510\n- 2 2.44815 3.72632 3.04661 2.93290 3.20538 2.64879 3.74987 2.71749 2.87552 2.37846 3.65317 3.20361 3.30174 3.31438 3.00263 2.68372 2.87127 2.53189 4.44447 3.40406 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05061 3.40459 4.12694 0.61958 0.77255 0.48576 0.95510\n- 3 2.47948 3.94652 2.92356 2.82536 3.17935 2.65725 3.55413 2.83976 2.80610 2.44059 3.70284 3.13376 3.30706 3.24812 2.95244 2.69065 2.89353 2.64793 4.42402 3.33480 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05061 3.40459 4.12694 0.61958 0.77255 0.48576 0.95510\n- 4 2.48969 3.92516 2.97547 2.87954 3.18775 2.65357 3.72875 2.73926 2.85773 2.33376 3.66019 3.17768 3.30250 3.29374 2.99007 2.71807 2.90540 2.56263 4.42713 3.37765 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05061 3.40459 4.12694 0.61958 0.77255 0.48576 0.95510\n- 5 2.53871 4.25140 3.30296 3.01652 3.11054 3.21331 3.81369 2.48448 2.79224 2.11341 3.02800 3.30884 3.80048 3.28192 3.02249 2.76264 2.90688 2.36600 4.74632 3.35754 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04927 3.43088 4.15322 0.61958 0.77255 0.48576 0.95510\n- 6 2.59036 4.16436 3.17800 2.93101 2.88452 3.15493 3.70505 2.66162 2.77852 2.28307 3.52185 3.24102 3.73660 3.23822 3.00745 2.78455 2.94563 2.51774 4.45652 2.66396 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04927 3.43088 4.15322 0.61958 0.77255 0.48576 0.95510\n- 7 2.56315 4.34866 2.99142 2.78511 3.39078 3.36208 3.82063 2.57408 2.72702 2.31870 2.65056 3.19660 3.8608'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04867 3.44273 4.16507 0.61958 0.77255 0.48576 0.95510\n- 435 2.57789 4.38102 2.75240 2.52987 3.19772 3.04204 2.93376 3.19069 2.48446 2.76162 3.84279 2.97158 3.63917 2.99094 2.74388 2.68635 2.92023 2.94234 4.63322 3.20375 1102 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04867 3.44273 4.16507 0.61958 0.77255 0.48576 0.95510\n- 436 2.22960 4.10145 2.92353 2.77528 3.49648 2.86015 3.83370 2.92873 2.76915 2.73352 3.83213 3.05160 3.56090 3.20236 3.02036 2.20674 2.70364 2.63750 4.96639 3.60810 1103 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04867 3.44273 4.16507 0.61958 0.77255 0.48576 0.95510\n- 437 2.56730 4.30114 2.65476 2.12381 3.61121 2.92696 3.70256 2.99810 2.57850 2.72943 3.85747 2.95684 3.55078 3.03997 2.84257 2.69742 2.92747 2.76797 4.88550 3.71425 1104 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04867 3.44273 4.16507 0.61958 0.77255 0.48576 0.95510\n- 438 2.58605 4.33016 2.81670 2.63696 3.07695 3.01123 2.77948 3.18273 2.53800 2.72184 3.83401 3.01644 3.61366 3.03942 2.78202 2.70559 2.93695 2.94393 4.51841 3.08491 1105 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04867 3.44273 4.16507 0.61958 0.77255 0.48576 0.95510\n- 439 2.44913 3.88695 2.91531 2.82846 3.28008 2.46511 3.70665 2.85999 2.83289 2.52688 3.76821 3.13033 3.24477 3.26304 2.96426 2.66851 2.87245 2.64183 4.43126 3.44395 1106 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40721 4.12956 0.61958 0.77255 0.48576 0.95510\n- 440 2.44913 3.88695 2.91531 2.82846 3.28008 2.46511 3.70665 2.85999 2.83289 2.52688 3.76821 3.13033 3.24477 3.26304 2.96426 2.66851 2.87245 2.64183 4.43126 3.44395 1107 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40721 4.12956 0.61958 0.77255 0.48576 0.95510\n- 441 2.43494 3.99680 2.98415 2.87217 3.24859 2.74902 3.78234 2.71122 2.84387 2.38942 3.65526 3.16283 3.40838 3.28551 3.01273 2.65086 2.74490 2.52521 4.57955 3.44342 1108 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40721 4.12956 0.61958 0.77255 0.48576 0.95510\n- 442 2.36028 3.97193 2.97544 2.87078 3.24540 2.71426 3.76989 2.72699 2.85303 2.39715 3.66583 3.16352 3.37225 3.28933 3.01155 2.66335 2.86828 2.54024 4.54066 3.43969 1109 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03426 3.39099 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1886 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd__DndC\n-LENG 621\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:14 2021\n-NSEQ 2313\n-EFFN 2.254377\n-CKSUM 1000929089\n-GA 100 100;\n-STATS LOCAL MSV -12.2863 0.69707\n-STATS LOCAL VITERBI -13.2117 0.69707\n-STATS LOCAL FORWARD -6.0514 0.69707\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61965 4.13909 2.93228 2.58029 3.45504 2.98642 3.75554 2.83094 2.60647 2.48049 3.66481 3.05920 3.33502 3.03272 2.83108 2.62320 2.81285 2.68804 4.22765 3.51239\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05024 3.41184 4.13418 0.61958 0.77255 0.00000 *\n- 1 2.48201 4.14547 3.18607 2.98883 3.14078 3.01724 3.85372 2.52261 2.83795 2.19904 3.25397 3.26390 3.65048 3.31297 3.04206 2.70654 2.88407 2.38061 4.69026 3.36730 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05024 3.41184 4.13418 0.61958 0.77255 0.48576 0.95510\n- 2 2.42290 3.95171 2.92629 2.82042 3.32767 2.66614 3.74450 2.86168 2.81461 2.50852 3.74024 3.12252 2.95309 3.24934 2.97598 2.63093 2.84771 2.64555 4.54707 3.50384 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05024 3.41184 4.13418 0.61958 0.77255 0.48576 0.95510\n- 3 2.47277 4.05589 2.89423 2.76997 3.32083 2.77536 3.73064 2.81945 2.53222 2.50919 3.73041 3.10026 3.42286 3.19133 2.90449 2.66607 2.87756 2.61450 4.61221 3.47450 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05024 3.41184 4.13418 0.61958 0.77255 0.48576 0.95510\n- 4 2.46052 4.00631 2.57285 2.70672 3.34227 2.69207 3.70878 2.88874 2.78913 2.60989 3.80624 3.05577 3.34585 3.19587 2.98120 2.64980 2.87032 2.65847 4.55921 3.47428 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05024 3.41184 4.13418 0.61958 0.77255 0.48576 0.95510\n- 5 2.37636 4.04720 2.95261 2.83024 3.27563 2.80092 3.78183 2.78559 2.80451 2.51657 3.72921 3.11634 3.47329 3.24924 3.00437 2.44188 2.80868 2.56398 4.66815 3.41865 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05024 3.41184 4.13418 0.61958 0.77255 0.48576 0.95510\n- 6 2.50239 4.04038 3.06258 2.92844 3.15289 2.82323 3.78604 2.64179 2.85487 2.17613 3.58959 3.21998 3.46586 3.30867 3.02226 2.72665 2.91077 2.48360 4.53883 3.34950 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05024 3.41184 4.13418 0.61958 0.77255 0.48576 0.95510\n- 7 2.50239 4.04038 3.06258 2.92844 3.15289 2.82323 3.78604 2.64179 2.85487 2.17613 3.58959 3.21998 3.46'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40721 4.12956 0.61958 0.77255 0.48576 0.95510\n- 614 2.46406 3.95567 2.80489 2.73624 3.28948 2.64053 3.71311 2.82865 2.80036 2.52197 3.75448 3.10604 3.31264 3.23229 2.96134 2.67153 2.87816 2.61669 4.49699 3.44641 2031 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05048 3.40721 4.12956 0.61958 0.77255 0.48576 0.95510\n- 615 2.41157 3.96907 2.91864 2.83997 3.25006 2.69969 3.74844 2.76820 2.83218 2.44603 3.69913 3.13983 3.32065 3.26738 2.99403 2.63429 2.86288 2.56989 4.52763 3.42431 2032 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40647 4.12882 0.61958 0.77255 0.48576 0.95510\n- 616 2.43573 3.96951 2.93217 2.85203 3.19640 2.68638 3.74807 2.74921 2.84117 2.42930 3.68634 3.15100 3.36137 3.27449 3.00126 2.66583 2.84720 2.55567 4.51319 3.40314 2033 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05051 3.40647 4.12882 0.61958 0.77255 0.48576 0.95510\n- 617 2.46882 3.90771 2.93892 2.84886 3.22055 2.62169 3.71364 2.79365 2.84131 2.43877 3.70634 3.11283 3.23392 3.27482 2.97411 2.69168 2.88830 2.59941 4.42496 3.39659 2034 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05063 3.40418 4.12652 0.61958 0.77255 0.48576 0.95510\n- 618 2.49108 3.89454 2.95692 2.86965 3.19516 2.61128 3.71303 2.76363 2.85939 2.37332 3.67669 3.16997 3.26048 3.29095 2.98098 2.72184 2.90750 2.58302 4.39425 3.38472 2035 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05067 3.40340 4.12574 0.61958 0.77255 0.48576 0.95510\n- 619 2.48426 3.87400 2.93783 2.85565 3.21515 2.55842 3.70136 2.79656 2.85447 2.42801 3.70531 3.15763 3.23165 3.28346 2.97115 2.71438 2.90225 2.60611 4.37989 3.39903 2036 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05067 3.40340 4.12574 0.61958 0.77255 0.48576 0.95510\n- 620 2.47468 3.90773 2.95099 2.86172 3.20442 2.62635 3.71874 2.76917 2.85293 2.40835 3.68590 3.16039 3.27848 3.28514 2.98300 2.67759 2.89394 2.58268 4.41970 3.38782 2037 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05067 3.40340 4.12574 0.61958 0.77255 0.48576 0.95510\n- 621 2.48846 3.89007 2.94495 2.85836 3.20587 2.60124 3.70586 2.78635 2.84795 2.40846 3.68931 3.16088 3.25074 3.28154 2.93745 2.71707 2.90484 2.60152 4.39158 3.39194 2038 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03439 3.38711 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2276 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd__DndD\n-LENG 751\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:15 2021\n-NSEQ 2455\n-EFFN 5.932779\n-CKSUM 3222775959\n-GA 78 78;\n-STATS LOCAL MSV -12.3510 0.69640\n-STATS LOCAL VITERBI -13.3545 0.69640\n-STATS LOCAL FORWARD -6.4245 0.69640\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55207 4.77479 2.89629 2.44175 3.40871 3.08412 3.74737 2.80426 2.52156 2.32301 3.86776 2.99566 3.64365 2.88161 2.86150 2.63373 2.85950 2.87189 4.99550 3.59920\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05018 3.41293 4.13528 0.61958 0.77255 0.00000 *\n- 1 2.48700 4.15482 3.20249 2.99770 3.13852 3.03678 3.86008 2.50967 2.83870 2.18582 3.22893 3.27252 3.66693 3.31532 3.04489 2.71286 2.88680 2.37059 4.69966 3.36995 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05018 3.41293 4.13528 0.61958 0.77255 0.48576 0.95510\n- 2 2.51061 4.19267 2.95546 2.80011 3.11958 2.96711 3.73553 2.75018 2.72771 2.35794 3.60819 3.13070 3.59849 3.08510 2.94802 2.69287 2.90108 2.58648 4.61152 3.14110 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05018 3.41293 4.13528 0.61958 0.77255 0.48576 0.95510\n- 3 2.46068 4.01856 2.54357 2.69268 3.35526 2.70083 3.70889 2.89931 2.78468 2.62480 3.81439 3.04662 3.35456 3.18817 2.98316 2.64636 2.86935 2.66618 4.57520 3.48354 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05018 3.41293 4.13528 0.61958 0.77255 0.48576 0.95510\n- 4 2.39289 4.07592 2.75246 2.73532 3.33510 2.79961 3.75327 2.84214 2.77206 2.60731 3.78417 3.05913 3.46663 3.19791 2.99243 2.49999 2.81503 2.60430 4.69387 3.45537 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05018 3.41293 4.13528 0.61958 0.77255 0.48576 0.95510\n- 5 2.36903 4.05341 2.95061 2.82651 3.28479 2.80804 3.78467 2.79260 2.80091 2.52949 3.73579 3.11200 3.48211 3.24584 3.00460 2.42461 2.80231 2.56714 4.68493 3.42461 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05018 3.41293 4.13528 0.61958 0.77255 0.48576 0.95510\n- 6 2.60427 4.29049 3.46560 3.13464 3.09208 3.35936 3.95461 2.32281 2.87871 1.94088 2.97820 3.42256 3.91479 3.36233 3.11082 2.86063 2.95706 2.23048 4.80335 3.41423 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04872 3.44176 4.16411 0.61958 0.77255 0.48576 0.95510\n- 7 2.38549 4.27952 2.73313 2.57478 3.57990 2.95931 3.71292 3.07481 2.47576 2.86379 3.89640 2.72844 3.6148'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04847 3.44672 4.16907 0.61958 0.77255 0.48576 0.95510\n- 744 2.48316 4.20920 3.38295 3.11638 3.16241 3.21761 3.97715 2.27274 2.93467 2.10376 3.39574 3.36773 3.83531 3.39252 3.16663 2.73184 2.87835 2.13771 4.85550 3.45064 1645 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06149 3.43425 3.59752 0.61958 0.77255 0.48576 0.95510\n- 745 2.29924 4.09125 2.94219 2.79839 3.44682 2.79385 3.83126 2.81123 2.76947 2.62047 3.77059 3.07971 3.54943 3.21737 3.00447 2.44155 2.63186 2.55641 4.89981 3.58987 1646 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04969 3.42245 4.14479 0.61958 0.77255 0.49265 0.94419\n- 746 2.37553 4.19114 2.85746 2.60877 3.47083 2.94188 3.80220 2.75603 2.69406 2.53573 3.71740 3.05881 3.59804 3.15907 2.94163 2.59309 2.75901 2.54130 4.91883 3.63987 1647 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04969 3.42245 4.14479 0.61958 0.77255 0.49265 0.94419\n- 747 2.42128 4.08145 3.01446 2.87549 3.21032 2.86582 3.79566 2.69446 2.81433 2.35260 3.65330 3.16131 3.52580 3.26968 3.01373 2.55477 2.84300 2.50302 4.65329 3.37274 1648 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37886 2.77519 2.98518 4.58477 3.61503\n- 0.06042 3.15535 4.13469 0.59627 0.80043 0.48556 0.95543\n- 748 2.38568 3.92837 2.88331 2.78627 3.42830 2.25902 3.73629 2.99829 2.81129 2.70517 3.87301 3.08791 3.29010 3.23545 2.97481 2.58552 2.81954 2.72772 4.56803 3.56411 1650 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04982 3.41991 4.14226 0.61958 0.77255 0.48829 0.95107\n- 749 2.39243 4.17307 2.71075 2.59140 3.45077 2.88177 3.75018 2.89048 2.69138 2.69543 3.82045 3.00087 3.54546 3.12755 2.94776 2.47583 2.80342 2.63625 4.85048 3.55024 1651 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04982 3.41991 4.14226 0.61958 0.77255 0.48419 0.95763\n- 750 2.53569 4.26152 3.14167 2.92413 3.00976 3.15795 3.78748 2.57581 2.79846 2.23377 3.49656 3.23117 3.76425 3.26059 3.03552 2.73671 2.91296 2.37086 4.62389 3.00667 1652 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04960 3.42426 4.14661 0.61958 0.77255 0.48576 0.95510\n- 751 2.15585 4.06500 3.01155 2.87715 3.38555 2.84998 3.86549 2.69319 2.85432 2.44577 3.67442 3.15600 3.52563 3.29030 3.06371 2.57416 2.80202 2.48695 4.81187 3.59744 1653 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03366 3.40832 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dnd__DndE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,605 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dnd__DndE\n-LENG 194\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Jul 30 16:00:19 2021\n-NSEQ 1300\n-EFFN 6.342697\n-CKSUM 2365269988\n-GA 35 35;\n-STATS LOCAL MSV -10.6541 0.70573\n-STATS LOCAL VITERBI -11.2154 0.70573\n-STATS LOCAL FORWARD -4.7327 0.70573\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52935 4.28272 2.98428 2.66157 3.51334 2.97385 3.64347 2.83041 2.60534 2.29668 3.58598 3.01762 3.52630 3.07230 2.81626 2.61318 2.76685 2.79447 4.52118 3.68177\n- 2.68608 4.42210 2.77522 2.73125 3.46349 2.40515 3.72488 3.29356 2.67743 2.69357 4.24678 2.90349 2.73738 3.18148 2.89799 2.37887 2.77522 2.98520 4.58479 3.61505\n- 0.14891 2.95160 2.45228 1.07103 0.41955 0.00000 *\n- 1 2.47527 4.33013 3.31303 2.88245 3.43717 3.39208 3.84014 2.53657 2.54063 2.27284 2.78912 3.25250 3.88369 3.12524 2.92119 2.77070 2.85693 2.37848 5.00451 3.72777 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04377 3.54642 4.26877 0.61958 0.77255 0.52977 0.88853\n- 2 2.41865 4.41784 2.56607 2.42072 3.92021 2.78628 3.71247 3.46936 2.53507 3.15697 4.06671 2.19777 3.62244 2.96614 2.90360 2.50989 2.80451 3.08590 5.24004 3.89617 13 n - - -\n- 2.68609 4.42226 2.77520 2.73124 3.46355 2.40514 3.72495 3.29355 2.67742 2.69353 4.24691 2.90345 2.73740 3.18147 2.89802 2.37888 2.77519 2.98519 4.58478 3.61504\n- 0.10515 2.45555 4.26877 0.63936 0.74999 0.52977 0.88853\n- 3 2.27637 4.18482 3.29007 2.84781 3.62718 3.17242 3.84242 2.75496 2.72901 2.58796 3.06415 3.17486 3.59161 3.12164 3.04550 2.46759 2.40082 2.50015 5.08475 3.84008 16 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04122 3.60516 4.32751 0.61958 0.77255 0.45919 0.99911\n- 4 2.99513 4.60348 4.47647 3.93484 3.68324 4.07253 4.55040 2.72111 3.65845 2.47221 0.82262 4.13671 4.51679 4.01833 3.68682 3.32376 3.06939 2.69592 5.30585 4.12287 17 m - - -\n- 2.68626 4.42239 2.77526 2.73041 3.46367 2.40525 3.72507 3.29362 2.67732 2.69348 4.24697 2.90357 2.73749 3.18140 2.89802 2.37892 2.77526 2.98528 4.58490 3.61517\n- 0.42445 1.07276 5.57019 0.21221 1.65442 0.48576 0.95510\n- 5 2.93496 4.69657 4.28478 3.79032 3.68510 4.20269 3.88881 3.13503 3.56398 1.67124 1.26949 4.01738 2.99718 3.35628 3.95990 2.83644 3.23738 2.88187 5.29931 3.94976 31 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14592 5.45532 2.02875 0.61958 0.77255 0.48576 0.95510\n- 6 2.89997 4.77559 3.42487 2.88010 4.24679 3.63205 3.79075 2.98530 2.89098 3.37930 3.46809 2.62737 1.44635 3.06980 3.32286 2.22900 2.73397 3.44187 5.70111 4.19342 32 p - - -\n- 2.68620 4.42229 2.77523 2.73123 3.46357 2.40509 3.72498 3.29337 2.67740 2.69350 4.24693 2.90348 2.73743 3.18144 2.89804 2.37887 2.77523 2.98513 4.58481 3.61507\n- 0.36807 2.92440 1.36951 0.41246 1.08476 0.28003 1.40961\n- 7 3.01211 4.32803 4.47887 4.08903 2.52234 4.16451 2.89309 1.35073 3.46771 2.07252 3.37025 3.81378 4.56795'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04692 3.47850 4.20085 0.61958 0.77255 0.48576 0.95510\n- 187 2.59081 4.39208 3.04561 2.75315 3.41106 3.23867 3.73762 2.73571 2.29883 2.27024 3.62013 3.13065 3.79196 3.04979 2.73293 2.75441 2.91432 2.55601 4.91081 3.55634 316 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06498 3.47850 3.44013 0.61958 0.77255 0.48576 0.95510\n- 188 2.32778 4.16955 3.06950 2.81098 3.11096 3.02835 3.79432 2.81731 2.77365 2.56678 3.65512 3.11087 3.36386 3.17294 3.05868 2.40702 2.72839 2.57022 4.85080 3.42951 317 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06650 3.46128 3.41299 0.61958 0.77255 0.49623 0.93860\n- 189 2.58751 4.33290 2.81670 2.63626 3.07661 3.01374 2.77250 3.18490 2.53667 2.72382 3.83494 3.01624 3.61555 3.03839 2.78110 2.70650 2.93777 2.94587 4.51866 3.08388 318 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04864 3.44342 4.16576 0.61958 0.77255 0.50677 0.92240\n- 190 2.55440 4.41095 2.64624 2.33651 3.70183 3.03312 3.66860 3.05130 2.29708 2.80179 3.86551 2.91700 3.63926 2.95004 2.70752 2.66408 2.89718 2.80277 5.02695 3.76244 319 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04864 3.44342 4.16576 0.61958 0.77255 0.50677 0.92240\n- 191 2.61622 4.29650 3.55574 3.19012 3.10116 3.43650 4.00357 2.16226 2.92896 1.93707 3.06663 3.47450 3.97415 3.40020 3.16822 2.89186 2.96181 2.14436 4.84923 3.45648 320 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04864 3.44342 4.16576 0.61958 0.77255 0.50677 0.92240\n- 192 2.65149 4.23457 3.41235 3.16281 2.35980 3.23428 3.82302 2.44646 3.08952 2.03743 3.35600 3.42819 3.80842 3.45081 3.30151 2.89895 3.01240 2.35430 4.41484 2.95345 321 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04864 3.44342 4.16576 0.61958 0.77255 0.50677 0.92240\n- 193 2.53633 4.28454 2.80880 2.63053 3.55705 2.96498 3.69552 2.99673 2.12129 2.70631 3.82703 3.01661 3.58238 3.03014 2.72019 2.67888 2.89959 2.76288 4.86616 3.64975 322 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04864 3.44342 4.16576 0.61958 0.77255 0.50677 0.92240\n- 194 2.59923 4.21133 3.27910 3.06054 3.08568 3.12750 3.88200 2.46642 2.88995 1.86819 3.44143 3.35077 3.73065 3.36448 3.09137 2.83888 2.97616 2.35063 4.65870 3.32503 323 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03300 3.42778 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dodola__DolA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dodola__DolA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,797 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Dodola__DolA\n-LENG 258\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:49 2021\n-NSEQ 649\n-EFFN 2.213310\n-CKSUM 263180555\n-GA 10 10;\n-STATS LOCAL MSV -10.8874 0.70262\n-STATS LOCAL VITERBI -11.7709 0.70262\n-STATS LOCAL FORWARD -4.7797 0.70262\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59729 4.69419 2.85282 2.59319 3.24548 2.96171 3.87304 2.73911 2.54960 2.46136 3.55353 2.90230 3.74028 3.06680 3.06121 2.59699 2.78712 2.71424 5.20550 3.32777\n- 2.68688 4.42204 2.77590 2.73153 3.46198 2.40566 3.72615 3.28991 2.67628 2.69289 4.24320 2.90351 2.73852 3.18210 2.89868 2.37933 2.77575 2.98442 4.58597 3.61434\n- 0.90762 1.11327 1.31665 2.40934 0.09417 0.00000 *\n- 1 2.64155 4.89071 2.84404 2.20594 4.13701 3.41372 3.68739 3.55847 2.34680 2.32718 3.17154 2.76912 3.87529 2.80208 2.94652 2.38866 2.75473 3.18973 5.38754 4.04576 49 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06820 4.37139 2.93198 0.61958 0.77255 0.75246 0.63715\n- 2 2.30020 4.99683 2.95354 2.37288 4.27493 3.47196 3.66864 3.71526 2.12919 3.27317 3.27662 2.70259 3.64870 2.73164 2.86293 2.39132 2.36228 3.30766 5.47280 4.10771 50 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04047 4.39674 3.59912 0.61958 0.77255 0.77274 0.61943\n- 3 2.52952 5.10493 2.88608 2.12638 3.90681 3.39525 3.59830 3.78419 1.97093 3.33696 3.83208 2.43362 3.70300 2.69636 2.78362 2.54290 2.76741 3.36307 5.55739 4.05599 51 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04305 4.42499 3.50106 0.61958 0.77255 0.78716 0.60722\n- 4 2.61597 5.09263 2.82790 2.24762 3.89538 3.36607 3.65774 3.86014 2.17698 3.38172 3.93251 2.50992 3.59494 2.66910 2.89479 2.32375 2.31095 3.28656 5.54870 4.16173 52 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01785 4.43032 5.15267 0.61958 0.77255 0.41435 1.08107\n- 5 2.75597 4.21495 4.66801 4.06319 2.69287 3.99518 4.32135 1.73406 3.87804 1.65010 2.14306 3.89894 4.09923 4.02330 3.92891 3.30388 3.06033 2.35566 4.83174 3.56439 53 l - - -\n- 2.68624 4.42231 2.77520 2.73124 3.46314 2.40513 3.72501 3.29360 2.67738 2.69353 4.24654 2.90353 2.73734 3.18152 2.89807 2.37893 2.77523 2.98524 4.58483 3.61474\n- 0.09014 2.50799 5.34628 0.93689 0.49732 0.48307 0.95942\n- 6 2.74996 3.90142 3.35453 2.79271 3.86462 3.19620 3.87561 2.59362 1.94877 2.49983 3.23472 2.86966 4.03540 2.95889 2.77079 2.69268 2.95465 2.72808 5.23836 3.96116 61 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01419 4.65799 5.38034 0.61958 0.77255 0.52398 0.89687\n- 7 3.94686 5.77848 4.17036 3.71577 5.36489 4.25945 4.49883 4.87650 0.32128 4.28925 5.26628 4.07866 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.69040 5.41274 0.61958 0.77255 0.50014 0.93253\n- 251 4.11693 6.14891 0.23279 3.22550 5.69599 4.06782 4.94866 5.52585 4.21790 4.98989 6.04965 3.80139 4.77112 4.23161 4.79048 4.03061 4.48903 5.09349 6.65832 5.52039 408 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.69040 5.41274 0.61958 0.77255 0.50014 0.93253\n- 252 3.33577 4.77058 5.59974 5.14588 4.19002 5.11841 5.91251 1.37122 5.08251 2.63526 3.92527 5.29766 5.38238 5.35658 5.26043 4.55579 3.82177 0.67146 6.28220 5.05106 409 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.69040 5.41274 0.61958 0.77255 0.50014 0.93253\n- 253 3.59151 4.81845 5.60266 5.07545 3.37204 5.07065 5.56242 0.93257 4.97076 1.57875 3.51993 5.21498 5.25963 5.07082 5.03930 4.46073 3.83111 1.58522 5.80945 4.69389 410 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.69040 5.41274 0.61958 0.77255 0.50014 0.93253\n- 254 3.11942 3.91374 4.94065 4.34473 3.14905 4.31337 4.61786 2.30066 4.17217 0.83904 3.24974 4.42343 4.62106 4.28428 4.22048 3.63147 3.34732 2.30956 5.04953 3.09297 411 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.69040 5.41274 0.61958 0.77255 0.50014 0.93253\n- 255 0.45156 4.51935 4.40649 4.20150 4.91849 3.15265 5.05605 4.16972 4.17969 4.00995 4.86049 4.01298 4.16901 4.41557 4.35650 2.83322 2.93141 3.37576 6.31269 5.17916 412 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.69040 5.41274 0.61958 0.77255 0.50014 0.93253\n- 256 2.53612 3.10353 4.19947 3.83058 4.33803 0.70170 4.67356 3.75327 3.76323 3.49793 4.37602 3.87958 4.17414 4.04718 4.01028 2.88995 3.13914 3.33811 5.77507 3.79620 413 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.69040 5.41274 0.61958 0.77255 0.50014 0.93253\n- 257 3.59512 4.80277 5.65107 5.20670 4.17796 5.18499 5.99315 1.43445 5.14449 2.59297 3.91041 5.36654 5.43161 5.41725 5.32238 4.63528 3.86463 0.62368 6.31672 5.08400 414 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06566 4.69040 2.91198 0.61958 0.77255 0.50014 0.93253\n- 258 2.63555 5.20736 2.71809 1.85241 4.53395 3.46129 3.71168 3.42562 1.83832 3.50463 3.94683 2.88382 3.91575 2.78668 2.79135 2.56666 2.82055 3.30209 5.65116 4.07815 415 k - - -\n- 2.68624 4.42255 2.77503 2.73037 3.46398 2.40506 3.72497 3.29371 2.67745 2.69386 4.24734 2.90271 2.73777 3.18151 2.89824 2.37887 2.77547 2.98494 4.58521 3.61523\n- 0.58344 0.81639 * 1.25236 0.33664 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dodola__DolB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dodola__DolB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1148 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Dodola__DolB\n-LENG 375\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:49 2021\n-NSEQ 649\n-EFFN 1.866707\n-CKSUM 3604036852\n-GA 10 10;\n-STATS LOCAL MSV -11.4974 0.69965\n-STATS LOCAL VITERBI -12.3640 0.69965\n-STATS LOCAL FORWARD -5.6210 0.69965\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65967 4.54768 2.91904 2.56076 3.12203 3.11568 3.75030 2.69140 2.57926 2.46061 3.61387 2.92539 3.59689 2.99329 2.98452 2.61950 2.84009 2.69690 5.16923 3.37466\n- 2.68615 4.42241 2.77535 2.73128 3.46357 2.40523 3.72495 3.29367 2.67757 2.69371 4.24268 2.90351 2.73750 3.18153 2.89812 2.37879 2.77515 2.98517 4.58454 3.61519\n- 0.67664 1.39655 1.40964 0.88001 0.53577 0.00000 *\n- 1 2.58945 4.73303 2.48161 2.51527 3.94694 3.30798 3.70050 3.21190 2.50849 2.98142 2.41190 2.93184 3.87595 2.87574 2.86578 2.54882 2.77551 2.87104 5.25718 3.94513 13 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07455 4.27965 2.84752 0.61958 0.77255 0.38101 1.14940\n- 2 2.64232 4.74246 2.97334 2.50404 3.94345 3.50964 3.76859 3.02132 2.38330 2.90653 2.32895 2.80270 3.94117 2.95590 3.05755 2.54418 2.53001 2.90486 5.27249 3.70531 14 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.47270 4.56271 0.61958 0.77255 0.44746 1.01958\n- 3 2.68014 5.21071 2.75871 2.06674 4.55083 3.30900 3.67468 4.03206 1.84248 3.51287 3.82898 2.61238 3.88137 2.68117 2.41697 2.53290 2.82267 3.59882 5.64527 4.23902 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01608 4.53374 5.25608 0.61958 0.77255 0.50631 0.92311\n- 4 2.58244 4.16368 4.33282 3.74110 2.71680 3.85580 4.17385 1.54208 3.41457 2.31416 3.22068 3.52913 4.22281 3.79704 3.73312 2.94359 2.84322 1.91678 4.79373 3.60659 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01601 4.53833 5.26067 0.61958 0.77255 0.51155 0.91521\n- 5 2.70781 4.49700 3.09372 2.38108 3.78007 3.56077 2.96893 2.85053 2.29056 2.84248 3.89579 2.69432 3.94912 2.88779 3.00344 2.65353 2.68725 2.77731 5.33795 3.06817 17 k - - -\n- 2.68621 4.42229 2.77523 2.73127 3.46357 2.40516 3.72444 3.29358 2.67735 2.69358 4.24693 2.90350 2.73743 3.18150 2.89804 2.37887 2.77515 2.98517 4.58462 3.61486\n- 0.17199 1.87850 5.26067 0.22609 1.59775 0.50223 0.92932\n- 6 3.37143 4.61936 5.33409 4.81609 3.84657 4.84299 5.39226 1.02264 4.71607 1.97007 3.57155 4.96320 5.09674 4.92137 4.84780 4.22514 3.23004 1.28172 5.79560 4.61393 19 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01596 4.54156 5.26391 0.61958 0.77255 0.50592 0.92369\n- 7 2.86821 3.97233 4.59343 4.01803 1.79405 3.99391 3.93936 2.30322 3.84294 2.37829 3.35423 4.0518'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01589 4.54553 5.26788 0.61958 0.77255 0.53715 0.87805\n- 368 2.48874 4.00062 4.53066 3.92569 2.26913 3.86946 4.19598 2.09769 3.53244 1.94383 3.08414 3.98153 4.23387 3.90213 3.80401 3.10237 2.70014 1.88336 4.73570 3.23584 471 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.54553 4.20742 0.61958 0.77255 0.53715 0.87805\n- 369 2.64537 5.20021 2.69798 1.76019 4.53696 3.48657 3.67436 4.01653 2.21549 3.16972 4.10257 2.69938 3.88017 2.55067 2.54717 2.46236 2.91756 3.54682 5.30780 4.23235 472 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01605 4.53576 5.25810 0.61958 0.77255 0.52644 0.89332\n- 370 2.47250 4.52103 2.27433 2.26955 4.48189 3.45272 3.38738 3.57423 2.29313 3.17892 4.20855 2.60481 3.88734 2.66674 2.73096 2.40734 2.82987 3.27142 5.60899 4.10289 473 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04378 4.54525 3.43529 0.61958 0.77255 0.53763 0.87738\n- 371 2.63546 4.39686 3.61358 2.43509 3.12821 3.46818 3.81729 2.60004 2.91841 1.88767 3.12752 3.26956 4.01908 3.16815 3.14079 2.70111 2.89065 2.49430 4.67193 3.68672 474 l - - -\n- 2.68619 4.42226 2.77514 2.73124 3.46355 2.40514 3.72471 3.29355 2.67742 2.69351 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.10840 2.73609 3.27257 0.37511 1.16225 0.55695 0.85087\n- 372 2.69172 4.00808 4.13684 3.59709 2.94601 3.67186 3.94798 1.99321 3.58285 1.47032 3.06297 3.86843 4.18792 3.65420 3.70549 3.11685 2.82736 2.27130 4.74177 3.47830 476 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04054 4.48993 3.55742 0.61958 0.77255 0.61895 0.77330\n- 373 2.63895 5.04127 2.78654 2.08960 2.98205 3.28595 3.51284 3.37123 2.31451 3.11099 4.09810 2.62531 3.64934 2.70444 2.75217 2.59119 2.74661 3.39954 4.96490 4.13939 477 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11009 4.46660 2.37777 0.61958 0.77255 0.65255 0.73546\n- 374 2.54336 5.11464 2.69667 2.10931 4.05143 3.32006 3.60712 3.69988 2.05050 3.27720 4.16169 2.45108 3.73368 2.71321 2.78356 2.45778 2.81113 3.32772 5.56164 4.16540 478 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10940 4.35872 2.39871 0.61958 0.77255 0.71631 0.67051\n- 375 2.55785 4.96710 2.82304 2.19128 4.06014 3.32910 3.63861 3.42712 2.25396 3.14062 3.72946 2.67777 3.55524 2.76301 2.79988 2.46434 2.43398 3.28734 5.44273 3.70345 479 e - - -\n- 2.68631 4.42209 2.77435 2.73120 3.46392 2.40553 3.72522 3.29237 2.67749 2.69384 4.24700 2.90358 2.73740 3.18148 2.89835 2.37849 2.77526 2.98522 4.58514 3.61528\n- 0.67638 0.71020 * 1.67450 0.20752 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1253 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdA\n-LENG 410\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 12:59:59 2022\n-NSEQ 100\n-EFFN 0.778198\n-CKSUM 1633736271\n-GA 20 20;\n-STATS LOCAL MSV -11.4876 0.69909\n-STATS LOCAL VITERBI -12.2503 0.69909\n-STATS LOCAL FORWARD -6.0323 0.69909\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56363 4.19664 2.88034 2.65892 3.19809 2.88862 3.62140 2.87987 2.66418 2.49807 3.67897 3.11006 3.45898 3.01680 2.80325 2.67203 2.89234 2.66882 4.70068 3.30633\n- 2.68619 4.42229 2.77523 2.73126 3.46356 2.40517 3.72498 3.29358 2.67726 2.69358 4.24599 2.90351 2.73742 3.18149 2.89805 2.37880 2.77523 2.98522 4.58481 3.61507\n- 0.14114 2.29333 3.48355 0.88042 0.53548 0.00000 *\n- 1 3.16094 4.56660 4.56430 4.00516 3.14831 4.33626 4.65378 2.10503 3.84031 1.47691 1.50378 4.29479 4.59423 4.05828 4.02695 3.66963 3.39511 2.14278 5.13954 4.01624 11 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.03848 4.76082 0.61958 0.77255 0.51009 0.91740\n- 2 3.02661 5.18447 3.33339 2.68007 4.62834 3.64394 3.62227 3.97974 1.18149 3.42915 4.28634 3.10291 4.02335 2.75531 1.91487 3.01447 3.20069 3.65128 5.48212 4.29197 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.03848 4.76082 0.61958 0.77255 0.51009 0.91740\n- 3 3.58471 4.85013 4.59574 4.26874 0.96995 4.36422 3.53205 3.22781 4.11736 2.55713 3.83518 4.07801 4.68076 4.11747 4.16782 3.73736 3.81194 3.17048 3.68320 1.64417 13 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.03848 4.76082 0.61958 0.77255 0.51009 0.91740\n- 4 3.65935 4.89085 4.64671 4.33729 1.21373 4.40658 3.48355 3.33997 4.18234 2.66721 3.93594 4.08712 4.71449 4.14541 4.21171 3.77667 3.88107 3.26691 3.62175 1.20524 14 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.03848 4.76082 0.61958 0.77255 0.51009 0.91740\n- 5 3.39540 4.75862 4.54362 4.18337 1.01094 4.27171 3.92147 2.71095 4.02998 1.92938 3.41564 4.18652 4.62986 4.14591 4.13233 3.70192 3.65967 2.74115 4.12577 2.47538 15 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.03848 4.76082 0.61958 0.77255 0.51009 0.91740\n- 6 2.98617 4.71276 3.61178 3.47691 4.45306 3.39101 4.53835 4.04416 3.54900 3.65177 4.71061 3.76554 0.56966 3.93268 3.77330 3.15949 3.44136 3.67009 5.59122 4.57690 16 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.03848 4.76082 0.61958 0.77255 0.51009 0.91740\n- 7 3.17586 5.32022 0.70626 2.45335 4.72141 3.34356 4.08818 4.34906 3.20540 3.92895 4.91357 3.01696 4.00835'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06106 4.78341 0.61958 0.77255 0.48576 0.95510\n- 403 2.58963 4.48170 3.21489 2.44374 3.65363 3.36923 3.71883 2.76304 2.57077 2.09342 3.57758 3.08020 3.87902 2.80404 2.94743 2.68768 2.63720 2.77259 5.03614 3.77130 489 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06106 4.78341 0.61958 0.77255 0.48576 0.95510\n- 404 2.55668 4.68907 2.93153 2.47950 3.84059 3.25527 3.60348 3.24991 2.36409 2.47220 3.76826 2.91270 3.43308 2.75819 2.70126 2.55256 2.62835 2.89079 5.20899 3.89534 490 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04273 4.06106 3.70516 0.61958 0.77255 0.48576 0.95510\n- 405 2.40139 4.53464 3.11432 2.55609 3.07412 3.00880 3.57629 3.08446 2.53672 2.62318 3.62539 2.93706 3.74199 2.80700 2.95607 2.47958 2.73579 2.77023 5.08169 3.79891 491 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05545 4.04470 3.31260 0.61958 0.77255 0.50350 0.92738\n- 406 2.41673 4.86977 2.88939 2.29093 4.13739 3.17623 3.44958 3.56805 2.24465 2.92357 3.93485 2.88092 3.50943 2.62772 2.59269 2.51114 2.63003 3.21871 5.35086 3.99886 492 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15002 4.01639 2.10955 0.61958 0.77255 0.53282 0.88419\n- 407 2.49438 4.66694 2.87674 2.42261 3.88789 3.17987 3.60138 3.08203 2.36537 2.83609 3.66287 2.92744 3.69098 2.73303 2.60536 2.45980 2.70821 2.94471 5.18480 3.82222 493 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61934 0.61958 0.77255 0.64007 0.74920\n- 408 2.47577 4.77122 2.75140 2.34447 3.95399 3.28780 3.52255 3.43698 2.31452 2.90186 3.79670 2.85861 3.43386 2.64890 2.78450 2.39411 2.70609 3.06017 5.27007 3.85643 494 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04225 3.89699 3.85987 0.61958 0.77255 0.64007 0.74920\n- 409 2.44661 4.85360 2.77431 2.18053 4.12151 3.18462 3.56703 3.55308 2.29250 3.12590 3.92428 2.77798 3.58253 2.57717 2.73008 2.50215 2.70008 3.07183 5.33965 3.92879 495 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07856 3.88572 2.90011 0.61958 0.77255 0.64902 0.73931\n- 410 2.37176 4.61041 2.75746 2.20867 3.97024 3.28149 3.58073 3.31236 2.36285 2.92229 3.80917 2.89926 3.60172 2.73615 2.76105 2.55894 2.65358 3.01498 5.23951 3.90899 496 e - - -\n- 2.68579 4.42253 2.77539 2.73120 3.46374 2.40520 3.72499 3.29369 2.67748 2.69362 4.24707 2.90361 2.73741 3.18140 2.89774 2.37888 2.77488 2.98518 4.58487 3.61523\n- 0.39073 1.12874 * 1.75649 0.18953 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1223 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdB\n-LENG 400\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:00 2022\n-NSEQ 100\n-EFFN 0.973511\n-CKSUM 3374776433\n-GA 20 20;\n-STATS LOCAL MSV -11.6087 0.69924\n-STATS LOCAL VITERBI -12.1383 0.69924\n-STATS LOCAL FORWARD -6.2802 0.69924\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52136 4.53236 2.94860 2.68242 3.37030 2.95812 3.70053 2.79922 2.67689 2.41403 3.61695 3.04123 3.34777 2.98026 2.84200 2.65862 2.85840 2.65114 4.34910 3.56831\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04068 3.61800 4.34035 0.61958 0.77255 0.00000 *\n- 1 2.78363 4.38387 3.77099 3.36389 3.13325 3.62942 4.15915 2.28692 3.13776 1.79040 1.98846 3.66690 4.10660 3.54892 3.36932 3.09714 3.09342 2.25658 4.92701 3.65262 1 l - - -\n- 2.68615 4.42232 2.77517 2.73131 3.46319 2.40519 3.72502 3.29365 2.67747 2.69362 4.24703 2.90348 2.73734 3.18149 2.89792 2.37883 2.77513 2.98518 4.58456 3.61506\n- 0.11100 2.38564 4.34035 1.96893 0.15037 0.48576 0.95510\n- 2 2.36939 4.24159 3.11970 2.82258 3.75126 3.09205 3.88451 2.86151 2.62763 2.67534 3.75519 3.14204 3.72406 3.15768 2.98299 2.54858 1.97527 2.59502 5.20573 3.92475 107 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10727 3.61800 2.59184 0.61958 0.77255 0.48576 0.95510\n- 3 2.61066 4.60752 2.94951 2.41971 3.85375 3.33793 3.45269 3.25294 2.15027 2.88010 3.61867 2.95877 3.78076 2.75761 2.29523 2.66015 2.79241 2.97348 5.11123 3.83695 108 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04343 3.55415 4.27650 0.61958 0.77255 0.52862 0.89018\n- 4 2.53106 4.56269 2.85368 2.50424 3.87885 3.25902 3.61646 3.12835 2.11290 2.86146 3.79622 2.94938 3.76270 2.63547 2.55329 2.66435 2.72105 2.92254 5.17489 3.89619 109 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07177 3.55415 3.20277 0.61958 0.77255 0.52862 0.89018\n- 5 2.59569 4.61465 2.72350 2.42687 3.84626 3.06244 3.19732 3.37793 2.12077 2.98864 3.88022 2.88552 3.73893 2.78922 2.49156 2.65878 2.83118 3.07140 5.12829 3.80029 110 k - - -\n- 2.68622 4.42236 2.77513 2.73130 3.46364 2.40514 3.72483 3.29336 2.67744 2.69346 4.24700 2.90357 2.73734 3.18150 2.89790 2.37892 2.77526 2.98513 4.58488 3.61494\n- 0.10733 2.43615 4.24938 1.87178 0.16706 0.47755 0.96838\n- 6 2.52832 4.54363 2.85528 2.38944 3.94460 3.22607 3.62075 3.29442 2.29736 2.94614 3.82979 2.93456 3.42610 2.81768 2.37860 2.61252 2.58017 2.98599 5.20940 3.93791 150 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04179 3.59181 4.31416 0.61958 0.77255 0.50390 0.92677\n- 7 2.04134 4.08858 3.03995 2.78711 3.94635 2.87246 3.90501 3.19050 2.80004 3.01486 3.90962 2.94940 3.57318'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05334 3.58747 3.71833 0.61958 0.77255 0.52989 0.88836\n- 393 2.50416 4.60174 2.55001 2.30398 3.93907 3.08620 3.45448 3.38313 2.36907 3.01129 3.87900 2.82782 3.70503 2.80480 2.58377 2.46683 2.82776 3.06001 5.22457 3.90659 915 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05894 3.54335 3.56417 0.61958 0.77255 0.53699 0.87829\n- 394 2.36553 4.48703 2.89685 2.56099 3.85477 3.19166 3.63189 3.23239 2.21999 2.87684 3.82477 2.97118 3.73382 2.77618 2.30295 2.62892 2.83541 2.94394 5.15483 3.87286 916 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04456 3.52897 4.25131 0.61958 0.77255 0.52212 0.89959\n- 395 2.42394 4.37634 2.89972 2.58163 3.77678 2.94779 3.65495 3.25877 2.34859 2.85968 3.84962 2.88305 3.68208 2.89776 2.41042 2.48538 2.76749 2.92781 5.10691 3.78551 917 k - - -\n- 2.68615 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67739 2.69356 4.24691 2.90344 2.73741 3.18148 2.89796 2.37884 2.77521 2.98518 4.58478 3.61504\n- 0.12356 2.28463 4.23943 0.66369 0.72349 0.49345 0.94294\n- 396 2.61753 4.51648 3.06901 2.67040 3.69317 3.26678 3.61751 3.14843 2.14257 2.69637 3.79119 3.05753 3.77915 2.85732 2.06099 2.72790 2.90589 2.90483 5.02236 3.71989 922 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04482 3.52330 4.24565 0.61958 0.77255 0.50858 0.91967\n- 397 2.20815 4.20696 2.95376 2.67962 3.76177 2.81490 3.78818 3.03636 2.61969 2.67811 3.77808 3.01896 3.64226 2.97643 2.92192 2.40279 2.60941 2.71911 5.16924 3.87413 923 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04482 3.52330 4.24565 0.61958 0.77255 0.50858 0.91967\n- 398 2.00070 4.08321 2.99404 2.82531 3.65177 2.87712 3.91255 2.84955 2.82484 2.72711 3.81047 3.08196 3.58679 3.23991 3.08748 2.31677 2.66891 2.55749 5.14423 3.81791 924 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04734 3.46971 4.19206 0.61958 0.77255 0.50858 0.91967\n- 399 2.34521 4.26416 2.96858 2.72469 3.54839 3.01744 3.73323 2.97986 2.48070 2.64975 3.75687 3.06375 3.64046 3.04478 2.40004 2.59509 2.81928 2.73756 4.95045 3.66230 925 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04799 3.45643 4.17877 0.61958 0.77255 0.50858 0.91967\n- 400 2.32388 4.19493 2.87814 2.71879 3.48182 2.94178 3.78260 2.81489 2.50349 2.58010 3.74223 3.05836 3.59437 3.13589 2.88555 2.58851 2.82037 2.58967 4.90881 3.63034 926 a - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89797 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.06029 2.83852 * 0.56162 0.84463 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,947 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdC\n-LENG 308\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:00 2022\n-NSEQ 66\n-EFFN 2.243774\n-CKSUM 3171915964\n-GA 20 20;\n-STATS LOCAL MSV -11.2241 0.70107\n-STATS LOCAL VITERBI -11.8463 0.70107\n-STATS LOCAL FORWARD -5.5265 0.70107\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41382 4.25999 3.01194 2.61651 3.52352 3.02869 3.68135 2.99434 2.64624 2.44423 3.69744 3.08591 3.52013 2.97378 2.76725 2.55595 2.78507 2.74618 4.05443 3.56024\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04942 4.70732 3.23932 0.61958 0.77255 0.00000 *\n- 1 3.85403 5.30167 5.06868 4.79761 3.88594 4.54703 5.35028 3.16510 4.52319 2.41310 0.40195 4.95744 5.06676 4.87259 4.61822 4.25005 4.20565 3.25535 5.77565 4.59620 1 M - - -\n- 2.68556 4.42236 2.77507 2.73123 3.46407 2.40523 3.72494 3.29385 2.67776 2.69377 4.24691 2.90370 2.73730 3.18146 2.89781 2.37872 2.77470 2.98519 4.58530 3.61556\n- 0.61397 1.49315 1.45183 1.94671 0.15402 0.55645 0.85154\n- 2 2.48079 5.06581 2.96372 2.41988 4.38071 3.08292 3.66757 3.83600 2.34721 3.36629 4.13447 2.51098 3.11853 2.67320 2.72545 2.08141 2.50525 3.44437 5.54025 4.15959 24 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01820 4.41105 5.13339 0.61958 0.77255 0.76564 0.62556\n- 3 2.59766 5.18187 2.75804 2.26687 4.51899 3.46754 3.24136 3.78954 2.22515 3.48332 4.22484 2.68261 3.37339 2.30860 2.27197 2.57484 2.75872 3.42465 5.61889 4.21364 25 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01709 4.47343 5.19578 0.61958 0.77255 0.84960 0.55789\n- 4 3.28407 4.55823 5.19141 4.65448 3.68210 4.68558 5.17088 1.39262 4.53792 1.52266 3.49625 4.79715 4.95139 4.71926 4.65398 4.05054 3.13016 1.27760 5.58754 4.42490 26 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01709 4.47343 5.19578 0.61958 0.77255 0.84960 0.55789\n- 5 2.62293 5.03146 2.96611 2.50768 4.39536 3.47675 2.02282 3.84185 2.55449 3.39968 4.19068 2.03488 3.54609 2.90818 3.02141 2.42580 2.75263 3.46060 5.59383 4.23013 27 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01709 4.47343 5.19578 0.61958 0.77255 0.84960 0.55789\n- 6 3.48753 4.72722 5.42205 4.88868 3.56914 4.93417 5.40388 1.41096 4.77655 1.13149 3.33684 5.05794 5.11818 4.87644 4.85688 4.31983 3.72525 1.51769 5.65452 4.56198 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01709 4.47343 5.19578 0.61958 0.77255 0.84960 0.55789\n- 7 3.43747 4.65597 5.43893 4.94547 3.87425 4.98584 5.60737 1.17228 4.86429 2.01555 3.63109 5.11430 5.20526 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01350 4.70732 5.42966 0.61958 0.77255 0.48576 0.95510\n- 301 2.29923 5.24308 2.77940 2.33639 4.57491 3.54332 2.97070 3.91760 1.98546 3.43655 3.96979 2.63664 3.93646 2.71672 2.52132 2.49589 2.82852 3.32451 4.83186 4.28099 365 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01350 4.70732 5.42966 0.61958 0.77255 0.48576 0.95510\n- 302 2.44692 5.27696 2.69847 1.89309 4.62086 3.20284 3.72840 4.10630 2.17298 3.58169 4.31817 2.67866 3.69290 2.45292 2.67003 2.44981 2.70551 3.66702 5.71011 4.29934 366 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03115 4.70732 3.83312 0.61958 0.77255 0.48576 0.95510\n- 303 2.57245 4.25462 4.22229 3.38612 3.36125 3.87756 4.18066 2.12448 3.51817 2.08404 3.36891 3.85172 4.24663 3.24638 3.70464 3.16306 2.22245 1.65165 4.87187 3.40661 367 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.68991 5.41225 0.61958 0.77255 0.52143 0.90058\n- 304 2.37477 4.88963 3.20799 2.60678 4.10866 3.42041 3.54511 3.22767 2.30118 2.97312 2.92390 3.15916 3.99713 2.53872 2.57702 2.62720 2.60429 2.53486 5.40595 4.08738 368 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.68991 5.41225 0.61958 0.77255 0.52143 0.90058\n- 305 2.29054 5.24807 2.78156 1.85786 4.57878 2.44262 3.73475 4.05546 2.41738 3.18753 4.29361 2.95332 3.93741 2.70586 2.78600 2.30646 3.00173 3.63119 5.68924 4.28564 369 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02101 4.68991 4.45639 0.61958 0.77255 0.52143 0.90058\n- 306 2.35313 5.25758 2.82093 1.96645 4.59829 3.26161 3.56920 4.08100 2.21078 3.45046 4.29953 2.92310 3.92587 2.53837 2.34983 2.29379 2.89997 3.47697 5.69265 4.28460 370 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08199 4.68274 2.66692 0.61958 0.77255 0.53559 0.88026\n- 307 2.46186 5.10026 3.04497 2.44174 4.21070 3.12067 3.72570 3.47358 2.20753 3.02964 4.15597 2.76031 3.52937 2.46094 2.34403 2.52145 2.87300 2.87717 5.56745 4.19286 371 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26801 4.61556 1.49076 0.61958 0.77255 0.65507 0.73273\n- 308 2.46738 5.06951 2.95125 2.24596 4.37498 2.88151 3.47360 3.83273 2.30328 3.20621 4.12135 2.58290 3.39671 2.59229 2.45198 2.64549 2.82789 2.94006 5.52601 4.14213 372 e - - -\n- 2.68619 4.42157 2.77539 2.73130 3.46338 2.40472 3.72509 3.29356 2.67761 2.69338 4.24671 2.90359 2.73754 3.18159 2.89800 2.37882 2.77519 2.98521 4.58482 3.61533\n- 0.62316 0.76840 * 1.07580 0.41707 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2192 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdD\n-LENG 723\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:00 2022\n-NSEQ 12\n-EFFN 1.110352\n-CKSUM 405552278\n-GA 20 20;\n-STATS LOCAL MSV -12.3271 0.69652\n-STATS LOCAL VITERBI -13.0412 0.69652\n-STATS LOCAL FORWARD -6.5820 0.69652\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49642 4.49368 2.99184 2.62799 3.35566 3.09730 3.73905 2.84338 2.71565 2.22493 3.61738 3.12565 3.34835 2.96457 2.91198 2.66183 2.89405 2.71477 4.11427 3.57059\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02146 4.24826 4.97061 0.61958 0.77255 0.00000 *\n- 1 3.31367 4.81083 4.48200 4.12103 3.43671 4.13283 4.76932 2.65334 3.86486 1.98773 0.80376 4.34695 4.60943 4.22900 4.02239 3.69422 3.63385 2.70046 5.31728 4.10610 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21593 4.24826 1.71526 0.61958 0.77255 0.48576 0.95510\n- 2 2.53981 4.55866 3.08435 2.63021 3.93278 3.32725 3.77639 3.34071 2.61946 3.00302 3.06958 2.40783 3.82856 2.98238 3.02307 1.78575 2.83970 3.01956 5.27075 3.96595 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02600 4.05834 4.78069 0.61958 0.77255 0.69278 0.69351\n- 3 2.35244 4.59393 3.09059 2.57220 3.82869 3.43264 3.70096 2.59884 2.54343 2.86507 3.72120 2.50634 3.84841 2.55215 2.96034 2.68233 2.54861 2.90946 5.17015 3.88004 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02600 4.05834 4.78069 0.61958 0.77255 0.50790 0.92070\n- 4 2.58497 3.04791 3.88996 3.31663 3.26442 3.63959 3.98098 2.18528 3.21808 2.33201 2.50499 3.58240 2.96320 3.47139 3.45599 2.60564 2.83027 2.36118 4.76707 3.56632 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02332 4.16595 4.88830 0.61958 0.77255 0.42800 1.05500\n- 5 2.30885 4.94484 2.96056 2.51410 4.30081 3.45156 3.72647 3.71752 2.15211 3.28968 4.10741 3.02056 1.95239 2.54551 2.83146 2.74730 2.97823 3.36551 5.49271 4.16778 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02146 4.24826 4.97061 0.61958 0.77255 0.48576 0.95510\n- 6 2.44610 5.19520 1.66671 2.32773 4.62796 3.34254 3.79534 4.10915 2.67957 3.63367 4.42987 2.40538 3.88680 2.93785 3.20596 1.96974 3.08075 3.67754 5.80460 4.37909 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02146 4.24826 4.97061 0.61958 0.77255 0.48576 0.95510\n- 7 3.13512 4.81781 3.73567 3.39379 2.88604 3.81736 3.89445 3.52530 3.18592 3.07341 4.11267 2.54196 4.31568 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02146 4.24826 4.97061 0.61958 0.77255 0.48576 0.95510\n- 716 2.13736 5.09351 2.84611 2.02210 4.40926 3.42684 3.64834 3.86334 2.09809 3.38492 4.16100 2.91482 3.84645 2.44390 2.84927 2.32746 2.92999 3.47198 5.55023 4.17077 754 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02146 4.24826 4.97061 0.61958 0.77255 0.48576 0.95510\n- 717 2.29983 4.41992 3.38785 2.82315 2.97350 3.56077 3.80994 2.94619 2.77221 2.64465 3.52684 3.25613 3.94785 3.09789 2.36265 2.40394 2.58534 2.70798 3.73077 3.73875 755 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02146 4.24826 4.97061 0.61958 0.77255 0.48576 0.95510\n- 718 3.04209 2.83697 4.78831 4.22292 3.31422 4.27532 4.67337 1.71342 4.07027 1.20278 3.18614 4.36955 4.58507 4.23856 4.18131 3.61443 3.28519 2.03503 5.13844 3.98546 756 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02146 4.24826 4.97061 0.61958 0.77255 0.48576 0.95510\n- 719 2.65527 5.10090 2.64427 2.13741 4.41638 3.08026 3.62066 3.88433 2.21720 3.39325 4.15247 2.58874 3.81723 2.36329 2.86750 2.41971 2.88871 2.83414 5.55027 4.15305 757 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12238 4.24826 2.29360 0.61958 0.77255 0.48576 0.95510\n- 720 2.61486 4.73059 3.06024 2.50782 3.95728 3.01404 3.66392 2.85517 2.46189 2.98425 3.81539 2.54565 3.84720 2.41714 2.62772 2.67278 2.84680 2.69725 5.24936 3.93734 758 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09489 4.14959 2.59347 0.61958 0.77255 0.60349 0.79164\n- 721 2.59780 4.77309 2.99061 2.45051 3.58241 3.41680 3.63438 3.43584 2.20974 3.04302 3.86218 2.96330 2.93385 2.46794 2.86507 2.50824 2.44716 3.11607 5.28850 3.96192 759 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02544 4.08013 4.80248 0.61958 0.77255 0.67289 0.71382\n- 722 2.58366 4.53404 2.81221 2.61273 3.71462 3.47111 3.03376 3.08686 2.59213 2.76413 2.84650 3.08999 3.86374 2.92916 3.01123 2.70101 2.40718 2.52085 5.08705 3.80521 760 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02544 4.08013 4.80248 0.61958 0.77255 0.67289 0.71382\n- 723 2.61619 4.69720 3.03857 2.54389 3.98585 3.41334 3.69621 2.89685 2.18287 3.01628 3.85801 2.79767 3.84908 2.87563 2.87044 1.86753 2.86918 3.06847 5.27524 3.97201 761 s - - -\n- 2.68627 4.42234 2.77496 2.73081 3.46363 2.40522 3.72504 3.29308 2.67750 2.69364 4.24699 2.90356 2.73749 3.18156 2.89810 2.37896 2.77529 2.98487 4.58486 3.61512\n- 0.42856 1.05397 * 0.57758 0.82384 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3230 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdE\n-LENG 1069\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:01 2022\n-NSEQ 97\n-EFFN 2.791473\n-CKSUM 1130802487\n-GA 300 300;\n-STATS LOCAL MSV -12.8117 0.69543\n-STATS LOCAL VITERBI -13.8780 0.69543\n-STATS LOCAL FORWARD -6.8703 0.69543\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47333 4.48033 2.89546 2.54231 3.39752 3.05532 3.64173 2.95611 2.74103 2.36418 3.73289 3.15093 3.44911 2.92390 2.68980 2.66459 2.87153 2.67099 4.48810 3.63848\n- 2.68616 4.42164 2.77519 2.73120 3.46360 2.40517 3.72500 3.29360 2.67747 2.69357 4.24620 2.90349 2.73736 3.18152 2.89799 2.37890 2.77519 2.98516 4.58483 3.61509\n- 0.14361 3.46221 2.27873 1.31152 0.31390 0.00000 *\n- 1 3.99692 5.43329 5.21220 4.96513 4.01605 4.65138 5.49821 3.31254 4.69150 2.54179 0.33896 5.11079 5.18267 5.03698 4.77166 4.39323 4.35695 3.41176 5.89996 4.73002 15 M - - -\n- 2.68530 4.42102 2.77577 2.73193 3.46313 2.40515 3.72573 3.29421 2.67774 2.69439 4.24656 2.90408 2.73679 3.18123 2.89641 2.37833 2.77505 2.98573 4.58436 3.61590\n- 1.16008 0.85205 1.34708 2.12014 0.12785 0.66263 0.72463\n- 2 2.48115 5.04904 2.80537 2.45216 4.33550 2.78342 3.53116 3.32873 2.39454 3.32917 3.85283 2.74107 3.44462 2.74537 2.86453 2.10992 2.52056 3.32646 5.51912 4.14689 77 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07768 4.48733 2.75686 0.61958 0.77255 0.77910 0.61400\n- 3 2.74172 4.15632 4.45322 3.85506 2.75366 3.88666 4.20801 1.91733 3.48412 1.54326 3.25168 3.96099 3.92161 3.87019 3.54041 3.18765 2.80134 2.02881 4.78097 3.60020 78 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01583 4.54931 5.27166 0.61958 0.77255 0.84639 0.56029\n- 4 2.49041 5.16226 2.84730 2.22103 4.13766 3.26398 3.34106 3.93984 2.30534 3.07150 3.98397 2.90150 3.41714 2.81539 2.37256 2.29067 2.69335 3.26617 5.61439 3.93008 79 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01494 4.60675 5.32910 0.61958 0.77255 0.90860 0.51599\n- 5 2.38030 4.30010 4.01802 2.97665 3.42138 3.83381 4.12428 2.11448 3.34484 2.12397 3.41383 3.72889 4.20510 3.60458 2.96289 3.10825 2.81501 1.64954 4.92275 3.71935 80 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01479 4.61715 5.33950 0.61958 0.77255 0.89606 0.52455\n- 6 3.04371 5.08985 2.87410 3.08338 5.14668 0.52599 4.62184 4.73527 3.71951 4.33987 5.20125 3.26214 4.27531 3.87495 4.15950 3.13267 3.51764 4.13330 6.39290 5.08994 81 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62739 5.34974 0.61958 0.77255 0.91491 0.51174\n- 7 2.48075 4.63443 2.29469 2.37502 4.22351 3.39590 3.27921 3.95161 2.33254 3.27339 3.96092 2.90844 3.916'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01166 4.85319 5.57553 0.61958 0.77255 0.52868 0.89010\n- 1062 2.81756 5.31774 2.87670 2.17647 4.65852 3.45333 3.64089 3.93625 2.13443 3.39464 4.35956 2.86340 3.64063 2.59070 2.01942 2.21060 2.90296 3.38811 5.75294 3.83447 1451 r - - -\n- 2.68614 4.42226 2.77521 2.73124 3.46343 2.40514 3.72486 3.29355 2.67742 2.69352 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.18965 3.69294 1.91155 0.64088 0.74830 0.52868 0.89010\n- 1063 2.39410 5.25068 2.63854 2.29915 4.58678 3.39026 3.57302 4.06645 2.33670 3.18899 4.03312 2.69869 2.57830 2.72814 2.60699 2.25565 2.87539 3.63650 5.68872 4.28325 1454 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02617 4.69763 4.09163 0.61958 0.77255 0.81837 0.58187\n- 1064 2.71247 4.34016 3.69016 3.34309 3.36131 3.29885 4.08522 2.40360 3.26641 1.91963 3.23820 3.66274 2.29654 3.39911 3.06189 2.94939 2.79039 2.38467 4.07573 3.57222 1455 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.68527 4.09083 0.61958 0.77255 0.83656 0.56774\n- 1065 2.26776 4.12693 3.51277 2.76625 2.64594 3.16525 3.98687 2.97734 3.01669 2.27268 3.58166 3.37859 3.89405 3.11174 3.01958 2.58816 2.71337 2.31016 4.21150 3.82535 1456 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04431 4.67295 3.38146 0.61958 0.77255 0.85415 0.55451\n- 1066 2.48032 5.22589 2.72713 2.19898 4.55962 3.23226 3.42981 3.86369 2.26238 3.05909 4.04929 2.68662 3.74300 2.42260 2.68960 2.44697 2.64461 3.35768 5.66541 3.98792 1457 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06545 4.64305 2.92392 0.61958 0.77255 0.76311 0.62776\n- 1067 2.35890 5.20732 2.40922 2.33339 4.15302 3.05541 3.38673 3.54239 2.36473 3.39873 4.02979 2.85453 3.39524 2.58013 2.71038 2.29788 2.90868 3.58818 5.65102 3.77999 1458 s - - -\n- 2.68637 4.42258 2.77484 2.73073 3.46365 2.40493 3.72502 3.29325 2.67762 2.69380 4.24672 2.90369 2.73763 3.18121 2.89786 2.37901 2.77532 2.98518 4.58468 3.61510\n- 0.83318 1.04374 1.54551 1.15114 0.38020 0.85951 0.55055\n- 1068 2.67355 4.78001 2.55911 2.18376 4.37961 2.86544 3.38065 3.71796 2.25950 3.12623 4.12882 2.81530 3.85731 2.76894 2.62059 2.39999 2.84061 3.11143 4.59787 3.90193 1465 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03879 4.42087 3.64882 0.61958 0.77255 0.65954 0.72793\n- 1069 2.02682 4.97703 2.79310 2.19011 3.75477 2.96668 3.75601 3.32746 2.54504 3.03257 4.04422 3.07476 3.81292 2.89675 2.79592 2.44060 2.81946 2.84315 5.47112 4.12574 1466 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01002 4.60808 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2507 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdF\n-LENG 828\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:01 2022\n-NSEQ 26\n-EFFN 1.666260\n-CKSUM 3210815034\n-GA 300 300;\n-STATS LOCAL MSV -12.3388 0.69610\n-STATS LOCAL VITERBI -13.6005 0.69610\n-STATS LOCAL FORWARD -6.3861 0.69610\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50762 4.29985 2.97775 2.61188 3.43023 3.00784 3.65499 2.89790 2.68976 2.38995 3.66462 3.10480 3.36300 2.93116 2.80492 2.64242 2.80151 2.69635 4.35997 3.60115\n- 2.68616 4.42232 2.77526 2.73112 3.46361 2.40513 3.72477 3.29361 2.67739 2.69362 4.24574 2.90343 2.73746 3.18153 2.89797 2.37894 2.77526 2.98514 4.58484 3.61510\n- 0.09057 2.51095 5.22194 1.09114 0.40922 0.00000 *\n- 1 3.52897 4.88785 5.08945 4.57530 3.37614 4.70647 5.11137 2.12796 4.34719 1.76249 0.87870 4.79627 4.96938 4.54276 4.46629 4.10216 3.78079 2.47440 5.44570 4.32414 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01665 4.49959 5.22194 0.61958 0.77255 0.48576 0.95510\n- 2 2.56552 5.12359 2.98156 2.16348 3.92090 3.48606 3.67685 3.89688 2.26857 3.18477 4.17368 2.66192 3.87899 2.40919 2.73706 2.16006 2.45920 3.49597 5.57682 4.18823 12 s - - -\n- 2.68641 4.42248 2.77504 2.73146 3.46299 2.40520 3.72518 3.29270 2.67764 2.69331 4.24713 2.90356 2.73750 3.18153 2.89824 2.37868 2.77526 2.98506 4.58418 3.61526\n- 0.47986 1.33001 2.14853 1.19771 0.35937 0.48576 0.95510\n- 3 2.36820 3.97334 2.81534 2.29482 3.22889 3.53996 3.75985 3.23654 2.62752 2.71924 3.42950 2.96768 3.92643 2.96407 3.06088 2.64463 2.34436 2.96273 5.19876 3.46237 23 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38165 5.10399 0.61958 0.77255 0.65989 0.72755\n- 4 2.58688 5.25196 2.43927 2.06234 4.58122 3.12284 3.68754 4.06701 2.46571 3.55153 4.30529 2.58558 3.39548 1.90269 2.97074 2.55135 2.98450 3.63576 5.69114 4.27046 24 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38165 5.10399 0.61958 0.77255 0.65989 0.72755\n- 5 2.69108 4.19876 4.02660 3.44634 2.31493 3.76506 4.00467 2.65365 3.05375 2.13759 3.30966 3.68930 4.13416 3.57109 3.09291 3.04572 2.74493 2.45774 2.32512 3.08886 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38165 5.10399 0.61958 0.77255 0.65989 0.72755\n- 6 2.42609 5.11150 2.50740 2.27326 4.42846 3.44795 3.08222 3.16712 2.38984 3.40450 4.16025 2.48848 3.84373 2.63880 2.61042 2.35781 2.90089 3.48707 5.56088 4.16695 26 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38165 5.10399 0.61958 0.77255 0.65989 0.72755\n- 7 2.31655 5.11865 2.76850 2.08845 4.44010 3.45167 3.63997 3.90728 2.18596 3.41204 4.16650 2.92945 3.8454'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01665 4.49959 5.22194 0.61958 0.77255 0.48576 0.95510\n- 821 2.70148 5.14157 2.72469 2.34590 4.45867 3.48368 3.67469 3.92483 2.31813 3.19701 4.19011 2.33443 3.87754 2.21284 2.70139 2.57955 2.57481 2.82926 5.59085 4.19815 994 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01665 4.49959 5.22194 0.61958 0.77255 0.48576 0.95510\n- 822 3.67972 4.94445 5.36758 4.84053 1.11828 4.90132 4.82869 2.30704 4.68593 1.23086 3.15019 4.92251 5.05734 4.65521 4.69512 4.26470 3.89334 2.69402 4.97307 3.57984 995 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01665 4.49959 5.22194 0.61958 0.77255 0.48576 0.95510\n- 823 2.58134 3.43488 3.60963 2.74887 3.52285 3.68223 3.45352 2.28351 2.79392 2.28545 2.84212 3.43560 4.06077 2.57329 3.33346 2.74151 2.92447 2.50749 4.97471 3.74482 996 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01665 4.49959 5.22194 0.61958 0.77255 0.48576 0.95510\n- 824 2.57342 5.13727 3.03109 2.46684 4.45476 3.51650 3.68855 3.90742 2.06321 3.14960 3.71761 2.52224 3.90608 2.53005 1.98479 2.44759 2.96248 3.51387 5.57895 4.20722 997 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01665 4.49959 5.22194 0.61958 0.77255 0.48576 0.95510\n- 825 2.58535 5.13756 2.97861 2.05870 4.45414 3.05511 3.67461 3.53137 2.11551 3.42978 4.18639 2.83575 3.87837 2.56945 2.47775 2.35318 2.93236 2.96174 5.58699 4.19602 998 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08070 4.49959 2.71182 0.61958 0.77255 0.48576 0.95510\n- 826 2.82000 4.47090 4.99808 4.42190 2.68792 4.42422 4.79128 1.43650 4.27422 1.37270 3.23436 4.53386 4.70376 4.39613 4.34281 3.75893 3.38156 1.88180 5.20205 4.06573 999 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09581 4.43663 2.53166 0.61958 0.77255 0.58499 0.81444\n- 827 2.56297 5.07543 2.66867 2.28704 4.38365 2.43651 3.64618 3.84268 2.40069 3.36647 4.13106 2.93223 3.84427 2.53801 2.55553 2.34712 2.72915 3.09961 5.53541 4.14929 1000 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15464 4.35999 2.03641 0.61958 0.77255 0.68687 0.69947\n- 828 2.35024 3.96740 3.18441 2.62230 3.78433 3.50485 2.98652 2.71085 2.34823 2.66996 3.68643 3.10597 3.89064 2.74499 2.85338 2.60541 2.67191 2.90056 5.14031 3.85533 1001 k - - -\n- 2.68632 4.42135 2.77496 2.73126 3.46383 2.40513 3.72407 3.29383 2.67770 2.69327 4.24719 2.90329 2.73768 3.18085 2.89817 2.37916 2.77520 2.98499 4.58506 3.61486\n- 0.41255 1.08459 * 1.42372 0.27551 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,902 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdG\n-LENG 293\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:02 2022\n-NSEQ 25\n-EFFN 1.846313\n-CKSUM 787785691\n-GA 20 20;\n-STATS LOCAL MSV -11.0072 0.70147\n-STATS LOCAL VITERBI -12.0400 0.70147\n-STATS LOCAL FORWARD -5.1827 0.70147\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56573 4.56360 2.98425 2.62886 3.37027 3.05373 3.81761 2.83718 2.71422 2.24669 3.53527 2.96984 3.29562 3.01958 2.90128 2.58882 2.85345 2.73507 4.48997 3.66167\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.00000 *\n- 1 3.70804 5.16758 4.91762 4.62182 3.75732 4.43865 5.19674 3.01921 4.34909 2.28776 0.48029 4.79760 4.94638 4.70234 4.45993 4.10241 4.05100 3.09937 5.64960 4.46116 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 2 1.68438 4.50437 3.87918 3.49153 4.68836 3.28080 4.53864 4.11732 3.49981 3.77995 4.58019 3.64249 3.17616 3.78486 3.83736 0.95355 2.55285 3.53841 6.00785 4.79645 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 3 3.51706 4.76356 5.46432 4.91627 3.56252 4.93604 5.37075 0.99430 4.79600 1.55346 2.52670 5.06648 5.12155 4.87036 4.85279 4.31098 3.74999 1.82411 5.62091 4.54109 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 4 3.38885 4.64280 5.32875 4.81229 3.85812 4.84802 5.40222 0.87252 4.70965 1.99834 3.64859 4.96640 5.10714 4.91984 4.84747 4.23100 3.14298 1.50009 5.81291 4.63247 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 5 3.51724 5.43969 3.38538 3.36479 4.94088 3.83653 4.75951 4.87248 3.76619 4.43880 5.43110 0.35630 4.53915 4.07998 4.10660 3.58463 3.94679 4.41275 6.15000 4.87482 5 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 6 2.92199 4.80853 3.40101 2.96035 3.54804 3.74307 3.95370 2.62109 2.93021 2.98985 3.93623 1.18554 4.17724 3.29362 3.30373 3.04656 3.17424 3.05718 5.04981 3.04206 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 7 0.82906 4.66933 2.89388 3.11092 4.54390 3.38354 4.33432 3.87659 3.28768 3.60115 4.44529 3.45507 4.05766 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 286 2.55238 4.57622 5.23042 4.70349 3.84128 4.72497 5.25061 1.18493 4.59648 2.01681 3.66214 4.84126 5.00911 4.80886 4.72982 4.09424 3.55519 1.21696 5.70786 4.51448 374 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 287 2.74754 5.14444 3.04045 2.34213 3.95062 3.53140 3.41396 3.90775 2.35777 3.42885 4.19713 3.01725 3.92257 2.42187 1.81619 2.47959 2.40231 3.51695 5.59279 4.21837 375 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 288 2.78674 4.19154 4.51527 3.92414 2.06001 3.92195 4.16147 2.43737 3.75421 1.96188 3.29183 3.99439 2.68011 3.91406 3.83426 3.22528 3.01819 2.28667 3.60941 2.35104 376 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 289 2.72030 4.62414 3.36072 2.79776 3.79360 2.67781 3.85950 2.53216 2.57711 2.66094 2.91440 2.86915 4.01554 3.09879 2.36397 2.85640 2.60911 2.71690 5.17908 3.90943 377 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 290 2.55357 5.18158 2.98637 2.15168 4.50680 2.38082 3.69203 3.97816 2.30801 3.47833 4.22860 2.86404 3.17594 2.61680 2.55881 2.41125 2.76487 3.27805 5.62685 4.22921 378 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 291 2.37902 5.15129 2.84242 1.91448 4.46264 2.23952 3.72399 3.92230 2.48707 3.20286 4.21386 2.99753 3.91617 2.70093 2.97469 2.51919 2.53658 3.52629 5.61761 4.22952 379 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01552 4.56910 5.29145 0.61958 0.77255 0.48576 0.95510\n- 292 2.08318 5.12722 3.01192 2.16548 4.43176 2.86678 3.70346 3.88909 2.14083 3.18854 4.17955 2.84629 3.90461 2.64651 2.77033 2.52184 2.95360 2.90537 5.58490 4.20129 380 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12004 4.56910 2.27548 0.61958 0.77255 0.48576 0.95510\n- 293 2.06732 5.02700 3.01350 2.37775 4.31010 3.49500 3.69338 3.75031 2.14102 3.30606 4.09015 2.83725 3.88969 2.30597 2.92612 2.53498 2.68030 2.78390 5.50304 4.13864 381 a - - -\n- 2.68629 4.42236 2.77530 2.73124 3.46365 2.40523 3.72505 3.29365 2.67731 2.69366 4.24700 2.90347 2.73750 3.18133 2.89793 2.37887 2.77530 2.98469 4.58389 3.61471\n- 0.47845 0.96691 * 0.27788 1.41629 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3113 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdH\n-LENG 1030\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:02 2022\n-NSEQ 20\n-EFFN 1.674805\n-CKSUM 1240592321\n-GA 20 20;\n-STATS LOCAL MSV -12.8008 0.69552\n-STATS LOCAL VITERBI -13.9495 0.69552\n-STATS LOCAL FORWARD -6.7556 0.69552\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51331 4.47549 2.91347 2.53532 3.38131 3.12799 3.67993 2.87173 2.59988 2.36269 3.71166 2.99905 3.46542 2.92569 2.85771 2.63070 2.88466 2.76053 4.41715 3.64119\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07865 4.50300 2.74011 0.61958 0.77255 0.00000 *\n- 1 3.54036 5.01455 4.73787 4.41378 3.61568 4.31138 5.01735 2.85817 4.14606 2.15250 0.59334 4.60966 4.80540 4.50370 4.27594 3.93078 3.87343 2.92544 5.50649 4.30833 1 M - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29356 2.67742 2.69356 4.24691 2.90348 2.73714 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.24823 2.44334 2.01781 0.33674 1.25210 0.58246 0.81763\n- 2 2.77692 5.19086 2.76797 2.21999 4.51065 3.44367 3.70198 3.96929 2.29130 3.48263 4.26636 2.54418 3.89209 2.40807 2.90849 1.66013 3.01537 3.57407 5.64160 4.25509 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02024 4.30591 5.02826 0.61958 0.77255 0.63055 0.75992\n- 3 3.59355 4.85260 5.38199 4.80622 3.22038 4.92973 5.23646 1.73854 4.66603 0.84056 2.20810 5.02258 5.03379 4.65315 4.69472 4.29674 3.80534 2.42918 5.38028 4.38166 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01914 4.36143 5.08378 0.61958 0.77255 0.68989 0.69642\n- 4 2.66344 4.88697 2.82409 2.49070 4.13377 3.48730 3.20312 3.00669 2.30735 2.91358 2.90175 3.01171 3.87681 2.23178 2.62141 2.69073 2.89381 3.22383 5.38136 4.04314 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01914 4.36143 5.08378 0.61958 0.77255 0.68989 0.69642\n- 5 2.79167 5.22631 2.75494 1.88515 4.56340 3.44675 3.72851 4.03231 2.49656 3.53901 4.31716 1.92427 3.90578 2.85090 2.70472 2.06683 3.03610 3.62377 5.69275 4.29370 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01914 4.36143 5.08378 0.61958 0.77255 0.68989 0.69642\n- 6 4.02811 5.31506 4.59931 4.44276 2.48936 4.43038 3.96155 3.98202 4.29080 3.30261 4.60710 4.37811 4.90273 4.46988 4.36214 4.10455 4.32263 3.87804 4.14340 0.42780 7 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01914 4.36143 5.08378 0.61958 0.77255 0.68989 0.69642\n- 7 4.27005 5.44464 4.91170 4.75676 3.34040 4.34499 4.63561 4.35395 4.49352 3.65115 4.95787 4.82059 4.90651'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01659 4.50300 5.22535 0.61958 0.77255 0.48576 0.95510\n- 1023 2.30211 4.98875 2.52159 2.22400 4.25337 2.74253 3.71019 3.04303 2.32672 2.80617 4.05235 3.01974 3.90232 2.84219 2.96277 2.54970 2.93094 3.04719 5.47363 4.11737 1231 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01659 4.50300 5.22535 0.61958 0.77255 0.48576 0.95510\n- 1024 2.91984 4.37493 4.39439 3.81592 2.90151 4.03358 4.33219 2.57894 3.68814 1.15343 2.57359 4.02630 4.37714 3.88843 3.85631 2.37446 3.15322 2.50256 4.93094 3.74106 1232 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01659 4.50300 5.22535 0.61958 0.77255 0.48576 0.95510\n- 1025 2.70400 5.07027 3.00732 2.10766 4.36159 2.57676 3.69276 3.80987 2.33407 2.90858 3.58734 2.99155 3.89159 2.23471 2.92801 2.36955 2.74299 3.43191 5.53668 4.16272 1233 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01659 4.50300 5.22535 0.61958 0.77255 0.48576 0.95510\n- 1026 2.73657 5.03663 2.99047 1.89722 4.31197 2.67211 3.73476 3.74614 2.37626 3.31442 4.10936 3.02165 3.92190 2.66801 2.98280 2.42533 2.97134 2.25378 5.52340 4.16375 1234 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07659 4.50300 2.77019 0.61958 0.77255 0.48576 0.95510\n- 1027 2.28534 5.09364 2.77275 2.22535 3.74818 3.47043 3.29235 3.48227 2.13944 3.38201 4.14489 2.34700 3.86340 2.59940 2.89960 2.66384 2.91289 3.16889 5.55029 4.16423 1235 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01761 4.44403 5.16637 0.61958 0.77255 0.57948 0.82141\n- 1028 2.39359 3.51791 3.19362 2.07889 3.91303 3.54922 3.07937 3.30598 2.61865 2.58609 3.37221 2.72462 3.93665 2.95875 3.05818 2.58589 2.90943 2.80068 5.24920 3.95081 1236 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14155 4.44403 2.11826 0.61958 0.77255 0.57948 0.82141\n- 1029 2.50249 5.01326 2.94169 1.94183 4.31105 2.89366 3.65382 3.32501 2.41593 3.30354 4.08249 2.77685 3.84617 2.77526 2.60718 2.18622 2.89467 3.38135 5.49181 4.12009 1237 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11021 4.32238 2.39598 0.61958 0.77255 0.73533 0.65267\n- 1030 2.45280 4.83493 2.93059 1.86146 4.22749 3.01126 3.73720 3.64650 2.55141 3.24540 4.05370 2.99251 3.84872 2.88824 3.01541 1.96168 2.90047 2.86270 5.47300 4.12982 1238 e - - -\n- 2.68578 4.42250 2.77453 2.73135 3.46379 2.40538 3.72484 3.29379 2.67752 2.69350 4.24715 2.90336 2.73764 3.18137 2.89826 2.37867 2.77544 2.98506 4.58502 3.61496\n- 0.56047 0.84616 * 1.08270 0.41352 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdI.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdI.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,755 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdI\n-LENG 244\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:02 2022\n-NSEQ 4\n-EFFN 1.042969\n-CKSUM 968164001\n-GA 20 20;\n-STATS LOCAL MSV -10.8993 0.70313\n-STATS LOCAL VITERBI -11.5666 0.70313\n-STATS LOCAL FORWARD -4.8364 0.70313\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51446 4.59686 2.79984 2.53741 3.45925 3.26777 3.84346 2.97840 2.54067 2.30528 3.54238 3.02345 3.56906 2.74736 2.95806 2.72964 2.87219 2.68581 4.41997 3.69120\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.00000 *\n- 1 3.27620 4.77770 4.43798 4.07121 3.40882 4.10236 4.72767 2.62116 3.81741 1.96296 0.84748 4.30241 4.57635 4.18280 3.97977 3.65449 3.59437 2.66457 5.28667 4.07322 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18852 4.21302 1.85142 0.61958 0.77255 0.48576 0.95510\n- 2 2.50778 4.52427 2.99092 2.71289 4.19182 3.18827 3.94082 3.57149 2.79651 3.27490 4.14124 2.11968 3.81646 3.15869 3.17077 2.62091 1.54816 3.17841 5.51206 4.20814 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02621 4.05070 4.77305 0.61958 0.77255 0.38966 1.13100\n- 3 2.51605 4.58164 3.09422 2.73374 4.31615 3.23390 3.95732 3.74136 2.81634 3.37211 4.19121 2.16762 3.84168 3.14687 3.23099 1.93598 1.73086 3.30480 5.59825 4.29779 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 4 3.56173 4.93071 4.73612 4.39092 3.30347 4.41118 4.94189 2.53836 4.15637 0.54606 3.24339 4.63422 4.79637 4.44083 4.27111 4.04339 3.84498 2.66161 5.29170 4.08925 4 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 5 3.08595 5.29927 3.23745 2.73118 4.72023 3.67275 3.71349 4.11188 1.14480 3.54854 4.40636 3.18371 4.07927 2.04604 2.31344 3.06024 3.27373 3.76987 5.60014 4.37731 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 6 2.78019 5.27659 2.03329 1.85027 4.58863 3.37224 3.69562 4.07176 2.52126 3.56934 4.34750 2.83872 3.85726 2.23119 3.03616 2.72249 2.37167 3.65282 5.72312 4.29301 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 7 3.20735 5.17237 3.18281 2.95817 4.38530 3.62848 4.11402 4.08477 2.75801 3.55074 4.58349 3.41548 4.19596 0.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 237 1.91785 4.54658 3.10239 2.77899 4.40645 3.18691 4.02150 3.84406 2.90360 3.47057 4.28191 2.12669 3.83152 3.21459 3.31863 1.51657 2.88946 3.36221 5.68376 4.38607 248 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 238 3.50912 4.81761 4.90252 4.45445 1.17499 4.56146 4.27597 2.57322 4.29349 1.36386 3.20338 4.49132 4.81261 4.34514 4.36004 3.94412 3.73982 2.68290 4.45964 2.89339 249 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 239 2.70366 4.84268 2.96244 2.53337 4.11358 3.44930 3.74264 3.50960 2.51427 3.14595 3.99484 1.98175 3.90050 2.23538 2.92503 2.74852 2.95737 2.36920 5.39146 4.06107 250 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 240 3.25180 4.52048 5.08468 4.55621 3.53693 4.66975 5.15585 1.46407 4.44916 1.56178 3.32540 4.75082 4.90635 4.63248 4.59131 4.04357 3.49684 1.20150 5.54139 4.39267 251 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 241 2.71604 4.72498 3.25655 2.69324 3.96716 3.54445 3.75057 3.28306 1.67209 2.94063 2.71661 3.15811 3.94738 2.93786 2.78789 2.80576 2.36452 3.01752 5.26954 3.99912 252 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 242 3.07709 5.23623 3.39224 2.80417 4.63276 3.70023 3.71524 4.04577 2.05551 3.48880 4.35601 3.23522 4.09120 1.60536 1.49717 3.06953 3.26377 3.71656 5.54545 4.33126 253 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02223 4.21302 4.93536 0.61958 0.77255 0.48576 0.95510\n- 243 2.88483 4.98245 3.37271 2.73951 4.30384 3.63680 3.69874 3.63852 1.54052 3.21940 4.07829 3.18730 4.01196 2.84913 1.92420 2.92280 3.08763 2.36840 5.40528 4.16608 254 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18852 4.21302 1.85142 0.61958 0.77255 0.48576 0.95510\n- 244 2.65131 4.58163 3.26982 2.73849 3.82544 2.47160 3.75335 3.20349 2.47458 2.13531 3.75441 3.17099 3.90907 2.97459 2.19651 2.77240 2.90756 2.93849 5.16346 3.89640 255 l - - -\n- 2.68630 4.42237 2.77531 2.73135 3.46366 2.40497 3.72506 3.29303 2.67753 2.69294 4.24539 2.90359 2.73751 3.18158 2.89813 2.37899 2.77531 2.98530 4.58489 3.61515\n- 0.38674 1.13714 * 0.85658 0.55271 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdJ.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdJ.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4514 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdJ\n-LENG 1497\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:03 2022\n-NSEQ 99\n-EFFN 1.531769\n-CKSUM 669183752\n-GA 200 200;\n-STATS LOCAL MSV -13.3778 0.69478\n-STATS LOCAL VITERBI -14.2798 0.69478\n-STATS LOCAL FORWARD -7.3969 0.69478\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47278 4.42333 2.93384 2.61435 3.38935 2.98643 3.70850 2.96711 2.72094 2.37684 3.65526 3.13459 3.35876 2.94682 2.74468 2.65093 2.80139 2.69997 4.34590 3.64874\n- 2.68619 4.42217 2.77521 2.73125 3.46355 2.40512 3.72496 3.29352 2.67742 2.69355 4.24676 2.90348 2.73739 3.18148 2.89798 2.37887 2.77517 2.98518 4.58478 3.61504\n- 0.03227 4.11161 4.17500 0.97851 0.47140 0.00000 *\n- 1 3.53108 5.00612 4.72770 4.40206 3.60804 4.30422 5.00731 2.84947 4.13471 2.14531 0.60049 4.59910 4.79750 4.49259 4.26567 3.92120 3.86360 2.91598 5.49863 4.29994 15 M - - -\n- 2.68611 4.42225 2.77521 2.73121 3.46356 2.40522 3.72500 3.29341 2.67741 2.69354 4.24675 2.90350 2.73750 3.18142 2.89802 2.37892 2.77492 2.98517 4.58492 3.61518\n- 0.79695 1.35236 1.23558 0.91193 0.51375 0.50129 0.93077\n- 2 2.50312 4.95696 2.73772 2.17916 4.24400 3.32392 3.53352 3.54880 2.30717 3.05061 4.01504 2.73750 3.34750 2.58758 2.83450 2.43010 2.52439 3.31634 5.42640 4.05291 35 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02495 4.09927 4.82161 0.61958 0.77255 0.70005 0.68630\n- 3 2.42954 4.65411 2.85145 2.45394 3.63150 3.35150 3.54704 2.74376 2.54243 2.62373 3.73705 2.92561 3.26500 2.88244 2.98394 2.49502 2.72975 2.96364 5.18586 3.66392 36 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02263 4.19552 4.91787 0.61958 0.77255 0.58004 0.82070\n- 4 2.63956 4.90982 2.43667 2.35731 4.04226 3.40231 3.58981 3.37276 2.41353 2.90573 3.85379 2.75099 3.68494 2.79105 2.65450 2.42173 2.60169 2.95844 4.82847 4.04671 37 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02029 4.30373 5.02608 0.61958 0.77255 0.50237 0.92910\n- 5 2.57794 5.00830 2.83213 2.10847 4.13924 3.46457 3.57030 3.33751 2.27919 2.75725 4.06601 2.75593 3.32909 2.69534 2.85283 2.39679 2.67780 3.32762 5.01635 4.11067 38 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01870 4.38451 5.10686 0.61958 0.77255 0.57553 0.82646\n- 6 2.36532 5.13564 2.63160 2.16429 4.46444 3.34107 3.45120 3.73781 2.27729 3.31329 4.18070 2.82658 3.54502 2.45912 2.59290 2.42186 2.71326 3.37727 5.57808 4.17724 39 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01870 4.38451 5.10686 0.61958 0.77255 0.57553 0.82646\n- 7 2.61132 4.06755 3.46081 3.07053 2.62508 3.67292 3.72543 2.50927 2.90380 1.98218 3.39086 3.27102 4.0491'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44433 5.16668 0.61958 0.77255 0.48576 0.95510\n- 1490 3.11903 4.52387 5.10115 4.52324 2.53145 4.50611 4.86847 1.80193 4.37255 1.29257 3.11560 4.62830 4.76442 4.46709 4.42135 3.84565 3.44624 1.53007 5.23302 4.11460 1922 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44433 5.16668 0.61958 0.77255 0.48576 0.95510\n- 1491 2.70386 5.13869 2.59339 1.53953 4.45382 3.46803 3.67428 3.79884 2.42819 3.32658 4.19209 2.94850 3.87201 2.75947 2.74830 2.42324 2.72846 3.35708 5.59169 4.19827 1923 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44433 5.16668 0.61958 0.77255 0.48576 0.95510\n- 1492 3.36414 4.28770 5.25617 4.70700 3.50853 4.74133 5.17925 1.48840 4.58222 1.05762 3.30396 4.85857 4.96792 4.69769 4.66527 4.10677 3.60184 1.71619 5.50414 4.39544 1924 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44433 5.16668 0.61958 0.77255 0.48576 0.95510\n- 1493 1.93643 4.89847 3.10541 2.50306 4.16579 3.44058 3.73031 3.58051 2.49662 3.08073 3.99093 3.06309 3.00365 2.79913 2.05912 2.69207 2.93586 3.02414 5.41268 4.08403 1925 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44433 5.16668 0.61958 0.77255 0.48576 0.95510\n- 1494 3.20834 5.80259 2.08316 0.79423 5.10727 3.45908 4.02033 4.62624 3.04717 4.12135 4.97920 2.92179 4.09201 3.18761 3.64830 3.08435 3.35327 4.18823 6.27567 4.75430 1926 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44433 5.16668 0.61958 0.77255 0.48576 0.95510\n- 1495 1.75183 4.55610 3.26434 2.78104 3.62598 3.42974 3.43465 2.85769 2.75410 2.78316 3.59306 3.24152 3.97973 2.81480 3.15991 2.64535 2.71177 2.41448 5.11790 3.85272 1927 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02690 4.44433 4.21333 0.61958 0.77255 0.48576 0.95510\n- 1496 2.41238 4.24761 3.82906 3.07360 3.36429 3.60704 3.85205 2.32962 3.17594 2.03226 3.23420 3.57248 3.75630 3.32412 3.45093 2.61754 2.68132 1.95973 4.84808 3.63930 1928 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17205 4.43519 1.92269 0.61958 0.77255 0.50037 0.93219\n- 1497 2.41510 4.91768 2.97257 2.53781 4.32645 3.44302 3.79649 3.72545 2.51676 3.31755 4.15575 3.06647 3.63278 1.37674 2.90601 2.77694 3.01637 3.24913 5.54167 4.22078 1929 q - - -\n- 2.68608 4.42229 2.77530 2.73106 3.46347 2.40525 3.72498 3.29353 2.67762 2.69303 4.24698 2.90358 2.73745 3.18168 2.89784 2.37897 2.77524 2.98505 4.58456 3.61524\n- 0.02369 3.75467 * 3.09217 0.04647 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdK.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__DpdK.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,620 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__DpdK\n-LENG 199\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:03 2022\n-NSEQ 92\n-EFFN 2.097290\n-CKSUM 3716232808\n-GA 50 50;\n-STATS LOCAL MSV -10.5849 0.70541\n-STATS LOCAL VITERBI -11.1555 0.70541\n-STATS LOCAL FORWARD -5.2089 0.70541\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61733 4.56516 2.91352 2.62034 3.37946 2.88720 3.63543 2.86068 2.73903 2.35858 3.62505 2.94658 3.38391 3.07643 2.90714 2.58059 2.78869 2.68679 4.26445 3.74154\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04256 3.57377 4.29612 0.61958 0.77255 0.00000 *\n- 1 2.74966 4.36283 3.71439 3.31390 3.12749 3.58213 4.11963 2.28035 3.08601 1.80673 2.13620 3.61899 4.06880 3.50689 3.32067 3.05391 3.06379 2.24057 4.90750 3.62144 1 l - - -\n- 2.68531 4.42265 2.77540 2.73138 3.46285 2.40522 3.72523 3.29383 2.67846 2.69229 4.24682 2.90407 2.73754 3.18184 2.89678 2.37910 2.77558 2.98540 4.58398 3.61511\n- 0.17524 2.35084 2.72637 3.94211 0.01960 0.48576 0.95510\n- 2 2.57793 4.56705 2.49380 1.95057 3.95776 3.06406 3.66721 3.32876 2.48875 3.01407 3.98649 2.82537 3.23118 2.90190 2.83567 2.64088 2.90578 3.03224 5.23156 3.95910 235 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04494 3.52055 4.24289 0.61958 0.77255 0.52027 0.90229\n- 3 2.74972 4.34021 3.54477 3.24564 3.05805 3.42115 4.01702 2.33341 3.02446 1.52916 3.29450 3.54200 3.96142 3.48484 3.23713 3.03039 3.08762 2.26365 4.75000 3.38931 236 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04494 3.52055 4.24289 0.61958 0.77255 0.52027 0.90229\n- 4 2.74972 4.34021 3.54477 3.24564 3.05805 3.42115 4.01702 2.33341 3.02446 1.52916 3.29450 3.54200 3.96142 3.48484 3.23713 3.03039 3.08762 2.26365 4.75000 3.38931 237 l - - -\n- 2.68470 4.42159 2.77487 2.73169 3.46302 2.40559 3.72460 3.29461 2.67906 2.69202 4.24497 2.90485 2.73787 3.18165 2.89608 2.37983 2.77514 2.98454 4.58243 3.61582\n- 0.16863 2.29762 2.90631 4.74646 0.00872 0.52027 0.90229\n- 5 2.75502 4.36608 3.72342 3.32164 3.12821 3.58989 4.12581 2.28100 3.09412 1.80359 2.11235 3.62652 4.07487 3.51335 3.32837 3.06078 3.06834 2.24278 4.91055 3.62647 780 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04227 3.58049 4.30284 0.61958 0.77255 0.54498 0.86716\n- 6 2.16675 4.07657 3.08018 2.84242 3.87443 2.87107 3.93188 3.10746 2.82848 2.94887 3.89704 3.08516 3.58058 3.21798 3.11525 2.08895 2.11259 2.73499 5.28946 4.01434 781 s - - -\n- 2.68500 4.42297 2.77479 2.73148 3.46228 2.40559 3.72478 3.29295 2.67893 2.69250 4.24685 2.90417 2.73731 3.18174 2.89678 2.37969 2.77586 2.98468 4.58215 3.61609\n- 0.14843 2.08418 4.30284 4.27514 0.01401 0.50376 0.92699\n- 7 2.48684 4.59732 2.18490 2.29133 4.14561 2.78325 3.69808 3.59000 2.63012 3.22337 4.08253 2.78621 2.63180 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04236 3.57847 4.30082 0.61958 0.77255 0.56612 0.83869\n- 192 2.72457 4.69014 2.45849 1.56372 4.00680 3.09802 3.70481 3.40037 2.54974 3.08241 4.10315 2.84808 3.69817 2.95036 2.90031 2.76285 3.03929 3.12748 5.24114 3.99546 1750 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04236 3.57847 4.30082 0.61958 0.77255 0.56612 0.83869\n- 193 2.70637 4.96973 1.86041 1.85443 4.26564 3.07737 3.62525 3.69687 2.58458 3.33370 4.23658 2.63084 3.68301 2.82107 3.07872 2.66585 3.00348 3.35553 5.51499 4.12174 1751 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04236 3.57847 4.30082 0.61958 0.77255 0.56612 0.83869\n- 194 2.63702 4.88110 1.89537 2.01067 4.22247 3.07086 3.62872 3.65253 2.58316 3.29986 4.18332 2.64494 3.67785 2.82342 3.07398 2.48418 2.94648 3.29850 5.50597 4.09596 1752 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04236 3.57847 4.30082 0.61958 0.77255 0.56612 0.83869\n- 195 2.69825 4.92104 1.72939 1.98236 4.22936 3.06156 3.64346 3.66586 2.62148 3.32195 4.24138 2.64575 3.67699 2.84874 3.11422 2.66771 3.00627 3.32818 5.48709 4.10462 1753 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04236 3.57847 4.30082 0.61958 0.77255 0.56612 0.83869\n- 196 2.69341 4.68277 1.47856 2.25856 4.03050 3.00405 3.73319 3.55879 2.77252 3.23924 4.24241 2.78205 3.64177 2.99917 3.21496 2.71675 3.03879 3.24217 5.25811 3.99277 1754 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04236 3.57847 4.30082 0.61958 0.77255 0.56612 0.83869\n- 197 2.65398 4.41949 3.17341 2.42648 3.09260 3.39890 3.62156 2.94478 2.55597 2.55258 3.56035 3.15748 3.84904 3.02329 2.84474 2.80618 2.90625 2.74005 2.95525 3.14807 1755 e - - -\n- 2.68619 4.42226 2.77511 2.73124 3.46355 2.40514 3.72471 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.14153 2.43016 3.12467 0.64062 0.74859 0.53488 0.88126\n- 198 2.69614 4.37334 3.44534 2.83219 2.68703 3.59584 3.82910 2.43440 2.88354 1.91590 3.27621 3.37690 4.01220 3.25494 3.18569 2.93783 2.95532 2.32460 4.67261 3.24579 1758 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04243 3.57676 4.29911 0.61958 0.77255 0.48038 0.96377\n- 199 2.84312 4.43513 3.64283 3.20020 1.88073 3.72273 3.59220 2.74383 3.08835 2.19434 3.37041 3.47416 4.10852 3.12445 3.35077 3.05151 3.08739 2.64321 4.07550 2.34743 1759 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 3.64306 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__FolE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__FolE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,566 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__FolE\n-LENG 181\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:01:28 2022\n-NSEQ 100\n-EFFN 0.485229\n-CKSUM 3810119084\n-GA 100 100;\n-STATS LOCAL MSV -10.3306 0.70664\n-STATS LOCAL VITERBI -11.1647 0.70664\n-STATS LOCAL FORWARD -4.8810 0.70664\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50335 4.17813 3.04326 2.67306 3.40720 2.84538 3.69800 2.70352 2.75107 2.33207 3.37877 3.15298 3.60229 3.10052 2.88890 2.70333 2.92464 2.51079 5.12316 3.51883\n- 2.68622 4.42230 2.77523 2.73126 3.46359 2.40517 3.72498 3.29359 2.67745 2.69355 4.24559 2.90342 2.73741 3.18152 2.89803 2.37881 2.77516 2.98524 4.58482 3.61508\n- 0.18622 1.85586 4.29871 0.90931 0.51551 0.00000 *\n- 1 2.53794 4.52374 2.88004 2.38959 3.71824 3.40530 3.67096 3.07375 2.51349 2.75686 2.49190 3.00263 3.82352 2.85061 2.93751 2.68097 2.72080 2.80050 5.08296 3.80285 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85731 4.57965 0.61958 0.77255 0.48879 0.95028\n- 2 2.61647 4.90785 2.35221 2.08066 4.24394 3.24865 3.64110 3.67972 2.50266 3.26122 4.08227 2.75715 3.75837 2.76712 2.98927 2.05756 2.61462 3.31662 5.48055 4.10611 25 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03189 3.85731 4.57965 0.61958 0.77255 0.48387 0.95813\n- 3 3.15677 4.54131 4.54563 3.99455 3.08190 4.35853 4.65580 1.87270 3.82071 1.07067 2.74321 4.29852 4.59296 4.04780 4.01073 3.70001 3.38865 2.08605 5.11246 3.97167 26 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 4 2.32400 4.89313 2.47887 1.48811 4.30651 3.22209 3.74245 3.61656 2.59559 3.30147 4.20163 2.83805 3.80013 2.92480 3.03071 2.71407 3.00947 3.28299 5.56772 4.20808 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 5 2.61774 4.98930 2.64628 2.24580 4.29233 3.33234 3.53446 3.72098 2.24702 3.26938 4.09182 2.51106 3.79798 2.05685 2.70452 2.65834 2.87023 3.36935 5.45135 4.10834 28 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 6 2.64728 4.82524 2.77407 2.38560 3.72500 3.35244 2.71099 3.52348 2.39225 3.10579 3.94868 2.22830 3.80323 2.68893 2.80339 2.61434 2.89137 3.20021 5.19799 3.79189 29 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 7 3.23021 4.72397 3.82090 3.54814 2.29384 3.81645 3.61325 3.24108 3.40600 2.69804 3.91736 3.70904 4.2906'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 174 2.45818 4.66487 2.76973 2.41580 4.13926 3.17494 3.70273 3.55228 2.48601 3.16641 4.00724 2.92422 3.76419 2.31398 2.88058 1.93442 2.82319 3.19012 5.39492 4.08072 197 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 175 2.94232 5.05072 2.48289 1.04226 4.39549 3.26658 3.85247 3.84705 2.73153 3.46610 4.44075 2.92647 3.87063 3.06843 3.13908 2.92597 3.24649 3.53214 5.56929 4.29163 198 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 176 3.08857 4.52353 4.31923 3.84444 1.49538 4.09762 4.04605 2.40170 3.70137 1.74269 2.75258 4.01593 4.43064 3.88931 3.87378 3.45700 3.33942 2.43224 4.38174 2.84657 199 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 177 3.10662 4.58703 4.24194 3.81509 3.06141 4.07789 4.46541 2.22834 3.55082 0.97369 3.00379 4.09290 4.45890 3.91332 3.74116 3.52213 3.38633 2.27196 4.99966 3.70888 200 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 178 2.36313 4.38015 3.17249 2.67128 3.81534 3.01256 3.75212 3.18771 2.60982 2.86560 3.33664 3.08182 3.75879 2.97620 2.84724 1.96606 2.53242 2.86982 5.16607 3.90020 201 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 179 3.14212 4.60794 4.17053 3.81041 3.13136 3.96710 4.46985 2.33486 3.57827 0.88985 3.15815 4.08702 4.40454 3.94942 3.75623 3.53671 3.43694 2.36912 5.00628 3.72685 202 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86068 4.58302 0.61958 0.77255 0.48576 0.95510\n- 180 3.01480 4.37390 4.57330 4.06535 3.42008 4.29020 4.79967 1.33365 3.93722 1.90075 3.24609 4.32031 4.61215 4.21451 4.15440 3.66192 3.27920 1.39625 5.36697 4.16152 203 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.86068 4.31368 0.61958 0.77255 0.48576 0.95510\n- 181 2.63044 4.89984 2.93284 2.42359 4.20617 3.36089 3.52088 3.61988 1.89632 3.16988 3.98877 2.58102 3.81136 2.70713 2.30101 2.53546 2.89225 3.28124 5.34522 3.89670 204 k - - -\n- 2.68620 4.42227 2.77521 2.73126 3.46356 2.40508 3.72497 3.29356 2.67740 2.69357 4.24692 2.90341 2.73739 3.18148 2.89794 2.37885 2.77520 2.98521 4.58479 3.61505\n- 0.18959 1.75620 * 0.44012 1.03271 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__QueC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__QueC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,680 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__QueC\n-LENG 219\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:01:17 2022\n-NSEQ 100\n-EFFN 0.515747\n-CKSUM 1410398530\n-GA 20 20;\n-STATS LOCAL MSV -10.8842 0.70432\n-STATS LOCAL VITERBI -11.3506 0.70432\n-STATS LOCAL FORWARD -5.2735 0.70432\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49951 3.89034 2.88437 2.70207 3.36934 2.81652 3.63179 2.76542 2.74974 2.48714 3.60926 3.06781 3.44953 3.17935 3.06283 2.65303 2.91256 2.55771 4.79173 3.23231\n- 2.68618 4.42228 2.77520 2.73124 3.46356 2.40515 3.72497 3.29357 2.67739 2.69355 4.24659 2.90346 2.73741 3.18147 2.89803 2.37885 2.77514 2.98516 4.58480 3.61506\n- 0.13366 2.89097 2.66517 1.03151 0.44078 0.00000 *\n- 1 2.71231 4.36042 3.64864 3.08174 3.33523 3.65704 4.02655 2.39462 2.92148 2.07600 1.92508 3.51463 4.07982 3.36363 3.21527 2.99700 2.92971 2.31759 4.99236 3.76113 16 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03305 3.82208 4.54443 0.61958 0.77255 0.46408 0.99078\n- 2 2.38937 4.48583 3.09458 2.56820 3.75392 3.36019 3.67520 3.13675 2.49655 2.80127 3.19260 2.92815 3.40464 2.83330 2.94623 2.36556 2.44969 2.85107 5.10436 3.82367 17 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03129 3.87598 4.59832 0.61958 0.77255 0.48146 0.96202\n- 3 2.51894 5.01353 2.57871 2.00653 4.30726 3.27459 3.57791 3.75401 2.22360 3.29049 3.97325 2.70906 3.76630 2.29332 2.79719 2.61920 2.88089 3.37929 5.47013 4.09373 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 4 2.87998 4.96530 3.13901 2.66264 4.37227 3.49034 3.62803 3.73589 1.26491 3.27150 4.16610 3.09124 3.93461 2.78424 2.19224 2.90347 3.02249 3.42412 5.39418 4.16936 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 5 2.49503 4.29368 4.18698 3.68555 3.52582 3.90845 4.50012 1.83650 3.56910 2.13446 3.38563 3.95090 4.34218 3.88456 3.82996 3.27101 3.09248 1.26080 5.29858 4.07736 20 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 6 2.81675 4.35613 4.14073 3.80405 3.55799 3.73545 4.60380 2.04926 3.67200 2.24299 3.52130 3.99215 4.29523 4.03094 3.88347 3.23956 3.17796 1.01107 5.34435 4.07672 21 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 7 2.69198 4.31551 4.09966 3.74810 3.58147 3.69914 4.57778 2.02332 3.62123 2.25238 3.50898 3.93341 4.26492 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 212 2.53746 4.60521 2.99589 2.44896 3.82280 3.40338 3.60424 3.12434 2.36765 2.81099 3.70197 2.95401 3.80228 2.71703 2.79487 2.56267 2.25631 2.82998 5.13989 3.84508 236 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 213 3.00122 5.13160 0.90233 2.34138 4.51003 3.21882 3.94042 4.10067 3.02656 3.70696 4.68516 2.89837 3.87237 3.17947 3.54440 2.96223 3.33998 3.73862 5.67651 4.38091 237 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 214 2.76571 4.52141 3.37404 3.21454 4.20907 3.20829 4.29122 3.75715 3.27275 3.38286 4.43306 3.52021 0.80734 3.66119 3.51717 2.93351 3.20811 3.40129 5.39275 4.32983 238 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 215 3.13131 4.50111 4.59055 4.05432 3.16386 4.35999 4.71873 1.70193 3.89793 1.16720 2.99036 4.33750 4.61661 4.12466 4.08701 3.71312 3.37328 1.88641 5.18095 4.02687 239 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03105 3.88353 4.60587 0.61958 0.77255 0.48576 0.95510\n- 216 2.28719 4.72991 2.80291 2.14617 4.02321 3.32692 3.61809 3.36348 2.43426 3.02907 3.86768 2.89919 3.14752 2.73858 2.88912 2.46102 2.71549 3.07945 5.29331 3.96141 240 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03698 3.88353 4.15234 0.61958 0.77255 0.48576 0.95510\n- 217 3.25456 4.74140 3.84597 3.57625 2.29335 3.83624 3.62072 3.26301 3.43361 2.71560 3.93746 3.72984 4.30991 3.73839 3.61628 3.39076 3.54123 3.13380 3.93735 0.95701 241 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03123 3.87777 4.60012 0.61958 0.77255 0.49104 0.94672\n- 218 2.74954 4.98166 2.50852 1.44975 4.26675 3.27946 3.68801 3.68368 2.47341 3.17376 4.18479 2.83580 3.82022 2.86346 2.83475 2.66085 3.02424 3.35238 5.50883 4.13318 242 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17977 3.87777 1.93906 0.61958 0.77255 0.49104 0.94672\n- 219 2.31211 4.55306 2.82057 2.41666 3.82293 3.18412 3.62626 3.07559 2.42159 2.86170 3.71062 2.93854 3.75664 2.73853 2.89191 2.40979 2.76857 2.82935 5.14863 3.85064 243 a - - -\n- 2.68613 4.42219 2.77522 2.73125 3.46357 2.40513 3.72497 3.29357 2.67744 2.69354 4.24693 2.90347 2.73738 3.18145 2.89804 2.37885 2.77516 2.98512 4.58480 3.61506\n- 0.16448 1.88607 * 0.66701 0.71998 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__QueD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__QueD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,383 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__QueD\n-LENG 120\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:00:03 2022\n-NSEQ 100\n-EFFN 0.424194\n-CKSUM 4027817718\n-GA 20 20;\n-STATS LOCAL MSV -9.8254 0.71344\n-STATS LOCAL VITERBI -10.6958 0.71344\n-STATS LOCAL FORWARD -4.0292 0.71344\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55408 3.96371 2.97425 2.73321 3.15724 2.81710 3.45341 2.78791 2.75684 2.37720 3.62175 3.21294 3.27840 3.31280 3.04546 2.76905 2.81608 2.57789 4.18458 3.41241\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40514 3.72495 3.29355 2.67742 2.69356 4.24624 2.90347 2.73740 3.18147 2.89801 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.11469 2.32648 4.53570 0.42647 1.05789 0.00000 *\n- 1 2.92436 4.48300 3.98655 3.57660 3.18453 3.78998 4.32549 2.35433 3.34749 1.78915 1.49621 3.86107 4.25121 3.73387 3.55955 3.26680 3.22900 2.35331 5.01682 3.77276 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 2 2.35922 4.42031 3.08917 2.60952 3.85395 3.23943 3.72142 3.12023 2.41131 2.89415 3.74883 3.03765 3.40013 2.93250 2.94460 2.02125 2.65629 2.78673 5.18919 3.91463 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 3 2.38322 4.22773 3.37783 3.12862 3.91878 3.06856 4.15016 3.03880 3.07040 2.90433 3.95974 3.34662 3.76813 3.46854 3.33116 2.58397 1.27630 2.74011 5.36188 4.13579 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 4 2.27794 4.16913 3.29591 3.03254 3.95785 2.99674 4.08057 3.13265 2.98967 3.00278 3.97148 3.24863 3.70549 3.37566 3.26894 2.38441 1.43563 2.78028 5.38984 4.12843 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 5 3.05957 4.55210 4.16559 3.74890 3.05550 4.01529 4.41415 2.18458 3.49648 1.03705 3.06161 4.02951 4.41189 3.86629 3.69403 3.46432 3.34389 2.23285 4.97189 3.66380 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 6 3.24155 4.62380 4.22386 3.83650 1.27848 4.08261 3.51858 2.89670 3.70781 2.27244 3.53938 3.84636 4.42681 3.82927 3.84776 3.44686 3.48006 2.84158 3.73908 1.85180 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 7 2.91987 4.87870 3.09179 2.72599 4.25158 3.41434 3.72974 3.67744 1.12234 3.25612 4.22197 3.15263 3.91988 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 113 1.10253 4.16481 3.40431 3.19433 3.99509 2.99062 4.22313 3.11194 3.20909 2.99609 4.03558 3.35834 3.72438 3.55602 3.46290 2.51619 2.78952 2.77668 5.42824 4.22218 114 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 114 2.59492 4.37475 3.25644 3.14908 4.28972 0.82648 4.27180 3.87604 3.32215 3.53737 4.51364 3.42106 3.76398 3.65122 3.56353 2.76537 3.07162 3.41590 5.39930 4.39006 115 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 115 2.52302 1.06879 4.02648 3.75361 3.75977 3.15734 4.41384 2.89492 3.58055 2.81253 3.93242 3.75640 3.85960 3.92923 3.71498 2.79434 2.98499 2.64323 5.18709 4.04753 116 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 116 2.90230 4.32434 4.36922 3.87518 3.45234 4.09115 4.65781 1.57645 3.74741 2.01238 3.29260 4.13437 4.47555 4.05345 3.98634 3.46523 3.12084 1.27428 5.33525 4.11686 117 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 117 3.16407 4.67700 3.75194 3.47137 2.29890 3.76202 3.59466 3.18175 3.33059 2.65066 3.86330 3.65232 4.23783 3.65083 3.52595 3.30625 3.45081 3.04968 3.93999 1.07011 118 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 118 2.89170 4.87257 3.30735 2.77541 4.23572 3.49120 3.63443 3.66087 1.93594 3.19296 4.11912 3.16499 3.93721 2.80985 1.33146 2.94229 3.11822 3.36931 5.28798 4.08531 119 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03334 3.81335 4.53570 0.61958 0.77255 0.48576 0.95510\n- 119 2.32927 3.84167 3.43966 3.21788 4.14769 1.07717 4.22286 3.59245 3.22753 3.33026 4.25793 3.37379 3.68494 3.57001 3.47374 2.51870 2.81647 3.12827 5.40934 4.28613 120 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05245 3.81335 3.53963 0.61958 0.77255 0.48576 0.95510\n- 120 2.75967 5.09092 2.27821 1.43090 4.37816 3.20489 3.67648 3.82058 2.52994 3.40700 4.29720 2.73275 3.78538 2.76281 2.97353 2.74522 3.07089 3.47382 5.60321 4.20302 121 e - - -\n- 2.68617 4.42225 2.77519 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37886 2.77520 2.98517 4.58477 3.61503\n- 0.04302 3.16757 * 0.55644 0.85155 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__QueE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dpd__QueE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,686 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dpd__QueE\n-LENG 221\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 13:01:22 2022\n-NSEQ 100\n-EFFN 0.570679\n-CKSUM 2244787667\n-GA 20 20;\n-STATS LOCAL MSV -10.8378 0.70422\n-STATS LOCAL VITERBI -11.6162 0.70422\n-STATS LOCAL FORWARD -5.0249 0.70422\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55672 3.90955 3.03504 2.65439 3.38444 2.86938 3.67944 2.73413 2.67538 2.47793 3.65747 3.13760 3.39531 3.00208 3.05280 2.68899 2.76459 2.57678 4.28885 3.50499\n- 2.68624 4.42232 2.77525 2.73129 3.46361 2.40520 3.72502 3.29355 2.67744 2.69360 4.24496 2.90349 2.73744 3.18144 2.89808 2.37890 2.77492 2.98519 4.58484 3.61510\n- 0.26673 1.53265 4.00865 0.87498 0.53934 0.00000 *\n- 1 2.55737 4.23142 3.22747 2.59754 3.59525 3.46711 3.64793 2.96656 2.52601 2.57480 2.53720 2.89049 3.85283 2.85642 2.85973 2.69068 2.71754 2.71814 4.98111 3.72296 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91479 4.63714 0.61958 0.77255 0.49395 0.94215\n- 2 3.22315 4.72007 3.95294 3.60409 2.22144 3.95723 3.57662 3.10228 3.40442 2.43062 3.78763 3.73530 4.37120 3.70263 3.59569 3.37564 3.48534 2.99099 3.88385 1.08990 14 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91479 4.63714 0.61958 0.77255 0.49395 0.94215\n- 3 2.86059 5.02138 2.96299 2.55396 4.41445 3.45725 3.62582 3.82305 1.31103 3.33653 4.19876 2.95017 3.70923 2.67558 2.34449 2.86297 3.08609 3.48693 5.44260 4.18528 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91479 4.63714 0.61958 0.77255 0.49395 0.94215\n- 4 3.04698 4.38897 4.65838 4.14478 3.45249 4.35090 4.86535 1.26530 4.02037 1.94999 3.19895 4.39051 4.66046 4.28637 4.22916 3.72217 3.30860 1.38976 5.40880 4.21540 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91479 4.63714 0.61958 0.77255 0.49395 0.94215\n- 5 2.75834 4.75654 2.73150 2.62116 4.12667 3.21220 3.95490 3.84600 2.86204 3.48803 4.44291 1.08529 3.86607 3.22760 3.21824 2.82383 3.14151 3.46394 5.42772 4.07186 17 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91479 4.63714 0.61958 0.77255 0.49395 0.94215\n- 6 2.98846 5.10853 2.50517 0.96671 4.46001 3.30118 3.89143 3.92230 2.77726 3.53255 4.50454 2.95664 3.90771 3.10609 3.19061 2.96646 3.29296 3.60171 5.62361 4.34567 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91479 4.63714 0.61958 0.77255 0.48068 0.96329\n- 7 3.05210 4.39254 4.64412 4.08871 3.18095 4.34477 4.72000 1.58981 3.98738 1.56062 2.84555 4.34026 4.60066 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 214 2.75598 4.29135 4.12111 3.62539 3.52926 3.81449 4.43490 2.01046 3.48720 2.21308 3.17309 3.88006 4.27767 3.81701 3.74310 3.18261 2.70615 1.23829 5.26669 4.05062 227 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 215 3.05088 4.85947 3.17566 2.94065 3.32053 3.49065 1.03951 3.76167 2.78233 3.24929 4.29614 3.34796 4.04594 3.30753 3.04502 3.12108 3.35594 3.49582 4.78493 3.26994 228 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 216 3.01851 4.98447 3.19790 2.80974 4.38253 3.50258 3.78732 3.81496 0.97075 3.36890 4.32755 3.23200 3.99928 2.97586 2.44126 3.05711 3.26796 3.51985 5.41622 4.23628 229 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 217 3.37670 4.77037 4.20460 3.85155 1.91736 4.12787 3.48796 3.18038 3.71441 2.58248 3.82398 3.85304 4.49273 3.85890 3.86535 3.51034 3.62110 3.08440 3.70265 1.01434 230 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 218 3.17149 4.52096 4.66126 4.13994 3.18270 4.41257 4.77266 1.48761 3.96747 1.23578 3.02262 4.40849 4.66604 4.19943 4.14192 3.78180 3.41426 1.93649 5.20294 4.03073 231 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 219 2.50440 4.36977 3.29933 3.09350 3.59865 1.02764 4.17413 3.56287 3.19781 3.26913 4.23579 3.36390 3.81838 3.52215 3.49281 2.67393 2.95535 3.17213 5.35143 4.08395 232 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 220 3.07656 4.46694 4.48248 4.05039 3.35548 4.22437 4.74945 1.08528 3.85966 1.87574 3.26443 4.29539 4.59918 4.19327 4.05638 3.65870 3.35864 1.79759 5.29525 4.02907 233 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 3.92338 4.64573 0.61958 0.77255 0.48576 0.95510\n- 221 2.72832 5.16848 2.31536 1.65242 4.48414 3.24724 3.66615 3.95529 2.54715 3.48875 4.30724 2.29675 3.78968 2.77892 3.05739 2.36152 3.02090 3.56250 5.67042 4.24743 234 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02017 3.91373 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_III__DruH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_III__DruH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3332 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_III__DruH\n-LENG 1103\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:07:02 2021\n-NSEQ 50\n-EFFN 4.513550\n-CKSUM 4171355732\n-GA 20 20;\n-STATS LOCAL MSV -12.8486 0.69536\n-STATS LOCAL VITERBI -13.8587 0.69536\n-STATS LOCAL FORWARD -7.0121 0.69536\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55793 4.45825 2.96616 2.60676 3.27417 3.04618 3.69835 2.87317 2.67884 2.32845 3.76177 3.07185 3.25398 2.99362 2.87052 2.62932 2.87654 2.74517 4.22257 3.48715\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24665 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.04307 4.27735 3.56566 0.53041 0.88762 0.00000 *\n- 1 4.65012 6.03244 5.82390 5.67762 4.65479 5.11422 6.14591 4.03721 5.43783 3.19338 0.15969 5.77824 5.69255 5.76274 5.45514 5.03672 5.04595 4.16730 6.47339 5.35937 2 M - - -\n- 2.68713 4.42386 2.77464 2.73100 3.46372 2.40516 3.72655 3.29414 2.67679 2.69034 4.24743 2.90439 2.73853 3.18035 2.89905 2.37829 2.77556 2.98562 4.58638 3.61515\n- 1.11277 0.93612 1.27581 2.08998 0.13204 0.56126 0.84511\n- 2 1.96040 5.00709 2.75524 2.66403 4.24426 2.99126 3.85442 2.69359 2.65750 2.52637 4.08018 3.01192 3.32457 3.00657 2.74382 2.32686 3.04725 3.33872 5.51312 4.18002 32 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11540 4.83813 2.29197 0.61958 0.77255 1.17623 0.36880\n- 3 2.78621 3.42511 4.13542 2.85949 3.40335 3.86910 4.16295 1.94260 2.81058 1.67249 3.40864 3.80435 4.24006 3.68695 3.66230 3.14820 2.70248 2.54610 4.90432 2.89555 33 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01312 4.73586 5.45820 0.61958 0.77255 1.28678 0.32318\n- 4 2.85084 5.21413 3.07977 2.57161 4.52666 3.60726 3.81407 3.97247 2.30465 3.50584 4.28666 1.64769 4.01656 2.07415 2.99140 2.60065 3.08387 2.67712 5.67880 4.31152 34 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01312 4.73586 5.45820 0.61958 0.77255 1.15268 0.37949\n- 5 2.31088 4.67242 3.07146 2.91751 2.53187 3.71308 3.96599 3.22017 2.89977 2.22762 3.77959 3.00712 4.10716 3.22138 3.30350 1.73352 3.03690 2.96940 5.24136 3.97506 35 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01260 4.77583 5.49817 0.61958 0.77255 1.24635 0.33905\n- 6 2.91967 5.43659 2.49547 1.74561 4.76970 3.58953 3.85461 4.25909 2.30026 3.73866 4.49301 3.05479 2.86226 2.96461 3.14521 1.60746 3.16005 3.82333 5.87489 4.44935 36 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01260 4.77583 5.49817 0.61958 0.77255 1.24635 0.33905\n- 7 2.42819 4.43603 3.82666 3.25521 3.01200 3.81519 4.08295 2.51033 3.19357 1.99583 3.09582 3.61666'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09387 5.25958 2.47222 0.61958 0.77255 0.48576 0.95510\n- 1096 2.63024 3.35281 4.55996 3.96838 2.77018 2.66413 4.42264 2.88989 3.83094 2.15677 3.56206 4.13354 4.48068 4.03446 3.20597 3.40373 2.70177 2.69766 5.05853 1.43421 1488 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00845 5.17416 5.89651 0.61958 0.77255 0.74758 0.64152\n- 1097 3.00193 2.84642 4.78657 4.18398 3.50097 2.80130 4.47648 2.84046 4.00602 1.30820 2.96466 4.25260 4.51601 4.17136 4.07778 3.45287 2.37107 2.65433 5.02722 2.22154 1489 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00845 5.17416 5.89651 0.61958 0.77255 0.74758 0.64152\n- 1098 2.61929 4.40277 4.88231 4.27516 2.87846 2.55268 4.50828 1.82041 4.08238 1.45621 3.51998 4.30668 4.53992 4.23243 4.12592 2.84863 3.24701 2.06068 5.03098 3.85265 1490 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00845 5.17416 5.89651 0.61958 0.77255 0.74758 0.64152\n- 1099 1.71470 5.44878 2.75513 2.38201 4.78585 3.14757 3.92047 4.26647 2.15449 2.64098 4.49200 2.60458 3.22369 3.01972 3.15144 2.36675 3.18802 3.83521 5.88639 4.47978 1491 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07434 5.17416 2.71838 0.61958 0.77255 0.74758 0.64152\n- 1100 2.90288 3.53711 3.17774 2.09302 4.66954 3.68607 3.87446 4.13718 2.15938 2.81349 4.39684 3.16419 4.07871 2.09778 2.73480 2.15360 2.40884 3.72657 5.79638 4.40273 1492 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00954 5.05252 5.77487 0.61958 0.77255 0.89887 0.52261\n- 1101 1.74377 5.14163 3.32239 2.75976 4.38937 3.75143 3.94405 2.61482 1.90363 2.92477 4.21130 3.27789 4.13995 2.34256 2.73900 2.95705 2.81937 3.47829 5.63472 4.30141 1493 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00954 5.05252 5.77487 0.61958 0.77255 0.89887 0.52261\n- 1102 1.81590 5.15618 3.26619 2.12878 3.38614 3.03626 3.91833 3.83733 2.16614 2.61079 4.22208 3.23498 3.65565 3.05639 2.90149 2.91790 2.73004 3.10575 5.64733 4.29894 1494 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24809 5.04343 1.54525 0.61958 0.77255 0.67974 0.70673\n- 1103 2.58367 5.17027 3.10028 2.24670 4.46347 3.59026 2.91302 3.16133 2.29347 3.45306 4.22500 2.78465 3.98231 2.89989 2.61636 2.08780 2.63036 2.89732 5.63524 3.82542 1495 s - - -\n- 2.68582 4.42149 2.77606 2.73085 3.46408 2.40497 3.72432 3.29360 2.67669 2.69384 4.24808 2.90388 2.73671 3.18216 2.89772 2.37960 2.77508 2.98420 4.58595 3.61547\n- 0.80268 0.59443 * 1.82281 0.17623 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_II__DruF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_II__DruF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2606 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_II__DruF\n-LENG 861\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:07:00 2021\n-NSEQ 50\n-EFFN 6.814575\n-CKSUM 2124647020\n-GA 20 20;\n-STATS LOCAL MSV -12.5602 0.69598\n-STATS LOCAL VITERBI -13.6778 0.69598\n-STATS LOCAL FORWARD -6.6781 0.69598\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46587 4.41371 2.91531 2.64203 3.32971 2.84123 3.73514 3.02801 2.80295 2.38204 3.85543 3.15517 3.12875 3.08316 2.72521 2.58170 2.87047 2.78397 4.04143 3.59275\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24514 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.05388 2.99435 6.03825 0.28076 1.40734 0.00000 *\n- 1 5.47252 6.76224 6.51758 6.46676 5.53476 5.68110 6.89868 5.04416 6.32255 4.12963 0.06360 6.55671 6.29954 6.61948 6.26675 5.83774 5.90232 5.18913 7.18762 6.18241 2 M - - -\n- 2.68695 4.42392 2.77478 2.73188 3.46521 2.40556 3.72486 3.29141 2.67761 2.69433 4.24722 2.90269 2.73847 3.18040 2.89480 2.37972 2.77444 2.98563 4.57904 3.61598\n- 1.17706 0.74668 1.52381 1.51111 0.24931 0.48576 0.95510\n- 2 2.12089 3.88354 3.34658 1.86989 3.70188 2.76451 4.03567 4.20933 2.53077 3.18683 4.50371 3.33009 4.23570 2.54626 3.27429 2.04453 2.44673 3.81836 5.91098 4.52791 34 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27004 5.37390 1.46094 0.61958 0.77255 1.24183 0.34088\n- 3 2.72942 4.87396 2.56426 3.00179 2.24427 3.84131 4.08320 3.43836 2.98440 2.55628 3.97548 3.47340 2.30605 3.31321 3.40272 2.63575 1.94245 3.17690 5.43540 4.15972 35 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00898 5.11284 5.83519 0.61958 0.77255 1.60794 0.22352\n- 4 2.99751 5.07839 3.78968 3.33391 4.95270 2.83664 4.49079 4.39354 3.27539 3.98554 4.77928 3.71092 0.86718 3.66138 2.53846 2.44579 2.72041 3.90071 6.17976 4.89525 36 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06043 5.11284 2.94461 0.61958 0.77255 1.38003 0.28978\n- 5 2.98756 2.57754 4.92865 4.31707 3.46153 4.15986 4.49631 1.76823 4.10918 2.18966 3.48335 4.31446 4.52263 4.24649 4.12776 2.94347 2.76708 1.42834 3.40061 3.81938 37 v - - -\n- 2.68659 4.42266 2.77479 2.73164 3.46395 2.40554 3.72536 3.29395 2.67748 2.69396 4.24731 2.90284 2.73781 3.18132 2.89741 2.37903 2.77472 2.98559 4.57302 3.61544\n- 0.26397 1.47369 5.83537 1.31479 0.31270 0.25076 1.50603\n- 6 3.15361 5.60860 2.25351 2.86613 4.93175 3.29935 4.12563 3.42358 2.57149 3.15393 4.65657 1.83481 4.32804 3.23007 3.35991 1.94666 1.89734 3.98770 6.05609 4.65891 48 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00574 5.55905 6.28139 0.61958 0.77255 0.74530 0.64358\n- 7 2.42638 4.84664 5.17928 4.60520 3.10006 4.57159 4.74871 3.24676 4.42965 1.33450 3.91082 4.64592 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00576 5.55628 6.27863 0.61958 0.77255 0.48576 0.95510\n- 854 1.66614 5.19812 3.05260 2.54163 4.39322 2.59480 4.25877 3.28523 2.91469 2.64440 3.16310 3.62429 4.42862 3.45369 3.05508 3.25561 2.47294 2.13671 5.73262 4.43577 1597 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00576 5.55628 6.27863 0.61958 0.77255 0.48576 0.95510\n- 855 1.87032 5.55595 3.41839 2.58614 4.86598 3.92135 4.11238 3.39790 2.62694 1.96505 4.60601 2.95048 3.18854 2.14100 2.88621 2.51532 2.90909 3.92763 6.01016 4.62150 1598 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08057 5.52943 2.61129 0.61958 0.77255 0.48576 0.95510\n- 856 3.09033 3.96540 2.84873 2.29922 4.93999 3.86469 4.05179 4.42464 2.14536 3.90111 4.63777 3.33285 3.14787 2.60142 1.70166 2.38407 2.32925 3.98636 3.92521 4.62052 1599 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07940 5.45523 2.63032 0.61958 0.77255 0.78022 0.61305\n- 857 2.23151 5.51823 3.32854 2.77182 4.84430 2.73896 4.02767 4.31545 1.64797 3.43364 3.63768 2.92431 2.59272 3.13104 2.11197 3.03097 2.79989 3.89883 5.96248 4.56559 1600 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00685 5.38268 6.10503 0.61958 0.77255 0.67417 0.71249\n- 858 1.99931 4.56513 4.62991 4.04017 3.66809 4.21810 4.52584 1.90748 3.09656 1.89377 3.68116 3.41398 4.58670 3.58076 4.06880 3.50786 2.87605 1.57065 5.18056 3.99119 1601 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00695 5.36792 6.09026 0.61958 0.77255 0.64149 0.74762\n- 859 2.70992 5.57606 2.79824 2.46254 4.92219 2.19167 3.27385 4.40897 2.53692 3.88176 4.61650 2.50947 3.38451 2.51038 2.06268 2.18263 3.29389 3.96727 6.00803 4.59632 1602 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00673 5.40067 6.12302 0.61958 0.77255 0.74079 0.64768\n- 860 3.00815 3.49119 2.80630 2.74634 4.71174 3.13500 3.99190 4.16846 2.41724 2.83977 3.35251 3.28627 4.19218 2.72693 1.89800 2.17419 2.22522 3.77693 5.86871 4.48537 1603 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10883 5.28722 2.32214 0.61958 0.77255 0.74079 0.64768\n- 861 2.62808 5.23080 3.28761 2.73015 4.49623 3.75099 3.17520 2.64904 2.36511 2.86242 4.29353 3.25982 3.26234 2.51981 2.71125 2.58211 1.80345 3.57791 5.71413 4.35782 1604 t - - -\n- 2.68537 4.42379 2.77642 2.73197 3.46448 2.40544 3.72552 3.29232 2.67783 2.69091 4.24678 2.90288 2.73863 3.18117 2.89715 2.37953 2.77484 2.98526 4.58346 3.61571\n- 1.40774 0.28063 * 1.45257 0.26653 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_II__DruG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_II__DruG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2093 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_II__DruG\n-LENG 690\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:07:01 2021\n-NSEQ 50\n-EFFN 4.953003\n-CKSUM 999552634\n-GA 20 20;\n-STATS LOCAL MSV -12.1910 0.69668\n-STATS LOCAL VITERBI -12.9289 0.69668\n-STATS LOCAL FORWARD -6.3688 0.69668\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34368 4.53743 2.92350 2.53758 3.51658 2.95545 3.78322 2.96050 2.75886 2.37760 3.78251 3.18636 3.16304 3.00605 2.80042 2.57350 2.82213 2.75786 4.55566 3.82814\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04750 5.29358 3.18526 0.61958 0.77255 0.00000 *\n- 1 4.81286 6.17966 5.96695 5.84253 4.82330 5.22726 6.30018 4.22907 5.61800 3.36959 0.13287 5.93711 5.81532 5.93727 5.62052 5.19542 5.21656 4.36431 6.61617 5.51999 1 M - - -\n- 2.68333 4.40948 2.77431 2.72304 3.45729 2.41897 3.72468 3.26646 2.68084 2.67161 4.24432 2.91287 2.73593 3.17555 2.89985 2.38678 2.78725 2.98482 4.57988 3.63525\n- 0.96235 0.76488 1.87985 4.83576 0.00797 0.62311 0.76846\n- 2 2.27224 5.37832 1.85901 2.31569 4.69984 3.70349 3.90134 4.16882 2.39394 3.67487 4.42880 3.18199 4.10155 3.00736 3.13992 2.13845 2.54763 2.54960 5.82861 4.43204 260 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05780 5.09127 2.99543 0.61958 0.77255 0.50738 0.92148\n- 3 2.61462 4.50745 4.30620 3.72496 3.61614 3.63889 4.35673 2.25377 2.47825 2.38815 2.46579 3.98792 4.43641 3.86926 3.85347 1.95955 2.63089 2.24569 5.11406 3.00984 261 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00847 5.17166 5.89401 0.61958 0.77255 0.63918 0.75020\n- 4 2.97675 5.48184 1.61260 2.34208 4.82387 3.16659 3.93760 3.40864 2.47993 3.78582 4.52365 2.39548 4.14272 3.03528 2.79159 2.36849 2.46818 3.87091 5.91609 4.50606 262 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21308 5.93543 0.61958 0.77255 0.74235 0.64626\n- 5 2.97236 5.37735 2.42458 2.25469 4.68078 2.39969 3.95543 2.80584 2.70886 2.71164 4.42924 2.83928 4.15578 3.06714 2.18409 2.66388 2.81908 3.01609 5.83582 4.45148 263 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21308 5.93543 0.61958 0.77255 0.74235 0.64626\n- 6 3.00647 4.57740 4.18392 3.20710 2.93083 4.05595 4.33638 2.46893 3.52825 2.40092 3.68806 3.92062 2.15822 3.22169 3.12242 2.70182 2.79193 1.61489 5.17810 3.97054 264 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00812 5.21308 5.93543 0.61958 0.77255 0.74235 0.64626\n- 7 2.66809 4.48913 4.47365 3.15718 2.99563 3.19559 3.19334 2.81893 3.76705 2.26565 2.74394 4.09474 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00801 5.22649 5.94884 0.61958 0.77255 0.70522 0.68122\n- 683 1.39063 3.74624 2.56267 2.42481 4.75140 3.76508 3.96276 4.21896 2.03722 3.72737 4.48211 3.24739 4.16219 3.06918 3.19831 2.69988 2.46000 3.80834 5.88281 4.48866 1158 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05032 5.22649 3.13033 0.61958 0.77255 0.70522 0.68122\n- 684 2.62597 4.41876 4.71961 4.11967 2.54880 4.14170 3.92243 1.56083 3.95472 1.70641 3.53544 4.21929 3.77553 2.97756 3.34097 3.44159 3.23371 2.17431 5.03624 3.85381 1159 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11685 5.18453 2.25684 0.61958 0.77255 0.81559 0.58407\n- 685 1.71992 5.35387 2.64889 2.63187 4.67304 3.69530 3.88676 4.14000 2.35623 3.64874 4.40344 2.76943 4.08899 2.99284 2.31896 2.62958 2.38494 2.77214 5.80451 4.41100 1160 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05711 5.07699 3.01050 0.61958 0.77255 1.03764 0.43741\n- 686 1.83154 5.36831 2.55299 2.25863 4.69621 3.67165 3.86548 4.17079 2.60990 2.75933 4.41442 2.48622 4.06809 2.62500 3.10064 2.57511 2.29970 3.74987 5.81162 4.41011 1161 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00977 5.02965 5.75199 0.61958 0.77255 1.11561 0.39708\n- 687 2.88888 5.36570 2.78295 2.08538 4.69688 2.20493 3.85627 4.17306 2.19120 3.16454 3.23147 3.14080 4.06097 2.63114 2.67563 2.85774 2.46009 3.74887 5.80671 3.39907 1162 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00977 5.02965 5.75199 0.61958 0.77255 1.11561 0.39708\n- 688 2.94187 4.32817 4.82000 4.21185 2.44261 4.10260 4.42454 1.50357 4.01537 1.78513 3.43596 4.23561 3.46195 4.16061 4.05287 2.93590 3.17398 2.46978 4.93626 2.40953 1163 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00977 5.02965 5.75199 0.61958 0.77255 1.11561 0.39708\n- 689 2.89628 5.40773 2.18376 1.93412 4.75352 3.66572 3.16773 4.23948 2.12120 3.71267 4.44867 3.13284 4.06088 2.67557 2.18088 2.54880 2.54656 3.79885 5.83914 4.42836 1164 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00977 5.02965 5.75199 0.61958 0.77255 0.68820 0.69812\n- 690 2.11189 4.80711 3.60222 3.03965 3.97221 2.88091 4.08612 3.18784 3.01310 2.31492 3.90305 2.90723 2.44505 3.33751 3.41848 2.27121 2.60829 2.72768 5.36845 3.26716 1165 a - - -\n- 2.67933 4.42570 2.77825 2.73066 3.46157 2.40589 3.72216 3.29406 2.68175 2.68939 4.24474 2.90711 2.73844 3.17872 2.90020 2.38120 2.77410 2.98296 4.58688 3.61496\n- 1.32180 0.31014 * 2.69509 0.06993 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_II__DruM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_II__DruM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1184 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_II__DruM\n-LENG 387\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:07:05 2021\n-NSEQ 50\n-EFFN 2.957153\n-CKSUM 3200098260\n-GA 20 20;\n-STATS LOCAL MSV -11.2712 0.69946\n-STATS LOCAL VITERBI -12.5359 0.69946\n-STATS LOCAL FORWARD -5.5266 0.69946\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47447 4.36093 2.97556 2.65775 3.31010 2.70495 3.70596 2.97854 2.69561 2.53225 3.71550 3.04803 3.12927 3.03527 2.78442 2.63602 2.88272 2.70557 4.59896 3.64219\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01301 4.74470 5.46705 0.61958 0.77255 0.00000 *\n- 1 3.96265 5.40171 5.17815 4.92536 3.98449 4.62649 5.46295 3.27678 4.65132 2.51042 0.35300 5.07428 5.15504 4.99775 4.73500 4.35900 4.32068 3.37393 5.87008 4.69778 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 4.74470 3.75713 0.61958 0.77255 0.48576 0.95510\n- 2 2.33786 5.07602 3.11401 2.55732 3.29104 2.90455 3.77972 3.78208 2.41695 3.01230 4.13890 2.48162 3.14489 2.90867 2.63352 2.14211 2.78804 3.42623 5.55829 4.19870 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23210 4.72539 1.61813 0.61958 0.77255 0.52670 0.89295\n- 3 2.70311 5.07574 3.00779 2.31243 4.36864 3.31170 3.29317 3.29338 2.16799 3.35821 4.13126 2.99019 3.39437 2.60777 2.92889 1.89822 2.64045 3.26821 5.54105 4.16526 3 s - - -\n- 2.68540 4.41928 2.77501 2.73148 3.46220 2.40559 3.72476 3.29162 2.67818 2.69383 4.24694 2.90406 2.73783 3.18184 2.89629 2.37917 2.77524 2.98572 4.58601 3.61628\n- 1.03971 0.58331 2.42598 2.11544 0.12849 0.86240 0.54844\n- 4 2.10180 3.83820 3.01687 1.98514 4.24225 2.72639 3.27381 3.67497 2.48255 3.24926 4.04349 2.76798 3.88286 2.83496 2.95484 2.69103 2.68485 3.32120 5.46377 4.10890 58 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12562 4.42307 2.24384 0.61958 0.77255 0.95627 0.48503\n- 5 2.40485 4.71865 3.13737 2.57820 3.93659 3.50152 3.72169 2.98411 2.54992 2.84821 3.80966 2.81504 2.97079 2.90270 2.21016 2.52784 2.87823 2.77191 5.25318 3.94830 59 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02001 4.31746 5.03980 0.61958 0.77255 0.77176 0.62027\n- 6 2.72884 5.19692 2.96805 1.83324 4.53922 3.12926 3.09459 4.00862 2.20347 3.49122 4.24279 2.96190 3.88466 2.40634 2.29739 2.69539 2.68124 3.58706 5.62171 4.23318 60 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01754 4.44758 5.16993 0.61958 0.77255 0.63262 0.75757\n- 7 2.39606 5.18823 2.86440 2.13008 4.51283 2.57113 3.69549 3.46449 2.28338 3.48482 4.23514 2.41550 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02492 4.10036 4.82271 0.61958 0.77255 0.61360 0.77957\n- 380 2.40676 4.48071 3.43510 2.86229 3.67165 3.56729 3.83129 2.86185 2.63925 2.35173 3.58719 3.28187 3.97228 3.08568 2.03644 2.83838 2.90560 2.21448 5.09602 3.85119 911 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02492 4.10036 4.82271 0.61958 0.77255 0.61360 0.77957\n- 381 2.52707 4.56612 3.17503 2.66515 4.03329 2.90804 3.78317 3.43052 2.57296 3.07136 3.90799 3.10146 3.82672 2.97225 2.36476 1.78968 2.83380 2.68747 5.32941 4.04374 912 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02492 4.10036 4.82271 0.61958 0.77255 0.50828 0.92012\n- 382 2.99420 5.20977 3.23141 2.68118 4.60909 3.63333 3.66625 3.99411 1.88348 3.45456 4.29780 3.13846 4.02407 1.44174 2.07711 2.97773 3.18278 3.65404 5.53214 4.29983 913 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02350 4.15824 4.88058 0.61958 0.77255 0.55159 0.85810\n- 383 2.81836 4.24885 4.34238 3.75622 2.67453 3.96117 4.26183 1.96489 3.63091 1.53918 2.68840 3.96097 4.28538 3.12282 3.78532 3.25916 3.04645 2.12209 4.83714 3.68303 914 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02350 4.15824 4.88058 0.61958 0.77255 0.55159 0.85810\n- 384 2.39166 5.10077 2.59842 1.54256 4.43518 3.35041 3.67998 3.85001 2.15616 3.40918 4.23355 2.86027 3.84736 2.82583 2.85985 2.74094 3.02081 3.48349 5.59362 4.22519 915 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02663 4.03482 4.75717 0.61958 0.77255 0.55159 0.85810\n- 385 2.77539 4.66023 3.39990 2.80077 3.82543 3.58827 3.69670 3.16892 2.01873 1.87896 3.72626 3.21537 3.96893 2.90909 2.20877 2.89482 2.98718 2.94344 5.12876 3.89399 916 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02847 3.96909 4.69144 0.61958 0.77255 0.55159 0.85810\n- 386 2.28811 4.38827 3.46360 2.94031 3.52506 3.51096 3.85581 2.75184 2.67444 1.79710 3.47413 3.31826 3.95299 3.14464 2.61882 2.83223 2.89174 2.56855 5.01830 3.77456 917 l - - -\n- 2.68553 4.42286 2.77462 2.73109 3.46337 2.40533 3.72351 3.29316 2.67801 2.69325 4.24664 2.90407 2.73750 3.18148 2.89751 2.37934 2.77560 2.98530 4.58417 3.61564\n- 0.43755 1.06567 4.61681 2.36371 0.09879 0.44670 1.02093\n- 387 2.23178 4.70287 3.06522 2.50417 3.92918 3.43690 3.13549 3.33097 2.35701 2.94889 3.28581 2.99754 3.82662 2.50263 2.47430 2.66798 2.83502 3.03458 5.20369 3.90462 957 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01933 3.95557 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1235 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_I__DruA\n-LENG 404\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:06:56 2021\n-NSEQ 50\n-EFFN 0.942993\n-CKSUM 2518584311\n-GA 20 20;\n-STATS LOCAL MSV -11.4454 0.69918\n-STATS LOCAL VITERBI -12.1236 0.69918\n-STATS LOCAL FORWARD -5.7031 0.69918\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52358 4.54074 2.97668 2.73922 3.32542 2.78503 3.64611 2.85272 2.67559 2.38770 3.66955 3.10497 3.49347 3.09816 2.69589 2.64571 2.87476 2.68958 4.40550 3.48732\n- 2.68613 4.42245 2.77488 2.73135 3.46262 2.40526 3.72461 3.29428 2.67698 2.69306 4.24368 2.90390 2.73713 3.18178 2.89763 2.37911 2.77574 2.98586 4.58551 3.61577\n- 0.49615 1.56666 1.70160 2.74122 0.06666 0.00000 *\n- 1 2.58537 4.25413 3.56281 3.00071 3.35541 3.56720 3.85120 2.67447 2.86238 1.99295 2.40382 3.36768 3.50888 3.21122 3.02363 2.73748 2.82579 2.48429 4.84883 3.62526 35 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02855 3.96619 4.68854 0.61958 0.77255 0.67839 0.70813\n- 2 2.67890 4.90256 2.79980 2.39377 4.08493 3.38207 2.51759 3.61209 2.36433 3.03752 4.01093 2.19506 3.60886 2.67930 2.77034 2.68890 2.91771 3.27698 5.33129 3.96252 36 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02855 3.96619 4.68854 0.61958 0.77255 0.51620 0.90829\n- 3 2.59837 4.49657 3.24338 2.67623 2.89582 3.33515 3.71465 3.04489 2.10128 2.72032 2.94156 3.13555 3.88430 2.95317 2.70612 2.65987 2.82825 2.79184 5.04073 3.77314 37 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02573 4.06877 4.79112 0.61958 0.77255 0.58479 0.81469\n- 4 2.28543 4.96931 2.44784 2.27676 4.25401 3.26501 3.59878 3.70060 2.15511 3.24969 4.03343 2.72395 3.78691 2.72402 2.85924 2.52622 2.76285 3.32846 5.44220 3.47657 38 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02573 4.06877 4.79112 0.61958 0.77255 0.50881 0.91932\n- 5 2.59601 4.75907 3.01685 2.34333 3.99002 3.02920 3.63643 3.24347 2.28555 3.01340 3.44914 2.97335 2.82232 2.79480 2.74963 2.64045 2.57461 3.08698 5.26734 3.76955 39 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02464 4.11155 4.83390 0.61958 0.77255 0.45339 1.00914\n- 6 2.37812 4.68481 3.06625 2.53425 4.00947 2.64348 3.70596 3.41798 2.45156 3.04198 3.37566 2.91589 3.21792 2.87590 2.97563 2.08822 2.76459 3.09157 5.30264 3.98867 40 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02350 4.15832 4.88066 0.61958 0.77255 0.48576 0.95510\n- 7 2.56682 4.32744 3.45293 2.90114 3.52886 3.08119 3.84914 2.28944 2.85471 2.35715 3.48711 3.29766 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02350 4.15832 4.88066 0.61958 0.77255 0.48576 0.95510\n- 397 2.61410 4.84622 2.45184 2.42865 4.09858 3.42721 3.63423 3.40269 2.36548 2.45665 3.91875 2.95142 3.39751 2.77804 2.55049 2.46113 2.80163 3.18628 5.34319 4.00179 674 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02350 4.15832 4.88066 0.61958 0.77255 0.48576 0.95510\n- 398 2.55228 4.53916 3.12286 2.14331 3.72255 3.50599 3.75062 2.78224 2.64384 2.09274 3.63711 3.13389 3.90172 2.98110 3.05550 2.66051 2.67103 2.79133 5.10645 3.83147 675 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02350 4.15832 4.88066 0.61958 0.77255 0.48576 0.95510\n- 399 2.26128 4.85974 2.75894 2.24178 4.11049 3.42367 3.63622 2.73974 2.39622 3.12348 3.93026 2.94392 3.82326 2.44088 2.81207 2.51700 2.85248 3.19855 5.35432 4.00984 676 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06350 4.15832 3.08150 0.61958 0.77255 0.48576 0.95510\n- 400 2.16468 4.90232 2.61560 2.38024 4.19593 3.38734 3.62668 3.63112 2.38143 3.20122 3.99520 2.81202 3.80297 2.44623 2.88719 2.33675 2.67804 3.06371 5.41153 4.05164 677 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02445 4.11927 4.84161 0.61958 0.77255 0.53126 0.88641\n- 401 2.53718 4.83289 2.75359 2.37978 4.08187 3.16358 3.62697 3.50114 2.05860 2.78842 3.90473 2.94340 3.81529 2.64703 2.87336 2.55592 2.83900 2.66026 5.32981 3.98985 678 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04350 4.11927 3.63770 0.61958 0.77255 0.53126 0.88641\n- 402 2.37826 4.62187 3.09214 2.34782 3.63017 2.99358 3.68138 3.14475 2.53144 2.78630 3.73027 3.03508 3.49911 2.87191 2.97072 2.49952 2.30778 2.95011 5.17830 3.87876 679 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12490 4.10068 2.29408 0.61958 0.77255 0.55162 0.85806\n- 403 2.40671 4.33840 3.35047 2.79950 3.50873 2.82630 3.54666 2.79408 2.63413 2.40531 3.46221 3.21981 3.89462 3.06874 3.09393 2.75083 2.79805 2.12605 4.93518 3.69018 680 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10631 4.00327 2.49372 0.61958 0.77255 0.64664 0.74192\n- 404 2.48013 4.59648 3.01466 2.44357 3.83651 3.06281 3.65744 3.22273 2.42438 2.87306 3.72224 2.74671 3.81357 2.85343 2.71758 2.60779 2.81169 2.33569 5.15998 3.86872 681 v - - -\n- 2.68601 4.42239 2.77533 2.73137 3.46341 2.40513 3.72508 3.29367 2.67748 2.69353 4.24623 2.90354 2.73741 3.18134 2.89785 2.37876 2.77533 2.98514 4.58490 3.61517\n- 0.21135 1.65807 * 1.43671 0.27143 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1613 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_I__DruB\n-LENG 530\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:06:57 2021\n-NSEQ 50\n-EFFN 4.873657\n-CKSUM 2322333957\n-GA 20 20;\n-STATS LOCAL MSV -11.5281 0.69775\n-STATS LOCAL VITERBI -13.0277 0.69775\n-STATS LOCAL FORWARD -5.6760 0.69775\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67841 4.07146 3.00429 2.58969 3.22211 3.03358 3.65630 2.79630 2.57379 2.48515 3.66899 3.00227 3.26605 3.06524 2.89710 2.58442 2.85417 2.74877 4.68201 3.38869\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02907 5.27508 3.74924 0.61958 0.77255 0.00000 *\n- 1 4.81274 6.17955 5.96684 5.84240 4.82317 5.22718 6.30007 4.22892 5.61786 3.36945 0.13289 5.93699 5.81522 5.93714 5.62040 5.19529 5.21643 4.36416 6.61606 5.51987 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15120 5.25380 2.00177 0.61958 0.77255 0.56101 0.84544\n- 2 2.93065 5.43131 2.04653 2.12677 3.37539 3.70248 3.89126 4.25527 2.02157 3.06862 4.47339 2.23789 4.09727 2.98933 2.27908 2.89437 3.16184 3.81991 5.86567 4.45752 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11160 5.83394 0.61958 0.77255 0.93040 0.50153\n- 3 3.17208 5.15207 3.75510 3.13967 4.22584 4.00878 4.10727 3.75195 1.31678 3.37191 4.23817 3.59047 4.37865 3.31901 2.25326 3.25910 3.38461 2.76612 3.96111 1.82935 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11160 5.83394 0.61958 0.77255 0.93040 0.50153\n- 4 0.14942 5.31618 5.20855 5.19919 5.77192 4.09133 5.97930 5.18070 5.25870 4.95436 5.90616 4.90842 4.92673 5.46544 5.30290 3.69847 4.05269 4.54217 6.98765 6.04246 4 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11160 5.83394 0.61958 0.77255 0.68795 0.69837\n- 5 3.00567 4.41136 4.77744 4.17428 1.91458 4.15294 4.47124 1.50431 2.56406 2.24997 2.86277 4.24897 4.51706 4.16366 3.47445 3.45598 3.23758 2.65506 5.02212 2.83204 5 i - - -\n- 2.68650 4.42338 2.77422 2.73149 3.46279 2.40538 3.72497 3.29390 2.67667 2.69347 4.24802 2.90359 2.73852 3.18259 2.89817 2.37917 2.77497 2.98317 4.58589 3.61412\n- 0.49619 0.94578 5.88610 1.74690 0.19154 0.50545 0.92440\n- 6 3.32574 5.89262 1.13664 2.09392 5.21256 3.87136 4.21956 4.71852 3.06522 2.88354 4.95726 2.29107 4.37392 2.06836 3.59982 3.24998 3.57678 4.27314 6.32152 4.86453 19 d - - -\n- 2.68637 4.42244 2.77538 2.73142 3.46372 2.40531 3.72513 3.29177 2.67721 2.69373 4.24708 2.90365 2.73758 3.18165 2.89819 2.37842 2.77491 2.98537 4.58495 3.61522\n- 0.56586 1.00413 2.72165 0.06357 2.78721 0.64036 0.74888\n- 7 2.95792 5.44847 3.21483 1.89151 4.78852 3.73274 3.91653 3.28583 1.70102 3.74957 4.49123 3.20307 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07376 4.96375 2.74703 0.61958 0.77255 1.26612 0.33118\n- 523 3.68248 4.92996 5.68295 5.13344 1.92064 5.08250 5.47400 0.91597 4.99896 1.86659 3.54323 5.23288 5.28398 5.05725 5.02625 4.45463 3.91541 1.94827 5.71870 4.57966 693 i - - -\n- 2.68790 4.42641 2.77771 2.73110 3.46769 2.40805 3.71858 3.29486 2.67822 2.68381 4.24464 2.90427 2.73531 3.18245 2.89689 2.38059 2.77699 2.98266 4.58893 3.61352\n- 1.24408 0.58731 1.85809 2.94539 0.05401 0.81383 0.58547\n- 524 2.36712 4.90789 3.37963 2.81696 4.10855 3.73391 3.94413 2.84591 1.61325 3.13965 2.95982 3.31157 4.12026 2.17616 3.20502 2.94953 3.09672 2.68314 5.43947 4.14247 717 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08952 4.91505 2.54724 0.61958 0.77255 1.06564 0.42237\n- 525 3.13810 5.63516 2.99550 0.96952 4.98700 3.73964 3.99536 4.46186 2.69759 3.92142 4.69807 2.48612 4.20248 2.53223 2.53627 3.07735 3.37297 4.03545 6.03372 4.63688 718 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01101 4.91022 5.63257 0.61958 0.77255 1.32904 0.30752\n- 526 2.13220 2.89896 4.62728 4.02542 2.25395 4.01088 4.33381 2.70905 3.85126 2.46552 3.39335 4.10490 4.37758 4.02137 2.69281 3.31355 3.09887 1.62039 3.28112 3.70850 719 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01101 4.91022 5.63257 0.61958 0.77255 1.32904 0.30752\n- 527 3.02699 5.38748 3.35164 2.75835 4.73961 3.78259 3.89504 4.16854 1.58106 2.87706 4.44436 2.58239 4.16275 3.00852 1.81877 3.00797 2.13744 3.78569 5.78631 4.46033 720 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01101 4.91022 5.63257 0.61958 0.77255 1.32904 0.30752\n- 528 2.50341 5.36528 3.16769 1.74467 4.71062 3.67607 3.84631 4.17357 2.17455 3.65940 4.41616 3.15241 4.07021 2.95090 1.93102 2.88498 2.09836 3.75810 5.79073 4.41138 721 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01101 4.91022 5.63257 0.61958 0.77255 1.32904 0.30752\n- 529 2.85467 3.05825 3.78567 3.30514 4.20871 1.41268 4.33036 3.58674 3.27835 2.41700 4.16008 1.69955 4.24142 3.60178 3.64337 3.02699 3.19945 3.27046 5.60614 4.35265 722 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01101 4.91022 5.63257 0.61958 0.77255 1.32904 0.30752\n- 530 2.85749 5.09769 3.14523 2.04086 4.36185 1.99696 3.88098 3.77786 2.67965 2.71636 4.18402 2.10335 4.05754 3.02592 3.14785 2.87821 3.09524 2.63844 5.60753 4.26005 723 g - - -\n- 2.68750 4.41555 2.77651 2.72937 3.45982 2.40555 3.72516 3.29486 2.67751 2.69336 4.24593 2.90356 2.73783 3.18278 2.89458 2.38019 2.77560 2.98585 4.58609 3.61424\n- 0.74413 0.64463 * 1.93129 0.15661 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1928 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_I__DruC\n-LENG 635\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:06:57 2021\n-NSEQ 50\n-EFFN 5.087280\n-CKSUM 2473915279\n-GA 20 20;\n-STATS LOCAL MSV -12.0034 0.69699\n-STATS LOCAL VITERBI -13.1136 0.69699\n-STATS LOCAL FORWARD -6.4227 0.69699\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61048 4.55638 2.90338 2.48083 3.34853 3.09070 3.81340 2.66420 2.54527 2.40167 3.75889 2.92123 3.48173 3.03846 2.98799 2.60207 2.87821 2.76080 4.74582 3.58907\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00708 5.35039 6.07273 0.61958 0.77255 0.00000 *\n- 1 4.98577 6.33471 6.11555 6.01272 5.00570 5.34679 6.46113 4.43721 5.80678 3.56205 0.10940 6.10311 5.94419 6.12001 5.79381 5.36375 5.39723 4.57678 6.76729 5.69200 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03077 5.35039 3.66698 0.61958 0.77255 0.48576 0.95510\n- 2 3.06854 5.34329 3.41777 2.87293 4.63697 3.86850 4.08595 2.23728 1.92645 3.63885 4.43473 1.87293 4.27180 3.21967 3.30655 1.80139 2.60778 3.70983 5.85019 4.50018 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.42093 5.32686 1.08262 0.61958 0.77255 0.57475 0.82747\n- 3 3.54716 5.04925 4.59310 4.20181 2.95322 2.64740 4.24529 3.56545 4.05852 2.18401 4.21250 4.30777 4.84544 4.29302 4.23212 3.78705 3.81922 3.39641 4.59270 0.70998 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01094 4.91687 5.63921 0.61958 0.77255 0.96021 0.48258\n- 4 2.14482 5.29210 3.19662 2.46472 4.59390 3.69050 3.88019 3.03497 1.79082 3.17493 4.34561 3.17842 4.08274 1.92799 3.10367 2.38086 3.13050 3.65927 5.75068 4.37159 4 k - - -\n- 2.68518 4.42190 2.77523 2.73176 3.46296 2.40642 3.72904 3.29157 2.67864 2.69080 4.24726 2.90477 2.73751 3.17736 2.89102 2.38254 2.77640 2.98532 4.58364 3.61784\n- 0.70761 0.68518 5.75091 2.90399 0.05636 1.22842 0.34638\n- 5 3.47363 5.07074 4.34026 3.85045 3.03155 4.37075 4.17601 3.61907 3.75217 3.21928 4.21494 2.10600 4.75093 4.01836 4.02457 3.66537 2.62335 3.41804 2.35349 1.03577 71 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00978 5.02856 5.75091 0.61958 0.77255 1.22842 0.34638\n- 6 2.90775 5.32166 3.17265 2.22923 2.73792 3.68760 3.88340 4.08983 2.26325 3.61077 4.37454 3.17163 2.52280 2.51356 3.11389 1.66579 3.13931 3.69312 5.77673 4.39063 72 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00978 5.02856 5.75091 0.61958 0.77255 1.22842 0.34638\n- 7 3.11025 5.66067 1.74201 2.15029 4.99516 3.72946 4.02073 4.49388 1.76283 3.95899 4.71562 2.58216 4'..b'.68598 4.42262 2.77556 2.73005 3.46268 2.40549 3.72531 3.29211 2.67736 2.69350 4.24530 2.90313 2.73776 3.18183 2.89837 2.37923 2.77556 2.98555 4.58513 3.61540\n- 0.86982 1.47866 1.04121 1.22211 0.34900 0.66064 0.72675\n- 628 2.37345 2.53724 3.44260 1.99325 3.88581 3.71427 3.94588 3.24449 2.30563 2.33848 3.80670 3.34866 4.10032 3.18336 3.25798 2.94114 3.03780 2.49963 5.27129 4.00104 1085 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01251 4.78350 5.50585 0.61958 0.77255 1.40691 0.28090\n- 629 2.02840 4.31296 4.49975 3.91118 2.60931 4.00511 4.33766 2.65252 3.76765 1.43874 3.37716 4.05607 2.95690 3.95865 3.89728 3.30638 3.11301 2.01139 4.93965 3.75715 1086 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01251 4.78350 5.50585 0.61958 0.77255 0.85842 0.55136\n- 630 3.75130 6.55663 0.76752 1.74911 5.80042 3.81351 4.46813 5.40305 3.64824 4.82583 5.73029 1.89444 4.50575 3.65030 4.37365 3.56336 4.06753 4.91127 6.97071 5.33363 1087 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01043 4.96411 5.68646 0.61958 0.77255 1.20976 0.35421\n- 631 2.88608 4.43121 4.13140 3.55207 2.32999 2.81032 4.23289 2.05078 2.73813 2.62990 3.54292 3.84108 4.32129 3.71524 2.27303 3.22090 3.11788 2.17721 5.03313 2.89864 1088 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01043 4.96411 5.68646 0.61958 0.77255 1.20976 0.35421\n- 632 3.02327 5.48048 3.12385 1.36488 4.82059 3.72790 3.92981 4.28515 1.67863 2.72414 4.53466 2.46457 4.14727 3.04036 3.06121 2.98392 3.25268 3.87111 5.89770 4.51368 1089 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01043 4.96411 5.68646 0.61958 0.77255 1.20976 0.35421\n- 633 2.87287 4.90544 2.62479 2.86327 4.14430 2.07221 3.99776 2.75426 2.85539 3.18662 4.03098 3.35025 4.14256 3.19200 3.29366 2.09527 2.19188 2.49077 5.48151 4.18468 1090 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10215 4.96411 2.40661 0.61958 0.77255 0.91664 0.51060\n- 634 2.84968 4.27213 4.54112 3.94272 2.54747 3.98625 4.30404 2.25733 3.78324 1.81003 2.66776 4.05417 4.35269 3.96453 2.92012 2.45414 2.52392 2.52129 4.88852 2.65594 1091 l - - -\n- 2.68684 4.42291 2.77530 2.73190 3.46324 2.40468 3.72561 3.29150 2.67712 2.69365 4.24109 2.90350 2.73806 3.18213 2.89812 2.37912 2.77586 2.98447 4.58249 3.61569\n- 0.77361 0.62555 5.60306 1.20161 0.35769 0.92609 0.50435\n- 635 2.88123 5.38931 2.28337 1.91859 4.73057 2.84826 3.83901 4.21592 2.22199 3.69294 4.43196 2.49288 3.27817 2.61430 3.07587 2.84232 3.11355 2.46720 5.82323 4.41114 1100 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00705 4.95871 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia_I__DruD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1061 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia_I__DruD\n-LENG 346\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:06:57 2021\n-NSEQ 50\n-EFFN 5.679321\n-CKSUM 1870799566\n-GA 20 20;\n-STATS LOCAL MSV -11.2198 0.70020\n-STATS LOCAL VITERBI -12.0471 0.70020\n-STATS LOCAL FORWARD -5.6083 0.70020\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60267 4.25879 3.01748 2.62026 3.35553 3.02236 3.79327 2.77290 2.70581 2.33936 3.61949 3.05525 3.28536 3.10199 2.80403 2.62844 2.87090 2.78281 4.16989 3.34455\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18776 5.45675 1.79024 0.61958 0.77255 0.00000 *\n- 1 4.85339 6.21614 6.00208 5.88287 4.86575 5.25533 6.33818 4.27747 5.66250 3.41423 0.12695 5.97627 5.84566 5.98036 5.66137 5.23489 5.25896 4.41384 6.65165 5.56019 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30984 5.27661 1.34197 0.61958 0.77255 1.03616 0.43822\n- 2 2.39072 5.37582 2.64551 1.63444 4.71911 3.64182 3.83003 4.20380 2.26682 2.98722 4.41712 2.65259 4.03609 2.55438 2.67306 2.83212 2.69382 3.76554 5.80930 4.39940 2 e - - -\n- 2.68625 4.42232 2.77527 2.73130 3.46361 2.40495 3.72502 3.29361 2.67748 2.69362 4.24697 2.90354 2.73747 3.18154 2.89808 2.37894 2.77485 2.98526 4.58236 3.61510\n- 0.60697 1.66386 1.32578 0.13922 2.04052 0.60590 0.78874\n- 3 2.95171 4.34134 4.80214 4.19712 3.43790 3.07141 4.44746 1.51276 4.00803 2.09617 3.45518 4.23893 4.47782 4.16291 4.05912 3.42273 2.57771 2.01676 2.24841 3.79540 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00982 5.02426 5.74660 0.61958 0.77255 1.42703 0.27446\n- 4 2.89297 5.04193 3.32696 2.36805 3.30548 3.73639 3.94374 3.00776 2.41895 2.62038 4.11684 2.73940 4.12534 2.40999 2.24743 2.94230 2.61063 2.85561 3.62537 4.23146 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00982 5.02426 5.74660 0.61958 0.77255 1.01909 0.44773\n- 5 1.97346 4.60011 3.97529 2.65817 3.72509 3.97188 4.23830 2.35663 3.34375 2.39739 3.03065 3.76868 4.34856 2.96823 2.95219 2.69440 3.18952 1.99885 5.19211 3.07895 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00886 5.12616 5.84850 0.61958 0.77255 0.43689 1.03859\n- 6 2.66049 4.50372 5.08904 4.47549 3.59136 4.30404 4.63924 2.04259 4.26327 1.84274 1.75581 4.46426 4.66523 4.39507 4.27438 3.12410 3.36306 1.60895 3.48053 3.95655 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00701 5.35945 6.08180 0.61958 0.77255 0.83134 0.57175\n- 7 3.05962 5.57306 2.75443 2.45256 4.91749 3.16989 3.30300 4.40440 1.92110 3.87806 4.61472 2.04763 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00636 5.45675 6.17910 0.61958 0.77255 0.48576 0.95510\n- 339 3.17260 3.15086 5.13690 4.52270 2.58248 3.35598 4.66679 1.03544 4.30702 2.72944 2.50092 4.50318 4.70465 4.43637 4.31381 3.65323 3.40473 2.79088 2.92777 3.13434 415 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00636 5.45675 6.17910 0.61958 0.77255 0.48576 0.95510\n- 340 3.10036 5.36266 2.96112 2.03304 4.61856 3.91863 3.32628 2.40449 1.86548 2.26575 3.33765 3.43427 4.30927 2.81089 3.37377 3.11809 2.92018 2.72882 5.85272 4.50312 416 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00636 5.45675 6.17910 0.61958 0.77255 0.48576 0.95510\n- 341 2.48362 4.61743 4.65721 3.20659 3.71950 4.26116 3.40567 2.02684 3.94160 2.56747 3.06401 3.20939 4.63011 4.15453 4.10807 2.87866 2.31435 1.65007 2.75493 4.03981 417 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00636 5.45675 6.17910 0.61958 0.77255 0.48576 0.95510\n- 342 2.61470 5.55174 2.55936 2.51872 4.87584 3.87436 4.06370 2.50144 2.07714 3.84803 4.59798 3.35034 3.29184 3.16718 1.75195 2.72529 2.87980 3.19468 5.99718 3.58171 418 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04634 5.45675 3.19389 0.61958 0.77255 0.48576 0.95510\n- 343 3.07204 5.52999 2.92202 1.63977 3.51930 3.04540 2.69407 3.29936 2.78736 3.82605 4.57641 2.25877 4.24702 3.14731 3.27635 2.17794 2.88172 3.10480 5.97582 4.57819 419 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00662 5.41704 6.13938 0.61958 0.77255 0.64564 0.74302\n- 344 2.64350 5.52844 2.82978 1.87100 4.85155 2.47743 3.08071 2.57435 2.78717 2.98749 4.57492 2.95097 4.24681 2.79048 2.94156 2.48858 3.30271 3.17588 5.97449 3.47978 420 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18501 5.41704 1.80505 0.61958 0.77255 0.64564 0.74302\n- 345 2.98339 5.44035 2.75847 1.97962 2.71952 2.36466 3.95516 3.47759 2.25828 3.07281 4.48682 3.24208 4.15863 2.58046 2.82525 2.48614 3.21456 3.81915 5.88636 3.39153 421 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25236 5.23993 1.52449 0.61958 0.77255 0.86230 0.54851\n- 346 2.92989 3.19971 3.37444 3.71149 2.91948 2.29053 4.31153 1.94940 3.60695 2.63320 3.54994 3.95724 3.02356 3.84239 3.81930 3.29473 1.99112 2.69167 3.36268 3.84771 422 i - - -\n- 2.68609 4.42004 2.77626 2.73029 3.46460 2.40547 3.72601 3.29220 2.67794 2.69461 4.24796 2.90208 2.73846 3.18095 2.89503 2.37885 2.77535 2.98576 4.58583 3.61528\n- 1.05758 0.42663 * 1.30272 0.31717 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia__DruE_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia__DruE_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5372 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia__DruE_1\n-LENG 1783\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:06:58 2021\n-NSEQ 50\n-EFFN 1.248169\n-CKSUM 3869293570\n-GA 20 20;\n-STATS LOCAL MSV -13.9643 0.69451\n-STATS LOCAL VITERBI -14.7586 0.69451\n-STATS LOCAL FORWARD -7.4585 0.69451\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52285 3.99649 2.94941 2.58848 3.32180 2.97919 3.68726 2.90402 2.63779 2.43651 3.65527 3.05258 3.38633 2.99103 2.86659 2.64657 2.81894 2.76068 4.76369 3.45026\n- 2.68638 4.42240 2.77534 2.73145 3.46365 2.40540 3.72518 3.29322 2.67679 2.69374 4.24320 2.90286 2.73765 3.18167 2.89810 2.37880 2.77540 2.98535 4.58508 3.61527\n- 0.73809 1.35010 1.33651 1.63159 0.21768 0.00000 *\n- 1 2.57932 4.45116 3.06378 2.36694 3.61798 3.49369 3.73147 2.82234 2.57770 2.65663 2.68651 3.13955 3.88093 2.98067 3.04548 2.72984 2.81186 2.30679 5.02109 3.75661 38 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02702 4.02061 4.74296 0.61958 0.77255 0.45590 1.00479\n- 2 2.61764 4.61806 3.02052 2.60609 3.81143 3.49643 3.37772 3.16734 2.58497 2.85808 2.56988 3.09364 3.01286 2.92532 2.89541 2.54527 2.40759 2.84546 5.16117 3.87127 39 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02180 4.23253 4.95488 0.61958 0.77255 0.42328 1.06391\n- 3 2.65195 5.01546 2.82878 2.02728 4.30479 3.44323 3.64166 3.75241 2.19701 3.29654 3.12154 2.43470 3.83864 2.76091 2.88323 2.52559 2.66174 3.08009 5.48341 4.10923 40 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31671 5.03905 0.61958 0.77255 0.48576 0.95510\n- 4 2.41293 5.08470 2.61497 2.24629 4.40035 3.43166 3.62286 3.34225 2.19136 3.37700 4.13372 2.91159 3.48072 2.56752 2.48803 2.37958 2.69023 3.45953 5.53510 4.14333 41 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31671 5.03905 0.61958 0.77255 0.48576 0.95510\n- 5 2.54964 4.53985 3.11879 2.71726 3.51498 3.54958 3.77986 2.95531 2.69287 2.58504 3.63292 2.85925 3.93429 2.86780 3.10458 2.40707 2.52380 2.73451 5.09525 2.54806 42 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31671 5.03905 0.61958 0.77255 0.48576 0.95510\n- 6 2.39980 4.36743 3.59102 3.26243 4.52168 1.56457 4.35707 3.95199 3.32047 3.61573 4.42315 3.44832 3.86440 3.60503 3.66092 1.81026 1.67289 3.38473 5.84245 4.62243 43 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31671 5.03905 0.61958 0.77255 0.48576 0.95510\n- 7 2.68682 4.47405 4.99790 4.47778 3.74290 4.57248 5.11766 1.10347 4.37825 2.20034 3.55368 4.66049 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31671 5.03905 0.61958 0.77255 0.48576 0.95510\n- 1776 2.39975 4.91437 3.00508 2.18418 4.17307 3.24243 3.66002 2.99774 2.29596 3.18157 3.71175 2.50164 3.85221 2.79574 2.64740 2.66141 2.63965 3.25771 5.40224 3.73883 2114 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31671 5.03905 0.61958 0.77255 0.48576 0.95510\n- 1777 2.72453 4.13755 4.38964 3.80011 3.02394 3.87845 4.19182 2.05554 3.65066 1.90686 3.21131 3.93132 4.23447 3.83728 3.76886 2.96079 2.95771 1.55637 4.76595 2.90840 2115 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 4.31671 5.03905 0.61958 0.77255 0.48576 0.95510\n- 1778 2.39513 4.34190 3.01685 2.15992 4.18804 3.46857 3.66060 3.23201 2.18254 3.05841 3.99000 2.98174 3.85830 2.60883 2.25288 2.67029 2.88541 3.11263 5.40836 4.06071 2116 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07634 4.31671 2.81077 0.61958 0.77255 0.48576 0.95510\n- 1779 2.66117 5.13429 2.62972 2.24428 4.46320 3.06721 3.61689 3.93776 1.90636 3.25110 4.18216 2.50048 3.81876 2.58701 2.75929 2.38366 2.89357 3.51681 5.57355 4.17181 2117 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26153 4.98388 0.61958 0.77255 0.55941 0.84757\n- 1780 2.53075 4.64496 3.15577 2.27345 3.83905 3.26141 3.72344 3.19444 2.43809 2.27699 2.93215 2.95582 3.89247 2.92314 3.00970 2.45280 2.86218 2.95129 5.18227 3.88966 2118 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26153 4.98388 0.61958 0.77255 0.55941 0.84757\n- 1781 2.62080 4.17730 3.83361 3.25537 2.89351 3.67741 3.95910 2.53795 2.98221 1.75658 3.14876 3.55613 4.04981 3.09384 3.22770 2.78738 2.85253 2.12001 4.77869 3.57377 2119 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02117 4.26153 4.98388 0.61958 0.77255 0.55941 0.84757\n- 1782 2.65255 5.05486 2.94037 2.19336 4.36578 3.25574 3.61746 3.82029 2.14940 3.10800 4.10706 2.81549 3.82751 2.53094 2.24540 2.43817 2.67713 3.42754 5.50354 3.84882 2120 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24555 4.26153 1.59148 0.61958 0.77255 0.55941 0.84757\n- 1783 2.48626 4.87110 2.93523 2.09310 4.13818 3.06896 3.59150 3.56697 2.28601 3.02130 3.68646 2.78685 3.79022 2.62630 2.55724 2.60416 2.82250 3.02626 5.35153 4.00235 2121 e - - -\n- 2.68632 4.42239 2.77526 2.73131 3.46322 2.40510 3.72508 3.29368 2.67741 2.69343 4.24703 2.90342 2.73746 3.18147 2.89791 2.37879 2.77509 2.98525 4.58446 3.61517\n- 0.43890 1.03491 * 0.89234 0.52711 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia__DruE_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia__DruE_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5882 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia__DruE_2\n-LENG 1953\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 14:06:59 2021\n-NSEQ 50\n-EFFN 1.528931\n-CKSUM 537631741\n-GA 20 20;\n-STATS LOCAL MSV -13.9332 0.69440\n-STATS LOCAL VITERBI -14.9564 0.69440\n-STATS LOCAL FORWARD -7.6611 0.69440\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48477 4.18941 2.91836 2.58424 3.35551 2.94329 3.64302 2.99347 2.66779 2.47139 3.66491 3.07092 3.33295 2.98467 2.77711 2.62936 2.80298 2.78537 4.45358 3.58497\n- 2.68622 4.42248 2.77533 2.73126 3.46352 2.40517 3.72518 3.29366 2.67764 2.69355 4.24535 2.90354 2.73730 3.18160 2.89786 2.37877 2.77486 2.98521 4.58500 3.61526\n- 0.20411 2.12392 2.73242 1.85424 0.17028 0.00000 *\n- 1 2.75693 4.49539 3.58291 3.04527 3.61242 3.66466 3.47525 3.03114 2.77324 2.71222 1.44683 3.42558 4.07647 3.24085 2.83689 2.69931 2.99974 2.80536 5.04143 3.78278 31 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38194 5.10429 0.61958 0.77255 0.57734 0.82415\n- 2 2.66363 4.58549 3.28400 2.62709 3.45679 3.56740 3.79103 2.77110 2.35484 2.00523 3.67652 2.57022 3.95174 2.89657 2.93621 2.79184 2.89451 2.88006 5.13531 3.57927 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38194 5.10429 0.61958 0.77255 0.57734 0.82415\n- 3 3.07050 5.58675 1.07587 2.31891 4.96293 3.40530 3.95936 4.48042 2.96046 3.98660 4.82276 2.01070 4.02344 3.12205 3.54707 2.97773 2.87388 4.03480 6.14439 4.64670 33 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38194 5.10429 0.61958 0.77255 0.57734 0.82415\n- 4 2.43574 4.55088 3.59877 3.28383 4.15862 3.39707 4.32809 3.41775 3.22335 2.72732 4.16092 3.55361 0.99170 3.61320 3.52128 2.84457 3.08339 3.11088 5.61647 4.34858 34 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01875 4.38194 5.10429 0.61958 0.77255 0.48745 0.95241\n- 5 3.47445 4.72739 5.35655 4.80399 3.43252 4.87467 5.28250 1.11189 4.68325 1.29438 2.79646 4.98370 5.04456 4.74986 4.74866 4.24692 3.70394 1.93921 5.52029 4.45760 35 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41931 5.14165 0.61958 0.77255 0.52309 0.89817\n- 6 2.62387 5.13735 2.82442 2.04036 4.48109 1.69430 3.77077 3.93178 2.55640 3.47317 4.26585 2.98583 3.93022 2.72771 2.86184 2.46210 3.04043 3.54564 5.65708 4.27851 36 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01805 4.41931 5.14165 0.61958 0.77255 0.52309 0.89817\n- 7 2.06571 4.51846 3.46465 2.94314 4.05695 2.17183 4.01546 3.44041 2.92183 2.78589 3.96236 3.32054 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01762 4.44313 5.16548 0.61958 0.77255 0.48576 0.95510\n- 1946 1.97485 5.11510 2.80862 2.27913 3.83890 3.17533 3.18137 3.89015 2.32792 3.40574 4.16523 2.85939 3.86380 2.22716 2.78648 2.66531 2.91856 3.48791 5.56754 4.17743 2462 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05241 4.44313 3.23646 0.61958 0.77255 0.48576 0.95510\n- 1947 2.48094 5.05592 2.86345 2.36740 4.35243 3.28320 3.65852 3.80476 1.84159 3.13915 3.70496 2.50779 3.85852 2.77363 2.67703 2.56519 2.90341 3.27586 5.51839 3.61277 2463 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01824 4.40896 5.13131 0.61958 0.77255 0.53862 0.87600\n- 1948 2.28955 3.72946 3.83694 3.25875 3.35983 3.71521 3.99243 2.51139 2.89978 1.55113 3.20704 3.57458 4.08900 3.22500 3.17045 2.98326 2.90150 2.49834 4.84583 3.63858 2464 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01824 4.40896 5.13131 0.61958 0.77255 0.53862 0.87600\n- 1949 2.59755 3.53930 2.86148 2.51518 3.74329 3.15756 3.52996 3.29060 2.33192 2.86583 3.62145 2.90893 3.89103 2.67739 2.41958 2.45906 2.75949 3.19295 5.36628 4.03274 2465 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08155 4.40896 2.71585 0.61958 0.77255 0.53862 0.87600\n- 1950 2.56590 5.14631 2.66196 2.06953 4.47368 3.43387 3.63670 3.94843 2.30660 3.44366 4.19404 2.50828 3.83727 2.68728 2.57251 2.37011 2.34135 3.52789 5.58872 4.18621 2466 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07166 4.34683 2.87869 0.61958 0.77255 0.62408 0.76734\n- 1951 2.43787 5.07115 2.77629 2.29258 4.38407 3.32558 3.30519 3.84774 2.31676 3.36244 4.12066 2.83459 3.34529 2.55976 2.50900 2.33720 2.55234 3.35547 5.52338 3.85692 2467 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16038 4.29562 2.00579 0.61958 0.77255 0.68592 0.70043\n- 1952 2.18564 4.98539 2.68897 2.26677 4.27763 3.39992 3.60650 3.72621 2.33589 3.26890 4.04601 2.89392 3.08512 2.43510 2.73972 2.49233 2.85260 3.13390 5.45473 4.07940 2468 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02349 4.15873 4.88107 0.61958 0.77255 0.76831 0.62324\n- 1953 2.34971 4.74582 2.87449 2.49117 3.65549 3.45374 3.66171 3.01153 2.41433 2.74483 3.82211 3.00217 3.57434 2.66194 2.47008 2.44130 2.83997 3.06836 5.26050 3.94038 2469 a - - -\n- 2.68600 4.42344 2.77455 2.73119 3.46343 2.40487 3.72547 3.29338 2.67708 2.69358 4.24460 2.90443 2.73787 3.18166 2.89851 2.37867 2.77534 2.98535 4.58182 3.61590\n- 0.55119 0.85864 * 2.60939 0.07643 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia__DruE_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Druantia__DruE_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,6239 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Druantia__DruE_3\n-LENG 2072\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 15:19:24 2021\n-NSEQ 50\n-EFFN 1.541138\n-CKSUM 493030559\n-GA 20 20;\n-STATS LOCAL MSV -13.9067 0.69433\n-STATS LOCAL VITERBI -14.9078 0.69433\n-STATS LOCAL FORWARD -7.5593 0.69433\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53122 4.01066 2.97055 2.59086 3.36174 3.01018 3.66935 2.91001 2.63816 2.43364 3.66697 3.02749 3.39547 2.95656 2.86581 2.62185 2.80928 2.74441 4.46939 3.58118\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20104 4.44828 1.76950 0.61958 0.77255 0.00000 *\n- 1 3.33544 4.83017 4.50733 4.14979 3.45317 4.15039 4.79344 2.67228 3.89229 2.00248 0.77973 4.37268 4.62856 4.25574 4.04705 3.71722 3.65682 2.72150 5.33518 4.12529 1 m - - -\n- 2.68611 4.42245 2.77540 2.73109 3.46374 2.40533 3.72476 3.29374 2.67742 2.69365 4.24710 2.90319 2.73749 3.18127 2.89797 2.37874 2.77487 2.98525 4.58497 3.61523\n- 0.51819 0.92231 4.99062 0.93470 0.49874 0.36177 1.19218\n- 2 2.68287 4.65903 3.25055 2.68973 3.84322 3.57037 3.79038 3.22892 2.43794 2.73265 2.28995 2.96947 3.54829 2.58655 3.08466 2.66670 2.58714 2.96028 5.20136 3.05906 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44828 5.17063 0.61958 0.77255 0.48576 0.95510\n- 3 2.68717 5.15368 2.80843 2.30379 4.48227 3.46575 3.65321 3.95515 1.92072 3.00405 3.73142 2.54369 3.60809 2.41495 2.64784 2.40238 2.91795 3.53555 5.59526 4.19686 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44828 5.17063 0.61958 0.77255 0.48576 0.95510\n- 4 2.86501 4.48764 3.83001 3.28207 2.45275 3.84116 2.98817 2.75306 3.21406 2.66322 3.60181 3.21068 3.38989 3.48277 3.51634 3.10526 3.09554 2.77883 4.55130 1.53025 12 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44828 5.17063 0.61958 0.77255 0.48576 0.95510\n- 5 4.06490 5.20597 5.16742 4.90689 0.76629 4.81224 3.76322 3.61250 4.71336 2.46590 4.18874 4.47815 5.08678 4.56185 4.64663 4.18496 4.27514 3.57553 3.87082 1.52977 13 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44828 5.17063 0.61958 0.77255 0.48576 0.95510\n- 6 2.30547 4.86134 3.10001 2.55736 4.12404 3.51100 3.74337 3.53778 2.42302 3.14633 3.96388 2.87431 3.91576 2.89954 2.87915 1.69335 2.59641 3.21491 5.39360 3.51392 14 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16089 4.44828 1.98841 0.61958 0.77255 0.48576 0.95510\n- 7 2.53166 5.12650 2.38857 2.25493 4.45367 3.42327 3.62194 3.92772 2.26893 3.42393 4.17382 2.82293 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01970 4.33283 5.05517 0.61958 0.77255 0.57191 0.83114\n- 2065 2.66114 4.70928 3.17504 2.78412 4.27539 3.39187 3.96333 3.68067 2.75932 3.31592 4.15798 3.21439 3.95053 2.42794 3.14000 2.37233 1.30251 3.30649 5.56103 4.26976 2481 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01905 4.36625 5.08859 0.61958 0.77255 0.60613 0.78846\n- 2066 2.65240 4.56890 2.72546 2.71711 3.42386 3.55997 3.45747 2.91437 2.69414 2.50871 3.66060 2.90922 3.22030 3.02298 3.10955 2.73039 2.67876 2.56465 5.12159 2.78692 2482 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15920 4.36625 2.00636 0.61958 0.77255 0.60613 0.78846\n- 2067 2.92709 4.29218 4.69523 4.10401 2.73839 4.11885 4.40993 1.63478 3.94212 1.43740 3.04681 4.20686 4.42292 4.06310 4.00901 3.43535 3.15457 2.03269 3.86464 3.66854 2483 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02188 4.22892 4.95127 0.61958 0.77255 0.76331 0.62759\n- 2068 2.66574 4.19055 3.93127 3.36089 2.66860 3.72331 3.49440 2.48465 3.26328 2.37234 3.30247 3.61893 4.09366 3.50485 3.49579 2.60963 2.89774 2.11356 4.60166 2.10348 2484 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02188 4.22892 4.95127 0.61958 0.77255 0.76331 0.62759\n- 2069 2.35998 3.60615 4.55075 3.97506 3.35094 4.05744 4.42910 1.51924 3.84018 1.99166 2.87524 4.11979 4.39721 4.03600 3.97014 3.37395 3.07580 1.73041 4.99560 3.81260 2485 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02188 4.22892 4.95127 0.61958 0.77255 0.76331 0.62759\n- 2070 2.30632 4.75155 3.06285 2.52067 4.00006 2.98652 3.69070 3.40415 2.21330 3.02792 3.85509 2.85780 3.86008 2.68894 2.94377 2.68025 2.47734 2.48592 5.29037 3.97397 2486 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09736 4.22892 2.54846 0.61958 0.77255 0.76331 0.62759\n- 2071 2.68333 4.85601 3.10542 2.35739 4.11211 3.49267 3.64375 3.51807 1.81135 2.64025 3.92834 3.02395 3.87464 2.79391 2.37784 2.57186 2.90410 3.20116 4.25640 4.01901 2487 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 4.15514 4.87749 0.61958 0.77255 0.68146 0.70497\n- 2072 2.63087 4.93618 2.86970 2.12446 4.20743 3.16645 3.63382 3.32297 2.40627 2.74169 3.99987 2.64200 3.82711 2.76337 2.62118 2.23347 2.86269 3.28694 5.41713 4.05744 2488 e - - -\n- 2.68601 4.42240 2.77504 2.73128 3.46369 2.40525 3.72510 3.29363 2.67742 2.69352 4.24705 2.90362 2.73755 3.18162 2.89816 2.37889 2.77511 2.98438 4.58492 3.61501\n- 0.21353 1.64884 * 1.31298 0.31336 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dsr_II__Dsr2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dsr_II__Dsr2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3653 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dsr_II__Dsr2\n-LENG 1210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:45 2021\n-NSEQ 99\n-EFFN 0.921478\n-CKSUM 2314392895\n-GA 100 100;\n-STATS LOCAL MSV -12.9574 0.69516\n-STATS LOCAL VITERBI -14.0474 0.69516\n-STATS LOCAL FORWARD -7.0234 0.69516\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65227 4.42316 2.91437 2.57617 3.20233 3.17965 3.75903 2.71310 2.61219 2.34830 3.66677 2.95741 3.40252 3.09631 2.92814 2.66100 2.91983 2.72964 4.23549 3.40069\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22561 4.09127 1.68602 0.61958 0.77255 0.00000 *\n- 1 2.98775 4.53271 4.07488 3.67001 3.21787 3.85181 4.39963 2.39584 3.43683 1.80885 1.33300 3.94460 4.31243 3.81707 3.63938 3.33941 3.29346 2.40475 5.06195 3.82589 1 m - - -\n- 2.68625 4.42232 2.77526 2.73119 3.46361 2.40520 3.72501 3.29349 2.67705 2.69362 4.24697 2.90354 2.73746 3.18153 2.89808 2.37875 2.77516 2.98525 4.58484 3.61487\n- 0.33842 1.28288 4.61865 0.67120 0.71559 0.66918 0.71771\n- 2 2.39438 4.80508 2.30297 2.33330 4.16758 3.27909 3.62794 3.52273 2.43626 3.18386 3.99091 2.70275 3.51797 2.77685 2.93069 2.36692 2.53117 3.23265 5.40495 4.04837 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03065 3.89631 4.61865 0.61958 0.77255 0.66918 0.71771\n- 3 2.59930 4.77579 2.71499 2.37624 4.07531 2.81416 3.63874 3.15040 2.32624 3.10177 3.93157 2.15829 3.78294 2.80435 2.88354 2.63138 2.85587 3.15808 5.33806 4.00229 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03065 3.89631 4.61865 0.61958 0.77255 0.66918 0.71771\n- 4 2.67619 5.03509 2.78831 2.09546 4.35823 3.37314 3.56183 3.79398 2.01186 3.30644 4.10082 2.59791 3.37255 2.54367 2.41879 2.65254 2.90118 3.41817 5.45668 4.11036 6 k - - -\n- 2.68625 4.42232 2.77527 2.73131 3.46361 2.40520 3.72502 3.29329 2.67738 2.69353 4.24697 2.90354 2.73728 3.18154 2.89808 2.37880 2.77517 2.98486 4.58484 3.61511\n- 0.18563 1.83538 4.61865 1.11147 0.39910 0.66918 0.71771\n- 5 2.63940 5.00897 2.51820 2.28341 4.31496 3.33250 3.57338 3.76234 2.07886 3.29245 4.08342 2.63498 3.76944 2.54043 2.61032 2.28726 2.87491 3.38386 5.46444 4.09316 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03065 3.89631 4.61865 0.61958 0.77255 0.66918 0.71771\n- 6 2.66202 5.01064 2.55299 2.31899 4.33278 3.35303 3.57311 3.77257 1.89667 3.29680 4.09317 2.65743 3.78565 2.70149 2.38838 2.48767 2.89424 3.39751 5.45768 4.10389 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03065 3.89631 4.61865 0.61958 0.77255 0.66918 0.71771\n- 7 3.02346 4.40958 4.53847 4.07014 3.41104 4.23162 4.80077 1.15571 3.91700 1.92473 3.26173 4.30843 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02668 4.03281 4.75515 0.61958 0.77255 0.55327 0.85583\n- 1203 3.09278 5.19970 3.52286 2.83542 4.66879 3.69911 3.62549 4.00927 1.32722 3.43963 4.31272 3.22925 4.06255 2.75922 1.49486 3.08566 3.25304 3.69177 5.46991 4.31335 1258 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02668 4.03281 4.75515 0.61958 0.77255 0.55327 0.85583\n- 1204 2.73456 4.75562 2.90769 2.65292 3.86106 3.35794 3.85464 3.46633 2.69079 2.73300 4.11723 1.35999 3.92450 3.10989 3.04711 2.81095 3.05854 3.17204 5.27243 3.84666 1259 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02668 4.03281 4.75515 0.61958 0.77255 0.55327 0.85583\n- 1205 2.40789 4.91069 2.79259 1.88344 4.20341 3.36470 3.62782 3.63197 2.41200 3.20709 4.01195 2.81491 3.80061 2.45959 2.87296 2.46329 2.87304 2.97689 5.41930 4.06249 1260 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02668 4.03281 4.75515 0.61958 0.77255 0.55327 0.85583\n- 1206 3.61518 4.93046 4.34484 4.09244 2.84810 3.91695 4.11098 3.64838 3.81261 3.01442 4.27433 4.20979 4.44862 4.19190 3.91186 3.81724 3.92429 3.54309 0.61582 2.84225 1261 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02668 4.03281 4.75515 0.61958 0.77255 0.55327 0.85583\n- 1207 2.58031 4.59728 2.68623 2.54012 3.79141 3.44536 3.67277 2.62953 2.53014 2.52484 3.68460 2.70603 3.83890 2.69835 2.96317 2.67205 2.75830 2.76037 5.13827 3.84262 1262 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07342 4.03281 2.93627 0.61958 0.77255 0.55327 0.85583\n- 1208 2.50116 4.54531 2.49994 2.21577 4.23146 3.35226 3.58331 3.67762 2.36543 3.22910 4.01490 2.30263 3.76899 2.57715 2.84776 2.49171 2.83403 3.30707 5.42341 3.79558 1263 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15662 3.98733 2.06811 0.61958 0.77255 0.59685 0.79972\n- 1209 2.63273 4.85496 2.81651 2.25193 4.10998 3.36713 2.79927 3.53796 2.22759 3.11712 3.93882 2.48253 3.79019 2.73615 2.68289 2.64672 2.86371 2.94965 5.32384 3.99153 1264 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03172 3.86243 4.58478 0.61958 0.77255 0.69906 0.68727\n- 1210 2.47907 4.31769 3.31887 2.82131 3.43165 3.47044 3.32989 2.07198 2.71422 2.53441 3.45759 2.95386 3.89285 3.08959 3.04377 2.76459 2.81136 2.50902 4.88618 3.60590 1265 i - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40514 3.72495 3.29355 2.67742 2.69356 4.24691 2.90338 2.73740 3.18147 2.89802 2.37888 2.77520 2.98519 4.58478 3.61486\n- 0.10578 2.29885 * 0.41712 1.07571 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dsr_I__Dsr1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Dsr_I__Dsr1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3848 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Dsr_I__Dsr1\n-LENG 1275\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:44 2021\n-NSEQ 100\n-EFFN 0.411987\n-CKSUM 3195422929\n-GA 100 100;\n-STATS LOCAL MSV -13.1320 0.69507\n-STATS LOCAL VITERBI -14.1145 0.69507\n-STATS LOCAL FORWARD -7.4313 0.69507\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49153 4.29695 2.89306 2.73094 3.26438 2.92094 3.75350 2.84231 2.81890 2.31227 3.71561 3.20784 3.22857 3.14824 2.82391 2.68916 2.90792 2.64008 3.98450 3.46350\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80361 4.52596 0.61958 0.77255 0.00000 *\n- 1 2.91715 4.47751 3.97622 3.56585 3.18105 3.78268 4.31702 2.34992 3.33715 1.78747 1.51674 3.85143 4.24414 3.72436 3.55028 3.25843 3.22176 2.34767 5.01185 3.76673 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80361 4.52596 0.61958 0.77255 0.48576 0.95510\n- 2 2.82945 4.80989 2.86099 2.61652 3.96876 3.32232 3.77358 3.59061 2.44259 3.09966 4.13131 3.07494 3.87598 1.36197 2.72737 2.88098 3.12735 3.32515 5.25398 3.94368 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80361 4.52596 0.61958 0.77255 0.48576 0.95510\n- 3 3.17305 4.59573 4.14366 3.84647 1.13166 3.87615 3.85080 2.70682 3.75555 2.09365 3.44830 3.94249 4.33745 3.94301 3.89227 3.44562 3.47475 2.69216 4.12301 2.49976 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80361 4.52596 0.61958 0.77255 0.48576 0.95510\n- 4 2.97758 4.41766 4.23440 3.84896 3.32954 3.98928 4.59098 1.16767 3.67561 1.93171 3.27767 4.10403 4.42863 4.03204 3.88016 3.47930 3.27864 1.84911 5.20489 3.93606 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80361 4.52596 0.61958 0.77255 0.48576 0.95510\n- 5 2.37865 4.22301 3.36979 3.12058 3.91075 3.06404 4.14279 3.02961 3.06217 2.89546 3.95183 3.33990 3.76298 3.46089 3.32317 2.57933 1.29437 2.73197 5.35475 4.12787 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80361 4.52596 0.61958 0.77255 0.48576 0.95510\n- 6 2.71320 4.84524 2.55706 2.37397 3.86196 3.23434 3.24465 3.72394 2.51169 3.28958 4.18511 1.66716 3.80445 2.91950 2.88673 2.72906 3.01659 3.37235 5.22112 3.76012 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80361 4.52596 0.61958 0.77255 0.48576 0.95510\n- 7 2.58387 4.36424 3.24334 3.13497 4.27497 0.84378 4.25794 3.85923 3.30666 3.52173 4.49822 3.40806 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1268 2.88949 4.97906 2.46145 1.14090 4.31621 3.22679 3.80963 3.75479 2.68064 3.38540 4.36503 2.89518 3.82836 3.02833 3.07975 2.88119 3.19388 3.44747 5.50261 4.22719 1270 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1269 3.14241 4.64990 3.85413 3.51165 2.11698 3.86656 3.50775 3.05839 3.37122 2.52045 3.73630 3.65350 4.28832 3.63526 3.57365 3.28972 3.40893 2.94158 3.81516 1.20352 1271 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1270 2.32385 4.22968 3.21717 2.91751 3.42135 3.04505 3.94721 3.22640 2.93060 2.95765 3.91863 3.19240 3.71604 3.27684 3.24862 1.43746 2.74985 2.87674 5.14034 3.75733 1272 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1271 2.92161 4.76231 3.40472 2.93472 4.09732 3.42185 3.77432 3.63531 2.21518 3.16551 4.16965 3.29941 3.92995 3.00020 1.10365 3.01065 3.19400 3.36310 5.21291 4.04341 1273 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1272 2.92161 4.76231 3.40472 2.93472 4.09732 3.42185 3.77432 3.63531 2.21518 3.16551 4.16965 3.29941 3.92995 3.00020 1.10365 3.01065 3.19400 3.36310 5.21291 4.04341 1274 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1273 2.92161 4.76231 3.40472 2.93472 4.09732 3.42185 3.77432 3.63531 2.21518 3.16551 4.16965 3.29941 3.92995 3.00020 1.10365 3.01065 3.19400 3.36310 5.21291 4.04341 1275 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1274 2.11004 2.99539 3.56247 3.17731 3.94275 2.62555 4.10000 3.31094 3.11361 3.05589 3.91298 3.27275 3.60212 3.41703 3.39230 1.52846 2.58114 2.86014 5.33775 4.12904 1276 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79517 4.51751 0.61958 0.77255 0.49291 0.94379\n- 1275 2.74747 4.31359 4.01642 3.67919 3.49576 3.64161 4.49492 2.06149 3.54567 2.19780 3.47482 3.88081 4.20788 3.91198 3.76522 3.14189 3.11184 1.12881 5.26640 3.99226 1277 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02299 3.78419 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1700 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Eleos__LeoA\n-LENG 559\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:44 2021\n-NSEQ 235\n-EFFN 7.433395\n-CKSUM 3484499553\n-GA 20 20;\n-STATS LOCAL MSV -12.0976 0.69751\n-STATS LOCAL VITERBI -13.0937 0.69751\n-STATS LOCAL FORWARD -5.8445 0.69751\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41428 4.77958 2.81424 2.46423 3.41707 2.93221 3.84680 2.90115 2.57169 2.46070 3.87066 3.08656 3.56292 2.96370 2.84900 2.63686 2.82099 2.73537 4.63253 3.77902\n- 2.68633 4.42240 2.77535 2.73114 3.46369 2.40528 3.72510 3.29348 2.67756 2.69334 4.24278 2.90311 2.73755 3.18132 2.89816 2.37902 2.77535 2.98526 4.58492 3.61518\n- 0.58052 2.36315 1.06053 0.71780 0.66909 0.00000 *\n- 1 3.15628 4.89440 3.98492 3.42860 4.06106 4.08567 4.32567 3.41887 3.11354 3.09474 0.85862 2.65548 4.47995 3.53351 3.12598 3.17733 3.38977 2.86866 5.47197 4.24607 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10796 5.28266 2.33044 0.61958 0.77255 1.11421 0.39776\n- 2 2.26884 5.41657 3.21367 2.13149 4.72308 3.65237 3.98453 3.48319 2.44955 3.70528 3.24925 2.47146 3.42781 3.09491 3.18658 2.48741 1.85589 3.16113 5.87309 4.48669 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11838 5.27871 2.23924 0.61958 0.77255 1.43261 0.27271\n- 3 1.85593 5.46529 2.77503 2.31275 4.80774 3.37636 3.60716 4.29189 2.51893 3.57949 3.80548 2.28622 4.12875 2.51032 3.15096 2.15154 2.64449 3.85453 5.89954 4.49011 9 a - - -\n- 2.68625 4.42232 2.77516 2.73130 3.46361 2.40519 3.72501 3.29343 2.67747 2.69354 4.24696 2.90353 2.73746 3.18153 2.89717 2.37893 2.77526 2.98525 4.58484 3.61510\n- 0.28058 2.04229 2.16347 0.22930 1.58520 0.57097 0.83236\n- 4 2.67734 5.53333 2.42732 2.00363 4.86002 3.84820 4.03728 3.93953 2.65490 3.52202 2.66107 3.13797 3.71094 2.71331 3.26907 2.60134 1.76007 3.29450 5.97717 4.57756 12 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40952 6.13186 0.61958 0.77255 0.88801 0.53014\n- 5 3.13913 5.05396 3.33276 2.63556 2.86762 4.04744 4.10828 2.32459 2.43261 2.06644 2.64693 2.53162 4.43199 3.02730 3.59762 2.68471 3.07255 2.65241 5.60759 4.33517 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03040 5.49393 3.65600 0.61958 0.77255 0.96444 0.47996\n- 6 3.09243 4.27577 2.32645 2.24678 3.01103 3.62554 3.57353 2.73041 2.35754 3.28852 3.78389 2.83791 4.30671 2.52623 3.18036 2.94897 2.30639 3.22324 5.97196 3.66678 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00606 5.50437 6.22672 0.61958 0.77255 0.58205 0.81815\n- 7 3.02546 5.24383 2.78300 2.10916 4.96832 3.75281 4.14251 2.68365 2.30683 3.04502 3.21790 2.88320'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00518 5.66223 6.38458 0.61958 0.77255 0.55829 0.84907\n- 552 1.92715 5.71142 2.63058 2.33027 5.05499 3.24215 4.05536 4.02931 2.61410 2.94383 4.75248 3.20054 3.94077 2.91440 2.34568 1.77483 3.20569 3.50661 6.14501 4.24432 1081 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00842 5.66223 5.31670 0.61958 0.77255 0.55829 0.84907\n- 553 1.77490 5.70906 3.06363 1.41825 4.23545 3.57839 3.85740 4.53717 2.45243 3.70474 4.17057 3.28890 4.37034 2.60018 2.83628 3.00906 2.83786 3.84910 6.14278 3.73837 1082 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00519 5.65900 6.38135 0.61958 0.77255 0.57454 0.82774\n- 554 3.02712 4.34837 5.26486 4.28382 1.98406 4.46298 4.79727 1.15889 4.43207 2.16870 3.17840 4.62829 4.82638 4.56163 4.05628 3.62138 3.52436 2.00725 5.28822 3.23160 1083 i - - -\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40497 3.72499 3.29359 2.67746 2.69360 4.24695 2.90351 2.73705 3.18151 2.89796 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.33632 3.16086 1.41381 0.52356 0.89748 0.57454 0.82774\n- 555 2.24539 5.56023 3.05294 2.33766 4.39293 3.51599 2.73935 4.18341 2.07962 3.86507 4.60117 3.07634 4.21970 2.51911 2.50997 2.30159 2.47943 3.22982 5.99355 3.91256 1088 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13638 5.38256 2.09645 0.61958 0.77255 0.29924 1.35240\n- 556 2.58011 5.28933 3.22852 1.84340 4.98890 2.67762 4.02055 4.32596 2.17690 3.94882 4.68389 3.04068 4.29869 2.69483 1.85369 2.66679 2.53025 3.69813 6.07573 4.51926 1089 e - - -\n- 2.68498 4.42026 2.77554 2.72877 3.46483 2.40451 3.72472 3.29416 2.67809 2.69180 4.24819 2.90476 2.73791 3.18138 2.89834 2.37996 2.77603 2.98520 4.58337 3.61633\n- 0.51956 1.03224 3.01571 1.61749 0.22114 0.59592 0.80086\n- 557 2.00265 5.35400 3.35332 2.27709 4.91604 3.26406 3.98713 3.35245 2.84684 3.09226 4.28727 3.06274 3.03510 2.84756 2.22316 2.13413 2.63961 3.13044 6.04402 4.64871 1112 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05163 5.55699 3.06918 0.61958 0.77255 0.96905 0.47714\n- 558 2.24667 4.57674 5.11497 3.85875 3.53892 4.36017 4.69158 2.05607 4.29745 1.10337 3.30181 4.50801 4.72418 4.43704 4.19985 3.27678 3.04100 2.07700 5.19840 3.42206 1113 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21595 5.51138 1.65977 0.61958 0.77255 0.85115 0.55673\n- 559 2.91779 5.45617 2.93989 2.50775 4.21579 3.43978 3.95529 4.22607 2.59721 2.37365 4.41242 2.13424 3.59705 3.09407 3.01384 1.97636 2.57660 2.54229 5.91122 4.52328 1114 s - - -\n- 2.68410 4.42087 2.77565 2.72954 3.46378 2.40639 3.72472 3.29294 2.67837 2.69429 4.24907 2.90506 2.73591 3.18235 2.89808 2.37876 2.77586 2.98326 4.58064 3.61779\n- 0.82853 0.57393 * 2.19572 0.11797 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoA2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoA2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1754 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Eleos__LeoA2\n-LENG 577\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:45 2021\n-NSEQ 57\n-EFFN 1.255920\n-CKSUM 1580449742\n-GA 10 10;\n-STATS LOCAL MSV -12.0751 0.69738\n-STATS LOCAL VITERBI -12.9287 0.69738\n-STATS LOCAL FORWARD -5.9240 0.69738\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55067 4.48469 2.84766 2.54033 3.34859 3.07927 3.81063 2.73740 2.50877 2.41329 3.62222 3.01395 3.61789 2.99784 3.01016 2.64670 2.86249 2.65383 4.74230 3.64843\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07023 4.32042 2.90910 0.61958 0.77255 0.00000 *\n- 1 3.33862 4.83299 4.51101 4.15396 3.45558 4.15295 4.79695 2.67506 3.89628 2.00465 0.77631 4.37642 4.63134 4.25963 4.05064 3.72056 3.66016 2.72458 5.33779 4.12809 1 m - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37878 2.77505 2.98520 4.58479 3.61505\n- 0.07328 2.75077 4.99350 0.64896 0.73938 0.55220 0.85727\n- 2 2.76805 5.21467 2.63625 1.45398 4.51803 3.41858 3.69026 3.99013 2.16064 3.49866 4.27840 2.61795 3.87382 2.81330 2.94740 2.72566 3.00746 3.58807 5.65411 3.58500 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27116 4.99350 0.61958 0.77255 0.55220 0.85727\n- 3 2.90365 5.41324 2.30798 1.82567 4.72089 3.39545 3.77479 4.21070 2.62124 3.70183 4.50163 2.85881 3.77032 1.47744 3.12933 2.82881 3.15925 3.79256 5.85111 4.41036 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13398 4.27116 2.19435 0.61958 0.77255 0.55220 0.85727\n- 4 3.47809 4.80072 4.78514 4.36374 1.07682 4.47401 4.12918 2.62001 4.20102 1.58368 3.28121 4.38076 4.75804 4.27511 4.28154 3.86494 3.71686 2.69892 4.31942 2.71237 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02345 4.16062 4.88296 0.61958 0.77255 0.46911 0.98233\n- 5 2.86360 5.23661 2.85899 2.31355 4.59891 3.49911 3.70821 4.03270 1.41819 3.52442 4.32550 2.20757 3.94337 2.83417 2.69987 2.82825 2.87359 3.64617 5.65027 4.30885 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27116 4.99350 0.61958 0.77255 0.55220 0.85727\n- 6 2.34759 4.91731 2.96762 2.46426 4.21977 3.44204 3.58504 3.43850 2.45144 3.22778 4.03108 2.77343 3.86263 1.84367 2.89999 2.28996 2.90845 3.29945 5.43991 4.09406 8 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27116 4.99350 0.61958 0.77255 0.55220 0.85727\n- 7 3.33235 4.67460 4.67282 4.21410 1.04113 4.32069 3.86351 2.89414 4.06144 2.26364 3.56704 4.17045'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07715 4.22987 2.81855 0.61958 0.77255 0.60241 0.79295\n- 570 2.41665 4.85997 2.96900 2.06297 4.11783 3.07390 3.63286 3.13629 2.41903 3.12967 3.93222 2.94685 3.46526 2.48140 2.84739 2.51424 2.79410 3.00514 5.35692 4.01064 604 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03870 4.17581 3.78992 0.61958 0.77255 0.66174 0.72557\n- 571 2.41240 4.47606 2.70415 2.31922 4.18889 3.40786 3.61723 3.62499 2.21199 3.19192 3.98143 2.82251 3.54969 2.74670 2.86730 2.40221 2.31208 3.17353 5.39973 4.03980 605 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02345 4.16056 4.88291 0.61958 0.77255 0.57147 0.83171\n- 572 2.51390 4.51189 3.25153 2.27681 3.19571 3.52209 3.75204 2.78797 2.60889 2.73823 3.60505 3.15685 3.70697 2.92981 2.85639 2.60451 2.74610 2.29307 5.06792 3.79851 606 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02218 4.21543 4.93778 0.61958 0.77255 0.61893 0.77332\n- 573 2.54337 4.64006 2.85345 2.48182 3.47075 3.30342 3.70559 2.46525 2.53649 2.73245 3.72475 2.53583 3.87455 2.81471 3.00126 2.67142 2.79215 2.84052 5.17558 3.87949 607 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02218 4.21543 4.93778 0.61958 0.77255 0.61893 0.77332\n- 574 2.59453 5.02050 2.67679 2.02287 4.09256 3.41144 3.12017 3.69421 2.20633 2.89913 4.07305 2.86276 3.66084 2.61757 2.72658 2.60596 2.80401 3.21106 5.47947 4.09696 608 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05941 4.21543 3.14846 0.61958 0.77255 0.61893 0.77332\n- 575 2.51583 4.92298 2.66382 2.32900 4.22628 2.67216 3.63460 3.66559 2.41482 3.22885 3.90339 2.92211 3.60570 2.76431 2.79182 2.28498 2.35856 3.29963 5.43285 4.06971 609 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05869 4.17903 3.17753 0.61958 0.77255 0.65840 0.72914\n- 576 2.11086 3.55118 3.30759 2.24983 3.15594 3.51181 3.77073 2.95682 2.71661 2.66084 3.46738 3.08619 3.90482 3.03812 3.11028 2.72444 2.70104 2.62726 5.00805 3.75097 610 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07886 4.14417 2.81380 0.61958 0.77255 0.59782 0.79853\n- 577 2.52338 4.72133 2.77558 2.31119 3.32057 3.44561 3.65552 3.23524 2.47796 2.97019 3.79860 2.99787 3.83505 2.78964 2.57212 2.45714 2.82949 2.97875 5.23752 3.02779 611 e - - -\n- 2.68617 4.42288 2.77567 2.73104 3.46290 2.40538 3.72558 3.29286 2.67650 2.69369 4.24677 2.90390 2.73740 3.18202 2.89761 2.37860 2.77578 2.98512 4.58434 3.61530\n- 0.54456 0.86773 * 2.04830 0.13806 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1727 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Eleos__LeoB\n-LENG 568\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:45 2021\n-NSEQ 57\n-EFFN 2.007385\n-CKSUM 3353334803\n-GA 10 10;\n-STATS LOCAL MSV -12.2094 0.69745\n-STATS LOCAL VITERBI -12.8866 0.69745\n-STATS LOCAL FORWARD -6.0621 0.69745\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56665 4.52824 2.92202 2.56020 3.40214 2.88297 3.73706 2.78693 2.53080 2.50046 3.73877 2.94973 3.54403 2.94918 2.95459 2.59362 2.82559 2.69463 5.10746 3.58313\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25437 4.62743 1.53798 0.61958 0.77255 0.00000 *\n- 1 3.43920 4.80203 4.97936 4.43023 3.28161 4.63643 4.98548 2.35281 4.23371 1.51117 1.05074 4.67547 4.87196 4.40642 4.36514 3.99834 3.67716 2.28091 5.34120 4.24289 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03350 4.39163 3.88431 0.61958 0.77255 0.82800 0.57433\n- 2 1.97173 5.12686 2.52726 2.39190 4.45988 3.33571 3.69682 3.92362 2.32352 3.44554 4.21584 2.34018 3.87281 2.81492 2.91925 2.15059 2.95896 3.52052 5.61383 4.21976 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17050 4.37697 1.93657 0.61958 0.77255 0.84374 0.56229\n- 3 2.59561 4.60680 2.75613 2.17974 4.35496 3.41232 3.64509 3.80728 2.41185 3.34291 4.12219 1.82040 3.83324 2.65290 2.76932 2.52949 2.90886 3.42343 5.52235 4.14179 3 n - - -\n- 2.67426 4.39457 2.78379 2.73891 3.43889 2.40736 3.73413 3.28621 2.68375 2.68621 4.21469 2.91486 2.74819 3.18875 2.90833 2.38341 2.77605 2.96461 4.56907 3.60913\n- 0.87644 0.76999 2.11429 5.07782 0.00625 0.70059 0.68576\n- 4 3.53582 4.82036 5.22322 4.64274 2.79233 4.81744 5.06435 2.23968 4.51278 0.78296 2.09500 4.87429 4.92958 4.50224 4.55767 4.16993 3.74287 2.54296 5.23597 4.20108 325 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26615 4.98850 0.61958 0.77255 0.94891 0.48966\n- 5 2.72587 5.03245 2.16210 2.32535 4.42264 3.37596 3.76634 3.86734 2.61147 3.43343 4.23596 2.93564 3.87765 2.91140 3.10603 2.00447 1.90779 3.47847 5.63563 4.25362 326 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26615 4.98850 0.61958 0.77255 0.87707 0.53785\n- 6 2.67267 5.04822 2.51286 1.64937 4.33980 3.43328 3.65370 3.78844 2.42656 2.93762 3.65253 2.83151 3.84404 2.77473 2.91103 2.53205 2.80508 3.40888 5.51641 4.13582 327 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02038 4.29944 5.02179 0.61958 0.77255 0.91965 0.50859\n- 7 2.43671 4.50013 3.16559 2.78187 3.70462 3.53797 3.82767 2.83733 2.75512 2.39326 3.63330 3.22951 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01484 4.61342 5.33577 0.61958 0.77255 0.51244 0.91388\n- 561 2.84410 5.35879 2.71064 1.52232 4.69719 3.33536 3.77112 4.18333 2.10212 3.65693 4.40915 2.13000 3.96485 2.87834 2.67648 2.79454 3.08040 3.74744 5.78587 4.36901 1087 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01484 4.61342 5.33577 0.61958 0.77255 0.51244 0.91388\n- 562 2.39539 5.21893 2.89211 2.26576 4.55311 3.03571 3.70021 4.03125 2.07838 3.16605 4.02303 2.53667 3.90530 2.13938 2.86404 2.47190 2.90736 3.60375 5.65795 4.25395 1088 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01484 4.61342 5.33577 0.61958 0.77255 0.51244 0.91388\n- 563 2.76918 4.47394 3.67144 3.09521 3.61270 3.19736 3.98131 2.00258 2.36735 2.67819 1.94860 3.48749 4.12158 3.08824 3.11847 2.99917 2.99838 2.74451 5.05167 3.82516 1089 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01484 4.61342 5.33577 0.61958 0.77255 0.51244 0.91388\n- 564 2.76459 5.20257 3.01592 2.23249 4.53068 3.11810 3.72464 3.99503 1.91982 3.46298 4.25677 3.01485 2.13120 2.83191 2.69957 2.53830 2.69818 3.58599 5.64853 4.26097 1090 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05775 4.61342 3.07488 0.61958 0.77255 0.51244 0.91388\n- 565 2.97037 4.43965 4.30187 3.75180 2.93849 4.01964 3.14471 2.85432 3.60264 2.17960 3.53565 3.92578 4.38091 3.82992 3.78494 3.31477 3.20132 1.72805 4.53252 1.52905 1091 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13544 4.57116 2.15140 0.61958 0.77255 0.58679 0.81218\n- 566 1.69773 4.82726 2.99567 2.33842 4.57875 1.35358 4.12024 3.99686 3.02939 3.62565 4.45475 3.21918 4.00137 3.31316 3.46961 2.81253 3.11279 3.55225 5.85162 4.53373 1092 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25045 4.45317 1.56110 0.61958 0.77255 0.75632 0.63373\n- 567 2.59972 4.56367 3.37189 2.91971 4.15969 3.35237 3.95701 3.52279 2.66441 3.19454 4.06230 3.28128 3.92409 3.17174 2.44309 2.61196 1.27656 3.16747 5.45231 4.20116 1093 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02197 4.22470 4.94704 0.61958 0.77255 0.95468 0.48603\n- 568 2.37961 4.30076 4.10544 3.58299 3.51850 3.83582 4.31740 1.26664 3.46475 2.38089 3.44259 3.84143 4.26503 3.54674 3.70708 3.16824 2.79495 2.04247 5.12528 3.92313 1094 i - - -\n- 2.68591 4.42222 2.77546 2.73141 3.46380 2.40536 3.72476 3.29335 2.67762 2.69381 4.24716 2.90373 2.73766 3.17979 2.89804 2.37903 2.77512 2.98469 4.58503 3.61433\n- 0.40313 1.10330 * 1.35380 0.29875 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoBC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoBC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1826 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Eleos__LeoBC\n-LENG 601\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:44 2021\n-NSEQ 235\n-EFFN 6.379166\n-CKSUM 2756527549\n-GA 20 20;\n-STATS LOCAL MSV -11.9666 0.69721\n-STATS LOCAL VITERBI -13.2605 0.69721\n-STATS LOCAL FORWARD -5.8197 0.69721\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49324 4.60551 2.85311 2.57730 3.41017 2.71802 3.77373 2.95071 2.60105 2.50655 3.98896 2.97506 3.27622 3.02642 2.86585 2.53366 2.81587 2.84177 4.70354 3.71723\n- 2.68410 4.42233 2.77219 2.72988 3.45240 2.41157 3.72082 3.28322 2.68329 2.68546 4.23340 2.90193 2.74822 3.17881 2.90319 2.38109 2.77888 2.98670 4.58230 3.60536\n- 1.15653 1.21316 0.94632 4.25576 0.01428 0.00000 *\n- 1 2.78096 4.37544 4.12219 3.50429 3.47414 4.06760 4.12325 2.05974 3.66028 1.89016 1.57280 3.95863 4.43491 3.79168 3.94975 3.36293 3.17180 2.08120 4.99131 3.80596 197 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04706 5.06817 3.22699 0.61958 0.77255 1.46573 0.26255\n- 2 2.77495 5.38613 2.61138 2.26335 4.72237 3.67364 3.09834 3.76478 2.52843 3.68764 4.42911 2.82763 4.06693 2.69691 2.56161 2.33201 1.94449 3.14301 5.82412 3.53451 198 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00957 5.04940 5.77175 0.61958 0.77255 1.49061 0.25520\n- 3 2.78030 5.40850 2.39593 1.81259 4.75106 3.67838 3.86577 4.23524 1.90562 3.33972 3.96735 2.89393 4.07187 2.76098 2.98075 2.44333 2.48471 3.34197 5.84267 4.43325 199 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00941 5.06634 5.78869 0.61958 0.77255 1.44815 0.26789\n- 4 2.04485 3.83012 3.56136 2.38924 4.00906 3.83815 3.63177 2.41446 2.62405 2.71698 3.50900 3.46846 3.67520 2.80493 3.38986 2.46392 2.98884 2.83126 5.39343 2.89948 200 a - - -\n- 2.68622 4.42249 2.77512 2.73142 3.46258 2.40518 3.72497 3.29378 2.67765 2.69311 4.24714 2.90332 2.73764 3.18170 2.89796 2.37868 2.77544 2.98497 4.58501 3.61527\n- 0.94694 0.60714 2.70059 0.05023 3.01609 1.18570 0.36461\n- 5 2.80874 5.05442 2.93966 2.73800 3.61387 3.77929 3.72461 3.41020 2.17493 2.30818 2.98427 3.20093 3.53227 2.98625 2.55235 2.56482 3.03801 2.53344 5.57188 3.24967 202 k - - -\n- 2.68586 4.42465 2.77845 2.72743 3.46164 2.41602 3.72570 3.27530 2.67498 2.68421 4.23759 2.90321 2.74396 3.17918 2.90108 2.38366 2.77735 2.98243 4.56513 3.61504\n- 1.19223 0.36599 5.82830 4.19963 0.01511 1.27629 0.32722\n- 6 2.20711 5.44093 2.47795 2.00216 3.31281 3.45018 3.79175 4.26256 2.54284 3.39691 4.48305 3.01014 3.04973 2.90613 2.57753 2.14745 2.94344 3.74630 5.87694 4.18029 411 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02526 5.15624 3.95373 0.61958 0.77255 0.34796 1.22461\n- 7 3.37729 4.73940 5.32592 4.71453 2.68597 4.26870 4.86972 2.76753 4.50643 1.21214 1.44363 4.7134'..b'.68071 4.42653 2.77673 2.73451 3.46086 2.40254 3.72569 3.29220 2.67343 2.69484 4.25001 2.90648 2.73904 3.18431 2.89791 2.38220 2.77769 2.98084 4.57558 3.61395\n- 1.08760 1.26931 0.96247 3.00852 0.05062 0.53837 0.87635\n- 594 2.81976 5.41343 2.38215 2.41888 4.02665 3.45854 3.65826 4.24270 1.64736 3.47976 4.45438 2.63232 4.07286 2.64024 2.17351 2.69725 3.03008 3.80356 5.08297 4.43642 2368 k - - -\n- 2.67280 4.42959 2.77496 2.72956 3.46777 2.40820 3.72811 3.28502 2.67892 2.69205 4.24056 2.90860 2.74515 3.18184 2.89671 2.38296 2.77972 2.97341 4.58189 3.61934\n- 1.38782 0.29125 5.79200 3.40743 0.03369 0.15579 1.93615\n- 595 2.98492 4.32040 5.14736 4.53447 3.49916 4.38475 4.71646 1.35294 3.68199 1.42308 2.83561 4.09647 4.74879 4.25136 3.91886 3.38407 2.94383 2.17010 5.22081 3.95645 2432 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10156 5.55174 2.37849 0.61958 0.77255 0.51982 0.90295\n- 596 2.80950 5.15085 2.48812 1.54140 4.30148 3.64261 3.69562 4.10038 1.98669 3.78948 4.64308 2.91363 4.11331 2.75463 2.69279 2.28239 3.16258 3.70524 6.03487 4.34217 2433 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21149 5.45655 1.68012 0.61958 0.77255 0.87728 0.53771\n- 597 2.65954 5.46586 2.84516 2.21119 3.88794 2.27488 3.07986 2.85438 2.50627 3.49532 4.08195 2.18830 3.51185 2.90452 3.18727 2.68918 2.84456 3.79521 5.90699 4.33111 2434 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08267 5.25286 2.60216 0.61958 0.77255 1.31846 0.31136\n- 598 2.06507 5.41182 2.76065 2.05083 4.73505 3.38917 3.92640 3.62330 2.22133 2.63412 4.45829 3.21325 3.80140 2.87371 3.15907 2.27168 2.52600 3.29576 5.85782 4.46042 2435 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 5.17860 4.22276 0.61958 0.77255 1.42553 0.27494\n- 599 2.54738 5.44949 2.26067 2.37788 4.79053 1.97636 3.91108 4.02145 2.43408 2.99594 4.49123 3.03734 4.11698 2.67637 2.36242 2.60372 3.11012 3.74339 5.88456 4.24220 2436 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08402 5.16661 2.59185 0.61958 0.77255 1.36167 0.29603\n- 600 2.13334 5.17276 3.30188 2.18229 4.42350 2.40889 3.49405 3.35066 2.56552 3.13955 3.88702 2.55054 3.84476 3.09105 3.20843 2.82822 2.78124 3.25428 4.63455 2.75585 2437 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04134 5.10809 3.36838 0.61958 0.77255 0.58138 0.81900\n- 601 2.84561 5.51613 2.39891 2.11948 3.92634 2.55872 4.00128 4.03654 2.42909 2.41476 4.55998 2.80793 3.52103 2.98217 2.41040 2.66878 3.26575 3.34320 5.31497 3.58187 2438 e - - -\n- 2.67336 4.42245 2.77779 2.72270 3.47252 2.40790 3.72830 3.28674 2.68292 2.68462 4.24559 2.91004 2.74615 3.18040 2.88811 2.38532 2.77641 2.98432 4.59330 3.61939\n- 1.20979 0.35419 * 3.46523 0.03177 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Eleos__LeoC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,644 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Eleos__LeoC\n-LENG 207\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:45 2021\n-NSEQ 57\n-EFFN 1.736023\n-CKSUM 3508114284\n-GA 10 10;\n-STATS LOCAL MSV -10.5512 0.70493\n-STATS LOCAL VITERBI -11.4444 0.70493\n-STATS LOCAL FORWARD -4.6068 0.70493\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50848 4.60286 2.96025 2.48662 3.30376 2.99380 3.76445 2.80477 2.57940 2.42574 3.72511 2.97730 3.75415 2.90946 2.90104 2.61343 2.77218 2.79327 4.81680 3.65897\n- 2.68645 4.42139 2.77530 2.73054 3.46405 2.40542 3.72424 3.29327 2.67779 2.69377 4.24280 2.90282 2.73777 3.18089 2.89818 2.37910 2.77562 2.98497 4.58528 3.61555\n- 0.42405 1.31806 2.55164 1.89990 0.16203 0.00000 *\n- 1 2.70238 4.28569 3.86120 3.29544 3.39611 3.73284 3.44032 2.39966 3.17930 2.46096 1.58243 3.60688 4.11980 3.47501 3.44435 2.68195 2.79218 2.53065 4.89050 3.67662 16 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01747 4.45162 5.17397 0.61958 0.77255 0.41731 1.07533\n- 2 2.71226 5.08518 3.00861 2.15865 4.37881 3.50421 3.56828 3.82875 2.29192 3.36815 3.24685 2.17679 3.89836 2.81710 2.93655 2.14141 2.58209 3.30405 5.55070 4.17476 17 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52710 5.24945 0.61958 0.77255 0.48576 0.95510\n- 3 2.30065 4.90469 3.10997 2.55192 4.14274 3.53886 3.34454 3.30865 2.18896 3.16271 3.97600 3.07068 3.60208 2.80014 2.90632 2.53370 2.07417 3.23660 5.40729 3.16901 18 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52710 5.24945 0.61958 0.77255 0.48576 0.95510\n- 4 2.07580 5.13749 2.99022 2.43531 4.45273 3.27453 3.68558 3.91583 2.18093 3.43021 4.18883 2.56527 3.21833 2.45875 2.59511 2.55804 2.78834 3.19245 5.59055 4.20142 19 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52710 5.24945 0.61958 0.77255 0.48576 0.95510\n- 5 2.81884 5.32366 2.67631 1.74206 4.65702 3.49998 3.74493 4.14023 2.27940 3.40653 4.37559 2.66493 3.93737 1.74723 2.98950 2.77026 3.05547 3.70969 5.75250 4.33785 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52710 5.24945 0.61958 0.77255 0.48576 0.95510\n- 6 2.85270 5.34086 1.49487 1.98211 4.65066 3.49297 3.78426 4.13270 2.59436 3.63189 4.40174 2.78845 3.95557 2.78687 3.10722 2.65622 2.81582 3.71501 5.78567 3.24884 21 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01619 4.52710 5.24945 0.61958 0.77255 0.48576 0.95510\n- 7 3.08982 4.44504 4.90645 4.31179 1.48876 4.27772 4.53897 2.25139 4.13826 1.48954 2.82134 4.38322 '..b'.68560 4.42240 2.77535 2.73139 3.46369 2.40453 3.72510 3.29369 2.67756 2.69370 4.24705 2.90362 2.73755 3.18162 2.89816 2.37890 2.77528 2.98502 4.58492 3.61494\n- 0.45557 1.02124 5.15620 0.64393 0.74492 0.59993 0.79596\n- 200 2.25868 4.14473 4.17503 3.58706 3.02362 3.62586 4.09397 2.51317 3.46195 1.80980 2.48750 3.78127 3.69652 3.67670 3.63168 2.75506 2.91000 2.02998 4.76075 3.57051 314 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04142 4.44596 3.54577 0.61958 0.77255 0.61412 0.77896\n- 201 2.02794 4.19432 4.01287 3.43378 2.95965 2.66285 4.06369 2.33532 3.33486 2.10206 3.31074 3.69162 3.89443 3.57685 3.55949 3.03764 2.85423 2.03310 4.81690 3.61825 315 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05583 4.42253 3.16306 0.61958 0.77255 0.64658 0.74199\n- 202 2.18104 3.77512 4.17812 3.58852 2.99369 3.76687 4.07449 2.49462 3.45889 1.81258 3.10972 3.43231 4.13542 3.66905 3.61949 3.05652 2.74409 2.18390 4.72843 2.58091 316 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06222 4.38539 3.03940 0.61958 0.77255 0.69456 0.69174\n- 203 2.06119 4.10192 4.15044 3.56128 3.02551 3.74907 4.05523 2.30610 3.43350 1.98367 3.21583 3.74929 4.11778 3.64550 3.59787 2.64015 2.74968 2.09177 4.15781 3.09516 317 l - - -\n- 2.68611 4.42231 2.77526 2.73130 3.46341 2.40519 3.72501 3.29344 2.67738 2.69347 4.24696 2.90336 2.73732 3.18153 2.89790 2.37893 2.77526 2.98525 4.58483 3.61509\n- 0.09539 2.46899 5.06502 1.10734 0.40113 0.74501 0.64384\n- 204 2.39023 4.64919 3.19510 2.52740 3.52291 3.53221 3.75323 3.08459 2.61714 2.13017 3.73632 2.72840 3.92023 2.30851 3.04560 2.68435 2.88465 2.95131 5.18889 3.89946 323 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34267 5.06502 0.61958 0.77255 0.74501 0.64384\n- 205 2.63810 4.14964 3.98229 3.39977 3.03796 3.71983 4.01316 2.24466 2.82371 1.83215 2.68572 3.51000 4.09093 3.42846 3.51365 2.64861 2.76540 2.40483 4.16219 3.55886 324 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04928 4.34267 3.34999 0.61958 0.77255 0.74501 0.64384\n- 206 2.75214 4.18654 4.32976 3.73843 2.73281 3.88180 4.17771 2.35514 3.59891 1.40893 2.81886 3.90533 4.22822 2.97647 3.73477 3.17794 2.98167 2.28441 3.68703 3.57812 325 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15585 4.31348 2.03314 0.61958 0.77255 0.77694 0.61583\n- 207 2.09833 4.14554 3.82043 3.24222 3.25754 3.65311 3.93816 2.33837 3.15149 2.11538 3.10094 3.53833 4.02619 3.41149 3.00034 2.79688 2.77270 2.19446 3.99844 3.54595 326 a - - -\n- 2.68615 4.42247 2.77541 2.73145 3.46361 2.40429 3.72480 3.29327 2.67749 2.69354 4.24711 2.90368 2.73761 3.18141 2.89822 2.37904 2.77541 2.98501 4.58346 3.61525\n- 0.77197 0.62008 * 0.81213 0.58683 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_GIY_YIG__GIY_YIG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_GIY_YIG__GIY_YIG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1016 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_GIY_YIG__GIY_YIG\n-LENG 331\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:43 2023\n-NSEQ 63\n-EFFN 0.765198\n-CKSUM 2903585023\n-GA 100 100;\n-STATS LOCAL MSV -10.8583 0.70051\n-STATS LOCAL VITERBI -11.8413 0.70051\n-STATS LOCAL FORWARD -5.5079 0.70051\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58924 4.23828 2.89646 2.65073 3.15312 3.02872 3.61027 2.75176 2.69654 2.41875 3.65224 3.08750 3.44060 3.07511 2.95075 2.61937 2.90080 2.66282 4.78667 3.26369\n- 2.68610 4.42199 2.77541 2.73134 3.46354 2.40513 3.72511 3.29350 2.67745 2.69353 4.24429 2.90355 2.73749 3.18162 2.89791 2.37900 2.77520 2.98524 4.58359 3.61522\n- 0.35323 1.44335 2.78954 1.75160 0.19055 0.00000 *\n- 1 2.47695 4.45611 3.17995 2.51125 3.65510 3.38843 3.72447 3.01808 2.57618 2.70834 2.40999 3.03707 3.67234 2.97066 3.00741 2.70979 2.48497 2.76229 5.04041 3.77701 67 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99850 4.72085 0.61958 0.77255 0.53154 0.88601\n- 2 2.44264 4.66958 2.94381 2.29410 3.88639 3.41465 3.51711 3.17142 2.40987 2.92017 3.75440 2.97709 3.81021 2.75652 2.90990 2.39267 2.59979 2.58876 5.19547 3.88408 68 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02745 4.00481 4.72715 0.61958 0.77255 0.53592 0.87980\n- 3 2.14837 4.27855 3.19663 2.89062 4.31304 1.72277 4.06626 3.74664 3.00210 3.39383 4.20664 3.17500 2.63805 3.29339 3.37664 1.99161 2.73589 3.21889 5.62105 4.37063 69 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02745 4.00481 4.72715 0.61958 0.77255 0.53592 0.87980\n- 4 2.71185 4.91822 3.07370 2.40908 4.21794 3.47559 3.59954 3.61474 1.62154 3.17230 3.99504 2.99626 3.86204 2.73961 2.35518 2.72820 2.70403 3.13752 5.35407 3.84326 70 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02745 4.00481 4.72715 0.61958 0.77255 0.53592 0.87980\n- 5 3.04123 5.14033 3.42366 2.78873 4.57677 3.65788 3.61606 3.93219 1.72165 3.38799 4.25798 3.11270 4.03358 2.71159 1.26897 3.04215 3.21171 3.61717 5.43986 4.26506 71 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02745 4.00481 4.72715 0.61958 0.77255 0.53592 0.87980\n- 6 2.75504 4.90011 3.14494 2.54337 3.93392 3.51116 3.61547 3.56908 1.47439 2.94505 3.98013 3.04546 3.89630 2.69288 2.40253 2.78365 2.91886 3.26131 5.32318 4.04711 72 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02745 4.00481 4.72715 0.61958 0.77255 0.53592 0.87980\n- 7 3.35053 4.69903 4.39065 3.97294 1.44787 4.19896 3.21983 3.20572 3.83095 2.59779 3.61934 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02670 4.03235 4.75469 0.61958 0.77255 0.50785 0.92078\n- 324 2.56333 4.92608 2.41882 2.30334 4.25121 2.75984 3.44287 3.69296 2.46650 3.26065 4.06160 2.86484 2.58473 2.78746 2.95179 2.62743 2.56961 3.32428 5.46974 4.09905 397 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02670 4.03235 4.75469 0.61958 0.77255 0.50785 0.92078\n- 325 2.82459 5.26525 1.70156 2.18303 4.67083 2.17927 3.76644 4.17786 2.73259 3.69697 4.52245 2.11868 3.83145 2.92693 3.29278 2.75884 3.12392 3.74264 5.86184 4.40079 398 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02670 4.03235 4.75469 0.61958 0.77255 0.50785 0.92078\n- 326 2.92419 4.34316 4.46335 3.95915 3.60753 4.12315 4.71893 1.68986 3.84484 2.23624 3.44664 4.19316 4.52218 4.14065 4.07878 3.49130 2.82053 1.08570 5.42007 4.20789 399 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02670 4.03235 4.75469 0.61958 0.77255 0.50785 0.92078\n- 327 3.16044 4.50848 4.68985 4.21727 3.05098 4.38554 4.78974 1.02613 4.08523 1.87124 3.23261 4.43777 4.70117 4.31927 4.26209 3.78430 3.42363 1.85133 5.21700 3.91759 400 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02670 4.03235 4.75469 0.61958 0.77255 0.50785 0.92078\n- 328 2.53373 4.68227 3.03017 2.44237 3.91570 3.41757 3.64277 3.05701 2.25561 2.89227 3.77808 2.87782 2.81222 2.81567 2.89233 2.39056 2.76247 2.89797 5.21558 3.90484 401 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02670 4.03235 4.75469 0.61958 0.77255 0.50785 0.92078\n- 329 2.61741 4.42492 3.37234 2.79489 3.55771 3.54083 3.65349 2.92626 2.60828 2.27580 2.56716 3.22212 3.44217 3.02595 2.38957 2.79219 2.84617 2.70225 4.97238 3.72551 402 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02670 4.03235 4.75469 0.61958 0.77255 0.50785 0.92078\n- 330 2.64691 4.92981 2.86316 2.12727 4.23489 3.39076 3.61464 3.66163 2.10305 3.22129 4.02414 2.90996 3.81217 2.75059 2.66380 2.23821 2.40710 3.30623 5.41655 4.07271 403 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10016 4.03235 2.55652 0.61958 0.77255 0.50785 0.92078\n- 331 2.84459 5.02703 3.18858 2.61025 4.43499 3.52725 3.59552 3.81352 1.47558 3.31039 4.14829 3.06370 3.67900 2.73099 1.92865 2.68469 3.04829 3.47461 5.41792 4.18083 404 k - - -\n- 2.68620 4.42208 2.77521 2.73125 3.46356 2.40510 3.72496 3.29356 2.67730 2.69357 4.24692 2.90344 2.73741 3.18148 2.89803 2.37886 2.77521 2.98520 4.58479 3.61505\n- 0.08298 2.53035 * 0.69566 0.69065 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HEPN_TM__HEPN.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HEPN_TM__HEPN.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,755 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HEPN_TM__HEPN\n-LENG 244\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:43 2023\n-NSEQ 9\n-EFFN 0.619629\n-CKSUM 2111266127\n-GA 20 20;\n-STATS LOCAL MSV -11.0827 0.70316\n-STATS LOCAL VITERBI -11.7830 0.70316\n-STATS LOCAL FORWARD -5.0165 0.70316\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71147 4.36707 2.78522 2.67452 3.09415 3.13728 3.77437 2.72558 2.54464 2.40379 3.71492 2.81661 3.81033 3.18485 2.94311 2.82566 2.98006 2.55872 4.50212 3.09607\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13411 3.86647 2.25785 0.61958 0.77255 0.00000 *\n- 1 2.89066 4.45765 3.93765 3.52610 3.16891 3.75518 4.28578 2.33433 3.29873 1.78251 1.59616 3.81568 4.21789 3.68931 3.51583 3.22740 3.19532 2.32739 4.99388 3.74453 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03494 3.76730 4.48965 0.61958 0.77255 0.56798 0.83625\n- 2 2.64140 4.62871 2.66087 2.53747 3.97614 3.11729 3.84554 3.66706 2.74222 3.32716 4.28574 1.35939 3.76565 3.12104 3.09074 2.71453 3.02159 3.30001 5.29481 3.93427 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03494 3.76730 4.48965 0.61958 0.77255 0.56798 0.83625\n- 3 3.04001 4.53549 4.01835 3.66142 3.10145 3.84470 4.35023 2.30442 3.43004 1.01704 3.16402 3.94658 4.30071 3.82380 3.62187 3.40846 3.34054 2.31369 4.93891 3.63682 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03494 3.76730 4.48965 0.61958 0.77255 0.56798 0.83625\n- 4 3.17137 4.58179 3.93692 3.61936 2.57359 3.61760 3.78216 3.19337 3.34484 2.60504 3.83179 3.79037 4.12750 3.73835 3.49076 3.37584 3.46724 3.08084 1.12755 2.58179 4 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03494 3.76730 4.48965 0.61958 0.77255 0.56798 0.83625\n- 5 2.54388 4.32572 3.19562 3.08370 4.22039 0.91175 4.20725 3.79725 3.25015 3.46411 4.44177 3.36082 3.71347 3.58332 3.49464 2.71341 3.01709 3.34633 5.34020 4.31990 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03494 3.76730 4.48965 0.61958 0.77255 0.56798 0.83625\n- 6 2.64140 4.62871 2.66087 2.53747 3.97614 3.11729 3.84554 3.66706 2.74222 3.32716 4.28574 1.35939 3.76565 3.12104 3.09074 2.71453 3.02159 3.30001 5.29481 3.93427 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03494 3.76730 4.48965 0.61958 0.77255 0.56798 0.83625\n- 7 3.04001 4.53549 4.01835 3.66142 3.10145 3.84470 4.35023 2.30442 3.43004 1.01704 3.16402 3.94658 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 237 2.99847 4.56235 3.57146 3.27576 2.34379 3.61893 3.56235 3.03438 3.13832 2.53407 3.73272 3.50864 4.10236 3.48982 3.35625 3.15079 3.28732 2.89776 3.97718 1.33931 237 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 238 2.81472 4.86202 3.09611 2.60904 4.21735 3.42941 3.55598 3.60967 1.53682 3.14902 4.04796 3.03487 3.86508 2.72087 2.00165 2.84650 3.03152 3.31094 5.26911 4.04844 238 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 239 2.80868 4.85295 2.44280 1.32351 4.17899 3.16514 3.75037 3.59600 2.60834 3.24847 4.24183 2.85861 3.76426 2.97743 2.98900 2.81779 3.11548 3.30325 5.38715 4.12090 239 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 240 2.58341 4.55690 2.63747 2.50926 3.89211 3.06943 3.79818 3.57173 2.69150 3.24375 4.20826 1.53435 3.71717 3.07942 3.03215 2.66342 2.96452 3.21319 5.22156 3.86021 240 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 241 2.24161 4.15377 3.06065 2.87752 3.89349 2.88762 3.98763 3.39538 2.93739 3.13431 4.08440 3.12668 3.61312 3.30458 3.22260 1.40880 2.70955 2.97283 5.28372 3.97800 241 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 242 2.81341 4.74950 2.97719 2.64702 4.09307 3.31221 3.68162 3.51303 1.32685 3.12441 4.10620 3.07601 3.83425 2.89159 2.43451 2.87365 3.08635 3.23462 5.23244 4.02164 242 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 243 2.77740 5.17717 1.74208 1.70713 4.46493 3.11315 3.64588 3.92955 2.62499 3.50757 4.38333 2.61593 3.72059 2.82470 3.16415 2.70068 3.06646 3.55535 5.68106 4.24186 243 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.61025 0.78354\n- 244 2.40226 4.42199 2.58761 2.44153 4.05790 2.45905 3.76996 3.59388 2.66516 3.25093 4.13260 2.07276 3.62902 3.01129 3.03373 2.49410 2.80112 3.17018 5.35384 4.03124 244 n - - -\n- 2.68623 4.42231 2.77502 2.73129 3.46359 2.40503 3.72500 3.29359 2.67726 2.69339 4.24695 2.90352 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61509\n- 0.17913 1.80785 * 1.05790 0.42646 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HEPN_TM__TM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HEPN_TM__TM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,593 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HEPN_TM__TM\n-LENG 190\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:44 2023\n-NSEQ 12\n-EFFN 0.911133\n-CKSUM 2907933793\n-GA 20 20;\n-STATS LOCAL MSV -10.3091 0.70599\n-STATS LOCAL VITERBI -11.2953 0.70599\n-STATS LOCAL FORWARD -4.8482 0.70599\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65145 4.67336 2.91148 2.57283 3.44652 3.22336 3.74080 2.66708 2.46986 2.48219 3.62702 2.83272 3.84740 3.05977 2.98593 2.59697 2.84455 2.61753 4.35792 3.38874\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.00000 *\n- 1 3.20243 4.71313 4.34959 3.97176 3.35560 4.04133 4.64508 2.55944 3.72296 1.91674 0.94355 4.21361 4.51054 4.09107 3.89506 3.57563 3.51680 2.59514 5.22713 4.00898 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 2 2.97224 5.43116 1.78657 2.22688 4.76547 3.29064 3.86330 4.33222 2.87191 3.85451 4.71044 1.29045 3.91771 3.03897 3.44178 2.88632 3.27905 3.90088 5.97393 4.48863 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 3 2.65028 4.79358 2.92771 1.85317 4.04306 3.43074 3.69306 2.66687 2.50736 3.05919 3.89862 2.64037 3.85714 2.86060 2.95259 2.69606 2.52466 3.09253 5.33245 4.00641 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 4 3.26819 4.58914 4.89648 4.34716 1.64533 4.48547 4.59793 1.84505 4.20886 1.35007 3.00037 4.50070 4.70638 4.28523 4.29306 3.82633 3.49101 2.31128 4.87482 3.55508 4 l - - -\n- 2.68620 4.42228 2.77522 2.73126 3.46356 2.40515 3.72497 3.29284 2.67743 2.69357 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61506\n- 0.19599 1.77051 4.86258 0.27267 1.43273 0.48576 0.95510\n- 5 2.45452 4.36215 4.49104 3.91854 3.24028 4.15036 4.48816 1.77540 3.79545 1.45996 2.35625 4.14732 4.45380 3.98995 3.96436 3.46334 3.19342 2.10963 5.04267 3.90286 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 6 2.62106 4.82961 2.89771 2.46583 4.23503 3.35536 3.71261 3.66524 2.49511 3.24942 4.05918 2.61508 3.83084 2.32302 2.93540 2.10228 2.15680 3.29608 5.46294 4.12397 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02393 4.14024 4.86258 0.61958 0.77255 0.48576 0.95510\n- 7 3.13088 4.45062 4.85510 4.31115 2.36444 4.42036 4.76034 1.24037 4.19052 1.86056 3.17879 4.48057 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 183 3.72314 5.01555 4.44062 4.20442 2.92380 3.98820 4.19497 3.76206 3.92516 3.11689 4.38479 4.31102 4.52515 4.30132 4.01329 3.92456 4.03579 3.65821 0.54101 2.91540 247 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 184 2.93250 4.90967 2.11960 2.65266 3.13826 3.53910 3.73220 3.53319 2.91065 3.10937 4.08094 3.13495 4.04037 3.17709 3.33738 2.97028 3.19683 3.27519 4.69286 1.47042 248 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 185 3.12496 5.23633 3.54146 2.86066 4.71207 3.72487 3.65340 4.05377 1.13076 3.47883 4.35211 3.25515 4.09035 2.78658 1.70353 3.11553 3.28535 3.73405 5.50363 4.34781 249 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 186 2.31750 4.24664 3.46984 3.16235 4.23245 3.04827 4.21762 3.56972 3.16506 3.32076 4.18483 3.34994 3.77318 3.49321 3.47128 1.84980 1.28237 3.10613 5.60102 4.37084 250 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 187 3.18461 5.14466 3.37425 2.96189 4.58134 3.64412 3.89929 4.02583 0.77440 3.54603 4.50101 3.37469 4.13341 3.08221 2.49835 3.21544 3.42424 3.72326 5.55025 4.39708 251 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 188 3.18461 5.14466 3.37425 2.96189 4.58134 3.64412 3.89929 4.02583 0.77440 3.54603 4.50101 3.37469 4.13341 3.08221 2.49835 3.21544 3.42424 3.72326 5.55025 4.39708 252 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 189 3.03701 4.48455 4.47523 3.95535 3.28752 4.15666 4.62155 2.15665 3.78935 1.79634 1.54902 4.20121 4.51431 4.04816 3.98335 3.51869 3.30510 1.72003 5.19459 4.03280 253 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02518 4.09027 4.81261 0.61958 0.77255 0.51389 0.91172\n- 190 2.86256 5.25205 2.01701 2.32628 4.58992 3.37252 3.72415 4.05735 1.40628 3.57337 4.39843 2.87426 3.88928 2.86897 2.89575 2.81057 3.11640 3.66704 5.69982 4.31892 254 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01702 4.08211 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HP_SDH_sah__HP.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HP_SDH_sah__HP.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,245 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HP_SDH_sah__HP\n-LENG 74\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:44 2023\n-NSEQ 3\n-EFFN 0.723633\n-CKSUM 945294254\n-GA 20 20;\n-STATS LOCAL MSV -8.8866 0.71860\n-STATS LOCAL VITERBI -9.5095 0.71860\n-STATS LOCAL FORWARD -3.9118 0.71860\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45394 4.02065 3.15236 2.78910 3.21176 2.71996 3.59431 2.98125 2.74274 2.44796 3.60618 3.12308 3.75347 3.02818 3.16762 2.39036 2.52580 2.79914 5.17426 3.39901\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.00000 *\n- 1 3.09659 4.62242 4.21797 3.82554 3.28391 3.95067 4.52509 2.47529 3.58442 1.85754 1.11063 4.08325 4.41430 3.95742 3.77114 3.46065 3.40607 2.49877 5.14385 3.91799 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 2 1.33779 4.17570 3.58230 3.25050 4.13903 3.03509 4.24969 3.27550 3.22847 3.15245 4.06626 3.39098 3.76150 3.54312 3.51848 2.48231 1.78311 2.88058 5.55445 4.34783 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 3 2.96977 5.54170 1.57728 1.34268 4.82862 3.24032 3.78535 4.34827 2.80267 3.84913 4.70380 2.70421 3.86256 2.95193 3.39811 2.85137 3.25846 3.92095 5.99815 4.49476 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 4 3.15240 4.53169 4.54948 4.17316 3.48212 4.22884 4.87487 0.90513 4.00425 2.03940 3.39633 4.39720 4.64756 4.33824 4.18350 3.74123 3.44979 1.86218 5.40305 4.15298 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 5 2.85806 4.85541 2.80461 2.70695 4.24386 3.29283 4.05563 3.99012 2.97375 3.62013 4.57635 0.91149 3.95337 3.33072 3.33188 2.92067 3.24628 3.59660 5.53223 4.18271 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 6 3.47657 4.90285 4.06900 3.82948 2.31455 4.01220 3.70082 3.46502 3.68270 2.87856 4.12447 3.91800 4.48349 3.95132 3.83382 3.59701 3.76458 3.34316 3.96345 0.74342 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 7 3.09243 5.22760 2.56294 0.82447 4.59432 3.37890 3.98236 4.07923 2.88288 3.67269 4.64256 3.03065 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 67 3.17693 4.96279 3.28868 3.06652 3.40250 3.58629 0.85489 3.90371 2.90581 3.37722 4.43413 3.46864 4.14853 3.43545 3.16104 3.24693 3.48655 3.63603 4.86500 3.34952 67 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 68 2.93113 4.43382 4.33664 4.00693 3.66702 3.88095 4.78335 2.05480 3.87707 2.32880 3.61105 4.17134 4.43462 4.22685 4.07436 3.39607 3.29003 0.85067 5.47672 4.21688 68 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 69 2.39703 4.31815 3.34711 3.17256 4.23318 3.04550 4.27689 3.77789 3.25680 3.48706 4.40182 3.37080 3.79756 3.59446 3.53633 0.88021 2.88917 3.27894 5.59378 4.31822 69 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 70 2.50236 4.34687 3.57210 3.33444 4.11203 3.18025 4.33908 3.25824 3.28046 3.11620 4.15885 3.51691 3.89711 3.66811 3.53002 2.70562 0.93498 2.93642 5.53615 4.32946 70 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 71 1.58675 4.18440 3.56898 3.23550 4.12822 3.04540 4.23888 3.25981 3.21141 3.13849 4.05567 3.38680 3.76707 3.53060 3.50346 2.49129 1.50300 2.87192 5.54481 4.33571 71 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 72 2.50236 4.34687 3.57210 3.33444 4.11203 3.18025 4.33908 3.25824 3.28046 3.11620 4.15885 3.51691 3.89711 3.66811 3.53002 2.70562 0.93498 2.93642 5.53615 4.32946 72 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 73 3.11855 5.08295 3.30443 2.90024 4.50475 3.58856 3.85314 3.94434 0.84517 3.47704 4.43260 3.31699 4.08001 3.03762 2.47234 3.15186 3.36156 3.64430 5.49786 4.33396 73 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02685 4.02666 4.74900 0.61958 0.77255 0.48576 0.95510\n- 74 0.81249 4.27538 3.62489 3.42622 4.21146 3.09523 4.42924 3.36047 3.44659 3.23471 4.25168 3.53501 3.84930 3.77407 3.68477 2.62541 2.91359 2.98803 5.62314 4.44136 74 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01815 4.01796 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HP_SDH_sah__SDH_sah.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HP_SDH_sah__SDH_sah.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,914 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HP_SDH_sah__SDH_sah\n-LENG 297\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:44 2023\n-NSEQ 93\n-EFFN 0.780487\n-CKSUM 2549207909\n-GA 20 20;\n-STATS LOCAL MSV -10.9283 0.70138\n-STATS LOCAL VITERBI -11.8673 0.70138\n-STATS LOCAL FORWARD -5.5679 0.70138\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51778 4.29872 2.91810 2.67818 3.46309 2.92399 3.51317 2.67036 2.69764 2.40868 3.47673 3.07769 3.42542 3.07009 3.02087 2.67605 2.84981 2.61555 4.58235 3.61421\n- 2.68617 4.42226 2.77516 2.73121 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24677 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.04276 3.53075 4.37599 0.74075 0.64771 0.00000 *\n- 1 3.12494 4.64644 4.25385 3.86515 3.30250 3.97538 4.55741 2.49726 3.62193 1.87244 1.06190 4.11855 4.44031 3.99347 3.80466 3.49169 3.43564 2.52416 5.16586 3.94222 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02601 4.05825 4.78060 0.61958 0.77255 0.49041 0.94771\n- 2 2.29533 4.35288 3.22133 3.02821 4.27380 3.07461 4.19210 3.66116 3.10802 3.38289 4.29440 3.28882 1.17851 3.46495 3.41271 2.49475 2.87536 3.20702 5.63639 4.37066 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02601 4.05825 4.78060 0.61958 0.77255 0.49041 0.94771\n- 3 2.55950 4.52082 2.77595 2.42361 4.23433 3.11914 3.73163 3.66716 2.56028 3.25995 4.06910 1.92740 3.79067 2.88975 3.01829 2.07142 2.75651 3.27790 5.47921 4.13836 7 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02601 4.05825 4.78060 0.61958 0.77255 0.49041 0.94771\n- 4 3.17910 4.56733 4.43691 3.94449 2.16246 4.16826 3.80026 2.69855 3.77459 1.85840 3.37390 4.00111 4.48080 3.91814 3.90883 3.48970 3.40497 2.72426 1.62031 2.44447 8 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02601 4.05825 4.78060 0.61958 0.77255 0.49041 0.94771\n- 5 2.56844 4.92459 2.76568 2.35783 4.22301 3.09000 3.34661 3.65861 2.36753 3.22672 4.02873 2.07446 3.80487 2.73973 2.85667 2.53378 2.54202 3.30078 5.43511 4.07566 9 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02601 4.05825 4.78060 0.61958 0.77255 0.49041 0.94771\n- 6 2.66045 5.21783 2.28520 1.81452 4.52436 3.32563 3.42152 4.00426 2.43921 3.50416 4.28583 2.76059 3.80883 2.08935 2.96352 2.62336 2.95024 3.59130 5.65925 4.23556 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02601 4.05825 4.78060 0.61958 0.77255 0.49041 0.94771\n- 7 2.90860 4.31552 4.39950 3.84727 3.35102 4.10873 4.23990 1.74004 3.70912 1.90767 3.25995 4.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02589 4.06248 4.78483 0.61958 0.77255 0.48576 0.95510\n- 290 1.62181 3.55729 3.39990 2.87151 3.73907 3.25235 3.87425 3.10734 2.71381 2.80587 3.67318 3.16896 3.83117 3.14453 3.04604 2.40511 2.70253 2.71947 5.13451 3.89158 330 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02589 4.06248 4.78483 0.61958 0.77255 0.48576 0.95510\n- 291 2.56571 4.05365 4.05654 3.47056 2.29826 3.69018 3.78485 2.17352 3.34633 2.13949 2.74356 3.67353 4.05554 3.56372 3.52219 2.90625 2.71835 2.20784 4.64386 3.28592 331 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02589 4.06248 4.78483 0.61958 0.77255 0.48576 0.95510\n- 292 2.82397 4.33325 4.60104 4.04802 3.29348 4.26023 4.65976 1.33104 3.94142 1.98875 3.20090 4.27112 4.56248 4.16312 4.12650 3.59070 3.22184 1.47344 5.22233 3.91265 332 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02589 4.06248 4.78483 0.61958 0.77255 0.48576 0.95510\n- 293 2.47294 4.50560 3.18878 2.57165 3.62295 3.47707 3.65203 2.95046 2.48221 2.38171 3.46537 3.09813 3.86146 2.50325 2.83948 2.55367 2.80627 2.75934 4.53801 3.68025 333 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02589 4.06248 4.78483 0.61958 0.77255 0.48576 0.95510\n- 294 2.52578 4.31444 3.18726 2.62541 3.41293 3.43048 3.19523 2.96351 2.53852 2.50033 3.45163 2.81505 3.86013 2.74239 3.01713 2.51636 2.64818 2.71744 5.05001 3.73056 334 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03104 4.06248 4.31595 0.61958 0.77255 0.48576 0.95510\n- 295 2.08899 4.27098 3.46328 2.89447 3.40410 3.54783 3.64430 2.58087 2.79531 2.40215 3.33753 3.29348 3.92667 2.94902 3.10936 2.70957 2.77587 2.40056 4.35827 3.26056 335 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07614 4.05747 2.88199 0.61958 0.77255 0.49127 0.94636\n- 296 2.44483 4.90653 2.91032 2.36847 4.19167 3.10317 3.48840 3.62493 2.21694 3.14584 3.90432 2.81155 3.43608 2.26170 2.62817 2.55338 2.79126 3.26681 5.37869 4.02668 336 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18057 4.00867 1.91698 0.61958 0.77255 0.54200 0.87128\n- 297 2.49736 4.64858 2.99429 2.35276 3.86697 3.38880 3.52154 3.22117 2.40902 2.84507 3.63150 2.89922 3.49573 2.51468 2.82261 2.49343 2.66570 2.86228 5.16764 3.74841 337 e - - -\n- 2.68610 4.42227 2.77549 2.73130 3.46360 2.40518 3.72524 3.29308 2.67758 2.69351 4.24632 2.90341 2.73681 3.18068 2.89829 2.37909 2.77546 2.98486 4.58528 3.61555\n- 0.37997 1.15163 * 2.31347 0.10416 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HP__HP.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HP__HP.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,548 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HP__HP\n-LENG 175\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:45 2023\n-NSEQ 87\n-EFFN 0.719513\n-CKSUM 831086694\n-GA 100 100;\n-STATS LOCAL MSV -10.4806 0.70709\n-STATS LOCAL VITERBI -10.9539 0.70709\n-STATS LOCAL FORWARD -4.9174 0.70709\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53644 4.11802 2.98759 2.61802 3.12700 2.97717 3.59847 2.70815 2.68224 2.33691 3.63712 3.06788 3.69048 3.06713 3.10497 2.67740 2.87119 2.57943 5.11589 3.47395\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08371 4.02401 2.77382 0.61958 0.77255 0.00000 *\n- 1 3.04671 4.58075 4.15354 3.75498 3.25250 3.90626 4.46787 2.43782 3.51756 1.83335 1.20488 4.02037 4.36804 3.89349 3.71143 3.40554 3.35424 2.45494 5.10574 3.87561 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02847 3.96877 4.69112 0.61958 0.77255 0.54129 0.87226\n- 2 3.10427 4.90358 3.22342 2.99369 3.35498 3.53133 0.95458 3.82205 2.83425 3.30366 4.35462 3.39887 4.08949 3.36136 3.09386 3.17426 3.41117 3.55537 4.81865 3.30327 2 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02847 3.96877 4.69112 0.61958 0.77255 0.54129 0.87226\n- 3 2.64633 4.87680 2.92507 2.42280 4.16647 3.40192 3.07067 3.59359 2.28806 3.16041 3.97501 2.93295 3.81514 2.17205 2.55132 2.32785 2.68944 3.25347 5.35466 4.02905 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02847 3.96877 4.69112 0.61958 0.77255 0.54129 0.87226\n- 4 3.38251 4.75627 4.37068 4.10406 0.86642 4.04855 3.92249 2.89500 4.00882 2.24317 3.61133 4.12848 4.50543 4.15042 4.10474 3.64710 3.68393 2.89266 4.14415 2.49956 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02847 3.96877 4.69112 0.61958 0.77255 0.54129 0.87226\n- 5 2.54835 3.59460 3.24639 2.69336 3.55913 3.46613 3.36886 2.94682 2.61685 2.63582 3.51098 2.84100 3.86034 2.98324 3.03733 2.55585 2.48904 2.69899 4.96426 2.92506 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02847 3.96877 4.69112 0.61958 0.77255 0.54129 0.87226\n- 6 2.90190 5.28394 2.24281 1.16375 4.57439 3.25791 3.76137 4.05514 2.66883 3.61324 4.49295 2.76668 3.85576 2.87163 3.15545 2.83133 3.18754 3.68188 5.77483 4.34721 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02847 3.96877 4.69112 0.61958 0.77255 0.54129 0.87226\n- 7 3.24499 4.61574 4.65428 4.14092 3.11226 4.42727 4.75502 1.88275 3.94028 0.94511 2.96524 4.41864 4.6785'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02714 4.01597 4.73832 0.61958 0.77255 0.49424 0.94170\n- 168 2.54553 4.82906 2.94799 2.33401 4.08555 3.41034 3.30369 3.50144 2.11769 2.89912 3.90374 2.87224 3.80862 2.67568 2.78046 2.54873 2.31492 3.17310 5.31576 3.98635 170 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02714 4.01597 4.73832 0.61958 0.77255 0.49424 0.94170\n- 169 2.67471 4.87584 2.96254 2.45634 4.05624 3.43750 2.54130 3.35451 2.30927 3.13266 3.95857 2.84291 3.84260 2.10169 2.67671 2.66027 2.90102 3.23374 5.29131 3.87470 171 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02714 4.01597 4.73832 0.61958 0.77255 0.49424 0.94170\n- 170 2.73596 3.70837 3.42710 2.82166 3.97104 3.50090 3.53371 3.42741 2.25321 3.03554 3.92410 3.21633 3.94122 2.92208 1.40795 2.83589 2.98963 3.13705 5.21340 3.94850 172 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02714 4.01597 4.73832 0.61958 0.77255 0.49424 0.94170\n- 171 2.40088 4.35356 3.17295 2.96900 4.24915 3.06007 4.14009 3.72336 3.05945 3.40618 4.29105 3.24901 1.26385 3.41041 3.37542 2.23928 2.86167 3.24759 5.58671 4.31778 173 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03021 4.01597 4.44521 0.61958 0.77255 0.49424 0.94170\n- 172 2.88919 5.49860 1.34042 1.90506 4.79459 3.02557 3.75693 4.31246 2.76370 3.80498 4.64376 2.34474 3.84140 2.91856 3.35964 2.81239 3.21026 3.88019 5.96921 4.46260 174 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02723 4.01299 4.73533 0.61958 0.77255 0.49735 0.93686\n- 173 3.10232 4.53037 4.22436 3.76846 1.40651 4.02255 3.60162 2.97712 3.64798 2.52234 3.62347 3.82205 4.37880 3.79160 3.80878 3.05105 3.33837 2.73087 3.87957 1.68933 175 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02723 4.01299 4.73533 0.61958 0.77255 0.49735 0.93686\n- 174 2.48317 4.19915 3.55449 2.98376 2.95890 3.56074 3.82635 2.48323 2.75516 2.31999 2.88554 3.19773 3.93800 3.21034 3.24018 2.57727 2.57715 2.43930 4.79117 3.45070 176 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06817 4.01299 3.04036 0.61958 0.77255 0.49735 0.93686\n- 175 2.45128 4.43229 3.03564 2.65183 3.60844 2.85622 3.70561 2.91819 2.62565 2.42036 3.45080 3.11180 3.46041 2.95301 3.03149 2.63488 2.78238 2.48878 5.00208 3.59545 177 l - - -\n- 2.68619 4.42217 2.77521 2.73124 3.46355 2.40514 3.72482 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61476\n- 0.10550 2.30129 * 0.39605 1.11772 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HsdR_like__DUF6731.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HsdR_like__DUF6731.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1109 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HsdR_like__DUF6731\n-LENG 362\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:46 2023\n-NSEQ 41\n-EFFN 0.648132\n-CKSUM 3092927037\n-GA 20 20;\n-STATS LOCAL MSV -11.1330 0.69988\n-STATS LOCAL VITERBI -11.9751 0.69988\n-STATS LOCAL FORWARD -5.6279 0.69988\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61789 4.65220 2.81263 2.59892 3.46716 3.04959 3.67696 2.66328 2.57212 2.37905 3.67202 3.00892 3.53755 3.09572 2.94034 2.67802 2.90654 2.56851 4.64502 3.54320\n- 2.68615 4.42232 2.77526 2.73128 3.46351 2.40519 3.72501 3.29361 2.67711 2.69361 4.24562 2.90351 2.73741 3.18140 2.89807 2.37893 2.77526 2.98520 4.58484 3.61510\n- 0.27311 1.90769 2.40163 1.02029 0.44705 0.00000 *\n- 1 2.62903 4.46794 3.29042 2.77643 3.64582 3.47945 3.74823 2.94878 2.16994 2.63854 2.24105 3.19280 3.90589 3.00125 2.80081 2.66616 2.87780 2.72448 5.04628 3.79236 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89203 4.61438 0.61958 0.77255 0.56512 0.84000\n- 2 2.53246 4.75756 2.87363 2.40324 4.08085 3.15846 3.61460 3.49740 2.13905 3.00438 3.90965 2.83617 3.11901 2.69956 2.80451 2.27471 2.78441 3.15795 5.31960 3.99333 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03078 3.89203 4.61438 0.61958 0.77255 0.49329 0.94318\n- 3 2.60513 4.82522 3.04049 2.49000 4.10222 3.44166 3.60172 3.48710 1.89553 3.07212 3.41779 2.98274 3.83713 2.22695 2.59411 2.69562 2.74492 3.17474 5.29813 4.00296 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02932 3.94006 4.66241 0.61958 0.77255 0.52188 0.89994\n- 4 2.69589 4.86856 2.90128 2.49546 4.31495 3.36069 3.65752 3.71919 1.53908 3.28100 4.11513 2.80595 3.84155 2.81097 2.58158 2.42512 2.81713 3.35848 5.44448 4.15173 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02932 3.94006 4.66241 0.61958 0.77255 0.52188 0.89994\n- 5 2.55444 4.45620 3.04150 2.62224 3.38771 3.45528 3.55631 2.40343 2.43246 2.68214 3.55087 3.03496 3.84400 2.77487 2.98657 2.68991 2.57432 2.74691 5.00849 3.73803 15 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02932 3.94006 4.66241 0.61958 0.77255 0.52188 0.89994\n- 6 2.44356 4.32592 3.46778 2.94267 3.57850 3.49573 3.90431 2.39583 2.75329 2.42595 3.50467 3.32651 3.94595 3.19889 3.16797 2.79799 1.92175 2.40093 5.05896 3.81965 16 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02932 3.94006 4.66241 0.61958 0.77255 0.52188 0.89994\n- 7 1.95181 4.46325 3.07123 2.49496 3.69021 3.44125 3.74485 2.85496 2.63821 2.55870 3.60343 3.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02887 3.95521 4.67756 0.61958 0.77255 0.50739 0.92147\n- 355 2.80673 5.21688 2.10510 1.72648 4.56771 1.97409 3.72646 4.04517 2.67454 3.58698 4.42202 2.73325 3.80972 2.89018 3.21493 2.74467 3.09334 3.64340 5.76833 4.33119 369 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02887 3.95521 4.67756 0.61958 0.77255 0.50739 0.92147\n- 356 3.02462 5.15144 2.52427 0.91328 4.50821 3.32823 3.92266 3.97858 2.81367 3.58258 4.55332 2.98160 3.93685 3.13682 3.23081 2.99884 3.32961 3.65402 5.66422 4.38692 370 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02887 3.95521 4.67756 0.61958 0.77255 0.50739 0.92147\n- 357 3.22668 4.58665 4.67161 4.15127 3.12901 4.43502 4.76916 1.76168 3.96461 1.01204 2.97128 4.42686 4.67964 4.18862 4.13178 3.80749 3.46731 2.07327 5.17239 4.00796 371 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02887 3.95521 4.67756 0.61958 0.77255 0.50739 0.92147\n- 358 2.95742 5.49099 1.22583 1.79316 4.77883 3.20250 3.77505 4.29192 2.81549 3.81555 4.68942 2.67771 3.83786 2.95083 3.41284 2.84117 3.25378 3.87727 5.96651 4.47034 372 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02887 3.95521 4.67756 0.61958 0.77255 0.50739 0.92147\n- 359 1.35598 4.14022 3.58707 3.19998 3.93945 3.06558 4.15905 3.05325 3.15842 2.96125 3.88309 3.36753 3.75648 3.46838 3.45490 2.24336 2.72059 2.28780 5.38197 4.16225 373 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02887 3.95521 4.67756 0.61958 0.77255 0.49388 0.94226\n- 360 2.64095 5.08818 2.43565 1.32693 4.45567 3.27734 3.73190 3.81990 2.50076 3.43981 4.30945 2.81907 3.84084 2.89924 2.99737 2.76844 3.00489 3.46705 5.66401 4.27944 374 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16248 3.96361 2.03275 0.61958 0.77255 0.48717 0.95285\n- 361 1.76518 4.19855 3.37855 2.91157 3.80398 3.13120 3.92163 2.89862 2.85425 2.83579 3.60416 3.21193 3.73577 3.19147 3.19829 2.15515 2.43309 2.70301 5.21114 3.97307 375 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11767 3.84220 2.41277 0.61958 0.77255 0.60608 0.78852\n- 362 2.44247 4.99227 2.26714 1.69244 4.31247 3.19437 3.63898 3.73529 2.52088 3.32788 4.17465 2.71994 3.74723 2.73536 3.00142 2.61450 2.96755 3.37799 5.54582 4.15364 376 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02384 3.74837 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HsdR_like__HP.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HsdR_like__HP.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,587 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HsdR_like__HP\n-LENG 188\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:46 2023\n-NSEQ 43\n-EFFN 0.637756\n-CKSUM 279251904\n-GA 20 20;\n-STATS LOCAL MSV -10.2893 0.70614\n-STATS LOCAL VITERBI -11.2132 0.70614\n-STATS LOCAL FORWARD -4.5769 0.70614\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62215 4.47476 3.07636 2.77557 3.00820 3.20257 3.93718 2.53787 2.65410 2.13659 3.55237 3.15527 3.80896 3.25539 3.00917 2.64762 2.98271 2.52425 4.38014 3.35086\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09352 3.96999 2.65347 0.61958 0.77255 0.00000 *\n- 1 2.99606 4.53939 4.08615 3.68209 3.22257 3.85964 4.40928 2.40158 3.44833 1.81199 1.31370 3.95538 4.32034 3.82790 3.64964 3.34880 3.30199 2.41170 5.06803 3.83288 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90679 4.62914 0.61958 0.77255 0.54559 0.86631\n- 2 3.19358 4.64557 4.24463 3.88445 3.14854 4.02583 4.52941 2.35425 3.65187 0.83408 3.16044 4.15661 4.45516 4.01199 3.82240 3.60041 3.48620 2.40053 5.04047 3.77177 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90679 4.62914 0.61958 0.77255 0.54559 0.86631\n- 3 3.00318 4.96869 3.18148 2.79629 4.36296 3.48914 3.77780 3.79433 0.99230 3.35184 4.31128 3.21931 3.98692 2.96720 2.43763 3.04281 3.25381 3.50012 5.40339 4.22102 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90679 4.62914 0.61958 0.77255 0.54559 0.86631\n- 4 3.19358 4.64557 4.24463 3.88445 3.14854 4.02583 4.52941 2.35425 3.65187 0.83408 3.16044 4.15661 4.45516 4.01199 3.82240 3.60041 3.48620 2.40053 5.04047 3.77177 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90679 4.62914 0.61958 0.77255 0.54559 0.86631\n- 5 2.54073 4.63616 2.96190 2.48090 3.95768 3.33049 3.65508 3.04284 2.45401 2.99411 3.82934 2.30240 3.40810 2.83253 2.74584 2.29426 2.80530 3.04343 5.24848 3.93829 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90679 4.62914 0.61958 0.77255 0.54559 0.86631\n- 6 2.63387 4.78086 2.57046 2.39840 4.28248 3.18184 3.77554 3.79237 2.52399 3.40026 4.25883 1.56189 3.78962 2.97122 2.99658 2.44849 2.97489 3.39070 5.54384 4.17299 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90679 4.62914 0.61958 0.77255 0.54559 0.86631\n- 7 3.06721 4.41026 4.63560 4.09836 3.32999 4.36342 4.78421 1.59085 3.97961 1.52627 3.14445 4.36141 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94237 4.66472 0.61958 0.77255 0.51281 0.91331\n- 181 3.34781 4.72913 4.33450 4.06242 0.90394 4.02094 3.90909 2.86304 3.96772 2.21707 3.58297 4.09819 4.47807 4.11649 4.07018 3.61406 3.64903 2.85884 4.13773 2.49610 181 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94237 4.66472 0.61958 0.77255 0.51281 0.91331\n- 182 2.68429 4.83824 2.87815 2.46374 4.11314 3.38958 3.64921 3.17819 2.05199 3.13712 3.98947 1.94828 3.84198 2.81526 2.69815 2.71567 2.93064 3.19820 5.34326 4.01866 182 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94237 4.66472 0.61958 0.77255 0.51281 0.91331\n- 183 2.76683 4.95514 3.09828 2.53754 4.27528 3.49049 2.87431 3.68062 2.02406 3.21292 4.04422 2.85275 3.88088 2.72735 1.80276 2.77821 2.76890 3.35185 5.35813 4.08613 183 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03519 3.94237 4.18831 0.61958 0.77255 0.51281 0.91331\n- 184 3.41756 4.78489 4.27474 3.92102 1.85320 4.17431 3.48003 3.19792 3.78454 2.58716 3.83254 3.88773 4.52655 3.89963 3.92064 3.54947 3.65676 3.10621 3.67959 1.00570 184 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03525 3.93661 4.19164 0.61958 0.77255 0.51828 0.90521\n- 185 2.72538 4.83630 2.72378 2.49843 4.19304 3.27646 3.77054 3.78274 2.49961 3.36808 4.25218 1.43446 3.84982 2.97339 2.61065 2.76102 3.04167 3.41373 5.44063 4.08319 185 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03546 3.93095 4.18569 0.61958 0.77255 0.52359 0.89745\n- 186 2.69335 5.08165 2.49058 2.10878 4.39273 2.71596 3.61707 3.84784 2.02317 3.37837 4.17979 2.39918 3.78311 2.75434 2.88009 2.56780 2.94118 3.46380 5.55489 4.16420 186 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03755 3.92525 4.06798 0.61958 0.77255 0.52887 0.88982\n- 187 2.81504 5.35250 1.73928 1.74144 4.64342 2.96819 3.67143 4.14253 2.43567 3.63951 4.45550 2.52462 3.78835 2.82014 3.15625 2.72369 3.08310 3.72260 5.80275 4.33209 187 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02999 3.91769 4.64004 0.61958 0.77255 0.53579 0.87998\n- 188 2.74598 5.23329 2.03280 1.72097 4.52485 3.02567 3.23447 4.00853 2.33454 3.51507 4.31524 2.72253 3.77874 2.77147 3.01432 2.67814 3.00037 3.60138 5.67872 4.24203 188 e - - -\n- 2.68623 4.42230 2.77525 2.73129 3.46359 2.40518 3.72500 3.29359 2.67713 2.69360 4.24695 2.90345 2.73720 3.18152 2.89806 2.37888 2.77519 2.98524 4.58482 3.61494\n- 0.12350 2.15260 * 1.06199 0.42429 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HsdR_like__HdrR.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_HsdR_like__HdrR.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1109 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_HsdR_like__HdrR\n-LENG 362\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:47 2023\n-NSEQ 80\n-EFFN 0.698242\n-CKSUM 3728825455\n-GA 20 20;\n-STATS LOCAL MSV -11.6321 0.69990\n-STATS LOCAL VITERBI -12.3347 0.69990\n-STATS LOCAL FORWARD -5.5971 0.69990\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56694 3.43004 2.90500 2.56340 3.19943 3.10240 3.58573 2.94836 2.66566 2.46909 3.71589 3.07319 3.53520 3.05206 2.99016 2.61548 2.86040 2.68903 4.40514 3.46964\n- 2.68619 4.42231 2.77519 2.73129 3.46347 2.40518 3.72500 3.29360 2.67722 2.69360 4.24512 2.90347 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61509\n- 0.28720 1.64811 2.86079 0.70901 0.67753 0.00000 *\n- 1 2.57829 4.53798 2.96725 2.57397 3.71430 3.44454 3.48964 2.98754 2.43242 2.76956 2.44765 2.72077 3.84129 2.89263 2.93256 2.68808 2.81075 2.83854 5.07482 3.79049 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05238 3.96060 3.44276 0.61958 0.77255 0.53526 0.88072\n- 2 2.54967 4.40480 2.99129 2.44870 3.93223 3.39696 3.43041 3.34113 2.19880 2.96048 3.78891 2.51479 3.79486 2.77814 2.83247 2.54680 2.49680 3.03405 5.21574 3.56734 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02939 3.93762 4.65996 0.61958 0.77255 0.54875 0.86197\n- 3 2.55694 4.64675 2.72207 2.42693 3.64086 3.40688 3.62200 2.72468 2.27843 2.89154 3.68385 2.82310 3.79838 2.72581 2.89621 2.61217 2.75388 2.85189 5.17022 3.86037 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02924 3.94258 4.66493 0.61958 0.77255 0.55207 0.85745\n- 4 2.60861 4.90102 2.62176 2.35140 4.16923 3.33196 3.57713 3.60665 2.20142 3.16847 3.96813 2.68887 3.78098 2.64069 2.39620 2.61128 2.83861 3.25548 5.36531 3.10587 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05368 3.94258 3.41532 0.61958 0.77255 0.55207 0.85745\n- 5 2.38689 4.68904 2.97477 2.48248 4.03170 3.34559 3.64419 3.43758 2.35657 2.92726 3.87891 2.66287 3.79275 2.81121 2.47735 2.11926 2.82804 3.10806 5.28572 3.98008 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03657 3.91886 4.13206 0.61958 0.77255 0.57334 0.82929\n- 6 2.55201 4.25045 3.26488 2.69141 2.87105 3.53927 3.79466 2.53801 2.83426 2.15141 3.33572 3.28675 3.91728 3.13851 3.09415 2.79004 2.78431 2.30797 4.83369 3.59612 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18641 3.91243 1.89663 0.61958 0.77255 0.57893 0.82211\n- 7 2.65194 4.92126 2.43248 1.84057 4.17980 3.27388 3.53455 3.60411 2.34610 2.99263 4.02154 2.7821'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03199 3.98654 4.34901 0.61958 0.77255 0.51001 0.91752\n- 355 2.54414 4.93229 2.58375 2.33593 4.18691 3.36060 2.44975 3.64625 2.38323 3.07062 4.01637 2.46872 3.79388 2.75011 2.74056 2.63556 2.87528 3.29324 5.40176 4.03498 364 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03253 3.98263 4.31477 0.61958 0.77255 0.51390 0.91170\n- 356 2.55679 4.70168 2.89658 2.46415 4.00626 3.36800 3.63667 3.37591 2.41952 3.02676 3.84946 2.96277 3.03850 2.79784 2.35158 2.52520 2.41351 2.96349 5.27485 3.95725 365 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05143 3.97830 3.46045 0.61958 0.77255 0.51817 0.90537\n- 357 2.62681 4.99752 2.72728 1.88656 4.29984 3.18500 3.57180 3.74632 2.13341 3.27662 4.06085 2.76137 3.77635 2.69461 2.57067 2.53343 2.85827 3.36755 5.19201 4.07970 366 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05667 3.95572 3.32573 0.61958 0.77255 0.53988 0.87424\n- 358 2.45638 4.27820 3.40837 2.86021 3.22605 3.48855 3.77915 2.77408 2.80311 2.41263 3.41062 3.25635 3.89565 3.11889 3.15249 2.57115 2.22358 2.54750 4.84096 2.90681 367 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03443 3.92871 4.25643 0.61958 0.77255 0.52253 0.89898\n- 359 2.94451 4.49467 3.89543 3.37795 2.45097 3.84918 3.04447 2.96477 3.11699 2.08125 3.56481 3.59830 4.21206 3.46937 3.34303 3.15816 3.17259 2.80329 1.97945 2.45484 368 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.54410 0.86837\n- 360 2.65334 5.03902 2.14048 2.17800 4.32944 3.11454 3.61163 3.78784 2.43965 3.33038 4.12415 2.55503 2.87682 2.74625 2.94207 2.53728 2.89988 3.40689 5.51987 3.74336 369 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02899 3.95121 4.67356 0.61958 0.77255 0.54410 0.86837\n- 361 2.92291 5.50078 1.43490 1.61625 4.78092 3.19925 3.74042 4.30205 2.75792 3.80154 4.65172 2.57403 3.82114 2.90648 3.35459 2.80500 3.21118 3.87411 5.96021 4.44846 370 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22428 3.95121 1.70553 0.61958 0.77255 0.54410 0.86837\n- 362 2.80334 4.98378 1.21167 2.21486 4.41449 2.94337 3.79673 3.95286 2.84070 3.57196 4.49465 2.76523 3.75327 3.01618 3.35675 2.77575 3.14140 3.56855 5.60808 4.27153 371 d - - -\n- 2.68623 4.42230 2.77450 2.73128 3.46359 2.40515 3.72500 3.29359 2.67746 2.69360 4.24695 2.90352 2.73745 3.18151 2.89806 2.37889 2.77525 2.98522 4.58482 3.61508\n- 0.28888 1.38271 * 0.64908 0.73924 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_Sma__Sma.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/FS_Sma__Sma.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,725 +0,0 @@\n-HMMER3/f [3.3.1 | Jul 2020]\n-NAME FS_Sma__Sma\n-LENG 234\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 16 12:03:47 2023\n-NSEQ 100\n-EFFN 0.448608\n-CKSUM 601111378\n-GA 100 100;\n-STATS LOCAL MSV -10.6754 0.70363\n-STATS LOCAL VITERBI -11.7409 0.70363\n-STATS LOCAL FORWARD -5.1190 0.70363\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62801 4.42344 2.87618 2.77427 3.40924 2.97631 3.78485 2.68714 2.45273 2.47172 3.73379 2.86913 3.67366 3.18091 3.00125 2.50940 2.85875 2.61885 4.87466 3.34614\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03545 3.83255 4.32937 0.61958 0.77255 0.00000 *\n- 1 2.93669 4.49248 4.00408 3.59494 3.19064 3.80235 4.33998 2.36205 3.36511 1.79232 1.46207 3.87750 4.26326 3.75013 3.57530 3.28107 3.24145 2.36307 5.02542 3.78308 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03279 3.82989 4.55223 0.61958 0.77255 0.48810 0.95139\n- 2 2.13307 4.16778 3.19938 2.94983 3.93049 2.93766 4.05082 3.41253 2.99787 3.16853 4.07396 3.18106 3.65933 3.33574 3.30774 1.33722 2.69695 2.97669 5.42153 4.12887 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03279 3.82989 4.55223 0.61958 0.77255 0.48431 0.95743\n- 3 2.88318 4.90409 3.04249 2.67017 4.27355 3.41837 3.68816 3.70237 1.19417 3.28250 4.21404 3.06200 3.91534 2.87136 2.37628 2.91932 3.13747 3.39643 5.35749 4.12270 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 4 2.69145 4.68559 2.68828 2.57007 4.04296 3.15806 3.89066 3.74538 2.79137 3.39700 4.35300 1.23076 3.80828 3.16390 3.14419 2.76053 3.07234 3.37163 5.35356 3.99459 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 5 3.00010 4.43081 4.27763 3.89246 3.34801 4.02233 4.62845 1.12879 3.71977 1.94300 3.29038 4.14344 4.45798 4.07259 3.92095 3.51432 3.30024 1.84676 5.23010 3.96448 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 6 2.69145 4.68559 2.68828 2.57007 4.04296 3.15806 3.89066 3.74538 2.79137 3.39700 4.35300 1.23076 3.80828 3.16390 3.14419 2.76053 3.07234 3.37163 5.35356 3.99459 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 7 2.81060 4.90011 2.78552 2.50916 4.13052 3.35224 3.68617 3.65379 2.22990 3.19079 4.13829 2.98504 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 227 3.11112 4.58562 4.12508 3.76544 3.12167 3.93085 4.43373 2.32436 3.53356 0.92599 3.15835 4.04471 4.37355 3.91146 3.71588 3.49805 3.40746 2.35120 4.98577 3.69965 227 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 228 2.93662 4.89745 3.10987 2.73968 4.27474 3.42966 3.73883 3.70166 1.09430 3.27582 4.24005 3.16568 3.93335 2.93304 2.42650 2.98160 3.19319 3.41193 5.34632 4.15358 228 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 229 3.00010 4.43081 4.27763 3.89246 3.34801 4.02233 4.62845 1.12879 3.71977 1.94300 3.29038 4.14344 4.45798 4.07259 3.92095 3.51432 3.30024 1.84676 5.23010 3.96448 229 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 230 2.87495 4.94591 3.11854 2.65225 4.33023 3.47310 3.61466 3.71342 1.29593 3.24733 4.14961 3.07980 3.92001 2.77520 2.16766 2.89945 3.06852 3.40663 5.36181 4.13659 230 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 231 3.20854 4.62229 4.18378 3.89125 1.07941 3.90652 3.86120 2.73778 3.79942 2.11738 3.47428 3.97460 4.36647 3.97859 3.92900 3.48015 3.50989 2.72543 4.12318 2.49564 231 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 232 3.20854 4.62229 4.18378 3.89125 1.07941 3.90652 3.86120 2.73778 3.79942 2.11738 3.47428 3.97460 4.36647 3.97859 3.92900 3.48015 3.50989 2.72543 4.12318 2.49564 232 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 233 2.29651 4.21601 3.17285 2.98745 4.03689 2.94668 4.09808 3.55441 3.05849 3.27799 4.20790 3.21819 3.68234 3.41109 3.34530 1.15288 2.77378 3.09828 5.41273 4.12037 233 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03270 3.83255 4.55490 0.61958 0.77255 0.48576 0.95510\n- 234 2.67403 4.71622 2.64532 2.50021 3.91031 3.18543 3.80668 3.65123 2.68853 3.29829 4.24572 1.40274 3.80969 3.07157 3.05226 2.73081 3.03067 3.30048 5.28171 3.76692 234 n - - -\n- 2.68622 4.42203 2.77524 2.73127 3.46358 2.40517 3.72477 3.29315 2.67745 2.69342 4.24694 2.90351 2.73744 3.18150 2.89803 2.37891 2.77524 2.98513 4.58477 3.61507\n- 0.06469 2.77035 * 1.22237 0.34889 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS1__GAPS1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS1__GAPS1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1610 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME GAPS1__GAPS1\n-LENG 529\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 15:51:10 2023\n-NSEQ 155\n-EFFN 4.734955\n-CKSUM 3001243268\n-GA 100 100;\n-STATS LOCAL MSV -11.5228 0.69776\n-STATS LOCAL VITERBI -12.4473 0.69776\n-STATS LOCAL FORWARD -6.3558 0.69776\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63608 4.39551 2.97226 2.59776 3.07692 3.18524 3.68357 2.72033 2.57098 2.35078 3.59368 3.06489 3.50100 2.98702 2.96507 2.63692 2.90839 2.73206 4.70112 3.39459\n- 2.68569 4.42179 2.77641 2.73231 3.46365 2.40699 3.72558 3.29195 2.67721 2.69243 4.22990 2.90405 2.73690 3.18137 2.89740 2.37982 2.77556 2.98514 4.58499 3.61599\n- 1.22033 1.02240 1.06382 2.56247 0.08025 0.00000 *\n- 1 2.77132 4.90337 3.10521 2.65889 3.37989 3.57873 3.90848 3.21823 2.29503 3.03576 2.08707 3.16777 3.76869 2.69184 2.82613 2.65477 2.87534 2.56494 5.43060 3.90909 108 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03148 4.87728 3.75618 0.61958 0.77255 1.20581 0.35589\n- 2 2.68523 5.17249 2.94485 2.52152 4.45326 3.63497 3.55370 3.17151 2.48626 3.14715 3.64637 2.79821 3.31628 2.83711 2.85306 1.93506 2.18613 3.16918 5.64570 4.10406 109 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01127 4.88708 5.60942 0.61958 0.77255 1.17701 0.36846\n- 3 2.37483 5.33466 2.37571 2.17969 4.40240 3.26408 3.80822 3.68693 2.11893 3.46741 3.66246 2.78596 3.39297 2.79756 2.71511 2.58252 2.70488 3.20222 5.77225 4.36625 110 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.92073 5.64307 0.61958 0.77255 0.56761 0.83673\n- 4 2.54906 5.36399 2.89891 2.26871 4.67602 3.59468 3.79105 3.45487 2.17063 3.06088 2.23465 2.74671 3.33973 2.90708 2.82931 2.65434 2.91801 3.11556 5.81697 4.21909 111 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00877 5.13611 5.85845 0.61958 0.77255 0.88508 0.53219\n- 5 2.73942 5.43911 2.98103 2.30692 4.77999 2.95023 3.75186 3.84611 2.06684 3.35063 4.02727 2.93836 3.82945 2.56127 2.72872 1.81494 2.80033 3.20441 5.87431 4.46590 112 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00869 5.14536 5.86771 0.61958 0.77255 0.91336 0.51278\n- 6 2.78178 4.41457 4.10118 4.05745 1.93761 4.11978 4.00892 2.41851 3.90247 2.60578 3.31163 4.17761 4.48654 4.08709 4.01377 3.18169 3.08293 2.56881 5.01513 1.33912 113 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00869 5.14536 5.86771 0.61958 0.77255 0.91336 0.51278\n- 7 2.45101 5.44376 2.41732 2.07670 3.66037 3.49740 3.60566 4.04824 2.22959 3.52586 4.48500 2.71468 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02711 4.87153 3.95870 0.61958 0.77255 1.33035 0.30705\n- 522 2.29125 3.60637 3.54955 2.90221 3.81419 3.45530 3.77141 2.38812 2.25992 2.47403 3.43540 3.23521 4.14648 2.80670 3.22849 2.65102 2.72491 2.60014 5.22532 3.58154 751 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01163 4.85604 5.57839 0.61958 0.77255 1.31451 0.31280\n- 523 2.70794 4.01434 3.74932 3.18081 2.75233 3.52651 2.83979 3.02435 2.58981 2.22082 3.48880 3.57583 4.20157 3.42855 2.12747 2.78016 2.98968 2.71125 4.19573 3.04705 752 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01153 4.86423 5.58657 0.61958 0.77255 1.33808 0.30429\n- 524 2.61157 5.32740 2.67029 2.06473 4.67050 3.47472 3.41246 3.99159 2.12941 3.30848 3.67189 2.27471 3.98938 2.54019 2.67334 2.39972 3.05264 3.51521 5.76124 4.35152 753 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01153 4.86423 5.58657 0.61958 0.77255 1.33808 0.30429\n- 525 2.68955 4.65288 2.77911 2.35930 3.53599 3.62016 3.16359 3.45641 2.28330 3.12052 4.24814 3.00274 4.01214 2.37109 2.70794 2.52188 2.80818 3.10795 5.65936 2.82551 754 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01153 4.86423 5.58657 0.61958 0.77255 1.33808 0.30429\n- 526 2.73811 4.28879 4.82240 4.21525 2.34651 3.67602 4.42785 1.99927 4.01756 1.36786 3.23799 4.23369 4.44776 4.15842 4.04876 3.29032 3.14635 1.90844 4.92941 3.75480 755 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01153 4.86423 5.58657 0.61958 0.77255 1.33808 0.30429\n- 527 2.77400 4.89217 3.32189 2.58385 3.74885 3.69177 3.90563 2.95035 2.18697 2.18644 3.16050 2.74434 4.07930 2.74424 2.50273 2.82808 2.79094 2.78020 5.42042 4.11611 756 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01981 4.86423 4.43148 0.61958 0.77255 1.33808 0.30429\n- 528 2.71855 5.31689 2.63379 2.07380 4.65770 3.59175 3.63525 3.94771 2.25072 3.37677 3.68881 2.65755 3.98512 2.46005 2.47852 2.37943 2.53700 3.60139 5.75212 3.71995 757 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11007 4.85099 2.33912 0.61958 0.77255 1.05370 0.42870\n- 529 2.30672 5.04752 2.92115 2.51748 4.29405 3.24383 3.70492 2.94573 2.36525 2.25452 3.77032 2.94944 3.84474 2.82250 2.76179 2.35704 3.04806 3.13448 4.53812 4.20197 758 l - - -\n- 2.68588 4.42287 2.77573 2.73182 3.46300 2.40610 3.72331 3.29210 2.67742 2.69168 4.24704 2.90363 2.73839 3.18088 2.89789 2.37916 2.77553 2.98516 4.58497 3.61480\n- 1.27992 0.32581 * 1.82776 0.17527 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS2__GAPS2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS2__GAPS2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,728 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME GAPS2__GAPS2\n-LENG 235\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 16:16:27 2023\n-NSEQ 53\n-EFFN 1.018982\n-CKSUM 2378136932\n-GA 100 100;\n-STATS LOCAL MSV -10.5117 0.70352\n-STATS LOCAL VITERBI -11.3891 0.70352\n-STATS LOCAL FORWARD -4.8916 0.70352\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62017 4.54955 2.83110 2.61285 3.47071 2.83917 3.83057 2.67710 2.64297 2.39959 3.62894 3.10559 3.40132 3.12496 2.93122 2.63114 2.83848 2.59961 4.79766 3.59627\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04072 3.61713 4.33948 0.61958 0.77255 0.00000 *\n- 1 2.78298 4.38346 3.76994 3.36292 3.13311 3.62856 4.15840 2.28675 3.13678 1.79063 1.99117 3.66599 4.10590 3.54810 3.36840 3.09633 3.09284 2.25624 4.92663 3.65205 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07564 3.61713 3.07940 0.61958 0.77255 0.48576 0.95510\n- 2 2.05051 4.07912 3.00109 2.80895 3.88363 2.83432 3.93452 3.22783 2.85991 3.02477 3.97024 3.05604 3.55990 3.22964 3.15013 1.78512 2.62151 2.82409 5.29641 3.99617 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04214 3.58363 4.30598 0.61958 0.77255 0.50880 0.91934\n- 3 2.34782 4.30579 2.80750 2.59204 3.88327 2.98820 3.76986 3.31301 2.43683 3.03526 3.95802 2.96287 3.64017 3.02570 2.88361 1.92106 2.74586 2.94747 5.23578 3.91848 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04214 3.58363 4.30598 0.61958 0.77255 0.50880 0.91934\n- 4 2.61335 4.70676 2.40793 1.82022 4.05734 3.10733 3.66055 3.43894 2.48585 3.13847 4.07531 2.77689 3.70642 2.87469 2.86259 2.50443 2.93370 3.12361 5.35625 4.00231 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06931 3.58363 3.23944 0.61958 0.77255 0.50880 0.91934\n- 5 2.76265 4.31870 3.79214 3.43177 3.18609 3.63050 4.23350 1.61714 3.24704 1.90262 3.23347 3.71611 4.13036 3.65268 3.47705 3.13006 3.08647 1.95863 4.97482 3.65632 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04327 3.55760 4.27995 0.61958 0.77255 0.52583 0.89419\n- 6 2.66057 4.57186 2.75036 2.53651 3.68154 3.15903 3.67526 3.29350 2.39799 2.82686 3.90586 2.97589 3.73381 1.97067 2.67420 2.74250 2.97928 3.05640 5.03765 3.71514 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04327 3.55760 4.27995 0.61958 0.77255 0.52583 0.89419\n- 7 2.66057 4.57186 2.75036 2.53651 3.68154 3.15903 3.67526 3.29350 2.39799 2.82686 3.90586 2.97589 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02355 4.15615 4.87850 0.61958 0.77255 0.48576 0.95510\n- 228 2.61462 4.44796 3.15554 2.29555 3.63929 3.46288 3.82695 2.51275 2.67652 2.52438 3.56056 3.17832 3.91504 3.07187 3.03444 2.79411 2.88162 2.01257 5.13479 3.85194 716 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03624 3.73141 4.45375 0.61958 0.77255 0.48576 0.95510\n- 229 2.38174 4.53555 2.77109 2.48369 4.04414 3.14479 3.71201 3.47325 2.48562 3.10547 3.97795 2.92916 3.72163 2.31601 2.84279 2.06665 2.82034 3.11212 5.33393 4.02178 717 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03624 3.73141 4.45375 0.61958 0.77255 0.48576 0.95510\n- 230 2.67072 4.63777 1.53827 2.26697 3.98434 2.98727 3.72433 3.50900 2.76145 3.19733 4.20670 2.78480 3.62486 2.99672 3.19291 2.70274 3.01858 3.19729 5.21651 3.95806 718 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04327 3.55760 4.27995 0.61958 0.77255 0.48576 0.95510\n- 231 2.80143 4.37588 3.63301 3.31526 3.05947 3.50806 4.07206 2.30924 3.08871 1.42189 3.25620 3.61218 4.02891 3.53836 3.30111 3.09837 3.12914 2.25426 4.78272 3.42810 719 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04327 3.55760 4.27995 0.61958 0.77255 0.48576 0.95510\n- 232 2.55043 4.21091 3.63476 3.32898 3.33817 3.33832 4.18991 2.19651 3.18856 2.12700 3.40592 3.55738 3.94217 3.58946 3.42084 2.85447 2.93713 1.58484 5.04822 3.74074 720 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04327 3.55760 4.27995 0.61958 0.77255 0.48576 0.95510\n- 233 2.67072 4.63777 1.53827 2.26697 3.98434 2.98727 3.72433 3.50900 2.76145 3.19733 4.20670 2.78480 3.62486 2.99672 3.19291 2.70274 3.01858 3.19729 5.21651 3.95806 721 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04327 3.55760 4.27995 0.61958 0.77255 0.48576 0.95510\n- 234 2.80143 4.37588 3.63301 3.31526 3.05947 3.50806 4.07206 2.30924 3.08871 1.42189 3.25620 3.61218 4.02891 3.53836 3.30111 3.09837 3.12914 2.25426 4.78272 3.42810 722 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04327 3.55760 4.27995 0.61958 0.77255 0.48576 0.95510\n- 235 2.73635 4.35482 3.69183 3.29494 3.12598 3.56231 4.10441 2.27944 3.06605 1.81550 2.19609 3.60033 4.05356 3.49119 3.30155 3.03672 3.05267 2.23566 4.89993 3.60874 723 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02933 3.54366 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS4__GAPS4a.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS4__GAPS4a.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,974 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME GAPS4__GAPS4a\n-LENG 317\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 16:25:26 2023\n-NSEQ 399\n-EFFN 2.639259\n-CKSUM 3095077074\n-GA 20 20;\n-STATS LOCAL MSV -11.2205 0.70085\n-STATS LOCAL VITERBI -11.8826 0.70085\n-STATS LOCAL FORWARD -5.4876 0.70085\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69871 4.25265 2.91050 2.57561 3.14110 3.01420 3.56391 2.73951 2.52449 2.53093 3.74239 2.89745 3.60700 3.07232 3.04941 2.53147 2.86494 2.75807 4.76627 3.35695\n- 2.68610 4.42249 2.77540 2.73122 3.46358 2.40530 3.72505 3.29345 2.67736 2.69349 4.24094 2.90356 2.73762 3.18152 2.89815 2.37909 2.77541 2.98525 4.58501 3.61489\n- 0.31719 1.34072 4.59026 0.97014 0.47647 0.00000 *\n- 1 2.28160 4.56287 4.03201 3.57231 4.12666 2.86593 4.46515 3.49265 3.53083 3.21039 1.07238 3.78911 3.99295 3.81472 3.83144 2.05375 3.14516 3.17005 5.56122 4.35273 59 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01315 4.81098 5.31391 0.61958 0.77255 0.50021 0.93243\n- 2 2.90663 5.02677 4.32109 4.32559 5.51124 0.27699 5.43781 5.08058 4.62258 4.75745 5.62843 4.33622 4.55959 4.83135 4.79337 3.33795 3.70672 4.33857 6.69066 5.67899 60 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01218 4.81001 5.53236 0.61958 0.77255 0.50244 0.92900\n- 3 3.95230 6.12862 3.12770 0.28480 5.69233 3.80126 4.80136 5.34415 3.84387 4.83132 5.79965 3.71223 4.72749 4.03112 4.33069 3.87268 4.29655 4.90879 6.68658 5.45579 61 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01218 4.81001 5.53236 0.61958 0.77255 0.50244 0.92900\n- 4 2.71752 4.92000 2.89406 2.61159 2.90037 3.46419 3.86643 3.41111 2.03120 2.53570 3.99757 3.01550 3.85013 2.91328 2.84676 2.77367 2.92973 3.17489 2.90170 3.38993 62 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01218 4.81001 5.53236 0.61958 0.77255 0.50244 0.92900\n- 5 2.52716 4.90211 3.50496 3.23145 4.95080 3.53963 4.58656 4.40004 3.48622 4.03421 4.86250 3.64600 4.25624 3.41947 3.84338 0.56427 3.34399 3.85890 6.23477 4.96527 63 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01218 4.81001 5.53236 0.61958 0.77255 0.50244 0.92900\n- 6 3.13080 5.40964 3.61189 2.97905 4.31195 3.91674 3.95175 4.17017 0.75288 3.52490 4.50062 3.24384 4.29100 3.08338 2.49378 3.20644 3.40181 3.66895 5.76873 4.51827 64 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01218 4.81001 5.53236 0.61958 0.77255 0.50244 0.92900\n- 7 2.76571 5.14167 3.12924 2.51980 3.93285 3.60721 3.80191 3.75516 1.81973 2.98899 4.20013 2.84573 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.82557 4.69837 0.61958 0.77255 0.48807 0.95142\n- 310 2.57003 5.29559 2.68902 2.25119 3.88853 3.50618 3.74728 3.78395 2.29184 3.35499 4.33845 2.53367 2.75087 2.69363 2.61704 2.15644 2.92871 3.61609 5.73331 4.12504 455 s - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46344 2.40507 3.72496 3.29347 2.67742 2.69354 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.06366 3.04278 4.27075 0.37584 1.16063 0.50032 0.93226\n- 311 2.85839 5.34507 1.75486 2.49799 4.67523 3.44776 3.66884 4.15525 2.57595 3.64577 4.39625 2.18442 3.29463 2.89834 3.07379 2.08203 2.71831 3.72906 5.78831 4.06725 457 d - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40510 3.72495 3.29355 2.67742 2.69356 4.24691 2.90347 2.73740 3.18147 2.89796 2.37888 2.77520 2.98513 4.58478 3.61504\n- 0.04101 3.31791 5.53258 0.42554 1.05964 0.48562 0.95534\n- 312 2.84217 4.23889 4.65733 4.05319 1.44472 3.99590 4.31426 1.95520 3.86923 2.10317 3.23575 3.73195 4.27139 3.91584 3.92909 3.17246 3.07427 2.27815 4.84630 3.40880 459 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01205 4.82034 5.54269 0.61958 0.77255 0.50032 0.93226\n- 313 2.74209 4.95742 3.22942 2.66537 4.15131 3.56845 3.86944 3.48916 2.49405 2.18950 4.03368 2.99717 3.95294 3.00874 1.53272 2.76679 3.00653 3.14745 5.06096 4.15231 460 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01205 4.82034 5.54269 0.61958 0.77255 0.50032 0.93226\n- 314 2.64421 5.27643 2.47363 2.48807 4.51142 2.68641 3.77772 3.81458 2.46890 3.48966 4.32299 1.88283 3.98088 2.88031 2.84296 2.18581 2.76836 3.60910 5.72069 4.32025 461 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16335 4.81938 1.94749 0.61958 0.77255 0.50032 0.93226\n- 315 2.65122 4.32450 3.68351 3.13966 3.07635 3.80568 4.08645 2.29948 3.17740 1.44119 3.32260 3.40007 4.08619 3.36180 3.38041 2.87530 2.92030 2.48150 4.92535 3.58243 462 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15303 4.67005 2.02097 0.61958 0.77255 0.77930 0.61383\n- 316 2.42221 4.75192 3.17336 2.39168 3.57030 3.01034 3.57290 2.93912 2.47060 2.26648 3.77857 2.83426 3.95912 2.87357 3.07818 2.58185 2.77038 2.92581 5.28314 3.79536 463 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09225 4.52448 2.56033 0.61958 0.77255 0.86154 0.54906\n- 317 2.61938 5.18811 2.48054 1.95006 4.29570 3.09312 3.54217 3.86551 2.32910 3.37534 4.23134 2.31687 3.82879 2.56103 2.82902 2.51311 2.89620 3.52635 5.62560 4.21893 464 e - - -\n- 2.68649 4.42211 2.77509 2.73035 3.46339 2.40539 3.72526 3.29345 2.67710 2.69343 4.24715 2.90353 2.73766 3.18127 2.89831 2.37903 2.77521 2.98506 4.58519 3.61514\n- 0.83325 0.57028 * 1.09029 0.40965 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS4__GAPS4b.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS4__GAPS4b.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1145 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME GAPS4__GAPS4b\n-LENG 374\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 16:25:31 2023\n-NSEQ 399\n-EFFN 3.382027\n-CKSUM 1529786227\n-GA 20 20;\n-STATS LOCAL MSV -11.4152 0.69967\n-STATS LOCAL VITERBI -12.0902 0.69967\n-STATS LOCAL FORWARD -5.9324 0.69967\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.78216 4.61680 2.88749 2.50684 3.10743 3.16079 3.73539 2.69684 2.41253 2.44953 3.75247 2.87680 3.59463 3.03788 2.97517 2.56451 2.81840 2.83753 4.95116 3.57081\n- 2.68625 4.42239 2.77525 2.73129 3.46358 2.40522 3.72502 3.29355 2.67742 2.69359 4.24489 2.90343 2.73744 3.18150 2.89803 2.37879 2.77505 2.98530 4.58482 3.61517\n- 0.09918 2.56653 4.03897 1.32668 0.30837 0.00000 *\n- 1 3.08223 4.69911 4.11911 3.45605 3.82608 4.04854 4.24895 3.11874 2.92544 2.85789 0.84399 3.73495 4.42635 3.55521 3.13387 3.32094 3.30573 2.93027 5.26106 3.95546 24 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01213 5.00475 5.23085 0.61958 0.77255 0.52582 0.89421\n- 2 2.70813 5.38657 2.61335 2.11917 4.73121 3.55113 3.59815 3.95528 2.15611 3.52213 4.42737 2.15547 3.91321 2.75855 2.84676 2.03901 2.70869 3.69345 5.81949 4.40878 25 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21595 5.00266 1.67395 0.61958 0.77255 0.53150 0.88605\n- 3 2.70111 5.28924 2.73941 2.25839 4.40605 3.52761 3.67826 3.60646 2.00464 3.45881 4.14584 2.21667 3.81532 2.64832 2.80854 2.39348 2.54959 3.36232 5.72657 4.32033 26 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13742 4.79902 2.11894 0.61958 0.77255 0.93538 0.49830\n- 4 2.58072 5.21759 2.95206 1.99236 4.39141 3.41376 3.57644 3.36599 2.20317 3.00130 4.26334 2.57010 3.00675 2.50942 2.92542 2.48730 2.88320 3.59789 5.66189 4.05607 27 e - - -\n- 2.68616 4.42271 2.77539 2.73123 3.46295 2.40558 3.72427 3.29323 2.67654 2.69344 4.24707 2.90333 2.73752 3.18091 2.89837 2.37913 2.77539 2.98543 4.58522 3.61506\n- 0.87582 0.58350 3.66759 0.99798 0.45985 0.33922 1.24593\n- 5 2.95018 5.47465 1.49779 2.21454 4.81272 3.59819 3.50514 4.30344 2.42771 3.77667 4.52164 1.99189 4.08315 2.84810 3.09527 2.66271 3.07122 3.86239 5.90634 4.32706 35 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09777 4.95213 2.45252 0.61958 0.77255 0.65645 0.73124\n- 6 2.55529 4.50973 3.19293 3.01022 3.20357 3.83411 4.09487 1.96160 2.61746 2.17034 3.40283 3.42911 3.94807 3.34875 3.45231 2.81773 2.77758 2.36586 5.09761 3.20289 36 i - - -\n- 2.68617 4.42237 2.77521 2.73116 3.46359 2.40524 3.72506 3.29332 2.67728 2.69364 4.24701 2.90340 2.73735 3.18151 2.89812 2.37876 2.77525 2.98516 4.58488 3.61504\n- 0.20495 2.23662 2.54479 1.04359 0.43415 0.62488 0.76642\n- 7 2.77350 5.32597 2.15003 2.06127 4.66967 3.51888 3.63499 3.54542 2.00177 3.56587 4.36717 2.43498 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.97646 5.28837 0.61958 0.77255 0.57929 0.82166\n- 367 2.70645 5.31802 3.01824 2.26441 3.86375 3.53510 3.25846 3.54817 1.70049 2.97077 4.14589 2.66135 4.04185 2.62118 2.81796 2.64062 2.74168 3.53843 4.73240 4.20098 528 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01032 4.97476 5.69711 0.61958 0.77255 0.58354 0.81626\n- 368 2.73114 3.90030 4.80377 4.19220 2.32601 4.05824 3.11321 1.99114 3.98913 1.87595 3.11316 4.20250 4.42243 4.06549 4.01668 3.21659 2.91370 2.26605 4.89887 2.19383 529 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.97476 4.80408 0.61958 0.77255 0.58354 0.81626\n- 369 2.67703 4.48315 3.36189 2.80237 4.04098 3.55518 3.91496 2.99122 1.66081 2.39002 3.54624 3.24415 4.05859 2.80940 2.78470 2.32744 2.96829 2.97885 5.46843 4.16300 530 k - - -\n- 2.68617 4.42226 2.77521 2.73123 3.46355 2.40511 3.72496 3.29346 2.67742 2.69354 4.24691 2.90348 2.73739 3.18147 2.89802 2.37888 2.77518 2.98519 4.58478 3.61504\n- 0.05606 3.30612 4.02500 0.39585 1.11812 0.59554 0.80133\n- 370 2.65411 5.15083 2.98622 2.21720 4.26226 3.51744 3.51963 2.96008 1.95299 3.20715 4.24089 2.63637 3.47080 2.62726 2.91958 2.33785 2.72321 3.45352 5.76897 4.09568 532 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11325 4.95531 2.30232 0.61958 0.77255 0.63045 0.76004\n- 371 2.69772 5.29033 2.99802 2.00204 4.61972 3.49129 3.68025 3.54366 2.04161 3.17198 4.19536 2.82526 3.21879 2.46673 2.87797 2.42242 2.85884 3.20724 5.73251 3.46562 533 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16451 4.85372 1.93870 0.61958 0.77255 0.83372 0.56992\n- 372 2.51757 5.03529 2.65237 2.29651 4.34244 3.28937 3.60110 3.54177 2.22999 3.25736 4.27339 2.87195 3.51203 2.57580 2.29292 2.53796 2.74174 3.08611 5.67184 3.95496 534 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08861 4.70277 2.58066 0.61958 0.77255 0.96421 0.48011\n- 373 2.53656 4.94926 2.73613 2.12234 4.32970 3.33222 3.63629 3.26172 2.19126 3.13148 4.13249 2.54294 3.66872 2.69272 2.83640 2.43118 2.70983 3.24486 5.64031 4.09306 535 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12447 4.65253 2.23027 0.61958 0.77255 0.89565 0.52483\n- 374 2.46003 5.21188 2.77161 2.14643 4.54293 3.11031 3.58439 3.62958 2.13534 3.17448 4.25626 2.73501 3.33758 2.51351 2.91452 2.42214 2.77816 3.17787 5.65303 4.25068 536 k - - -\n- 2.68594 4.42300 2.77522 2.73028 3.46415 2.40592 3.72559 3.29309 2.67693 2.69369 4.24721 2.90346 2.73766 3.17990 2.89898 2.37876 2.77469 2.98524 4.58578 3.61573\n- 0.96401 0.48023 * 1.84614 0.17179 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS6__GAPS6a.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS6__GAPS6a.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,350 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME GAPS6__GAPS6a\n-LENG 109\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 16:33:05 2023\n-NSEQ 190\n-EFFN 2.612152\n-CKSUM 2541383019\n-GA 20 20;\n-STATS LOCAL MSV -9.8182 0.71554\n-STATS LOCAL VITERBI -10.1170 0.71554\n-STATS LOCAL FORWARD -3.9850 0.71554\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59117 4.70261 2.84191 2.59849 3.68269 2.91114 3.76901 2.55302 2.56670 2.37114 3.60881 2.90289 3.84626 2.99379 3.18209 2.59650 2.77330 2.67140 4.96333 3.70485\n- 2.68636 4.42237 2.77507 2.73134 3.46319 2.40524 3.72499 3.29328 2.67743 2.69355 4.24391 2.90348 2.73757 3.18162 2.89816 2.37885 2.77522 2.98528 4.58485 3.61517\n- 0.17003 1.95825 4.18297 1.22062 0.34962 0.00000 *\n- 1 2.88206 4.59094 4.80120 4.22932 3.38064 4.34075 4.71548 2.35888 4.08440 2.19590 0.90822 4.40062 4.68258 4.27406 4.22347 3.51065 3.42260 2.35533 5.26256 4.10187 34 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01228 4.80192 5.52427 0.61958 0.77255 0.51174 0.91492\n- 2 3.37138 6.03486 1.06885 1.38466 5.32529 2.94069 4.18174 4.86795 3.18596 4.32133 5.14581 3.07218 4.27365 3.00773 3.79807 3.14837 3.43035 4.40601 6.46366 4.93045 35 d - - -\n- 2.68614 4.42226 2.77520 2.73121 3.46355 2.40511 3.72495 3.29355 2.67741 2.69356 4.24690 2.90347 2.73738 3.18147 2.89801 2.37887 2.77520 2.98519 4.58478 3.61504\n- 0.03838 3.39144 5.52427 0.43940 1.03402 0.51174 0.91492\n- 3 2.59958 4.32981 4.15174 3.57180 1.42428 3.44195 4.18872 2.66868 3.47085 2.46211 3.44662 3.82571 3.12948 3.71074 3.69162 2.64968 3.04751 2.48191 4.93391 3.23339 37 f - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37885 2.77520 2.98518 4.58477 3.61503\n- 0.01647 4.39431 5.52427 0.58063 0.81995 0.51174 0.91492\n- 4 3.61216 4.87343 5.60181 5.02875 2.96290 4.96764 5.34517 1.29129 4.87926 1.21348 2.88263 5.12709 5.16119 4.90178 4.88081 4.32876 3.83793 1.71520 5.58136 4.51478 39 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01228 4.80192 5.52427 0.61958 0.77255 0.51174 0.91492\n- 5 2.60618 4.59841 3.83152 3.30545 4.01580 3.64917 4.26351 3.18840 3.25427 3.07997 3.81796 3.42033 4.18433 3.56500 3.60366 2.41647 0.98834 2.69214 5.43879 4.20647 40 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01228 4.80192 5.52427 0.61958 0.77255 0.51174 0.91492\n- 6 1.94221 4.67388 3.56751 3.01505 3.95552 3.23946 4.05594 3.25958 2.98605 2.80848 3.67944 3.44116 4.12386 3.30789 3.38407 1.66388 2.01665 2.86135 5.34815 4.08844 41 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01228 4.80192 5.52427 0.61958 0.77255 0.51174 0.91492\n- 7 1.32170 4.71948 3.84972 3.40891 4.75785 2.30949 4.51174 4.19741 3.42238 3.83233 4.62908 3.21923 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03093 4.79925 3.80658 0.61958 0.77255 0.49731 0.93691\n- 102 2.93441 5.06574 3.36746 2.97433 4.75594 0.97868 4.16697 4.18812 2.86185 3.75645 4.56892 2.74181 4.18617 3.32773 2.35662 2.99959 2.97870 3.66202 5.93099 4.63426 160 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01245 4.78841 5.51076 0.61958 0.77255 0.44845 1.01781\n- 103 2.78073 5.34269 1.76352 2.53352 4.65572 3.41165 3.53175 3.60064 2.63111 3.63794 4.40286 1.59860 4.03653 2.96615 3.12934 2.64191 3.13077 3.71915 5.79700 4.16583 161 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81638 5.53872 0.61958 0.77255 0.48576 0.95510\n- 104 2.89791 5.00078 3.36970 2.80107 4.25668 3.72539 3.91722 2.78093 1.11114 3.19338 4.10008 3.07203 4.11862 3.08358 3.02634 2.84963 2.89206 3.05362 5.52111 4.22347 162 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81638 5.53872 0.61958 0.77255 0.48576 0.95510\n- 105 2.81862 4.28282 4.32814 3.41105 2.95317 3.92850 3.68404 1.53455 3.51681 2.47723 3.39825 3.47074 4.29741 3.82393 3.77611 3.16035 2.36360 1.95464 4.89524 3.08682 163 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05752 4.81637 3.04081 0.61958 0.77255 0.48576 0.95510\n- 106 2.63006 3.49979 4.50880 3.91014 3.32013 3.18503 4.26166 1.71738 3.74832 2.35385 2.70569 3.68725 4.30724 3.84262 3.84706 2.86491 2.69508 1.76819 4.84128 3.65839 164 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05176 4.77152 3.17072 0.61958 0.77255 0.58374 0.81601\n- 107 2.75603 5.17046 3.07846 2.52520 4.46936 2.44641 3.30150 3.82060 2.26008 3.45466 4.22466 1.95147 3.96727 2.83249 2.84195 2.71094 2.77378 3.53642 5.63053 2.85494 165 n - - -\n- 2.68642 4.42234 2.77496 2.73147 3.46334 2.40513 3.72518 3.29265 2.67719 2.69372 4.24654 2.90343 2.73755 3.18170 2.89824 2.37902 2.77498 2.98486 4.58501 3.61520\n- 0.37096 1.74822 1.99622 1.37486 0.29152 0.65795 0.72963\n- 108 2.64977 5.20811 2.76727 2.43266 4.53973 3.00419 3.09439 4.01617 2.01966 3.50736 4.25267 2.04689 3.90049 2.69628 2.83992 2.49813 2.91631 3.46718 5.64851 3.63480 171 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15992 4.59185 1.98301 0.61958 0.77255 0.80878 0.58951\n- 109 2.70690 4.94215 2.71591 2.34865 4.50655 2.42449 3.66906 3.98060 1.80934 3.47513 4.22509 2.58707 3.87146 2.72212 2.81771 2.47700 2.82916 3.55988 5.61907 4.21844 172 k - - -\n- 2.68638 4.42222 2.77467 2.73097 3.46378 2.40537 3.72521 3.29370 2.67682 2.69381 4.24726 2.90298 2.73761 3.18145 2.89823 2.37883 2.77545 2.98504 4.58513 3.61513\n- 0.61173 0.78178 * 1.15305 0.37932 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS6__GAPS6b.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GAPS6__GAPS6b.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3347 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME GAPS6__GAPS6b\n-LENG 1108\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 16:33:00 2023\n-NSEQ 238\n-EFFN 5.937653\n-CKSUM 1289107001\n-GA 20 20;\n-STATS LOCAL MSV -12.9340 0.69535\n-STATS LOCAL VITERBI -13.4208 0.69535\n-STATS LOCAL FORWARD -7.2231 0.69535\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59729 4.24329 2.89962 2.60069 3.22738 3.26431 3.68710 2.66289 2.63988 2.25856 3.73307 2.93160 3.54215 3.09180 3.07671 2.55911 2.89099 2.78295 4.76984 3.42939\n- 2.68622 4.42234 2.77517 2.73121 3.46363 2.40521 3.72503 3.29353 2.67742 2.69348 4.24428 2.90352 2.73748 3.18155 2.89809 2.37892 2.77525 2.98520 4.58452 3.61512\n- 0.08746 2.79257 3.79510 0.77271 0.61945 0.00000 *\n- 1 4.71538 6.11018 6.18976 5.94471 4.37626 5.47512 6.24913 3.74446 5.57227 2.74758 0.19363 5.99060 5.94712 5.82396 5.58515 5.18003 5.07600 3.95497 6.42718 5.20500 11 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01432 5.47494 4.60255 0.61958 0.77255 0.57636 0.82539\n- 2 2.75754 5.55403 2.93310 2.45230 4.27828 3.20422 3.87334 3.19476 2.69236 3.30216 4.60059 2.23574 3.64718 2.99391 3.15914 2.01855 2.01970 2.83044 6.00025 4.60310 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13575 5.46692 2.09787 0.61958 0.77255 0.60892 0.78512\n- 3 2.92001 5.53960 2.59904 2.16494 4.88432 3.30945 3.99078 3.49201 2.12642 3.42387 4.58036 2.23215 3.91832 2.70847 3.00381 2.30249 2.17882 3.56395 5.97250 4.56175 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23619 5.33833 1.58198 0.61958 0.77255 1.00085 0.45818\n- 4 2.84717 4.08300 2.80470 2.09023 4.15192 2.98931 3.88954 3.53194 2.39172 3.70866 3.99150 2.27715 3.89996 2.75847 2.63300 2.18513 3.03914 3.79281 5.84726 3.05956 14 e - - -\n- 2.68644 4.42324 2.77491 2.73102 3.46322 2.40496 3.72480 3.29343 2.67806 2.69405 4.24722 2.90170 2.73787 3.18244 2.89875 2.37866 2.77449 2.98460 4.58612 3.61553\n- 0.74066 0.93349 2.04005 1.96550 0.15092 0.52535 0.89489\n- 5 2.87098 4.52389 4.12319 3.83838 3.09704 4.11868 4.09015 1.72395 3.28891 1.81646 3.53044 3.21325 3.36409 3.95983 3.62224 2.40029 2.96631 2.21634 5.13304 3.46235 50 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00787 5.24444 5.96679 0.61958 0.77255 0.26346 1.46270\n- 6 3.10507 5.51343 3.19088 2.21910 3.69685 3.79549 3.18114 2.84638 2.48042 3.60203 4.11570 1.69550 4.28805 3.14558 3.09447 2.46634 2.44356 3.07182 5.97110 3.86645 51 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00623 5.47711 6.19946 0.61958 0.77255 0.53091 0.88690\n- 7 3.12988 5.18675 3.62976 3.07065 4.38939 3.99501 4.03361 2.66423 3.05114 3.12300 3.44848 2.87439 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01696 5.45286 4.37951 0.61958 0.77255 0.66294 0.72430\n- 1101 2.62505 5.51215 2.98872 2.57947 3.84459 3.58379 3.88065 3.10982 2.46262 2.47129 3.33856 2.60947 3.30944 2.21058 2.63528 2.63331 2.89581 3.29193 5.96558 3.93817 1385 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03067 5.44236 3.65456 0.61958 0.77255 0.70103 0.68533\n- 1102 2.48253 5.56921 2.81501 2.34255 4.50675 3.33713 2.83885 3.79529 2.41529 2.98990 3.73258 2.35815 4.07920 2.79860 2.75412 2.35994 2.60599 3.14479 6.00498 4.15498 1386 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05187 5.41830 3.07666 0.61958 0.77255 0.78179 0.61172\n- 1103 2.42750 5.52102 2.78467 2.48236 4.38467 3.23069 3.83731 2.86989 2.26508 2.96403 3.84344 2.46854 3.27263 2.97045 2.91983 2.14731 2.83095 3.25104 5.96325 4.56199 1387 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04117 5.37334 3.33278 0.61958 0.77255 0.87180 0.54163\n- 1104 2.73044 5.52323 3.09413 1.98173 4.26933 3.08414 3.99925 3.25472 2.15982 3.16170 4.09459 2.60994 3.31128 2.70324 2.66527 2.54040 2.78639 3.08126 5.96133 3.85874 1388 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04965 5.34583 3.13100 0.61958 0.77255 0.98290 0.46876\n- 1105 2.75204 4.84652 2.78765 2.08209 4.08314 3.54661 3.97693 3.81103 2.23419 3.21144 4.17787 2.44860 3.31756 2.50896 2.97124 2.25952 2.76915 3.37672 5.94468 3.38982 1389 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10703 5.30359 2.33790 0.61958 0.77255 1.07844 0.41571\n- 1106 2.55192 4.39785 2.59559 2.18048 4.79112 2.95086 3.46745 3.10423 2.24336 2.95429 4.26620 2.47031 3.76914 2.86527 2.86164 2.57843 2.78518 3.22187 5.89313 4.48765 1390 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05168 5.20475 3.10382 0.61958 0.77255 1.25972 0.33370\n- 1107 2.76323 5.37992 2.69228 2.43916 2.98976 3.15026 3.52717 3.16346 2.38619 2.71529 4.42895 2.86233 3.68654 2.42982 3.01234 2.31620 2.72941 3.11464 5.83185 4.44063 1391 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09869 5.16162 2.42762 0.61958 0.77255 0.99770 0.46002\n- 1108 2.55713 5.39516 2.80837 2.16943 4.16257 3.45609 3.74420 4.00464 2.23948 3.08711 4.31284 2.90749 3.86654 2.70206 2.92646 2.47251 2.66404 3.15641 2.53871 4.07117 1392 e - - -\n- 2.68555 4.41787 2.77502 2.72904 3.46375 2.40634 3.72610 3.29210 2.67853 2.69386 4.24712 2.90166 2.73804 3.18212 2.89826 2.37867 2.77554 2.98573 4.58707 3.61569\n- 1.18328 0.36568 * 1.91702 0.15905 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1856 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gabija__GajA\n-LENG 611\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 14:22:15 2021\n-NSEQ 25\n-EFFN 3.781128\n-CKSUM 3997530068\n-GA 82.50 82.50;\n-STATS LOCAL MSV -12.1070 0.69714\n-STATS LOCAL VITERBI -13.0493 0.69714\n-STATS LOCAL FORWARD -5.9959 0.69714\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53352 4.60409 2.88700 2.54097 3.30428 2.96535 3.64269 2.85040 2.63588 2.37138 3.78577 3.00407 3.33075 3.03966 2.93293 2.59591 2.83827 2.75742 4.91040 3.65992\n- 2.68660 4.42209 2.77580 2.73073 3.46368 2.40603 3.72358 3.29264 2.67741 2.69353 4.24391 2.90373 2.73755 3.18219 2.89641 2.37930 2.77533 2.98510 4.58583 3.61394\n- 0.25066 1.98512 2.47278 2.92123 0.05537 0.00000 *\n- 1 4.40094 5.80504 5.59822 5.41573 4.40348 4.93974 5.90429 3.75170 5.15747 2.93366 0.21205 5.52961 5.50153 5.49071 5.19797 4.79284 4.78381 3.87193 6.25430 5.11619 39 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07957 5.01690 2.66119 0.61958 0.77255 0.65505 0.73275\n- 2 2.89882 4.95083 3.40335 2.83809 2.77530 3.75939 2.29793 3.55098 2.05308 2.55006 4.03317 3.33133 4.14456 2.67629 2.80822 2.97585 3.12790 3.26597 5.43066 2.41881 40 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01060 4.94792 5.67027 0.61958 0.77255 0.80465 0.59284\n- 3 3.98721 5.17305 6.03206 5.51622 3.85458 5.53687 6.04385 0.94693 5.42292 1.05001 3.58408 5.70355 5.62132 5.42485 5.45218 4.96366 4.22045 2.07207 6.09237 5.06507 41 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01060 4.94792 5.67027 0.61958 0.77255 0.80465 0.59284\n- 4 2.63585 3.88842 3.15041 2.01627 4.56261 3.64863 3.84247 4.01926 2.20929 3.54713 4.31287 2.77239 4.04208 2.95495 3.07973 1.59692 2.80737 3.62756 5.71950 3.40648 42 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01060 4.94792 5.67027 0.61958 0.77255 0.80465 0.59284\n- 5 2.86669 5.33278 3.13227 2.21153 3.26936 3.64466 3.82934 4.13553 2.08092 3.62962 4.37829 3.11905 4.03726 2.46887 2.07789 2.11935 2.43608 3.71579 5.77226 4.37552 43 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01060 4.94792 5.67027 0.61958 0.77255 0.80465 0.59284\n- 6 2.99868 4.83418 5.56673 5.00842 3.82752 4.93176 5.36581 1.52873 4.86291 1.16608 2.99951 5.08652 5.18851 4.97644 4.90691 4.28970 3.79935 1.44199 5.71758 4.58457 44 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01021 4.98556 5.70791 0.61958 0.77255 0.80465 0.59284\n- 7 2.87025 5.36231 2.84855 2.40586 4.69975 3.64677 3.30124 3.25658 2.05934 3.66424 4.40502 2.55558 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00925 5.08333 5.80567 0.61958 0.77255 0.57208 0.83092\n- 604 1.91404 5.41707 2.86244 2.43926 4.75999 2.87049 3.87320 4.24444 2.03086 3.72141 4.45834 2.84729 4.07930 2.44694 2.83649 2.41564 2.58012 3.80656 5.85101 3.64742 1170 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13019 5.08333 2.15524 0.61958 0.77255 0.57208 0.83092\n- 605 2.86180 5.36199 2.58975 1.92608 4.70273 3.20155 3.82429 2.90431 2.08796 3.20514 4.40386 3.10570 3.46041 2.12925 2.78361 2.61739 3.09296 3.75031 5.79715 4.38892 1171 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01044 4.96357 5.68592 0.61958 0.77255 0.84767 0.55934\n- 606 2.90114 3.18184 4.62359 2.59209 3.41563 3.38446 4.36726 2.03303 3.86060 1.66094 3.01882 4.12384 4.41055 4.03739 3.95493 3.34587 2.78675 1.85703 4.94064 3.75803 1172 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01044 4.96357 5.68592 0.61958 0.77255 0.84767 0.55934\n- 607 2.23783 3.90096 3.15294 1.93877 4.50964 3.64182 3.83530 3.95966 2.12986 3.49993 3.48751 3.13377 3.07438 2.62416 2.80821 2.61983 3.07622 2.65110 5.68344 4.30724 1173 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06333 4.91938 2.91754 0.61958 0.77255 0.84767 0.55934\n- 608 2.81655 5.32329 2.41897 1.90527 4.66593 2.80549 3.77626 3.48002 2.20496 3.62737 4.36507 2.55549 2.79091 2.87393 2.54109 2.77888 3.04810 3.71272 5.75689 4.34644 1174 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01195 4.82891 5.55125 0.61958 0.77255 0.93523 0.49839\n- 609 2.79816 5.21119 2.79529 2.18951 4.51755 3.58403 3.77764 3.97699 2.07912 2.25556 4.26262 2.78109 3.97825 2.58773 3.01409 2.34361 3.02950 2.66301 5.66733 4.28099 1175 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14311 4.78422 2.07961 0.61958 0.77255 0.93523 0.49839\n- 610 2.52788 5.22445 2.65746 2.10953 4.55229 3.52796 2.97777 3.35614 2.46514 3.52239 4.27028 3.00187 2.66279 2.39494 2.95560 2.19522 2.98546 3.60592 5.66738 4.26598 1176 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07690 4.65534 2.74100 0.61958 0.77255 0.55369 0.85525\n- 611 2.72009 4.49277 3.50793 2.38831 3.63920 3.67579 3.92159 2.49749 2.90300 2.06309 3.59110 2.88830 4.05741 2.82970 3.27425 2.91703 2.95180 2.01161 5.07121 3.82686 1177 v - - -\n- 2.68329 4.42462 2.77295 2.72936 3.46595 2.40541 3.72693 3.29146 2.67819 2.69176 4.25049 2.90413 2.73920 3.18206 2.90160 2.38014 2.77490 2.98328 4.58836 3.61351\n- 0.74969 0.63963 * 3.18992 0.04205 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajB_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajB_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1460 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gabija__GajB_1\n-LENG 479\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 28 16:45:37 2021\n-NSEQ 36\n-EFFN 4.565918\n-CKSUM 3472422013\n-GA 100 100;\n-STATS LOCAL MSV -11.4982 0.69824\n-STATS LOCAL VITERBI -12.8709 0.69824\n-STATS LOCAL FORWARD -5.9491 0.69824\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63437 4.46914 2.91329 2.60231 3.24576 2.98570 3.68569 2.73138 2.56792 2.46696 3.74581 2.92215 3.48003 3.02717 2.96116 2.61289 2.81061 2.75497 4.87761 3.38078\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00789 5.24171 5.96405 0.61958 0.77255 0.00000 *\n- 1 4.79124 6.16017 5.94813 5.82088 4.80072 5.21228 6.27984 4.20334 5.59420 3.34589 0.13615 5.91615 5.79909 5.91423 5.59867 5.17435 5.19392 4.33796 6.59722 5.49857 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22088 5.24171 1.64559 0.61958 0.77255 0.48576 0.95510\n- 2 2.29582 5.07222 2.48628 2.75183 4.30380 3.73155 3.27503 2.74073 2.44467 3.32763 3.31971 3.26859 3.64619 3.09244 2.81135 2.56249 2.54981 2.25859 5.57953 4.24975 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05681 5.03058 3.02233 0.61958 0.77255 1.00659 0.45486\n- 3 2.44314 5.35780 2.47375 2.05045 4.69369 3.26033 3.35174 3.17334 2.37620 3.19959 4.40088 2.91336 4.03959 2.69501 2.82194 2.41214 2.77429 3.74350 5.79601 3.04840 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01022 4.98400 5.70635 0.61958 0.77255 1.08226 0.41374\n- 4 2.65683 5.32906 2.96844 2.42137 4.65321 2.59261 3.84085 3.05844 2.24883 3.62538 3.52711 2.89615 4.04447 2.62146 2.50496 2.20700 2.47228 3.40438 5.77447 4.37652 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15198 4.98400 2.00882 0.61958 0.77255 1.00438 0.45614\n- 5 2.83389 4.53860 3.73781 3.16949 3.22880 3.82007 3.49417 2.02256 2.61892 2.10091 3.64262 3.25805 4.19886 3.02525 2.60861 2.83642 2.84598 2.39868 5.12249 3.51008 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10084 4.86424 2.42805 0.61958 0.77255 1.14768 0.38180\n- 6 2.56327 5.26325 2.44053 2.21697 4.58923 3.24691 3.00045 4.06198 2.51190 2.90644 4.30904 2.80738 3.97303 2.87207 2.64138 2.21205 2.60913 3.00427 5.70755 4.30835 6 s - - -\n- 2.68595 4.42277 2.77315 2.73048 3.46420 2.40605 3.72565 3.29350 2.67748 2.69342 4.24808 2.90268 2.73660 3.18104 2.89878 2.37919 2.77532 2.98619 4.58595 3.61579\n- 1.09492 0.61559 2.07852 1.82085 0.17660 0.81793 0.58223\n- 7 1.82475 4.40051 4.48120 3.22205 3.54862 4.10349 4.43634 1.59130 3.78302 2.28214 3.52939 4.10200 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01535 4.57987 5.30222 0.61958 0.77255 0.82338 0.57794\n- 472 3.02038 5.59888 2.26050 1.42855 4.91363 3.51703 3.89963 4.42403 2.77300 3.89210 4.67204 1.78431 4.04182 2.58126 3.31883 2.58525 3.27677 3.97786 6.02933 4.56114 958 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01535 4.57987 5.30222 0.61958 0.77255 0.82338 0.57794\n- 473 3.29838 3.24016 5.30270 4.77109 3.80915 4.72438 5.23954 1.20440 4.65072 1.92543 3.64081 4.86863 5.00488 4.84097 4.74889 4.09423 3.54673 1.19966 5.66115 4.47207 959 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06539 4.57987 2.93674 0.61958 0.77255 0.82338 0.57794\n- 474 2.71548 4.78799 3.19694 1.97563 3.99354 3.57391 3.78480 2.56144 2.42139 3.02911 3.86851 3.14117 3.96216 2.40495 3.05350 2.78816 2.94635 2.48487 5.31258 3.23258 960 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01614 4.53062 5.25297 0.61958 0.77255 0.88496 0.53227\n- 475 2.70719 5.08026 2.44022 2.45767 4.37242 3.50337 3.69719 3.30852 2.28034 3.36264 4.13542 2.70105 3.13810 2.81409 2.56539 2.26277 2.93842 2.92712 5.54597 3.33826 961 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01614 4.53062 5.25297 0.61958 0.77255 0.88496 0.53227\n- 476 2.68904 4.52218 2.80725 2.55226 3.68081 3.01695 3.85998 2.09520 2.81499 1.99688 3.62068 3.26651 3.99785 3.13059 3.20958 2.85525 2.92343 2.76862 5.09778 3.83933 962 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09644 4.39224 2.53121 0.61958 0.77255 0.71810 0.66880\n- 477 2.65735 4.89710 2.93990 1.96529 4.17217 3.42476 3.62349 3.58755 2.33300 2.76179 3.97830 2.94743 2.91338 2.76547 2.37755 2.67219 2.88758 3.25200 5.37397 4.04291 963 e - - -\n- 2.68503 4.42288 2.77508 2.73095 3.46320 2.40534 3.72489 3.29305 2.67759 2.69394 4.24753 2.90359 2.73700 3.18210 2.89864 2.37886 2.77508 2.98518 4.58540 3.61566\n- 0.71050 0.69266 4.78477 1.95839 0.15209 0.73358 0.65428\n- 478 1.87039 4.65234 3.07149 2.29747 3.06826 3.46592 3.71650 3.23840 2.33105 2.90092 3.75801 3.06314 3.87739 2.91652 2.97841 2.71824 2.86960 2.96022 5.19794 3.89943 983 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09667 4.15007 2.57196 0.61958 0.77255 0.81558 0.58408\n- 479 2.48627 4.40223 3.27222 2.75847 2.93920 2.67501 3.82237 3.15739 2.74754 2.83873 3.69974 3.16863 2.81400 3.06818 3.14481 2.27200 2.39323 2.85820 5.15308 3.88849 984 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01721 4.07061 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajB_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajB_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1745 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gabija__GajB_2\n-LENG 574\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Oct 28 16:48:09 2021\n-NSEQ 40\n-EFFN 7.729492\n-CKSUM 3575349531\n-GA 100 100;\n-STATS LOCAL MSV -11.9086 0.69740\n-STATS LOCAL VITERBI -13.3901 0.69740\n-STATS LOCAL FORWARD -6.1968 0.69740\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55393 4.40385 2.89001 2.64819 3.36558 2.86533 3.71238 2.83587 2.62260 2.48869 3.79163 2.99659 3.27149 3.02367 2.83346 2.58640 2.82500 2.76999 4.78110 3.51092\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24500 4.27870 1.59242 0.61958 0.77255 0.00000 *\n- 1 3.12623 4.64754 4.25547 3.86694 3.30335 3.97650 4.55888 2.49827 3.62363 1.87314 1.05976 4.12014 4.44149 3.99511 3.80618 3.49309 3.43699 2.52533 5.16687 3.94332 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02597 4.05967 4.78201 0.61958 0.77255 0.72449 0.66276\n- 2 2.62430 4.79789 2.49948 2.43679 4.04622 3.40905 3.65072 3.42896 2.16427 2.48337 3.89053 2.95343 3.82653 2.81008 2.88718 2.66116 2.35922 3.11637 5.31744 3.98746 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13883 4.05967 2.18598 0.61958 0.77255 0.72449 0.66276\n- 3 2.12975 4.58282 3.06767 2.61367 4.05640 3.30222 3.74261 3.37075 1.98866 3.05773 3.91540 3.05492 3.81049 2.92815 2.83104 2.63685 2.19023 3.04171 5.33201 4.05347 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02903 3.94986 4.67221 0.61958 0.77255 0.81084 0.58786\n- 4 2.11275 4.23730 3.77935 3.22922 3.10593 3.64474 3.91067 2.57968 3.08088 1.84733 3.26758 3.52864 4.04314 3.39570 3.34083 2.94390 2.89523 2.42429 3.06584 3.35535 4 l - - -\n- 2.68545 4.42380 2.77568 2.73109 3.46225 2.40594 3.72464 3.29154 2.67766 2.69411 4.24844 2.90301 2.73757 3.18194 2.89756 2.37899 2.77533 2.98496 4.58418 3.61494\n- 0.40688 1.12417 4.67221 3.27520 0.03854 0.81084 0.58786\n- 5 3.17229 4.51104 4.69859 4.18237 3.23689 4.43435 4.81695 1.32257 4.01150 1.37819 3.07743 4.44211 4.69315 4.25055 4.18598 3.80854 3.41794 1.87641 5.25071 4.06914 50 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02903 3.94986 4.67221 0.61958 0.77255 0.81084 0.58786\n- 6 2.61628 4.74979 2.96941 2.51347 4.15477 3.34576 3.66818 3.56195 2.34368 3.15949 3.99379 2.29096 3.81783 2.83078 2.25259 2.66516 2.24967 3.21580 5.36414 4.06249 51 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02903 3.94986 4.67221 0.61958 0.77255 0.81084 0.58786\n- 7 2.01595 4.26367 3.41576 2.96585 3.69816 3.26447 3.95128 2.92964 2.90563 2.08105 3.66214 3.28539 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02904 3.94924 4.67159 0.61958 0.77255 0.71918 0.66778\n- 567 2.27001 1.55207 3.86765 3.54553 4.01372 1.86381 4.34880 3.33106 3.45656 3.13683 4.04248 3.53240 3.74559 3.74751 3.66108 2.49755 2.75587 2.91771 5.40157 4.25185 1775 c - - -\n- 2.68624 4.42231 2.77525 2.73129 3.46360 2.40519 3.72500 3.29360 2.67747 2.69361 4.24696 2.90353 2.73714 3.18152 2.89807 2.37871 2.77525 2.98484 4.58483 3.61509\n- 0.18438 1.83871 4.67159 0.91770 0.50988 0.71918 0.66778\n- 568 3.01611 5.12229 3.40551 2.76543 4.56243 3.63048 3.59933 3.91762 1.29144 3.37224 4.24597 3.17128 4.00794 2.73741 1.71392 3.01550 3.18912 3.60144 5.42317 4.24863 1779 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02904 3.94924 4.67159 0.61958 0.77255 0.71918 0.66778\n- 569 2.81386 5.21217 1.89445 2.20640 4.48611 3.26478 3.70171 4.00476 2.57306 3.53167 4.37771 2.76768 3.82193 1.72410 3.06141 2.75482 3.08563 3.61930 5.68038 4.25424 1780 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02904 3.94924 4.67159 0.61958 0.77255 0.54939 0.86110\n- 570 2.60289 4.56117 3.21605 2.66208 3.80148 3.45890 3.72174 3.16048 2.50974 2.34648 3.70008 3.11850 2.98058 2.93389 2.39694 2.71752 2.34136 2.89160 5.14594 3.87563 1781 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02600 4.05851 4.78086 0.61958 0.77255 0.62470 0.76662\n- 571 2.66569 4.44137 3.43697 2.89939 3.64874 3.58108 3.86593 1.97026 2.20704 2.61068 3.56758 3.31207 3.99149 3.13645 3.01948 2.86830 2.37481 2.51293 5.09051 3.84934 1782 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02600 4.05851 4.78086 0.61958 0.77255 0.62470 0.76662\n- 572 2.91597 5.35953 1.78122 2.19286 4.69083 3.25148 3.81512 4.25026 2.81343 3.77978 4.63403 1.41057 3.87285 2.99031 3.37569 2.83574 3.22086 3.82507 5.90352 4.42532 1783 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02600 4.05851 4.78086 0.61958 0.77255 0.62470 0.76662\n- 573 3.13899 4.45104 4.85474 4.36729 3.57402 4.48425 5.07592 1.08062 4.24828 2.05717 3.37784 4.58042 4.79702 4.51088 4.43955 3.88103 3.40783 1.37935 5.56524 4.36313 1784 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15727 4.05851 2.05374 0.61958 0.77255 0.62470 0.76662\n- 574 2.65526 4.84226 2.55411 1.84513 4.31244 3.21778 3.75492 3.74690 2.60883 3.36008 4.21230 2.86852 3.79600 2.93557 3.04683 1.72550 2.97199 3.36686 5.56220 4.20073 1785 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02002 3.92126 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajB_3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gabija__GajB_3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1091 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gabija__GajB_3\n-LENG 356\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Jan 7 11:19:45 2022\n-NSEQ 30\n-EFFN 2.281494\n-CKSUM 1293468089\n-GA 25 25;\n-STATS LOCAL MSV -11.3936 0.70000\n-STATS LOCAL VITERBI -12.3275 0.70000\n-STATS LOCAL FORWARD -5.4714 0.70000\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57207 4.28431 2.91964 2.66401 3.24670 3.02830 3.69560 2.78107 2.56327 2.52275 3.75907 3.01315 3.59321 2.98845 2.86673 2.62727 2.72940 2.68763 4.86067 3.37262\n- 2.68615 4.42244 2.77539 2.73131 3.46373 2.40524 3.72514 3.29373 2.67749 2.69374 4.24154 2.90366 2.73735 3.18148 2.89807 2.37864 2.77539 2.98521 4.58496 3.61522\n- 0.31261 1.33129 5.44184 0.85592 0.55320 0.00000 *\n- 1 2.78036 4.80575 2.89328 2.73911 4.00079 3.64864 3.51266 3.01056 2.61073 3.04486 1.60496 3.01678 3.63405 3.06758 3.16357 2.47329 3.01242 3.11347 5.34148 4.04564 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10362 4.71949 2.41335 0.61958 0.77255 0.48576 0.95510\n- 2 2.61256 5.20653 2.05621 2.36815 4.53060 3.52126 3.71556 4.00240 2.22076 2.97582 4.25377 2.25673 3.50609 2.81974 2.95116 2.59600 2.69560 3.31093 5.65221 4.25330 12 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63046 5.35281 0.61958 0.77255 0.65250 0.73551\n- 3 2.78450 5.38708 3.04322 2.62365 4.74940 3.65584 3.39375 4.20183 1.57019 3.68312 4.47927 1.46019 4.09394 2.97804 2.83471 2.97268 3.23534 3.80835 5.79488 4.45056 13 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01459 4.63046 5.35281 0.61958 0.77255 0.39405 1.12184\n- 4 2.93943 5.36870 3.22707 2.18112 4.74730 3.68325 3.12507 4.19164 1.74732 3.32520 4.41565 3.15612 3.60056 2.72837 1.59058 2.90531 3.15320 3.78065 5.74619 4.40542 14 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01334 4.71949 5.44184 0.61958 0.77255 0.48576 0.95510\n- 5 2.53854 4.30571 4.77658 4.18335 3.12030 3.45519 4.48356 1.76731 4.01033 1.56474 3.39729 4.24739 4.48166 4.17238 4.07714 3.44544 3.16870 1.58526 5.00561 3.82670 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01334 4.71949 5.44184 0.61958 0.77255 0.48576 0.95510\n- 6 2.77998 3.53685 4.46128 3.22927 3.05866 3.91586 4.23365 1.52348 3.70647 2.15399 3.09224 3.97996 4.28228 3.27090 3.81378 3.21394 2.53604 2.15237 4.82231 3.31752 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01334 4.71949 5.44184 0.61958 0.77255 0.48576 0.95510\n- 7 2.93932 4.32140 4.76620 4.16269 2.16119 4.10680 2.85648 1.96865 3.98044 1.43600 2.91491 4.22165 4.4'..b'.68614 4.42269 2.77476 2.73083 3.46283 2.40546 3.72538 3.29363 2.67760 2.69281 4.24734 2.90348 2.73783 3.18168 2.89807 2.37896 2.77526 2.98535 4.58521 3.61469\n- 0.97971 0.96850 1.40678 1.39287 0.28550 0.62530 0.76594\n- 349 2.82647 5.32857 2.08448 2.15120 4.65100 2.04497 3.74557 4.13760 2.07539 3.62959 4.40373 2.89189 3.90717 2.86829 3.08191 2.43554 3.07479 3.71269 5.77888 4.34767 535 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01925 4.35563 5.07797 0.61958 0.77255 0.43841 1.03580\n- 350 2.73585 4.40232 3.35529 2.92185 3.26134 3.27977 4.00107 2.20908 3.08182 1.89972 3.50831 3.51578 3.53908 3.10979 2.97198 2.99081 2.96764 2.40504 4.99125 2.96875 536 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62049 5.34284 0.61958 0.77255 0.66873 0.71818\n- 351 2.74066 3.69827 2.72313 2.14208 4.53425 3.51911 3.70750 4.00700 1.76977 3.16250 4.25210 2.79471 3.91268 2.81020 2.57364 2.26936 2.97160 3.58783 5.64862 4.25011 537 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62049 5.34284 0.61958 0.77255 0.66873 0.71818\n- 352 2.43185 4.20382 3.02624 2.46842 4.49014 3.52831 3.44545 3.95306 1.92985 3.46504 4.22336 3.00940 3.30926 2.26701 2.42179 2.56269 2.53793 3.54912 5.62284 4.23487 538 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01474 4.62049 5.34284 0.61958 0.77255 0.66873 0.71818\n- 353 2.86886 3.65692 4.72422 4.13548 1.61904 4.01518 4.19824 2.64992 3.93676 1.75572 3.32515 4.12357 4.37065 4.05820 3.96218 3.32721 3.09977 2.15204 3.57736 2.62828 539 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18419 4.62049 1.84282 0.61958 0.77255 0.66873 0.71818\n- 354 2.56391 3.85794 3.04796 2.48841 4.23637 3.50378 3.27802 3.66620 2.18931 3.02622 4.03567 2.65161 3.46318 2.83089 2.03874 2.70436 2.78143 3.10733 5.45421 4.10323 540 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01744 4.45374 5.17609 0.61958 0.77255 0.88929 0.52924\n- 355 2.50781 4.82154 3.12199 2.56336 3.60819 3.00119 3.73529 3.12795 2.44461 2.88772 3.89740 2.51701 3.91613 2.75990 2.45290 2.50705 2.76387 2.73719 5.33608 4.01509 541 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20652 4.45374 1.74325 0.61958 0.77255 0.43842 1.03579\n- 356 2.47561 5.08776 2.64860 2.43926 4.38615 3.21424 3.33413 3.84042 2.23709 3.37298 3.71535 2.77470 2.64769 2.79718 2.92287 2.28808 2.92825 3.20041 5.54962 3.53893 542 k - - -\n- 2.68658 4.42318 2.77522 2.73154 3.46336 2.40558 3.72405 3.29310 2.67778 2.69387 4.24734 2.90368 2.73737 3.18194 2.89875 2.37858 2.77493 2.98457 4.57878 3.61326\n- 0.77000 0.62178 * 1.88298 0.16503 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Ape__ApeA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Ape__ApeA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1826 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Ape__ApeA\n-LENG 601\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:43 2021\n-NSEQ 100\n-EFFN 0.625610\n-CKSUM 3802121590\n-GA 18 18;\n-STATS LOCAL MSV -11.8684 0.69721\n-STATS LOCAL VITERBI -13.1577 0.69721\n-STATS LOCAL FORWARD -6.2789 0.69721\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66716 4.38958 2.90429 2.70114 3.19310 3.14075 3.82427 2.64241 2.61625 2.31886 3.68205 3.04520 3.64129 3.18761 2.92654 2.63542 2.88242 2.58706 4.63251 3.19515\n- 2.68620 4.42227 2.77521 2.73125 3.46349 2.40514 3.72496 3.29348 2.67735 2.69355 4.24684 2.90345 2.73740 3.18148 2.89799 2.37888 2.77521 2.98520 4.58479 3.61501\n- 0.16340 3.54997 2.10354 1.04278 0.43460 0.00000 *\n- 1 2.90691 4.46977 3.96141 3.55052 3.17623 3.77216 4.30495 2.34376 3.32236 1.78532 1.54671 3.83766 4.23403 3.71081 3.53703 3.24647 3.21150 2.33974 5.00484 3.75814 19 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78965 4.51200 0.61958 0.77255 0.58158 0.81875\n- 2 2.89950 4.97992 3.25188 2.67374 4.37393 3.52475 3.55725 3.74583 1.48223 3.24297 4.12425 3.08995 3.92383 2.70605 1.77721 2.91471 3.09097 3.43845 5.33060 4.13396 20 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78965 4.51200 0.61958 0.77255 0.58158 0.81875\n- 3 2.64930 4.45308 3.35868 2.79728 3.60136 3.52758 3.72113 2.18982 2.18860 2.53033 3.53305 3.20948 3.91958 2.97358 2.55772 2.82220 2.87846 2.60815 5.00528 3.76042 21 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78965 4.51200 0.61958 0.77255 0.58158 0.81875\n- 4 2.92565 4.33882 4.36797 3.85743 3.23391 4.12589 4.60214 1.65115 3.74592 1.91827 3.21774 4.12936 4.47831 4.02333 3.98514 3.48487 3.19457 1.30165 5.22802 3.98626 22 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78965 4.51200 0.61958 0.77255 0.58158 0.81875\n- 5 2.19564 4.12987 3.22087 2.93394 4.05535 2.91639 4.02212 3.37751 2.94663 3.14062 4.02023 3.16142 3.63024 3.29143 3.25807 1.64852 2.01945 2.93762 5.42703 4.17946 23 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78965 4.51200 0.61958 0.77255 0.58158 0.81875\n- 6 2.48494 3.76202 2.96778 2.56532 3.87539 3.22850 3.70793 3.31852 2.50754 2.98011 3.84867 2.03087 3.75554 2.70460 2.87577 2.58482 2.79693 2.99073 5.20745 3.88984 24 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78965 4.51200 0.61958 0.77255 0.58158 0.81875\n- 7 2.37223 4.21633 3.35837 3.10926 3.89932 3.05763 4.13240 3.01653 3.05055 2.88283 3.94067 3.33043 3.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03558 3.74967 4.47202 0.61958 0.77255 0.57912 0.82187\n- 594 2.56211 4.70080 2.55990 2.35295 3.92663 3.26511 3.62366 3.41036 2.29582 3.04586 3.88765 2.68375 3.74843 2.80058 2.87485 2.60463 2.27908 3.08652 5.29433 3.96464 618 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03558 3.74967 4.47202 0.61958 0.77255 0.57912 0.82187\n- 595 2.61645 4.29859 3.49306 2.94227 2.99777 3.57106 3.26699 2.68259 2.80358 2.34450 2.59987 3.31021 3.94725 3.15306 3.11273 2.83970 2.84811 2.52339 4.54721 2.73803 619 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03558 3.74967 4.47202 0.61958 0.77255 0.57912 0.82187\n- 596 2.73639 5.13069 1.82132 2.00570 4.33634 3.19117 2.83030 3.87189 2.52063 3.41534 4.25515 2.67566 3.74421 2.78291 3.02804 2.67686 3.00151 3.49935 5.56678 4.12870 620 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03996 3.74967 4.15734 0.61958 0.77255 0.57912 0.82187\n- 597 2.76724 5.21502 2.01271 1.68719 4.49871 3.15578 3.63104 3.97900 2.53637 3.51589 4.35752 2.28974 3.73767 2.79502 3.09452 2.68917 3.04228 3.58912 5.69590 4.24742 621 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74544 4.46778 0.61958 0.77255 0.58222 0.81793\n- 598 2.82964 4.29976 4.12672 3.60586 2.32805 3.81930 4.16243 1.77022 3.49320 1.84788 3.10802 3.85983 4.27596 3.73652 3.71691 3.24893 3.08273 2.00967 4.71672 3.34122 622 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74544 4.46778 0.61958 0.77255 0.58222 0.81793\n- 599 2.95611 4.36762 4.35858 3.82376 3.24783 4.15802 4.56908 1.47040 3.68285 1.74206 2.77979 4.11923 4.46971 3.95873 3.91330 3.50181 3.20920 1.70186 5.17864 3.99994 623 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74544 4.46778 0.61958 0.77255 0.58222 0.81793\n- 600 2.97157 4.38735 4.32935 3.78194 2.87705 4.15978 4.46358 1.85356 3.67684 1.44354 2.99821 4.08262 4.44460 3.90322 3.90484 3.48321 3.21100 1.71554 5.01500 3.79192 624 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74544 4.46778 0.61958 0.77255 0.58222 0.81793\n- 601 2.14587 4.10501 3.18324 2.90720 4.03815 2.89003 4.00173 3.34083 2.92459 3.11506 3.99848 3.13489 3.60620 3.27118 3.23374 1.67595 2.14367 2.90416 5.41190 4.16568 625 s - - -\n- 2.68622 4.42229 2.77524 2.73104 3.46324 2.40517 3.72499 3.29346 2.67745 2.69359 4.24694 2.90351 2.73744 3.18114 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.17007 1.85538 * 0.88574 0.53172 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_DUF__DUF4297.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_DUF__DUF4297.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1211 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Her_DUF__DUF4297\n-LENG 396\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:47 2021\n-NSEQ 100\n-EFFN 0.900269\n-CKSUM 2858818507\n-GA 20 20;\n-STATS LOCAL MSV -11.4740 0.69931\n-STATS LOCAL VITERBI -12.3675 0.69931\n-STATS LOCAL FORWARD -5.7186 0.69931\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67191 4.27202 2.88420 2.62955 3.05347 3.18191 3.63567 2.65261 2.57018 2.43420 3.71265 3.02221 3.68435 3.01158 2.99182 2.70981 2.90374 2.68286 4.76330 3.13985\n- 2.68624 4.42176 2.77523 2.73135 3.46357 2.40523 3.72495 3.29344 2.67730 2.69349 4.24508 2.90343 2.73740 3.18158 2.89811 2.37898 2.77522 2.98525 4.58489 3.61484\n- 0.23427 1.64236 4.17809 1.23652 0.34304 0.00000 *\n- 1 2.57560 4.27225 3.59784 3.04956 3.46712 3.52804 3.91257 2.75054 2.91884 2.48937 1.93094 3.39689 3.96538 3.26598 3.05999 2.63146 2.52164 2.43560 4.93966 3.71861 39 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03161 4.09836 4.23262 0.61958 0.77255 0.49277 0.94400\n- 2 2.90879 5.34197 1.18292 2.21249 4.48738 3.29372 3.78538 4.12567 2.76668 3.66620 4.52022 2.52341 3.88487 2.96494 3.31808 2.83364 3.19331 3.73423 5.75967 3.77608 40 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09189 4.81423 0.61958 0.77255 0.50008 0.93263\n- 3 3.26928 5.08210 3.78388 3.25585 4.49320 3.70785 4.00682 4.05495 2.35770 3.53114 4.53032 3.59629 4.20405 3.22039 0.68958 3.34582 3.52301 3.77057 5.48975 4.37805 41 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09189 4.81423 0.61958 0.77255 0.50008 0.93263\n- 4 2.50685 4.57826 2.71404 2.62672 4.33182 3.16262 3.94257 3.76962 2.85060 3.40572 4.23560 2.87717 3.80191 3.14366 3.27681 1.25368 2.68615 3.32272 5.62377 4.30632 42 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09189 4.81423 0.61958 0.77255 0.50008 0.93263\n- 5 0.73850 4.31611 3.69908 3.50720 4.28424 3.13354 4.50136 3.44361 3.52949 3.31455 4.32675 3.59694 3.89410 3.85135 3.76085 2.66683 2.95974 3.05940 5.68909 4.51585 43 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09189 4.81423 0.61958 0.77255 0.50008 0.93263\n- 6 2.92870 4.34078 4.47918 3.96095 3.61028 4.13920 4.69489 1.64928 3.85483 2.27666 3.45887 4.19385 4.52546 4.13661 4.08471 3.49549 2.58101 1.14280 5.38884 4.18034 44 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02513 4.09189 4.81423 0.61958 0.77255 0.50008 0.93263\n- 7 2.57521 5.33293 1.18211 2.20014 4.73866 3.24846 3.83096 4.23555 2.84024 3.78251 4.63142 2.433'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 389 2.98294 4.41592 4.36180 3.82319 1.61548 4.08922 4.23742 2.19558 3.69282 1.67251 3.10665 4.03658 4.41006 3.89149 3.87400 3.41032 2.96102 2.27854 4.69519 3.30841 456 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 390 2.25974 4.87983 2.71989 2.18944 4.15477 3.36863 3.60962 3.58537 2.34801 3.04107 3.96382 2.62738 3.78719 2.74851 2.87659 2.28760 2.83925 3.09735 5.38083 4.02371 457 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 391 2.71871 4.04528 1.48445 2.14028 4.34490 3.30195 3.71932 3.75121 2.59642 3.36788 4.20155 2.84778 3.82551 2.87824 3.09352 2.70681 2.99241 3.39127 5.58122 4.19436 458 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 392 3.14976 4.52980 4.54505 4.16850 3.47969 4.22548 4.87070 0.90848 3.99952 2.03751 3.39427 4.39299 4.64439 4.33378 4.17914 3.73743 3.44716 1.86153 5.40004 4.14976 459 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 393 2.79240 4.97231 3.14339 2.57986 4.31619 3.51334 3.61919 3.70971 1.39465 3.24684 3.73922 2.86488 3.90982 2.76068 2.33471 2.71182 3.00494 3.37932 5.39299 4.12569 460 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 394 2.73339 5.22126 2.29025 1.71879 4.52880 2.91295 3.63864 4.00933 2.21194 3.50872 4.29293 2.77595 3.80067 2.54912 2.96910 2.57420 2.98112 3.59564 5.66435 4.23780 461 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 395 3.17202 4.48590 4.81498 4.27053 3.33196 4.50320 4.90886 1.17372 4.14252 1.63090 2.87894 4.51918 4.74100 4.34153 4.31220 3.85784 3.41147 1.75071 5.34033 4.20560 462 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02694 4.02337 4.74571 0.61958 0.77255 0.51342 0.91241\n- 396 3.10921 4.42285 4.81956 4.32666 3.57176 4.45684 5.04007 1.22182 4.21321 2.06814 3.37619 4.54342 4.76974 4.47701 4.40961 3.84797 3.37652 1.23521 5.54670 4.34263 463 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01821 4.01464 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_DUF__HerA_DUF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_DUF__HerA_DUF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1748 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Her_DUF__HerA_DUF\n-LENG 575\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:48 2021\n-NSEQ 100\n-EFFN 0.613403\n-CKSUM 1535585040\n-GA 20 20;\n-STATS LOCAL MSV -11.8274 0.69740\n-STATS LOCAL VITERBI -12.9226 0.69740\n-STATS LOCAL FORWARD -5.9208 0.69740\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61694 4.46135 2.87325 2.61094 3.23083 2.99788 3.74414 2.67822 2.62617 2.43333 3.74063 2.96511 3.39468 3.12783 2.99102 2.62382 2.92360 2.60515 4.66492 3.46995\n- 2.68617 4.42229 2.77524 2.73124 3.46358 2.40515 3.72499 3.29355 2.67745 2.69359 4.24555 2.90339 2.73744 3.18151 2.89805 2.37888 2.77519 2.98517 4.58481 3.61507\n- 0.30283 1.88245 2.21587 0.73274 0.65507 0.00000 *\n- 1 2.49216 4.30503 3.33665 2.76295 3.45635 3.48394 3.73353 2.70427 2.61510 2.49447 2.49714 3.15921 3.87335 2.92280 3.01192 2.64410 2.73526 2.56898 4.88434 3.58724 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03218 3.84825 4.57059 0.61958 0.77255 0.49092 0.94691\n- 2 2.54747 4.59438 3.01984 2.38009 3.79894 3.31588 3.62832 3.00469 2.41857 2.79470 3.26603 2.81608 3.69194 2.78042 2.90336 2.36384 2.68936 2.88522 5.12787 3.82859 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03021 3.91053 4.63287 0.61958 0.77255 0.51866 0.90465\n- 3 2.51472 4.89938 2.73545 2.14330 4.18144 3.35634 3.55821 3.55772 2.29761 3.17527 3.83086 2.71081 3.67990 2.62686 2.47565 2.52570 2.69158 3.22573 5.37127 4.00893 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03005 3.91555 4.63790 0.61958 0.77255 0.50251 0.92889\n- 4 2.50013 4.75781 2.83279 2.26547 3.99749 3.33967 3.52280 3.23946 2.35074 2.96644 3.59153 2.52734 3.71858 2.69825 2.84520 2.54013 2.72374 2.98890 5.25988 3.89957 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92804 4.65039 0.61958 0.77255 0.51017 0.91727\n- 5 2.57910 5.01217 2.52558 1.96998 4.30597 3.26059 3.58771 3.70367 2.31067 3.29909 4.08682 2.43880 3.65269 2.69522 2.87593 2.52539 2.69489 3.33779 5.48437 4.09503 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92804 4.65039 0.61958 0.77255 0.51017 0.91727\n- 6 2.66407 5.09787 2.26372 2.05967 4.40496 3.23387 3.58505 3.78538 1.97172 3.33652 4.16328 2.70029 3.77019 2.65030 2.79257 2.62399 2.90290 3.47086 5.54096 4.14404 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92804 4.65039 0.61958 0.77255 0.50051 0.93197\n- 7 2.61373 4.19791 3.73463 3.17022 3.30131 3.65499 3.95308 1.80630 3.05327 2.15555 3.17825 3.38'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94230 4.66465 0.61958 0.77255 0.49655 0.93809\n- 568 2.42665 5.01405 2.53760 2.13015 4.31501 3.33179 3.59859 3.75940 1.90887 3.30052 4.09675 2.82591 3.78142 2.68060 2.82407 2.49877 2.82863 3.38543 5.48375 4.10876 604 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94230 4.66465 0.61958 0.77255 0.49655 0.93809\n- 569 3.13614 4.47296 4.69841 4.17718 3.30324 4.42385 4.84161 1.23912 4.02179 1.55322 3.13180 4.43504 4.69210 4.26746 4.20832 3.79192 3.38552 1.74977 5.30615 4.12429 605 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94230 4.66465 0.61958 0.77255 0.49655 0.93809\n- 570 2.72354 4.65320 3.28671 2.71629 3.85616 3.53903 3.68265 2.34740 1.76238 2.82322 3.74102 3.15376 3.92865 2.85569 2.48353 2.83159 2.94290 2.90543 5.15363 3.90576 606 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94230 4.66465 0.61958 0.77255 0.49655 0.93809\n- 571 2.61096 5.08417 2.45688 1.89300 4.38706 3.31649 3.59288 3.76673 2.06685 3.36808 4.15344 2.62361 3.77296 2.68518 2.85441 2.59935 2.80012 3.45474 5.53630 4.14001 607 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94230 4.66465 0.61958 0.77255 0.49655 0.93809\n- 572 2.55726 4.83973 2.84876 1.93925 4.10635 3.28737 3.60424 3.31587 2.36600 2.99386 3.92699 2.89961 3.79209 2.38995 2.80248 2.60346 2.75930 3.18212 5.33778 3.99981 608 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94230 4.66465 0.61958 0.77255 0.49655 0.93809\n- 573 3.45308 4.80270 4.19890 3.92230 2.73973 3.80916 3.98724 3.47972 3.64305 2.86252 4.11028 4.05728 4.33275 4.02705 3.75909 3.65611 3.75703 3.37199 0.75553 2.73819 609 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02925 3.94230 4.66465 0.61958 0.77255 0.49274 0.94404\n- 574 2.55724 4.39798 3.07393 2.51399 3.71304 3.18526 3.41140 3.08972 2.43027 2.66470 3.62629 3.03888 3.82571 2.87154 2.93900 2.34865 2.78939 2.83949 5.07061 2.92706 610 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02918 3.94470 4.66704 0.61958 0.77255 0.49423 0.94171\n- 575 2.67105 4.91376 2.94281 2.47147 4.21341 3.44810 3.58353 3.51749 1.62730 3.17351 3.99400 2.96757 3.84095 2.69764 2.33790 2.64673 2.91153 3.24926 5.34905 3.91832 611 k - - -\n- 2.68620 4.42227 2.77519 2.73126 3.46356 2.40515 3.72494 3.29356 2.67740 2.69357 4.24692 2.90345 2.73742 3.18142 2.89799 2.37874 2.77521 2.98521 4.58479 3.61506\n- 0.22768 1.59151 * 0.27703 1.41896 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_SIR__HerA_SIR2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_SIR__HerA_SIR2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1835 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Her_SIR__HerA_SIR2\n-LENG 604\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:47 2021\n-NSEQ 100\n-EFFN 0.534058\n-CKSUM 604823652\n-GA 43 43;\n-STATS LOCAL MSV -11.5471 0.69720\n-STATS LOCAL VITERBI -12.9038 0.69720\n-STATS LOCAL FORWARD -6.2150 0.69720\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50025 4.32715 2.92975 2.71180 3.27110 2.82498 3.75392 2.77655 2.72536 2.36509 3.68245 3.06922 3.37625 3.13595 2.92356 2.63104 2.91419 2.62954 4.51963 3.49874\n- 2.68618 4.42222 2.77520 2.73123 3.46353 2.40512 3.72495 3.29354 2.67740 2.69354 4.24687 2.90346 2.73740 3.18147 2.89800 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.18596 3.77683 1.91872 0.73480 0.65316 0.00000 *\n- 1 2.87801 4.44836 3.91888 3.50699 3.16351 3.74165 4.27082 2.32729 3.28016 1.78089 1.63641 3.79844 4.20521 3.67254 3.49914 3.21243 3.18282 2.31798 4.98548 3.73389 13 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03557 3.74972 4.47207 0.61958 0.77255 0.60634 0.78822\n- 2 2.23909 4.20599 2.97873 2.75829 4.06489 2.91784 3.93741 3.50742 2.84062 3.21986 4.08538 2.87626 3.62439 3.19624 3.16770 1.52136 2.57990 3.04558 5.41766 4.12287 14 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03557 3.74972 4.47207 0.61958 0.77255 0.60634 0.78822\n- 3 2.69752 4.59401 3.14218 2.67794 3.07198 3.48714 2.44065 3.17163 2.48782 2.48782 3.71223 2.98350 3.90117 2.94762 2.81360 2.79382 2.93275 2.92784 4.58228 2.94517 15 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03557 3.74972 4.47207 0.61958 0.77255 0.42036 1.06946\n- 4 2.77614 4.29549 3.97130 3.44734 1.93315 3.79756 3.93378 2.48411 3.32340 2.03055 2.41229 3.48026 4.17012 3.57729 3.54921 3.10889 3.02175 2.38800 4.49496 3.05485 16 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89442 4.61677 0.61958 0.77255 0.48816 0.95128\n- 5 2.58217 4.67715 3.02074 2.49079 3.73935 3.39157 3.62250 3.23218 1.91325 2.90533 3.80321 2.87121 3.80524 2.79658 2.75886 2.34562 2.78106 3.02503 5.20968 3.90276 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89442 4.61677 0.61958 0.77255 0.48816 0.95128\n- 6 2.70575 4.23235 3.90282 3.34264 2.94458 3.76078 3.88782 2.19404 3.21608 1.59833 3.16647 3.62790 4.11464 3.48748 3.45857 2.97116 2.93805 2.31938 4.61571 2.93010 18 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 3.89442 4.61677 0.61958 0.77255 0.48816 0.95128\n- 7 2.61210 4.82438 2.64502 2.11767 4.20325 3.26610 3.66358 3.62734 2.45404 3.22029 4.04595 2.55'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 597 0.97901 4.20400 3.48723 3.27942 4.07654 3.02793 4.29861 3.20570 3.29630 3.08620 4.11517 3.42292 3.76944 3.63518 3.54527 2.55400 2.83304 2.85586 5.50124 4.30417 630 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 598 2.33936 4.39893 3.19826 2.66907 3.62851 3.40515 3.72000 2.74149 2.57085 2.68206 3.55712 2.81615 3.83071 2.92269 3.01471 2.39604 2.77290 2.39218 5.02057 3.75841 631 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 599 3.41969 4.73002 4.40757 4.04652 1.31850 4.21911 3.45082 3.12783 3.90770 2.49490 3.74212 3.93164 4.54279 3.95248 3.99887 3.57774 3.64731 3.04976 3.62455 1.39080 632 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 600 1.68561 4.12255 3.39515 3.07481 4.12086 2.93240 4.12238 3.42767 3.08643 3.19952 4.06651 3.25053 3.65967 3.39846 3.39730 1.51333 2.66532 2.85147 5.49859 4.26929 633 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 601 2.72841 5.10403 2.44348 1.73066 4.39903 3.28599 3.59090 3.85383 2.39283 3.38994 4.20617 2.77370 3.78956 2.40487 2.89082 2.35954 2.97852 3.47939 5.56935 4.17884 634 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 602 2.55640 4.67029 2.82549 1.89234 3.90306 3.39631 3.68024 2.71523 2.51564 2.88987 3.77769 2.97534 3.82915 2.86460 2.95052 2.67975 2.85178 2.72717 5.24638 3.93084 635 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 603 3.37597 4.74201 4.12843 3.84042 2.69089 3.75742 3.92959 3.40040 3.56201 2.79115 4.03309 3.98448 4.27715 3.94835 3.68612 3.57945 3.67756 3.29142 0.83727 2.69167 636 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03063 3.89699 4.61933 0.61958 0.77255 0.48576 0.95510\n- 604 2.42753 4.76135 3.01950 2.45879 4.06611 3.39974 3.60344 3.46243 2.07651 3.05732 3.76521 2.97014 3.81114 2.75995 2.34813 2.23265 2.85245 3.14153 5.27840 3.98198 637 k - - -\n- 2.68623 4.42106 2.77525 2.73109 3.46366 2.40520 3.72495 3.29361 2.67748 2.69349 4.24702 2.90337 2.73741 3.18144 2.89799 2.37896 2.77506 2.98520 4.58489 3.61515\n- 0.21298 1.65114 * 1.37848 0.29030 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_SIR__SIR2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Her_SIR__SIR2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1268 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Her_SIR__SIR2\n-LENG 415\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:46 2021\n-NSEQ 100\n-EFFN 0.527954\n-CKSUM 4065551061\n-GA 34 34;\n-STATS LOCAL MSV -11.5367 0.69903\n-STATS LOCAL VITERBI -12.4524 0.69903\n-STATS LOCAL FORWARD -5.5778 0.69903\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56454 4.40028 2.98099 2.71520 3.10623 2.76338 3.62180 2.76776 2.72789 2.36211 3.71673 3.01779 3.47999 3.09116 3.05218 2.69565 2.92765 2.62277 4.66547 3.29406\n- 2.68618 4.42225 2.77519 2.73123 3.46353 2.40513 3.72494 3.29354 2.67741 2.69355 4.24687 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07733 3.76124 2.97282 0.62146 0.77038 0.00000 *\n- 1 2.95218 4.50453 4.02586 3.61786 3.19859 3.81763 4.35812 2.37200 3.38706 1.79679 1.42091 3.89801 4.27829 3.77051 3.59493 3.29888 3.25715 2.37551 5.03634 3.79605 3 m - - -\n- 2.68621 4.42228 2.77514 2.73125 3.46357 2.40516 3.72498 3.29357 2.67740 2.69358 4.24693 2.90321 2.73743 3.18150 2.89804 2.37878 2.77523 2.98522 4.58480 3.61507\n- 0.17480 1.89681 4.57274 0.69904 0.68729 0.52348 0.89761\n- 2 2.47471 3.83340 3.77290 3.20465 2.69227 3.58888 3.92742 2.33799 3.11860 2.15325 3.21602 3.49996 3.98176 3.38359 3.38237 2.60310 2.70663 2.09286 4.75194 3.53743 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03211 3.85039 4.57274 0.61958 0.77255 0.52348 0.89761\n- 3 3.01395 4.43915 4.30382 3.91898 3.35959 4.04229 4.65138 1.10568 3.74667 1.95043 3.29868 4.16744 4.47585 4.09739 3.94579 3.53567 3.31361 1.84601 5.24567 3.98188 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03211 3.85039 4.57274 0.61958 0.77255 0.52348 0.89761\n- 4 3.21568 4.71360 3.80586 3.53133 2.29447 3.80458 3.60895 3.22802 3.38948 2.68759 3.90541 3.69660 4.27906 3.70082 3.57762 3.35449 3.50232 3.09756 3.93730 1.00330 9 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03211 3.85039 4.57274 0.61958 0.77255 0.52348 0.89761\n- 5 2.86379 4.84833 2.88891 2.64361 4.01389 3.35176 3.80162 3.64153 2.46600 3.14605 4.17483 3.10304 3.90509 1.27383 2.75048 2.91261 3.16091 3.37267 5.28996 3.98234 10 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03211 3.85039 4.57274 0.61958 0.77255 0.52348 0.89761\n- 6 2.63814 4.41546 3.30736 3.20412 4.34626 0.76401 4.32550 3.94074 3.38236 3.59759 4.57335 3.47173 3.80588 3.70831 3.62059 2.80946 3.11767 3.47334 5.44700 4.44751 11 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03211 3.85039 4.57274 0.61958 0.77255 0.52348 0.89761\n- 7 2.63814 4.41546 3.30736 3.20412 4.34626 0.76401 4.32550 3.94074 3.38236 3.59759 4.57335 3.47173 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88048 4.60283 0.61958 0.77255 0.49685 0.93763\n- 408 2.84110 4.99760 3.07009 2.56664 4.30624 3.49763 3.58657 3.70821 1.50938 3.04794 4.09526 3.02851 3.90608 2.28718 2.29940 2.84752 3.04531 3.39765 5.36455 4.10603 422 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88048 4.60283 0.61958 0.77255 0.49685 0.93763\n- 409 2.36126 4.37279 2.89840 2.66933 4.22308 1.75564 3.92204 3.66033 2.66349 3.30942 4.14995 3.03908 3.69798 3.14631 3.17536 2.00278 2.78082 3.19605 5.52234 4.24170 423 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88048 4.60283 0.61958 0.77255 0.49685 0.93763\n- 410 2.76072 5.17464 2.23136 1.65976 4.47398 2.46105 3.65722 3.94088 2.49782 3.47785 4.30350 2.71728 3.78071 2.70234 3.05760 2.70186 3.02668 3.55525 5.66499 4.24182 424 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88048 4.60283 0.61958 0.77255 0.49685 0.93763\n- 411 2.59392 4.74309 2.58258 2.38417 4.30066 1.99936 3.75808 3.76098 2.46201 3.35774 4.20086 2.17104 3.76455 2.94443 3.00996 2.63325 2.93002 3.35648 5.54226 4.19928 425 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05112 3.88048 3.53369 0.61958 0.77255 0.49685 0.93763\n- 412 2.73972 5.02957 2.64369 2.31983 4.29072 3.34476 3.21327 3.76860 2.19549 3.30214 4.13121 2.09546 3.81374 2.33771 2.65231 2.71796 2.97457 3.41685 5.44424 4.09209 426 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05201 3.86112 3.51870 0.61958 0.77255 0.51415 0.91132\n- 413 2.65751 4.27715 3.35985 3.00737 3.46921 3.67499 4.03083 1.95950 3.05356 2.35558 3.39386 3.48468 4.07565 3.37425 3.37959 2.97598 2.91033 1.65702 5.03733 3.79675 427 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15300 3.84151 2.11686 0.61958 0.77255 0.53105 0.88670\n- 414 1.94544 4.19184 3.10326 2.77904 3.95257 2.98113 3.89519 3.27150 2.79197 2.92689 3.89750 3.08596 2.40150 3.14615 3.13115 2.29279 2.66589 2.88267 5.32179 4.06131 428 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72499 4.44734 0.61958 0.77255 0.62003 0.77203\n- 415 3.07838 4.52669 4.03217 3.72431 1.28964 3.79155 3.82771 2.62699 3.63619 2.03526 3.38406 3.85530 4.25840 3.84730 3.79242 3.35243 3.38201 2.60544 4.13187 2.52203 429 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 3.71321 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Hhe__HheA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Hhe__HheA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5756 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Hhe__HheA\n-LENG 1911\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:53 2021\n-NSEQ 100\n-EFFN 0.393677\n-CKSUM 3237228560\n-GA 750 750;\n-STATS LOCAL MSV -13.3372 0.69442\n-STATS LOCAL VITERBI -14.9495 0.69442\n-STATS LOCAL FORWARD -7.9626 0.69442\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50996 4.20453 2.84075 2.68346 3.30907 2.83847 3.72081 2.79191 2.75992 2.33469 3.71952 3.12164 3.37420 3.11022 2.90138 2.64865 2.95649 2.65266 4.57470 3.48228\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72494 3.29353 2.67741 2.69355 4.24687 2.90346 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.03753 3.65548 4.51117 0.64791 0.74052 0.00000 *\n- 1 2.90630 4.46931 3.96053 3.54961 3.17595 3.77153 4.30424 2.34340 3.32148 1.78520 1.54852 3.83684 4.23343 3.71001 3.53624 3.24576 3.21089 2.33927 5.00443 3.75764 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 2 2.27782 4.19583 3.13743 2.95162 3.99392 2.92743 4.06268 3.50624 3.01959 3.23388 4.16870 3.18841 3.65982 3.37607 3.30665 1.22471 2.75210 3.05985 5.37369 4.07753 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 3 2.37185 4.21594 3.35769 3.10859 3.89864 3.05725 4.13178 3.01575 3.04987 2.88208 3.94001 3.32987 3.75527 3.44953 3.31119 2.57244 1.32230 2.71973 5.34402 4.11597 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 4 2.74250 4.31067 4.00733 3.67020 3.49142 3.63467 4.48712 2.06292 3.53657 2.19481 3.47178 3.87274 4.20151 3.90347 3.75666 3.13479 3.10716 1.13797 5.26087 3.98619 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 5 2.90331 5.01204 1.04601 2.29096 4.37882 3.15047 3.86327 3.94874 2.93256 3.57318 4.55173 2.84210 3.79767 3.10400 3.43543 2.87685 3.24096 3.59769 5.56355 4.26854 9 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 6 2.37185 4.21594 3.35769 3.10859 3.89864 3.05725 4.13178 3.01575 3.04987 2.88208 3.94001 3.32987 3.75527 3.44953 3.31119 2.57244 1.32230 2.71973 5.34402 4.11597 10 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 7 2.27782 4.19583 3.13743 2.95162 3.99392 2.92743 4.06268 3.50624 3.01959 3.23388 4.16870 3.18841 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1904 1.14162 4.15437 3.38066 3.17070 3.97174 2.98058 4.20222 3.08510 3.18483 2.97019 4.01337 3.34052 3.71213 3.53433 3.43971 2.50646 2.77813 2.75422 5.40743 4.19882 1908 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1905 1.14162 4.15437 3.38066 3.17070 3.97174 2.98058 4.20222 3.08510 3.18483 2.97019 4.01337 3.34052 3.71213 3.53433 3.43971 2.50646 2.77813 2.75422 5.40743 4.19882 1909 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1906 3.15507 4.58241 4.12301 3.82358 1.15950 3.86052 3.84587 2.69133 3.73315 2.08196 3.43548 3.92611 4.32264 3.92492 3.87352 3.42805 3.45702 2.67545 4.12358 2.50265 1910 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1907 2.88452 4.97195 2.45973 1.15094 4.30840 3.22304 3.80573 3.74571 2.67596 3.37750 4.35773 2.89248 3.82440 3.02478 3.07416 2.87709 3.18897 3.43917 5.49604 4.22096 1911 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1908 2.27782 4.19583 3.13743 2.95162 3.99392 2.92743 4.06268 3.50624 3.01959 3.23388 4.16870 3.18841 3.65982 3.37607 3.30665 1.22471 2.75210 3.05985 5.37369 4.07753 1912 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1909 2.88452 4.97195 2.45973 1.15094 4.30840 3.22304 3.80573 3.74571 2.67596 3.37750 4.35773 2.89248 3.82440 3.02478 3.07416 2.87709 3.18897 3.43917 5.49604 4.22096 1913 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1910 3.06337 4.55179 4.05381 3.69571 3.10777 3.87351 4.37775 2.31026 3.46417 0.98580 3.16129 3.97898 4.32493 3.85267 3.65297 3.43804 3.36240 2.32539 4.95428 3.65753 1914 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1911 1.14162 4.15437 3.38066 3.17070 3.97174 2.98058 4.20222 3.08510 3.18483 2.97019 4.01337 3.34052 3.71213 3.53433 3.43971 2.50646 2.77813 2.75422 5.40743 4.19882 1915 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02314 3.77777 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Iet__IetA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Iet__IetA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1184 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Iet__IetA\n-LENG 387\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:01 2021\n-NSEQ 100\n-EFFN 0.680542\n-CKSUM 836601708\n-GA 100 100;\n-STATS LOCAL MSV -11.7201 0.69945\n-STATS LOCAL VITERBI -12.1210 0.69945\n-STATS LOCAL FORWARD -5.7586 0.69945\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44077 4.41023 2.90559 2.71328 3.44339 2.97251 3.85389 2.76651 2.73333 2.26939 3.63043 3.10826 3.47148 3.08692 2.81748 2.63251 2.86685 2.61176 4.74889 3.66380\n- 2.68617 4.42227 2.77523 2.73126 3.46357 2.40516 3.72497 3.29351 2.67735 2.69353 4.24622 2.90347 2.73746 3.18144 2.89798 2.37890 2.77521 2.98517 4.58484 3.61505\n- 0.17971 2.42330 2.57886 1.33654 0.30483 0.00000 *\n- 1 3.01669 4.47862 4.33100 3.78976 2.99585 4.12903 4.46296 2.18536 3.64749 1.61009 1.64714 4.08172 4.44314 3.88844 3.86282 3.46204 3.26488 2.06071 5.02455 3.82956 39 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02964 3.92932 4.65167 0.61958 0.77255 0.55282 0.85643\n- 2 2.87206 5.40626 1.64946 1.50884 4.70169 3.20465 3.71577 4.20369 2.69757 3.71390 4.55424 2.67223 3.57827 2.87685 3.27251 2.77065 3.15410 3.78537 5.87770 4.39319 40 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02964 3.92932 4.65167 0.61958 0.77255 0.55282 0.85643\n- 3 2.95511 4.61767 3.63681 3.15228 2.16690 3.80104 2.60572 3.18448 3.07701 2.72949 3.74679 3.06231 4.16983 3.35185 3.38633 3.08239 3.18356 2.98130 3.98829 1.63858 41 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02964 3.92932 4.65167 0.61958 0.77255 0.55282 0.85643\n- 4 3.22419 4.59438 4.64385 4.09150 3.08237 4.43495 4.72740 1.94171 3.91296 0.97112 2.72460 4.38917 4.65247 4.12010 4.08726 3.78117 3.45362 2.15234 5.13882 4.01394 42 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02964 3.92932 4.65167 0.61958 0.77255 0.55282 0.85643\n- 5 2.34315 4.26433 3.25599 3.07433 4.13296 2.99316 4.18265 3.66322 3.15192 3.37905 4.30036 3.29007 3.73664 3.49679 3.43625 1.00849 2.82752 3.18590 5.50090 4.21677 43 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02964 3.92932 4.65167 0.61958 0.77255 0.55282 0.85643\n- 6 3.00129 5.12396 2.51180 0.94722 4.47732 3.31078 3.90245 3.94251 2.79012 3.55048 4.52195 2.96538 3.91804 3.11688 3.20489 2.97788 3.30594 3.62047 5.63819 4.36040 44 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02964 3.92932 4.65167 0.61958 0.77255 0.54780 0.86327\n- 7 3.03493 4.38167 4.65007 4.14384 3.49979 4.33355 4.87576 1.45836 4.02293 2.01770 3.28192 4.38437 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02913 3.94633 4.66867 0.61958 0.77255 0.53720 0.87799\n- 380 2.71013 5.02141 2.93452 2.17516 4.35272 3.43086 3.56935 3.77070 1.88974 3.28427 4.08752 2.92472 3.83035 2.24219 2.38436 2.69663 2.83178 3.28360 5.42952 4.11308 418 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02913 3.94633 4.66867 0.61958 0.77255 0.53720 0.87799\n- 381 2.60123 4.92292 2.72830 1.98051 4.19946 2.85117 3.58008 3.51912 2.24594 3.19685 3.99069 2.85311 3.76986 2.64708 2.77707 2.52017 2.78346 3.27782 5.39744 3.84349 419 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03199 3.94633 4.41009 0.61958 0.77255 0.53720 0.87799\n- 382 2.55363 4.41850 2.84901 2.39240 3.86536 3.11339 3.24753 3.19290 2.34142 2.86020 3.77446 2.92322 3.78543 2.75262 2.62453 2.49970 2.78468 3.02308 5.08181 3.58636 420 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05540 3.94355 3.36648 0.61958 0.77255 0.53978 0.87437\n- 383 2.50741 4.75129 2.79568 2.36317 3.99407 3.27709 3.51800 3.26391 2.36110 2.95851 3.82844 2.91090 3.47815 2.67518 2.72630 2.43329 2.47887 3.06868 5.25771 3.92468 421 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04350 3.91813 3.78596 0.61958 0.77255 0.56283 0.84303\n- 384 2.54746 4.39139 2.94746 2.43327 3.70544 3.08402 3.57768 3.25445 2.34392 2.88816 3.72267 2.96357 3.61650 2.72843 2.55679 2.61392 2.71229 2.68102 5.16333 3.85491 422 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12732 3.90501 2.30856 0.61958 0.77255 0.57430 0.82805\n- 385 2.44274 4.41950 3.16232 2.55273 3.46630 3.39231 3.56403 2.73524 2.50122 2.60666 3.51407 3.04532 3.65637 2.77615 2.92852 2.51205 2.75261 2.65089 4.82281 3.70590 423 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06904 3.81112 3.11025 0.61958 0.77255 0.64883 0.73952\n- 386 2.32332 4.40048 3.07041 2.60108 3.84001 2.99867 3.71310 3.22062 2.49961 2.79077 3.73798 2.96734 3.73394 2.92768 2.85513 2.17583 2.50711 2.83132 5.17426 3.90248 424 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77668 4.49903 0.61958 0.77255 0.67323 0.71347\n- 387 2.44222 4.52531 3.04673 2.44950 3.68438 3.25685 3.61777 2.96121 2.42370 2.71664 3.62595 2.90813 3.36445 2.82031 2.78093 2.55154 2.71255 2.82168 5.07294 3.73014 425 k - - -\n- 2.68600 4.42177 2.77518 2.73118 3.46370 2.40513 3.72501 3.29370 2.67748 2.69369 4.24706 2.90356 2.73732 3.18129 2.89811 2.37874 2.77508 2.98530 4.58493 3.61519\n- 0.34805 1.22440 * 1.38291 0.28881 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Iet__IetS.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Iet__IetS.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2285 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Iet__IetS\n-LENG 754\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:02 2021\n-NSEQ 100\n-EFFN 0.430298\n-CKSUM 849758144\n-GA 50 50;\n-STATS LOCAL MSV -12.0744 0.69638\n-STATS LOCAL VITERBI -13.2074 0.69638\n-STATS LOCAL FORWARD -6.7945 0.69638\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47075 4.34888 2.95313 2.78580 3.36161 2.70870 3.75841 2.74048 2.81877 2.43793 3.77195 3.05767 3.10254 3.28547 2.99129 2.59869 2.85516 2.56164 4.52174 3.50762\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03902 3.81818 4.11670 0.61958 0.77255 0.00000 *\n- 1 2.92375 4.48254 3.98568 3.57571 3.18424 3.78938 4.32478 2.35396 3.34663 1.78900 1.49791 3.86027 4.25062 3.73308 3.55877 3.26610 3.22840 2.35283 5.01641 3.77225 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03337 3.81254 4.53488 0.61958 0.77255 0.49062 0.94738\n- 2 2.26837 4.20496 3.10504 2.91603 4.02344 2.92874 4.04694 3.54938 2.99262 3.27614 4.18175 3.12031 3.66062 3.34737 3.29009 1.24472 2.74057 3.08359 5.40518 4.09105 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03337 3.81254 4.53488 0.61958 0.77255 0.49062 0.94738\n- 3 2.94010 4.78092 3.42487 2.95024 4.12034 3.43792 3.78480 3.65897 2.21902 3.18593 4.18892 3.31393 3.94455 3.00921 1.07417 3.02790 3.21089 3.38583 5.22845 4.06198 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03337 3.81254 4.53488 0.61958 0.77255 0.49062 0.94738\n- 4 2.94010 4.78092 3.42487 2.95024 4.12034 3.43792 3.78480 3.65897 2.21902 3.18593 4.18892 3.31393 3.94455 3.00921 1.07417 3.02790 3.21089 3.38583 5.22845 4.06198 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03337 3.81254 4.53488 0.61958 0.77255 0.49062 0.94738\n- 5 2.53872 4.37321 3.04082 2.99621 4.26902 0.94613 4.18687 3.82405 3.21296 3.50156 4.44553 3.30424 3.74270 3.52806 3.49387 2.69518 3.00531 3.36128 5.42591 4.34627 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03337 3.81254 4.53488 0.61958 0.77255 0.49062 0.94738\n- 6 2.38284 4.22734 3.37716 3.12795 3.91811 3.06819 4.14954 3.03803 3.06971 2.90358 3.95908 3.34605 3.76770 3.46789 3.33049 2.58358 1.27780 2.73943 5.36128 4.13513 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03337 3.81254 4.53488 0.61958 0.77255 0.49062 0.94738\n- 7 2.83587 4.81725 2.86616 2.62146 3.97743 3.32789 3.77872 3.60031 2.44679 3.10850 4.13952 3.08010 3.88'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03703 3.79304 4.28093 0.61958 0.77255 0.50701 0.92204\n- 747 2.64950 4.41806 3.24820 3.07719 4.07536 3.11034 4.15973 3.60154 3.12777 3.23663 4.28456 3.39108 0.99603 3.51919 3.38083 2.81494 3.08512 3.25614 5.28261 4.19567 748 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03414 3.79015 4.51249 0.61958 0.77255 0.50940 0.91844\n- 748 1.48431 4.12805 3.57425 3.22743 3.78977 3.10321 4.18505 2.65614 3.16255 2.66425 3.73491 3.39902 3.78607 3.50248 3.43918 2.54618 2.74724 2.13144 5.34273 4.10435 749 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03721 3.79015 4.27354 0.61958 0.77255 0.50940 0.91844\n- 749 2.91316 4.75372 3.39552 2.92773 4.08669 3.41446 3.76964 3.62443 2.21364 3.15613 4.16085 3.29285 3.92328 2.99624 1.11749 3.00280 3.18633 3.35265 5.20576 4.03488 750 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03424 3.78718 4.50953 0.61958 0.77255 0.51182 0.91479\n- 750 2.83496 4.32531 4.21810 3.76961 3.42168 3.91237 4.56147 1.80532 3.61554 2.03199 3.32261 4.01110 4.36937 3.95721 3.85401 3.31773 3.14732 1.21978 5.28149 4.01507 751 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03424 3.78718 4.50953 0.61958 0.77255 0.51182 0.91479\n- 751 2.54505 4.39926 3.09887 2.90918 3.99445 3.08974 4.03933 3.50885 2.95174 3.13956 4.15955 3.24541 1.24440 3.27874 3.23637 2.69504 2.96923 3.16232 5.29239 4.09244 752 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03754 3.78718 4.25575 0.61958 0.77255 0.50474 0.92549\n- 752 2.74281 4.31086 4.00789 3.67076 3.49169 3.63510 4.48761 2.06283 3.53713 2.19500 3.47197 3.87324 4.20190 3.90400 3.75720 3.13524 3.10746 1.13740 5.26122 3.98657 753 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03417 3.78922 4.51156 0.61958 0.77255 0.51016 0.91729\n- 753 2.15062 3.93203 3.37628 3.03020 4.03708 2.89340 4.04896 3.36137 2.98186 3.12264 3.99198 3.20453 3.55843 3.32513 3.28248 1.49480 2.28215 2.91033 5.41195 4.18027 754 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04337 3.78922 3.92072 0.61958 0.77255 0.51016 0.91729\n- 754 2.65222 4.28160 3.96830 3.62071 3.50644 3.60519 4.46234 2.04768 3.49013 2.19879 3.46062 3.82287 4.17683 3.85616 3.72093 3.07178 3.05668 1.20330 5.28345 4.00724 755 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02334 3.76919 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2066 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Mza__MzaA\n-LENG 681\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:54 2021\n-NSEQ 100\n-EFFN 0.479126\n-CKSUM 1554060312\n-GA 100 100;\n-STATS LOCAL MSV -12.1137 0.69674\n-STATS LOCAL VITERBI -13.2663 0.69674\n-STATS LOCAL FORWARD -6.7660 0.69674\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50277 4.47309 2.78519 2.57897 3.34431 2.94699 3.77762 2.80101 2.77511 2.34476 3.68539 3.16311 3.30623 3.08043 2.85166 2.68245 2.92201 2.66986 4.45989 3.54842\n- 2.68618 4.42222 2.77521 2.73123 3.46354 2.40512 3.72494 3.29352 2.67741 2.69355 4.24681 2.90348 2.73741 3.18144 2.89801 2.37886 2.77521 2.98518 4.58478 3.61501\n- 0.09018 3.46118 2.90330 0.86994 0.54296 0.00000 *\n- 1 2.92961 4.48249 4.02957 3.58239 3.13497 3.86553 4.31982 2.29089 3.34012 1.70123 1.62201 3.87435 4.28962 3.72000 3.55823 3.28638 3.21939 2.29819 5.00036 3.74579 18 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03344 3.81045 4.53280 0.61958 0.77255 0.52502 0.89537\n- 2 2.79492 4.70040 3.03928 2.74602 3.17604 3.39650 1.61796 3.44476 2.56261 2.98050 4.00242 3.15303 3.92624 3.08187 2.84681 2.87260 3.09333 3.09656 4.68526 3.13594 19 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03344 3.81045 4.53280 0.61958 0.77255 0.52502 0.89537\n- 3 2.76860 4.35778 3.45208 2.90591 4.01579 3.40245 3.74744 3.46309 2.21621 3.05375 4.02917 3.25958 3.90299 2.96211 1.27774 2.87513 3.05459 3.18436 5.20901 3.99244 20 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03344 3.81045 4.53280 0.61958 0.77255 0.52502 0.89537\n- 4 2.20684 4.13743 3.24743 2.95036 4.05135 2.93260 4.02993 3.36613 2.95577 3.13280 4.01241 3.17684 3.64302 3.30023 3.26731 1.77136 1.83144 2.93264 5.42505 4.18030 21 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03344 3.81045 4.53280 0.61958 0.77255 0.52502 0.89537\n- 5 2.78046 4.30864 4.33502 3.81982 3.33529 4.08490 4.58988 1.59285 3.71609 2.00388 3.26637 4.09181 4.44953 3.99830 3.96175 3.43843 3.15690 1.33445 5.26807 4.05173 22 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03344 3.81045 4.53280 0.61958 0.77255 0.52502 0.89537\n- 6 2.25531 4.19271 3.11985 2.91909 4.07357 2.92080 4.05325 3.55670 2.99430 3.26676 4.16694 3.16353 3.49407 3.34314 3.29518 1.25446 2.72719 3.08551 5.43774 4.15580 23 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03344 3.81045 4.53280 0.61958 0.77255 0.52502 0.89537\n- 7 2.78346 5.07868 2.49174 1.67610 4.40891 3.20874 3.62359 3.82623 1.98359 3.37662 4.22711 2.80154 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03203 3.85302 4.57537 0.61958 0.77255 0.48847 0.95079\n- 674 2.30578 4.22581 3.18986 3.00495 4.05704 2.95607 4.11524 3.57712 3.07740 3.29893 4.22678 3.23270 3.69331 3.42828 3.36389 1.12075 2.78450 3.11648 5.43113 4.14051 705 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03203 3.85302 4.57537 0.61958 0.77255 0.48847 0.95079\n- 675 2.85551 5.30795 1.92489 1.35493 4.60079 3.18241 3.70697 4.08326 2.68107 3.63259 4.49685 2.67207 3.78825 2.87875 3.22874 2.76684 3.14154 3.69164 5.79293 4.33996 706 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03203 3.85302 4.57537 0.61958 0.77255 0.48847 0.95079\n- 676 2.76773 4.38957 3.87525 3.42831 3.29379 3.69285 4.24315 2.35709 3.21792 1.91350 1.69041 3.71593 4.16794 3.60438 3.45812 3.08739 2.87378 2.29791 5.07630 3.85595 707 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03203 3.85302 4.57537 0.61958 0.77255 0.48847 0.95079\n- 677 2.83359 4.86054 2.86757 2.59977 4.03716 3.35627 3.75297 3.64405 2.38482 3.15184 4.14982 3.06168 3.89474 1.37695 2.64147 2.87471 3.12006 3.36373 5.30328 3.98235 708 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03203 3.85302 4.57537 0.61958 0.77255 0.48847 0.95079\n- 678 2.93599 5.04248 2.48006 1.05335 4.38632 3.26183 3.84722 3.83637 2.72533 3.45672 4.43184 2.92251 3.86555 3.06344 3.13199 2.92050 3.24015 3.52231 5.56157 4.28406 709 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03203 3.85302 4.57537 0.61958 0.77255 0.48847 0.95079\n- 679 2.93599 5.04248 2.48006 1.05335 4.38632 3.26183 3.84722 3.83637 2.72533 3.45672 4.43184 2.92251 3.86555 3.06344 3.13199 2.92050 3.24015 3.52231 5.56157 4.28406 710 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03203 3.85302 4.57537 0.61958 0.77255 0.48847 0.95079\n- 680 2.93599 5.04248 2.48006 1.05335 4.38632 3.26183 3.84722 3.83637 2.72533 3.45672 4.43184 2.92251 3.86555 3.06344 3.13199 2.92050 3.24015 3.52231 5.56157 4.28406 711 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06996 3.85302 3.07151 0.61958 0.77255 0.48847 0.95079\n- 681 2.90621 5.00250 2.46766 1.10811 4.34204 3.23942 3.82294 3.78482 2.69653 3.41158 4.38936 2.90462 3.84172 3.04060 3.09857 2.89515 3.21045 3.47496 5.52433 4.24794 712 e - - -\n- 2.68618 4.42225 2.77519 2.73122 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02967 3.53228 * 0.59465 0.80242 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1523 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Mza__MzaB\n-LENG 500\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:55 2021\n-NSEQ 100\n-EFFN 0.527954\n-CKSUM 3332645613\n-GA 100 100;\n-STATS LOCAL MSV -11.7361 0.69805\n-STATS LOCAL VITERBI -12.8308 0.69805\n-STATS LOCAL FORWARD -6.4776 0.69805\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46485 4.39731 2.88463 2.71987 3.42231 2.83336 3.69574 2.84492 2.73888 2.39846 3.64492 3.14277 3.24090 3.09207 2.82536 2.69425 2.85904 2.65391 4.13900 3.62507\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67737 2.69357 4.24609 2.90345 2.73741 3.18148 2.89803 2.37886 2.77521 2.98520 4.58479 3.61505\n- 0.18432 2.39004 2.56785 0.67030 0.71653 0.00000 *\n- 1 2.61584 4.38059 3.36080 2.76372 3.47165 3.51871 3.77058 2.78638 2.60607 2.40994 2.23695 3.24242 3.92055 2.91658 2.82247 2.81206 2.85470 2.53999 4.94190 3.70268 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03300 3.82339 4.54573 0.61958 0.77255 0.54613 0.86556\n- 2 2.21222 4.32975 3.08186 2.73846 3.94227 3.12617 3.86016 3.23226 2.70069 2.96739 3.86576 3.10068 3.73656 2.84143 3.03803 2.50282 1.78046 2.89294 5.30379 4.04347 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03300 3.82339 4.54573 0.61958 0.77255 0.54613 0.86556\n- 3 2.42717 4.44794 2.92138 2.59617 4.01609 3.01170 3.78041 3.37961 2.46871 3.06185 3.92115 2.78771 3.74099 2.99550 2.94937 2.56251 1.82989 3.02326 5.32554 4.04863 7 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03300 3.82339 4.54573 0.61958 0.77255 0.53854 0.87611\n- 4 2.71553 4.29957 3.84536 3.31156 3.02947 3.72901 4.06596 2.29902 3.17840 1.96324 1.98045 3.62842 4.12338 3.48819 3.44639 2.87826 2.97517 2.26003 4.85119 3.57938 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03282 3.82877 4.55111 0.61958 0.77255 0.54171 0.87168\n- 5 2.95754 4.79823 3.44387 2.96511 4.14176 3.45291 3.79497 3.68108 2.22320 3.20503 4.20709 3.32781 3.95829 3.01812 1.04735 3.04426 3.22692 3.40711 5.24297 4.07936 9 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03282 3.82877 4.55111 0.61958 0.77255 0.54171 0.87168\n- 6 2.94942 4.77335 3.08529 2.84157 3.25583 3.41206 1.23813 3.64549 2.68590 3.14466 4.18479 3.25238 3.96257 3.20745 2.95387 3.02072 3.25161 3.38152 4.72134 3.20807 10 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03282 3.82877 4.55111 0.61958 0.77255 0.54171 0.87168\n- 7 1.07866 4.17161 3.41932 3.20948 4.00987 2.99714 4.23654 3.12894 3.22463 3.01246 4.04979 3.36980 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05049 3.89252 3.54580 0.61958 0.77255 0.48576 0.95510\n- 493 2.91407 5.28460 1.14560 2.06048 4.60565 3.17360 3.78892 4.10814 2.83400 3.69599 4.60632 2.71052 3.81562 2.98390 3.39764 2.83166 3.22649 3.72483 5.81783 4.38361 499 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03137 3.87340 4.59574 0.61958 0.77255 0.50326 0.92775\n- 494 2.77946 5.19997 1.57321 2.13816 4.47142 3.08692 3.67175 3.98129 2.58913 3.51740 4.35577 2.70579 3.78200 2.36626 3.11039 2.71475 3.05425 3.59188 5.68252 4.13143 500 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03137 3.87340 4.59574 0.61958 0.77255 0.50326 0.92775\n- 495 2.66010 4.81360 2.84184 2.37873 4.08204 3.36659 3.62753 3.49792 2.32573 2.89686 3.94485 2.93318 3.10346 1.98197 2.69644 2.69119 2.90473 3.18563 5.31929 4.00126 501 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13003 3.87340 2.29119 0.61958 0.77255 0.50326 0.92775\n- 496 2.66618 4.81863 2.80835 2.40982 4.01006 3.35395 2.94226 3.52122 2.26344 3.09344 3.94689 2.90797 3.60988 2.13067 2.61635 2.69066 2.80950 3.20470 5.25167 3.86903 502 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77793 4.50028 0.61958 0.77255 0.58186 0.81839\n- 497 2.84409 4.99821 2.36354 1.23860 4.32818 3.20195 3.76093 3.76098 2.64066 3.39944 4.34608 2.82627 3.80213 2.96834 3.06094 2.82443 3.14473 3.43839 5.52879 4.21121 503 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77793 4.50028 0.61958 0.77255 0.58186 0.81839\n- 498 2.72808 4.75355 3.13984 2.60923 3.95510 3.47065 3.60663 3.07012 1.64085 2.82407 3.84224 3.05775 3.87764 2.69610 2.42048 2.79234 2.94880 3.04297 5.19702 3.92355 504 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77793 4.50028 0.61958 0.77255 0.58186 0.81839\n- 499 2.47044 4.49102 2.75037 2.35505 4.04315 3.10893 3.79274 3.44836 2.63863 3.09587 4.02844 2.95807 3.72673 3.01674 3.00563 1.64266 2.83635 3.08363 5.37070 4.04986 505 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 3.77793 4.50028 0.61958 0.77255 0.58186 0.81839\n- 500 2.75722 4.47169 3.42052 2.99406 3.32523 3.59826 3.88563 2.64463 2.60923 1.53478 3.36764 3.37575 4.03272 3.05186 2.95208 2.97550 3.01524 2.54248 4.93442 3.63005 506 l - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67735 2.69356 4.24690 2.90347 2.73737 3.18142 2.89801 2.37887 2.77520 2.98519 4.58478 3.61504\n- 0.06013 2.84114 * 0.63583 0.75396 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2879 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Mza__MzaC\n-LENG 952\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:56 2021\n-NSEQ 100\n-EFFN 0.393677\n-CKSUM 2407141398\n-GA 20 20;\n-STATS LOCAL MSV -12.4695 0.69571\n-STATS LOCAL VITERBI -13.7122 0.69571\n-STATS LOCAL FORWARD -7.0811 0.69571\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55047 4.27637 2.84916 2.73993 3.32482 2.74218 3.71568 2.77622 2.77961 2.40986 3.69482 3.16457 3.33357 3.18178 2.85674 2.66747 2.87557 2.59071 4.31825 3.47820\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.00000 *\n- 1 2.90630 4.46931 3.96053 3.54961 3.17595 3.77153 4.30424 2.34340 3.32148 1.78520 1.54852 3.83684 4.23343 3.71001 3.53624 3.24576 3.21089 2.33927 5.00443 3.75764 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 2 2.27782 4.19583 3.13743 2.95162 3.99392 2.92743 4.06268 3.50624 3.01959 3.23388 4.16870 3.18841 3.65982 3.37607 3.30665 1.22471 2.75210 3.05985 5.37369 4.07753 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 3 2.98552 4.51572 3.95965 3.59267 3.13904 3.80800 4.31607 2.33850 3.36585 1.04790 3.18710 3.88247 4.14508 3.76557 3.56930 3.33445 3.28837 2.33534 4.96041 3.66483 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 4 2.65767 4.64763 2.66919 2.54739 3.99834 3.13057 3.85985 3.69285 2.75775 3.35004 4.30758 1.31550 3.77943 3.13439 3.10787 2.72931 3.03796 3.32357 5.31428 3.95417 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 5 2.34757 4.28688 3.03602 2.80594 3.97024 3.01082 3.95195 3.41671 2.83926 3.07578 4.05594 3.12100 1.67385 3.22633 3.15238 2.37447 2.77948 3.02431 5.34576 4.04599 5 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 6 3.06337 4.55179 4.05381 3.69571 3.10777 3.87351 4.37775 2.31026 3.46417 0.98580 3.16129 3.97898 4.32493 3.85267 3.65297 3.43804 3.36240 2.32539 4.95428 3.65753 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 7 2.90331 5.01204 1.04601 2.29096 4.37882 3.15047 3.86327 3.94874 2.93256 3.57318 4.55173 2.84210 3.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 945 2.88452 4.97195 2.45973 1.15094 4.30840 3.22304 3.80573 3.74571 2.67596 3.37750 4.35773 2.89248 3.82440 3.02478 3.07416 2.87709 3.18897 3.43917 5.49604 4.22096 945 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 946 2.81892 4.79766 2.85256 2.60860 3.95432 3.31315 3.76526 3.57452 2.43592 3.08500 4.11781 3.06660 3.86706 1.39102 2.72070 2.87143 3.11719 3.31022 5.24259 3.93149 946 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 947 2.88452 4.97195 2.45973 1.15094 4.30840 3.22304 3.80573 3.74571 2.67596 3.37750 4.35773 2.89248 3.82440 3.02478 3.07416 2.87709 3.18897 3.43917 5.49604 4.22096 947 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 948 3.13052 4.65340 3.71639 3.43215 2.30383 3.73393 3.58628 3.15177 3.29206 2.62681 3.83622 3.62341 4.21081 3.61826 3.49209 3.27484 3.41742 3.01868 3.94366 1.11728 948 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 949 2.56735 4.34842 3.22369 3.11383 4.25267 0.87079 4.23711 3.83386 3.28340 3.49814 4.47503 3.38858 3.73686 3.61462 3.52656 2.73729 3.04219 3.37859 5.36782 4.35253 949 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 950 1.14162 4.15437 3.38066 3.17070 3.97174 2.98058 4.20222 3.08510 3.18483 2.97019 4.01337 3.34052 3.71213 3.53433 3.43971 2.50646 2.77813 2.75422 5.40743 4.19882 950 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 951 1.14162 4.15437 3.38066 3.17070 3.97174 2.98058 4.20222 3.08510 3.18483 2.97019 4.01337 3.34052 3.71213 3.53433 3.43971 2.50646 2.77813 2.75422 5.40743 4.19882 951 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 952 2.88452 4.97195 2.45973 1.15094 4.30840 3.22304 3.80573 3.74571 2.67596 3.37750 4.35773 2.89248 3.82440 3.02478 3.07416 2.87709 3.18897 3.43917 5.49604 4.22096 952 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02314 3.77777 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1049 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Mza__MzaD\n-LENG 342\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:56 2021\n-NSEQ 100\n-EFFN 0.820923\n-CKSUM 1205373204\n-GA 100 100;\n-STATS LOCAL MSV -11.3519 0.70027\n-STATS LOCAL VITERBI -12.0355 0.70027\n-STATS LOCAL FORWARD -5.4988 0.70027\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52002 4.26901 2.98525 2.62849 3.21896 2.82132 3.71451 2.82115 2.81751 2.27104 3.60279 3.15747 3.46790 3.06191 2.90322 2.70933 2.85488 2.65209 4.35227 3.63777\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04091 4.08261 3.76262 0.61958 0.77255 0.00000 *\n- 1 3.13336 4.65362 4.26441 3.87685 3.30811 3.98266 4.56698 2.50387 3.63301 1.87701 1.04803 4.12897 4.44800 4.00414 3.81457 3.50087 3.44444 2.53177 5.17245 3.94944 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02576 4.06746 4.78981 0.61958 0.77255 0.48555 0.95545\n- 2 1.98611 4.39140 2.93505 2.84528 3.69416 3.37600 3.89035 2.80980 2.84606 2.70626 3.51121 3.25728 3.92122 3.16200 3.22843 2.75345 2.84903 1.85659 5.13208 3.87631 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02552 4.07693 4.79928 0.61958 0.77255 0.49212 0.94501\n- 3 2.70730 4.73709 3.23786 2.65133 3.96024 3.52269 3.67965 3.34495 2.31546 2.49506 3.72443 3.11348 3.02639 2.81127 1.82469 2.78310 2.93165 3.07199 5.22808 3.95691 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02552 4.07693 4.79928 0.61958 0.77255 0.49212 0.94501\n- 4 3.19476 4.61048 4.54626 4.03264 3.11827 4.32267 4.62346 2.22678 3.83691 0.90748 3.02919 4.29992 4.61294 4.08533 4.01449 3.68348 3.44112 2.07375 5.08344 3.70260 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02552 4.07693 4.79928 0.61958 0.77255 0.49212 0.94501\n- 5 2.42373 4.31723 3.43671 2.98593 3.91101 3.22830 4.01305 2.75433 2.93733 2.94838 3.84984 3.29578 3.83451 3.27846 3.28456 1.46318 2.29392 2.82743 5.31984 4.06881 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02552 4.07693 4.79928 0.61958 0.77255 0.49212 0.94501\n- 6 2.88792 5.20128 2.79725 2.25000 4.57440 3.46345 3.66567 3.99119 1.33279 3.48170 4.30976 2.65381 3.92369 2.80246 2.54351 2.80185 3.11157 3.62426 5.59390 4.28518 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02552 4.07693 4.79928 0.61958 0.77255 0.49212 0.94501\n- 7 2.55832 5.31668 1.57185 1.88679 4.62864 3.29211 3.71735 4.11686 2.62420 3.62619 4.43228 2.70729 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02537 4.08272 4.80507 0.61958 0.77255 0.48576 0.95510\n- 335 1.61184 4.45778 3.14995 2.75147 4.13394 2.26265 3.90977 3.51773 2.50894 3.18165 4.01833 3.13913 3.79597 3.11803 3.15650 2.57293 2.53937 3.12314 5.44651 4.17431 341 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02537 4.08272 4.80507 0.61958 0.77255 0.48576 0.95510\n- 336 2.26647 4.30486 3.49440 3.00840 3.76320 1.72683 3.99410 2.96867 2.95436 2.77045 3.07921 3.33154 3.87654 3.28241 3.29822 2.66618 2.81577 2.44440 5.20622 3.96834 342 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02537 4.08272 4.80507 0.61958 0.77255 0.48576 0.95510\n- 337 2.77104 4.26722 4.05952 3.49774 2.81665 3.86087 4.11724 2.09010 3.38579 1.44115 3.17923 3.18421 4.21058 3.63426 3.61315 3.15298 3.00535 2.26938 4.79116 3.52770 343 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24016 4.08272 1.62641 0.61958 0.77255 0.48576 0.95510\n- 338 2.35275 4.28416 3.16999 2.90720 4.08567 3.03988 4.03561 3.39557 2.92246 3.12660 4.06364 3.19729 1.58521 3.29765 3.23653 2.51390 2.38405 3.00794 5.45013 4.20592 344 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87391 4.59626 0.61958 0.77255 0.67832 0.70820\n- 339 2.78397 4.96383 2.26888 2.34488 3.86572 3.29908 1.77315 3.73650 2.58029 3.29758 4.18675 2.87214 3.83883 2.92034 3.00751 2.77662 3.05798 3.40401 5.23040 3.76077 345 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87391 4.59626 0.61958 0.77255 0.67832 0.70820\n- 340 2.66653 4.44192 3.34062 3.24015 4.38260 0.72688 4.36042 3.98250 3.42163 3.63647 4.61216 3.50489 3.83310 3.74566 3.65760 2.83847 3.14788 3.51054 5.47745 4.48452 346 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87391 4.59626 0.61958 0.77255 0.67832 0.70820\n- 341 2.36069 4.28642 3.14256 2.87752 4.01083 3.06231 3.99562 3.30800 2.87377 3.10892 4.02304 2.87846 3.73874 3.26418 3.18460 2.52316 1.42843 2.93551 5.39204 4.11334 347 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87391 4.59626 0.61958 0.77255 0.67832 0.70820\n- 342 3.20605 4.74624 3.73578 3.42496 2.16910 3.87701 3.28808 3.33570 3.26283 2.76628 3.92259 3.60242 4.30374 3.58302 3.47364 3.30535 3.46331 3.17770 3.81657 1.09586 348 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02121 3.86377 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Mza__MzaE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1817 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Mza__MzaE\n-LENG 598\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:57 2021\n-NSEQ 100\n-EFFN 0.436401\n-CKSUM 453747504\n-GA 20 20;\n-STATS LOCAL MSV -12.0403 0.69723\n-STATS LOCAL VITERBI -13.0431 0.69723\n-STATS LOCAL FORWARD -6.3244 0.69723\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51659 4.21197 2.89441 2.70427 3.24820 2.84171 3.79115 2.76599 2.70382 2.45939 3.61546 3.06102 3.46999 3.10340 2.92164 2.70204 2.88251 2.59751 4.45778 3.36985\n- 2.68618 4.42223 2.77520 2.73124 3.46354 2.40514 3.72494 3.29351 2.67741 2.69353 4.24688 2.90346 2.73740 3.18146 2.89799 2.37887 2.77520 2.98519 4.58478 3.61503\n- 0.05194 3.70650 3.64760 0.89453 0.52560 0.00000 *\n- 1 2.91998 4.47966 3.98028 3.57008 3.18241 3.78555 4.32035 2.35164 3.34121 1.78811 1.50863 3.85522 4.24692 3.72809 3.55392 3.26171 3.22460 2.34988 5.01380 3.76909 30 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03354 3.80744 4.52979 0.61958 0.77255 0.49909 0.93416\n- 2 2.89916 4.99271 2.46497 1.12175 4.33124 3.23410 3.81729 3.77226 2.68980 3.40061 4.37914 2.90058 3.83608 3.03537 3.09064 2.88923 3.20345 3.46345 5.51524 4.23924 31 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03354 3.80744 4.52979 0.61958 0.77255 0.49909 0.93416\n- 3 3.07007 4.54126 4.24708 3.78817 3.05146 4.09707 4.45233 2.08152 3.54142 1.06888 3.01578 4.07603 4.45309 3.88811 3.74331 3.50572 3.34023 2.16406 4.99613 3.71110 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03354 3.80744 4.52979 0.61958 0.77255 0.49909 0.93416\n- 4 2.98056 4.41937 4.24018 3.85475 3.33197 3.99370 4.59596 1.16242 3.68149 1.93314 3.27930 4.10928 4.43254 4.03742 3.88560 3.48397 3.28149 1.84871 5.20822 3.93984 33 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03354 3.80744 4.52979 0.61958 0.77255 0.49909 0.93416\n- 5 2.92213 5.03613 1.01605 2.29963 4.40506 3.16353 3.87762 3.97896 2.95008 3.59963 4.57778 2.85208 3.81192 3.11776 3.45620 2.89294 3.25987 3.62561 5.58621 4.29064 34 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03354 3.80744 4.52979 0.61958 0.77255 0.49909 0.93416\n- 6 3.17772 4.59921 4.14899 3.85239 1.12458 3.88018 3.85212 2.71087 3.76135 2.09673 3.45167 3.94673 4.34129 3.94770 3.89712 3.45018 3.47937 2.69652 4.12293 2.49910 35 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03354 3.80744 4.52979 0.61958 0.77255 0.49909 0.93416\n- 7 3.08365 4.56607 4.08427 3.72539 3.11351 3.89810 4.40157 2.31592 3.49370 0.95976 3.15963 4.00697 4.34'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03451 3.77960 4.50194 0.61958 0.77255 0.52201 0.89975\n- 591 2.86808 4.88271 2.98749 2.59847 4.25131 3.39483 3.66886 3.63882 1.26198 3.22728 4.16859 3.06988 3.88997 2.85226 2.37562 2.90339 3.11793 3.34504 5.33767 4.11611 622 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03894 3.77960 4.17593 0.61958 0.77255 0.52201 0.89975\n- 592 2.58024 4.37625 3.32946 2.81462 3.55289 3.46149 3.77954 2.75493 2.38664 2.48164 2.48766 3.21891 3.89376 3.04848 2.90123 2.76970 2.55367 2.55350 5.00874 3.76819 623 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03466 3.77531 4.49766 0.61958 0.77255 0.52543 0.89477\n- 593 2.81804 5.28382 1.71844 1.59577 4.57623 3.11144 3.67014 4.06009 2.65625 3.60639 4.46630 2.62690 3.75040 2.84142 3.21505 2.72695 3.10477 3.66465 5.77301 4.31101 624 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03791 3.77531 4.24964 0.61958 0.77255 0.52543 0.89477\n- 594 2.56707 4.92878 1.54541 2.15844 4.43150 2.72146 3.72508 3.88587 2.71946 3.49767 4.35817 2.70173 3.72017 2.91140 3.24945 2.61931 2.99273 3.47310 5.68690 4.26520 625 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03477 3.77218 4.49452 0.61958 0.77255 0.52793 0.89118\n- 595 2.77544 4.48764 3.48869 2.98699 2.43043 3.64994 2.44203 2.90060 2.85079 2.14416 3.50689 3.33975 4.03482 3.20355 3.16184 2.94064 3.01210 2.73949 4.27230 2.69037 626 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03853 3.77218 4.21376 0.61958 0.77255 0.52793 0.89118\n- 596 2.41117 4.23850 3.35761 2.90337 3.54509 3.27678 3.86515 2.81551 2.79701 2.54256 2.43487 3.23992 3.70728 3.17176 3.11253 2.18482 2.76131 2.57834 5.02355 3.76487 627 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03490 3.76855 4.49089 0.61958 0.77255 0.53079 0.88707\n- 597 2.58034 4.63318 2.81661 2.48208 3.79554 3.26225 2.70098 3.44907 2.43236 3.05297 3.92371 2.94700 3.77942 2.82966 2.76568 2.04511 2.87119 3.12140 5.14212 3.75460 628 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03490 3.76855 4.49089 0.61958 0.77255 0.53079 0.88707\n- 598 2.49100 4.64562 2.14378 2.31780 4.23851 2.81412 3.73163 3.68611 2.66097 3.30446 4.14008 2.81214 3.69151 2.91927 3.13507 1.92617 2.84098 3.22647 5.51692 4.15615 629 s - - -\n- 2.68611 4.42227 2.77522 2.73114 3.46356 2.40515 3.72495 3.29335 2.67742 2.69357 4.24692 2.90347 2.73742 3.18149 2.89802 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.09367 2.41441 * 0.84447 0.56174 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Ppl__PplA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Ppl__PplA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2699 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Ppl__PplA\n-LENG 892\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:01 2021\n-NSEQ 100\n-EFFN 0.473022\n-CKSUM 1334613354\n-GA 100 100;\n-STATS LOCAL MSV -13.0318 0.69588\n-STATS LOCAL VITERBI -13.4683 0.69588\n-STATS LOCAL FORWARD -6.9766 0.69588\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46821 4.11559 2.87429 2.70419 3.37325 2.86529 3.67698 2.84096 2.78801 2.35962 3.67165 3.11606 3.28675 3.10746 2.85769 2.59323 2.91348 2.69603 4.60461 3.54555\n- 2.68622 4.42225 2.77523 2.73127 3.46352 2.40515 3.72487 3.29353 2.67744 2.69352 4.24539 2.90350 2.73743 3.18146 2.89801 2.37891 2.77524 2.98520 4.58476 3.61506\n- 0.23729 1.69769 3.57087 0.81720 0.58280 0.00000 *\n- 1 2.55734 4.27765 3.44761 2.98874 3.42279 3.47808 3.84892 2.59593 2.86133 2.34197 2.27678 3.34772 3.93392 3.22796 3.16966 2.79809 2.35949 2.43166 4.95458 3.71298 58 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03267 3.83342 4.55576 0.61958 0.77255 0.50156 0.93035\n- 2 2.65295 4.27525 3.89039 3.52730 3.52171 3.56005 4.36305 2.14849 3.37596 2.30854 3.51443 3.73988 4.13275 3.75927 3.55654 2.96363 3.01674 1.21041 5.23355 3.93990 59 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03267 3.83342 4.55576 0.61958 0.77255 0.50156 0.93035\n- 3 2.61810 4.39666 3.28381 3.17863 4.32025 0.79200 4.30069 3.91093 3.35452 3.56984 4.54578 3.44827 3.78654 3.68188 3.59426 2.78901 3.09633 3.44685 5.42511 4.42106 60 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03610 3.69104 4.55576 0.60718 0.78721 0.50156 0.93035\n- 4 2.22995 4.18888 3.14017 2.93967 4.09347 2.92132 4.07270 3.55574 3.01482 3.27617 4.17539 3.17439 3.55984 3.36080 3.31510 1.23620 2.72380 3.08146 5.46705 4.18087 62 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03267 3.83342 4.55576 0.61958 0.77255 0.49698 0.93743\n- 5 2.67718 4.46379 3.22016 2.73386 4.06159 3.38271 3.66854 3.48997 2.16318 3.10545 3.99649 3.09654 3.86436 2.85655 1.50134 2.73079 2.95351 3.17305 5.25198 3.98701 63 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83663 4.55898 0.61958 0.77255 0.49878 0.93464\n- 6 3.04395 4.56191 3.90564 3.52626 2.55063 3.56084 3.73729 3.10829 3.22633 2.53265 3.75970 3.70400 4.17115 3.63208 3.40594 3.24540 3.33448 2.96720 1.30362 2.55481 64 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03256 3.83663 4.55898 0.61958 0.77255 0.49878 0.93464\n- 7 3.20180 4.62153 4.13568 3.72792 1.76644 4.03946 3.47750 2.99807 3.60530 2.43605 3.64148 3.77283 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 885 2.30063 4.22038 3.18044 2.99524 4.04592 2.95086 4.10573 3.56458 3.06692 3.28735 4.21632 3.22465 3.68723 3.41874 3.35359 1.13836 2.77854 3.10642 5.42097 4.12939 947 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 886 2.97158 4.81201 3.45918 2.97725 4.15882 3.46490 3.80334 3.69877 2.22693 3.22032 4.22172 3.33912 3.96936 3.02556 1.02642 3.05749 3.23988 3.42415 5.25457 4.09328 948 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 887 3.20351 4.70495 3.79322 3.51723 2.29519 3.79461 3.60544 3.21710 3.37564 2.67886 3.89544 3.68618 4.26937 3.68905 3.56548 3.34313 3.49016 3.08626 3.93764 1.01847 949 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 888 2.92673 5.03026 2.47604 1.06991 4.37276 3.25486 3.83960 3.82058 2.71631 3.44286 4.41873 2.91681 3.85813 3.05621 3.12160 2.91255 3.23089 3.50778 5.55017 4.27293 950 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 889 2.97158 4.81201 3.45918 2.97725 4.15882 3.46490 3.80334 3.69877 2.22693 3.22032 4.22172 3.33912 3.96936 3.02556 1.02642 3.05749 3.23988 3.42415 5.25457 4.09328 951 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 890 3.00723 4.43508 4.29115 3.90614 3.35395 4.03264 4.64027 1.11681 3.73365 1.94679 3.29461 4.15582 4.46720 4.08537 3.93376 3.52533 3.30711 1.84631 5.23811 3.97345 952 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 891 3.12122 4.59285 4.13995 3.78011 3.12477 3.94273 4.44551 2.32768 3.54814 0.91400 3.15814 4.05852 4.38368 3.92384 3.72906 3.51066 3.41704 2.35694 4.99244 3.70851 953 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03239 3.84173 4.56408 0.61958 0.77255 0.49432 0.94157\n- 892 2.27996 4.23323 3.06626 2.87401 4.06722 2.94315 4.03156 3.60424 2.96558 3.31540 4.19766 3.02886 3.66987 3.31730 3.27601 1.25216 2.74659 3.12400 5.43980 4.12005 954 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 3.83126 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1973 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Qat__QatA\n-LENG 650\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:50 2021\n-NSEQ 100\n-EFFN 0.637817\n-CKSUM 1340270435\n-GA 20 20;\n-STATS LOCAL MSV -12.1800 0.69690\n-STATS LOCAL VITERBI -12.9965 0.69690\n-STATS LOCAL FORWARD -6.2124 0.69690\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45602 4.45555 2.89649 2.62336 3.30587 2.94428 3.80459 2.79146 2.65439 2.36852 3.63522 3.16702 3.38457 3.10610 2.88703 2.73797 2.85503 2.60281 4.35129 3.65582\n- 2.68616 4.42226 2.77519 2.73123 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24683 2.90347 2.73740 3.18144 2.89800 2.37886 2.77520 2.98519 4.58477 3.61504\n- 0.03541 3.66421 4.69238 0.77380 0.61852 0.00000 *\n- 1 2.99156 4.53696 4.18377 3.74318 3.20357 3.94260 4.45665 2.33994 3.50472 1.75408 1.36375 4.00478 4.37881 3.86295 3.70851 3.36392 3.29304 2.31988 5.09851 3.86442 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.97003 4.69238 0.61958 0.77255 0.48576 0.95510\n- 2 3.38418 4.75758 4.37241 4.10606 0.86466 4.04987 3.92315 2.89654 4.01078 2.24444 3.61270 4.12994 4.50675 4.15205 4.10639 3.64869 3.68561 2.89429 4.14449 2.49976 9 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.97003 4.69238 0.61958 0.77255 0.48576 0.95510\n- 3 3.26566 4.69939 4.34586 3.98682 3.17471 4.10552 4.61198 2.38483 3.75360 0.76383 3.16842 4.25280 4.52454 4.09857 3.91344 3.68874 3.55573 2.44736 5.08871 3.83433 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.97003 4.69238 0.61958 0.77255 0.48576 0.95510\n- 4 2.62452 4.69859 2.71177 2.54646 4.09379 3.19371 3.86493 3.61767 2.72466 3.38111 4.28523 1.33752 3.82967 3.10088 3.09825 2.62489 2.99748 3.32319 5.45075 4.03167 11 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.97003 4.69238 0.61958 0.77255 0.48576 0.95510\n- 5 3.09628 5.23718 0.78762 2.39977 4.62774 3.28625 4.01970 4.23852 3.12271 3.82978 4.81068 2.96078 3.94602 3.25949 3.65166 3.04811 3.43717 3.86755 5.77724 4.48540 12 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.97003 4.69238 0.61958 0.77255 0.48576 0.95510\n- 6 2.86551 5.01116 2.87944 2.53762 4.13780 3.44944 3.46342 3.78112 2.23962 3.28783 4.18173 3.01749 3.92577 1.46212 2.48032 2.87107 3.10482 3.46290 5.34387 3.98913 13 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02844 3.97003 4.69238 0.61958 0.77255 0.48576 0.95510\n- 7 3.03827 5.16718 2.53178 0.89429 4.52595 3.33843 3.93456 3.99930 2.82751 3.60107 4.57149 2.99126 3.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95189 4.67424 0.61958 0.77255 0.50370 0.92708\n- 643 2.82809 4.27943 4.32613 3.76271 3.30933 4.06596 4.42729 1.59835 3.65728 1.83833 2.68718 4.02589 4.38596 3.89429 3.87189 3.37683 2.76303 1.74547 5.07181 3.90221 666 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95189 4.67424 0.61958 0.77255 0.50370 0.92708\n- 644 2.36933 4.26646 3.41942 2.86288 3.51776 3.22910 3.85685 2.74371 2.83900 1.82374 3.47611 3.28600 3.89121 3.18020 3.16757 2.52914 2.73833 2.52225 4.96767 3.73461 667 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95189 4.67424 0.61958 0.77255 0.50370 0.92708\n- 645 2.66726 5.11129 2.36277 2.11615 4.42669 3.32786 3.58394 3.89151 1.97531 3.39528 4.17346 2.72089 3.77577 2.51127 2.70882 2.46811 2.90413 3.48871 5.54775 4.15213 668 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95189 4.67424 0.61958 0.77255 0.50370 0.92708\n- 646 2.96101 4.39809 4.33543 3.76062 2.76503 4.10513 4.37106 2.20346 3.64302 1.18098 2.64968 4.03887 4.38632 3.83710 3.64176 3.40722 3.18614 2.20397 4.91796 3.76133 669 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95189 4.67424 0.61958 0.77255 0.50370 0.92708\n- 647 2.45896 4.86113 2.83403 2.29897 4.13405 2.88004 3.50189 3.56453 2.26354 3.13756 3.93646 2.87923 3.50964 2.56510 2.73199 2.37584 2.76555 3.14527 5.35087 3.99839 670 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95189 4.67424 0.61958 0.77255 0.50370 0.92708\n- 648 2.63639 4.90954 2.89872 2.34876 4.21083 2.60678 3.58489 3.63391 2.10932 3.18888 3.99327 2.90747 3.43976 2.58579 2.40632 2.58038 2.86577 3.22587 5.37859 4.04568 671 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95189 4.67424 0.61958 0.77255 0.50370 0.92708\n- 649 2.55290 4.75047 3.01867 2.45094 3.98994 3.14460 3.59763 3.29653 2.00463 2.96679 3.82520 2.92351 3.80400 2.62317 2.56091 2.60005 2.78380 3.08508 4.97739 3.50935 672 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15860 3.95189 2.06010 0.61958 0.77255 0.50370 0.92708\n- 650 2.62811 4.83883 2.88739 2.40244 4.14957 2.87139 3.57388 3.56088 2.11176 3.12879 3.94909 2.83516 3.78864 2.44909 2.41509 2.53581 2.82186 3.16867 5.32654 4.01453 673 k - - -\n- 2.68619 4.42227 2.77521 2.73125 3.46355 2.40514 3.72473 3.29355 2.67727 2.69356 4.24691 2.90348 2.73741 3.18146 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.16722 1.87091 * 0.34628 1.22866 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,764 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Qat__QatB\n-LENG 247\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:50 2021\n-NSEQ 84\n-EFFN 0.904907\n-CKSUM 1143003118\n-GA 20 20;\n-STATS LOCAL MSV -10.8979 0.70304\n-STATS LOCAL VITERBI -11.4165 0.70304\n-STATS LOCAL FORWARD -5.1025 0.70304\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37258 4.38043 2.85432 2.64537 3.34950 2.65089 3.90366 2.83500 2.82087 2.43881 3.63301 3.14609 3.44559 3.06049 2.90006 2.59076 2.85997 2.64009 5.23501 3.81090\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.33191 4.13213 1.32275 0.61958 0.77255 0.00000 *\n- 1 2.80082 4.41280 3.83330 3.42327 3.27765 3.55211 4.21075 2.44825 3.20726 1.99005 1.52716 3.70892 4.14376 3.61058 3.43606 3.10617 3.11506 2.38552 5.01023 3.75272 1 m - - -\n- 2.68622 4.42229 2.77524 2.73127 3.46358 2.40469 3.72499 3.29358 2.67745 2.69359 4.24694 2.90351 2.73744 3.18150 2.89805 2.37891 2.77524 2.98522 4.58481 3.61507\n- 0.48098 1.03725 3.59740 0.20580 1.68199 0.72319 0.66398\n- 2 2.39469 4.23951 3.39769 3.14872 3.93860 3.07979 4.16861 3.06146 3.09098 2.92619 3.97944 3.36338 3.78096 3.48772 3.35104 2.59563 1.23329 2.76022 5.37955 4.15540 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03255 3.83712 4.55946 0.61958 0.77255 0.75001 0.63934\n- 3 2.29855 4.21818 3.17662 2.99131 4.04138 2.94876 4.10187 3.55947 3.06267 3.28264 4.21208 3.22139 3.68476 3.41488 3.34942 1.14563 2.77614 3.10233 5.41682 4.12485 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03255 3.83712 4.55946 0.61958 0.77255 0.75001 0.63934\n- 4 2.78102 4.94296 2.82653 2.38176 4.33273 3.37945 3.61776 3.71586 1.48719 3.27631 4.13720 2.94999 3.85564 2.77551 2.43955 2.58717 3.02257 3.38177 5.42233 4.14527 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03255 3.83712 4.55946 0.61958 0.77255 0.75001 0.63934\n- 5 1.94066 4.29644 2.99377 2.70046 4.12617 2.07184 3.89875 3.52536 2.65402 3.19198 4.02948 3.05131 3.67004 3.12461 3.16903 2.17057 2.71670 3.08267 5.44316 4.17899 6 a - - -\n- 2.68639 4.42259 2.77554 2.73157 3.46388 2.40399 3.72525 3.29371 2.67775 2.69326 4.24724 2.90360 2.73713 3.18169 2.89835 2.37883 2.77534 2.98545 4.58511 3.61378\n- 0.45162 1.04146 4.55946 1.85075 0.17093 0.75001 0.63934\n- 6 2.91551 4.34721 4.37628 3.90134 3.44836 4.07758 4.67619 1.68544 3.76153 2.01738 3.31213 4.14884 4.48254 4.07834 3.99546 3.46830 3.20731 1.17589 5.34111 4.09906 15 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03255 3.83712 4.55946 0.61958 0.77255 0.75001 0.63934\n- 7 2.70633 4.46895 3.30979 3.14416 4.14140 3.15849 4.22411 3.67822 3.19853 3.30871 4.35743 3.45416 0.896'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02441 4.12097 4.84331 0.61958 0.77255 0.50412 0.92643\n- 240 0.88214 4.22050 3.73401 3.47141 4.20436 3.08465 4.43730 3.24873 3.44179 3.17446 4.16580 3.53291 3.84270 3.75953 3.68998 2.55726 2.77094 2.78331 5.68113 4.46647 310 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02441 4.12097 4.84331 0.61958 0.77255 0.50412 0.92643\n- 241 2.21479 4.31966 3.16678 2.73415 3.62655 3.48520 3.76677 2.74745 2.70100 2.68531 3.55988 3.17864 3.88981 3.02610 2.85093 2.32737 2.63212 2.35697 5.02892 3.76968 311 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11636 4.83870 0.61958 0.77255 0.50412 0.92643\n- 242 1.64845 4.74040 2.90674 1.99183 4.09132 3.38172 3.79343 3.37288 2.61954 2.88260 3.97281 3.03843 3.88108 2.97948 3.03839 2.72933 2.94359 3.07282 5.41045 4.09310 312 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11636 4.83870 0.61958 0.77255 0.50412 0.92643\n- 243 1.98588 4.29754 3.40836 3.26006 4.51800 0.97205 4.41125 3.90699 3.43427 3.64171 4.50327 3.41636 3.80575 3.70840 3.71961 2.54334 2.87660 3.34045 5.83474 4.65026 313 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11636 4.83870 0.61958 0.77255 0.50412 0.92643\n- 244 3.02504 5.48270 2.14290 0.97465 4.79450 3.31408 3.86352 4.29612 2.84690 3.83385 4.70751 2.81129 3.93279 3.03889 3.39442 2.92876 3.31728 3.89482 5.96743 4.51672 314 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02452 4.11636 4.83870 0.61958 0.77255 0.47445 0.97346\n- 245 2.25717 5.05781 2.52184 2.10322 4.37269 3.08526 3.61420 3.83409 2.38592 3.35673 4.12785 2.79507 3.79959 2.73176 2.42677 2.38961 2.88256 3.43650 5.52580 4.13389 315 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02413 4.13213 4.85448 0.61958 0.77255 0.48576 0.95510\n- 246 1.93068 4.34011 3.43514 2.77096 3.50211 3.54623 3.82441 2.82090 2.81676 2.22538 3.17642 3.28603 3.94046 3.13690 3.11513 2.57858 2.82850 2.45555 4.94287 3.70428 316 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05283 4.13213 3.34072 0.61958 0.77255 0.48576 0.95510\n- 247 2.57634 5.07220 2.74331 1.61487 4.38113 3.38936 3.63857 3.82575 2.31706 3.35780 4.15137 2.88137 3.83186 2.55820 2.72848 2.58104 2.75805 3.44828 5.53155 4.16082 317 e - - -\n- 2.68618 4.42225 2.77520 2.73124 3.46354 2.40513 3.72495 3.29354 2.67736 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77516 2.98519 4.58477 3.61503\n- 0.05356 2.95359 * 0.48285 0.95978 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1394 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Qat__QatC\n-LENG 457\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:51 2021\n-NSEQ 46\n-EFFN 0.541870\n-CKSUM 2144961950\n-GA 20 20;\n-STATS LOCAL MSV -11.5689 0.69851\n-STATS LOCAL VITERBI -12.4426 0.69851\n-STATS LOCAL FORWARD -5.9115 0.69851\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48996 4.10666 2.89862 2.76644 3.27512 2.83462 3.64266 2.86161 2.81440 2.34171 3.67922 3.14629 3.28003 3.15312 2.85280 2.62649 2.80141 2.67952 4.60831 3.55019\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03848 3.90268 4.04203 0.61958 0.77255 0.00000 *\n- 1 2.98663 4.53181 4.07336 3.66838 3.21725 3.85075 4.39832 2.39507 3.43528 1.80843 1.33563 3.94314 4.31137 3.81561 3.63799 3.33814 3.29231 2.40382 5.06113 3.82495 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03069 3.89489 4.61724 0.61958 0.77255 0.49304 0.94358\n- 2 2.50300 4.55526 2.96351 2.58097 4.11164 3.21885 3.75241 3.49298 2.16806 3.13762 3.98430 3.01546 3.77036 2.94118 2.85896 1.79665 2.52123 3.12655 5.37544 4.08903 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03069 3.89489 4.61724 0.61958 0.77255 0.49304 0.94358\n- 3 3.01895 4.83275 3.14717 2.90919 3.30008 3.46614 1.09609 3.72535 2.75161 3.21658 4.26113 3.31769 4.01981 3.27566 3.01607 3.08938 3.32300 3.46004 4.76487 3.25027 3 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03069 3.89489 4.61724 0.61958 0.77255 0.49304 0.94358\n- 4 2.84017 4.90895 2.86021 2.54836 3.66057 3.43152 1.77300 3.64233 2.34533 3.16573 4.08972 3.02125 3.91617 2.55039 2.64904 2.86211 3.08798 3.34837 5.03909 3.57079 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03069 3.89489 4.61724 0.61958 0.77255 0.49304 0.94358\n- 5 2.26217 4.17418 3.32914 3.04731 4.06156 2.98740 4.10403 3.32426 3.02997 3.13580 4.04196 3.25475 3.70285 3.38864 3.32291 2.19001 1.38820 2.91685 5.45649 4.21114 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03069 3.89489 4.61724 0.61958 0.77255 0.49304 0.94358\n- 6 3.11700 4.47437 4.59176 4.08648 3.24824 4.35390 4.74980 1.28192 3.90771 1.52407 3.10902 4.35295 4.63942 4.18140 4.09897 3.73196 3.36897 1.82665 5.23398 4.02230 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03069 3.89489 4.61724 0.61958 0.77255 0.49304 0.94358\n- 7 3.01836 4.37458 4.60996 4.11498 3.47253 4.29445 4.85129 1.33199 3.99275 1.98710 3.29566 4.35488 4.63'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90268 4.62502 0.61958 0.77255 0.48576 0.95510\n- 450 2.59078 4.52169 2.68724 2.78414 4.36803 1.02265 4.11666 3.89219 3.13017 3.55533 4.45754 3.17639 3.79786 3.39798 3.49260 2.71019 3.03057 3.42902 5.57062 4.39236 454 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90268 4.62502 0.61958 0.77255 0.48576 0.95510\n- 451 2.83184 4.36588 4.16723 3.83111 3.57196 3.75527 4.62754 2.04832 3.69935 2.25362 3.53234 4.01614 4.31395 4.05689 3.90898 3.26054 3.19256 0.98767 5.36157 4.09514 455 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90268 4.62502 0.61958 0.77255 0.48576 0.95510\n- 452 2.58336 4.51749 3.17159 2.56546 3.70697 3.46004 3.66636 2.59375 2.43703 2.73510 3.60974 3.07840 3.84799 2.42529 2.68522 2.70275 2.72647 2.60727 5.06008 3.79323 456 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90268 4.62502 0.61958 0.77255 0.48576 0.95510\n- 453 1.81769 4.13247 3.39920 3.04506 4.09466 2.95657 4.08813 3.40222 3.04701 3.16158 4.01591 3.24176 3.66671 3.35833 3.36830 1.94075 1.79713 2.95482 5.46300 4.24392 457 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90268 4.62502 0.61958 0.77255 0.48576 0.95510\n- 454 2.69772 4.71808 3.22614 2.74208 4.19380 3.37110 3.70550 3.64092 2.18804 3.21646 4.09867 3.13373 3.87818 2.88692 1.46810 2.39457 2.98881 3.29604 5.34307 4.08914 458 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90268 4.62502 0.61958 0.77255 0.48576 0.95510\n- 455 2.79114 4.54371 3.40153 3.24475 4.23772 3.22950 4.31990 3.79067 3.30459 3.41433 4.46532 3.54852 0.77335 3.69245 3.54689 2.95952 3.23503 3.43263 5.41621 4.35873 459 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03045 3.90268 4.62502 0.61958 0.77255 0.48576 0.95510\n- 456 2.74812 4.43331 3.57024 3.05561 3.26505 3.66486 3.90114 2.63687 2.53308 1.50000 3.35524 3.43058 4.06012 3.23535 2.96552 2.98709 2.98916 2.51472 4.91887 3.63709 460 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11448 3.90268 2.43063 0.61958 0.77255 0.48576 0.95510\n- 457 2.20392 4.14166 3.23523 2.95156 4.08780 2.92247 4.04310 3.42076 2.96967 3.17683 4.05253 3.17528 3.64029 3.31136 3.28177 1.53184 2.10146 2.97029 5.45593 4.20854 461 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02238 3.81058 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Qat__QatD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,785 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Qat__QatD\n-LENG 254\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:51 2021\n-NSEQ 100\n-EFFN 0.613403\n-CKSUM 2562758546\n-GA 20 20;\n-STATS LOCAL MSV -10.8777 0.70274\n-STATS LOCAL VITERBI -11.5828 0.70274\n-STATS LOCAL FORWARD -5.3115 0.70274\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48896 4.15110 3.00590 2.64466 3.35584 2.98584 3.52137 2.81479 2.73694 2.35718 3.69098 3.16722 3.38869 3.11968 2.83014 2.71172 2.82274 2.54677 4.57774 3.57732\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24515 2.90349 2.73742 3.18149 2.89803 2.37889 2.77521 2.98521 4.58479 3.61505\n- 0.36977 1.63624 2.16810 0.29370 1.36846 0.00000 *\n- 1 2.52241 4.33853 3.29219 2.74111 3.52116 3.45315 3.72287 2.74780 2.53264 2.57175 2.67026 3.02554 3.85560 3.00216 2.94685 2.66069 2.48836 2.61163 4.93353 3.68733 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03238 3.84230 4.56465 0.61958 0.77255 0.55376 0.85516\n- 2 2.43810 4.56362 3.04002 2.42536 3.78266 3.33907 3.58396 3.17230 2.43109 2.75773 3.50261 2.78839 3.70117 2.82571 2.89937 2.46871 2.52372 2.76033 5.11566 3.82114 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86391 4.58625 0.61958 0.77255 0.51591 0.90871\n- 3 2.31620 4.54473 3.04397 2.46975 3.76009 3.40144 3.64668 3.14538 2.50003 2.74749 3.30228 3.01097 3.26766 2.74523 2.90710 2.52680 2.55818 2.84635 5.10347 3.81339 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03057 3.89894 4.62128 0.61958 0.77255 0.48599 0.95474\n- 4 2.52039 4.63980 3.02565 2.42082 3.85281 3.24205 3.51681 3.17117 2.37015 2.88670 3.26598 2.97296 3.49835 2.62485 2.84736 2.49642 2.54274 2.92859 5.16379 3.85711 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02954 3.93259 4.65494 0.61958 0.77255 0.50587 0.92377\n- 5 2.48248 4.88905 2.80899 2.34103 4.17000 3.36523 3.50478 3.55691 2.13903 3.16438 3.95621 2.72878 3.49203 2.40922 2.70974 2.51903 2.70726 3.16003 5.36399 4.00806 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02954 3.93259 4.65494 0.61958 0.77255 0.47339 0.97521\n- 6 2.53325 4.82007 2.95919 2.37659 4.08118 3.27273 3.57993 3.38498 2.06148 3.05386 3.68767 2.81493 3.58965 2.58889 2.54093 2.51953 2.81222 3.08064 5.30269 3.96874 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02892 3.95332 4.67567 0.61958 0.77255 0.48576 0.95510\n- 7 2.41554 4.61041 3.04795 2.36832 3.72245 3.41419 3.63454 3.11852 2.40921 2.78328 3.69871 2.96914 3.46'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02892 3.95332 4.67567 0.61958 0.77255 0.48576 0.95510\n- 247 2.63766 4.71885 2.63923 2.51880 4.18714 3.16136 3.89100 3.83753 2.77759 3.48347 4.38295 1.27823 3.82020 3.12884 3.15882 2.60069 3.02488 3.41875 5.51957 4.10903 250 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02892 3.95332 4.67567 0.61958 0.77255 0.48576 0.95510\n- 248 3.23158 4.64928 4.52182 4.02522 2.98529 4.33092 4.61299 2.20112 3.79696 0.88331 2.86478 4.30427 4.61395 4.06474 3.97352 3.71452 3.48172 2.28841 5.03632 3.78826 251 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02892 3.95332 4.67567 0.61958 0.77255 0.48576 0.95510\n- 249 2.65965 4.90916 3.07925 2.52353 4.27336 3.07392 3.59950 3.66808 1.83840 3.16911 4.03544 3.00235 3.85842 2.73959 1.94555 2.63475 2.85623 3.32772 5.37402 4.09582 252 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03875 3.95332 3.97302 0.61958 0.77255 0.48576 0.95510\n- 250 2.46049 4.64975 2.87304 2.31923 3.98331 3.32506 3.51478 3.43000 2.33249 3.06613 3.78930 2.76181 3.77008 2.60199 2.51895 2.41799 2.69555 3.09182 5.29435 3.95164 253 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02921 3.94378 4.66612 0.61958 0.77255 0.49512 0.94032\n- 251 3.19133 4.61832 4.51075 4.00491 3.08034 4.30173 4.63597 2.14306 3.75837 0.91978 2.90328 4.28506 4.59684 4.04935 3.94043 3.67976 3.44678 2.18793 5.09930 3.88792 254 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02921 3.94378 4.66612 0.61958 0.77255 0.49512 0.94032\n- 252 2.99901 4.41764 4.44652 3.96120 3.38205 4.16248 4.68016 1.90803 3.79939 1.66795 3.26305 4.21079 4.53713 4.10555 4.01520 3.54824 3.27788 1.19796 5.28567 4.04889 255 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02921 3.94378 4.66612 0.61958 0.77255 0.49512 0.94032\n- 253 2.50744 4.54450 3.10319 2.58704 3.90843 3.23137 3.69994 3.18494 2.44205 2.94253 3.78709 3.04196 3.79831 2.89371 2.61919 2.13779 2.22938 2.97983 5.21642 3.93362 256 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06163 3.94378 3.20905 0.61958 0.77255 0.49512 0.94032\n- 254 2.33460 4.69356 2.94426 2.41371 3.92413 3.26092 3.54465 3.33135 2.38219 2.91779 3.60918 2.86922 3.43219 2.70663 2.68448 2.48062 2.64999 2.99190 5.21027 3.83561 257 a - - -\n- 2.68619 4.42182 2.77522 2.73123 3.46361 2.40511 3.72494 3.29358 2.67739 2.69356 4.24692 2.90347 2.73743 3.18152 2.89804 2.37875 2.77524 2.98514 4.58484 3.61510\n- 0.22393 1.60631 * 0.93226 0.50032 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3089 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_RL__RL_A\n-LENG 1022\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:03 2021\n-NSEQ 100\n-EFFN 0.643921\n-CKSUM 16801508\n-GA 20 20;\n-STATS LOCAL MSV -12.8453 0.69554\n-STATS LOCAL VITERBI -13.5849 0.69554\n-STATS LOCAL FORWARD -7.0889 0.69554\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49420 4.51312 2.86802 2.61927 3.28872 2.91915 3.75490 2.82035 2.62676 2.40169 3.68896 3.07471 3.40179 3.05180 2.92899 2.69819 2.84935 2.65901 4.62659 3.52659\n- 2.68618 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24641 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.10269 2.70505 3.48261 0.46273 0.99307 0.00000 *\n- 1 2.89806 4.43181 4.08972 3.55243 3.19257 3.94327 4.29199 2.23097 3.35975 1.73693 1.64714 3.86327 4.02555 3.68368 3.59740 3.27191 3.15224 2.28427 5.01071 3.81497 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95233 4.67468 0.61958 0.77255 0.50736 0.92151\n- 2 2.80397 4.93378 3.21050 2.61573 4.25090 3.53098 3.60125 3.45534 1.42587 3.16800 4.02594 3.07130 3.91492 2.63806 2.24897 2.82916 3.00756 3.15138 5.33748 4.08834 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95233 4.67468 0.61958 0.77255 0.50736 0.92151\n- 3 2.40034 4.26928 3.42438 3.09293 3.90220 3.15520 4.10138 2.94243 2.99503 2.92851 3.91599 3.26203 3.82249 3.39624 3.28217 2.59681 1.31254 2.72616 5.36332 4.08609 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95233 4.67468 0.61958 0.77255 0.50736 0.92151\n- 4 3.05315 4.39229 4.67787 4.17210 3.50934 4.36368 4.90016 1.48148 4.05173 1.99667 3.32845 4.41228 4.68270 4.32663 4.26414 3.73997 3.31818 1.13310 5.45485 4.24491 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95233 4.67468 0.61958 0.77255 0.50736 0.92151\n- 5 3.00294 5.12965 3.39166 2.73745 4.53864 3.63863 3.40545 3.90349 1.62946 3.35514 4.21642 3.15127 4.00071 2.65079 1.42898 2.99804 3.16780 3.58697 5.40944 4.22434 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95233 4.67468 0.61958 0.77255 0.50736 0.92151\n- 6 2.70147 5.07762 1.92187 2.21672 4.43194 3.25145 3.67242 3.90352 2.55249 3.39512 4.25645 2.43995 3.78387 2.74497 3.06681 2.07090 2.91072 3.50539 5.63213 4.21832 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95233 4.67468 0.61958 0.77255 0.50736 0.92151\n- 7 1.13419 4.13176 3.50539 3.19753 4.08896 2.85955 4.19995 3.24924 3.17976 3.15020 4.04889 3.33657 3.712'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 3.94674 4.66909 0.61958 0.77255 0.51274 0.91342\n- 1015 2.47221 4.90773 2.83543 2.30767 4.19423 2.63013 3.53993 3.57921 2.22859 3.18304 3.98813 2.80171 3.79194 2.39782 2.62800 2.59618 2.86151 3.27152 5.38251 4.03953 1049 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 3.94674 4.66909 0.61958 0.77255 0.51274 0.91342\n- 1016 2.46884 4.74391 2.94136 2.38590 3.99026 3.38393 3.44153 3.24605 2.39746 3.01082 3.83083 2.50950 3.71402 2.47548 2.84441 2.50739 2.66938 2.93765 5.25824 3.93123 1050 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 3.94674 4.66909 0.61958 0.77255 0.51274 0.91342\n- 1017 2.69453 5.02245 2.20525 2.07732 4.44675 1.74415 3.74646 3.90299 2.69019 3.47875 4.31926 2.70991 3.79760 2.92145 3.20372 2.66712 3.03537 3.50977 5.68815 4.28302 1051 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 3.94674 4.66909 0.61958 0.77255 0.51274 0.91342\n- 1018 2.86940 5.39045 1.87998 1.35817 4.68473 3.21519 3.71813 4.17767 2.68765 3.69718 4.53665 2.63200 3.81290 2.87898 3.25214 2.77255 3.06693 3.76450 5.86654 4.38507 1052 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 3.94674 4.66909 0.61958 0.77255 0.51274 0.91342\n- 1019 2.98080 4.38536 4.51616 4.04654 3.52332 4.17681 4.80405 1.69677 3.90803 2.08345 3.37738 4.27476 4.57615 4.21906 4.13082 3.57545 3.27279 1.04142 5.43291 4.19166 1053 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 3.94674 4.66909 0.61958 0.77255 0.51274 0.91342\n- 1020 2.60750 4.72297 2.85254 1.84105 3.94686 3.39872 3.64605 2.90240 2.45424 2.95597 3.81233 2.95497 3.81755 2.78886 2.84310 2.66122 2.84505 2.80271 5.25201 3.93226 1054 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 3.94674 4.66909 0.61958 0.77255 0.51274 0.91342\n- 1021 2.94057 4.92810 2.95289 2.70891 4.10644 3.41558 3.86783 3.74870 2.52461 3.24367 4.26958 3.16925 3.97019 1.10764 2.80728 2.98525 3.23755 3.47380 5.36539 4.06409 1055 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20427 3.94674 1.79915 0.61958 0.77255 0.51274 0.91342\n- 1022 2.68001 4.97693 2.71880 2.17000 4.28711 3.22208 3.44379 3.70775 2.00647 3.23645 4.04986 2.83396 3.78467 2.50718 2.31082 2.66522 2.90236 3.35440 5.39784 4.07343 1056 k - - -\n- 2.68618 4.42225 2.77520 2.73120 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.03967 3.24697 * 0.56809 0.83611 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,602 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_RL__RL_B\n-LENG 193\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:03 2021\n-NSEQ 99\n-EFFN 0.782501\n-CKSUM 2929320495\n-GA 20 20;\n-STATS LOCAL MSV -10.7747 0.70581\n-STATS LOCAL VITERBI -11.4909 0.70581\n-STATS LOCAL FORWARD -5.1408 0.70581\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43829 4.30139 2.92688 2.52721 3.31524 2.90682 3.75463 2.98463 2.59958 2.52061 3.75136 3.14027 3.50489 3.08457 2.71641 2.70678 2.87861 2.78274 3.68261 3.59797\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30476 4.06016 1.40466 0.61958 0.77255 0.00000 *\n- 1 2.90684 4.46972 3.96131 3.55042 3.17620 3.77209 4.30487 2.34372 3.32226 1.78530 1.54691 3.83756 4.23397 3.71073 3.53694 3.24639 3.21143 2.33969 5.00479 3.75809 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78956 4.51191 0.61958 0.77255 0.70842 0.67810\n- 2 2.33263 4.39069 3.06504 2.61460 3.89229 3.08111 3.73859 3.21841 2.55531 2.94193 3.69766 2.85563 3.72329 2.95103 2.92098 1.99330 2.48462 2.93308 5.22074 3.94699 2 s - - -\n- 2.68612 4.42238 2.77522 2.73116 3.46362 2.40517 3.72507 3.29355 2.67731 2.69359 4.24702 2.90337 2.73727 3.18149 2.89809 2.37890 2.77514 2.98518 4.58489 3.61516\n- 0.43237 1.09708 4.06343 1.05505 0.42798 0.39167 1.12680\n- 3 2.50565 4.59099 3.14786 2.54836 3.78909 3.46927 3.61310 3.13793 2.23484 2.82639 2.51955 3.06483 3.59301 2.82633 2.73539 2.67757 2.70534 2.90068 5.12209 3.84205 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02653 4.03865 4.76100 0.61958 0.77255 0.50023 0.93240\n- 4 2.54188 4.77634 2.83124 2.40651 4.01585 3.40623 3.61159 3.29082 2.32101 2.81940 3.67708 2.69274 3.48665 2.71497 2.83753 2.27680 2.71336 3.01980 5.27983 3.94544 17 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04583 4.76818 0.61958 0.77255 0.50518 0.92482\n- 5 2.46780 4.94342 2.84578 2.28889 4.23339 3.29336 3.53388 3.63610 1.93209 3.11824 3.84067 2.80956 3.72527 2.56018 2.64657 2.54552 2.82854 3.24915 5.40619 4.04310 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04583 4.76818 0.61958 0.77255 0.50518 0.92482\n- 6 2.56143 4.30403 3.51406 2.92287 3.24282 3.58398 3.85590 2.64720 2.88501 2.38136 3.29433 3.34634 3.97071 3.19861 3.22598 2.84236 1.83795 2.43936 4.89118 3.35889 19 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02633 4.04583 4.76818 0.61958 0.77255 0.50518 0.92482\n- 7 2.60173 4.20682 3.61533 2.92741 3.34789 3.63891 3.91944 2.14925 3.00134 2.30749 3.22280 3.45789 4.0132'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05306 4.77541 0.61958 0.77255 0.49352 0.94282\n- 186 3.37804 4.72243 4.58537 4.16103 1.12806 4.34180 3.90075 2.67511 4.00044 1.76472 3.33424 4.17867 4.63905 4.10117 4.10706 3.70440 3.61231 2.71406 4.10953 2.43117 218 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09129 4.05306 2.66097 0.61958 0.77255 0.49352 0.94282\n- 187 2.54313 5.01601 2.22555 2.17483 4.31557 3.04739 3.57618 3.77408 2.27326 3.26035 3.85268 2.71413 3.65450 2.64915 2.78972 2.50804 2.84514 3.38333 5.47634 4.08642 219 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02788 3.98965 4.71199 0.61958 0.77255 0.55809 0.84934\n- 188 2.56454 4.50387 2.81205 2.43748 2.57073 3.38326 3.68415 3.06173 2.58273 2.69244 3.59656 3.06907 3.84387 2.87521 3.00177 2.58313 2.68227 2.80072 4.79958 3.70695 220 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04562 3.98965 3.64627 0.61958 0.77255 0.55809 0.84934\n- 189 2.49385 4.21305 3.46113 2.81093 3.30350 3.54904 3.81262 2.38926 2.81046 2.26050 2.86482 3.32470 3.76963 3.18032 3.21386 2.70405 2.68676 2.31764 4.80821 3.58344 221 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03491 3.97240 4.16830 0.61958 0.77255 0.54587 0.86592\n- 190 2.60024 4.97859 2.64804 1.87780 4.16154 3.22998 3.57301 3.72265 2.26045 3.15913 4.03889 2.81641 3.59378 2.62827 2.73897 2.51645 2.83407 3.26584 5.44196 4.06240 222 e - - -\n- 2.68618 4.42228 2.77515 2.73123 3.46357 2.40514 3.72498 3.29350 2.67739 2.69351 4.24686 2.90347 2.73741 3.18150 2.89797 2.37887 2.77523 2.98519 4.58480 3.61504\n- 0.18695 3.19384 2.04410 1.23220 0.34482 0.55526 0.85314\n- 191 2.63942 4.96931 2.69401 2.26401 4.27427 3.23599 3.57744 3.64171 1.83851 3.24723 4.05561 2.61438 3.50693 2.60943 2.68643 2.64919 2.89490 3.34540 5.42663 4.08110 253 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08702 3.86112 2.77580 0.61958 0.77255 0.65704 0.73061\n- 192 2.46551 4.65925 2.45693 2.28868 4.18629 2.01967 3.72966 3.60287 2.62824 3.22716 4.06844 2.84899 3.72756 2.91930 3.02696 2.48243 2.77699 3.22136 5.46815 4.13138 254 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04995 3.81488 3.62385 0.61958 0.77255 0.70057 0.68578\n- 193 2.72015 5.15270 1.92095 1.84953 4.41902 3.21275 3.38261 3.90185 2.50377 3.30562 4.25337 2.57473 3.74790 2.76533 3.02362 2.59422 2.97967 3.51597 5.61384 4.18335 255 e - - -\n- 2.68619 4.42231 2.77524 2.73125 3.46343 2.40514 3.72500 3.29301 2.67739 2.69350 4.24686 2.90352 2.73745 3.18150 2.89805 2.37891 2.77521 2.98524 4.58483 3.61504\n- 0.41154 1.08657 * 0.47824 0.96725 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_C.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_C.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2855 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_RL__RL_C\n-LENG 944\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:04 2021\n-NSEQ 100\n-EFFN 0.662231\n-CKSUM 2301802691\n-GA 20 20;\n-STATS LOCAL MSV -12.6128 0.69574\n-STATS LOCAL VITERBI -13.5773 0.69574\n-STATS LOCAL FORWARD -6.8430 0.69574\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50517 4.33155 2.90940 2.63327 3.31725 2.94238 3.74058 2.82275 2.65254 2.43827 3.60108 3.08889 3.43848 3.06587 2.87991 2.70925 2.87433 2.64048 4.19519 3.45047\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05700 3.98647 3.30110 0.61958 0.77255 0.00000 *\n- 1 3.03792 4.57350 4.14199 3.74242 3.24715 3.89829 4.45773 2.43139 3.50564 1.82939 1.22275 4.00917 4.35982 3.88215 3.70080 3.39575 3.34514 2.44733 5.09912 3.86817 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06735 3.95825 3.07844 0.61958 0.77255 0.51384 0.91178\n- 2 1.70765 4.33858 3.14702 2.73228 4.00075 3.08755 3.86155 3.39090 2.68145 3.05922 3.89918 2.90555 3.57127 3.08413 3.13614 2.22477 2.40895 2.96795 5.33530 4.07220 2 a - - -\n- 2.68618 4.42234 2.77523 2.73127 3.46359 2.40516 3.72493 3.29363 2.67736 2.69360 4.24699 2.90340 2.73724 3.18149 2.89798 2.37889 2.77505 2.98520 4.58486 3.61512\n- 0.17936 1.86711 4.64315 1.28679 0.32318 0.50112 0.93102\n- 3 3.15709 4.51523 4.66408 4.12212 3.19996 4.40488 4.77610 1.80834 3.98031 1.11610 3.01268 4.39665 4.65466 4.18536 4.16130 3.75612 3.39764 1.78088 5.22152 4.08723 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95166 4.67400 0.61958 0.77255 0.49957 0.93341\n- 4 2.45198 4.69563 3.02512 2.38649 3.92244 3.41864 3.61822 3.18810 2.23370 2.94342 3.70296 2.97344 3.71210 2.36856 2.79559 2.63925 2.78291 2.66072 5.20793 3.89962 33 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02860 3.96453 4.68688 0.61958 0.77255 0.50773 0.92096\n- 5 2.43618 4.40571 3.24224 2.97927 3.96647 3.17870 4.07519 3.32284 2.95164 2.85975 4.04122 3.28923 1.32955 3.35851 3.25248 2.66243 2.91928 3.00604 5.39274 4.10262 34 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02860 3.96453 4.68688 0.61958 0.77255 0.50773 0.92096\n- 6 3.01902 4.47597 4.11093 3.62770 1.39067 3.95800 3.60916 2.90247 3.48881 2.29590 3.54010 3.59835 4.30829 3.68267 3.51121 3.26754 3.24905 2.75678 3.93546 2.03388 35 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02860 3.96453 4.68688 0.61958 0.77255 0.50773 0.92096\n- 7 2.54968 4.93871 2.52938 1.62012 4.36303 3.25151 3.71968 3.79141 2.56844 3.38002 4.21398 2.83935 3.80'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 937 2.83203 5.24596 2.16014 1.28791 4.54836 3.24636 3.72226 3.92392 2.64183 3.56190 4.41444 2.74075 3.82442 2.88602 3.15983 2.76641 3.02768 3.60804 5.75634 4.31589 1115 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 938 1.69960 4.26678 3.51762 3.02770 3.61780 3.35735 3.96982 2.75510 2.93460 2.15570 3.49002 3.34949 3.89196 3.28191 3.25654 2.51149 2.81327 2.50627 5.10290 3.85825 1116 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 939 3.10573 4.42922 4.73201 4.20028 3.40437 4.43673 4.88996 1.19012 4.07495 1.81635 3.08487 4.45303 4.70598 4.31491 4.27056 3.79728 3.35476 1.54814 5.38482 4.21569 1117 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 940 2.90020 5.05973 3.36715 2.71982 4.42972 3.61684 3.41084 3.80500 1.75615 3.19386 4.15044 3.14124 3.98283 2.69997 1.42983 2.95713 3.12404 3.49460 5.37727 4.17468 1118 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 941 2.70485 4.87801 2.57809 2.39191 4.15197 3.24924 3.43583 3.81631 2.58421 3.39136 4.25267 1.50331 3.82985 2.95691 2.98706 2.58650 2.99539 3.43399 5.45430 4.03489 1119 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 942 2.95158 4.93901 2.96218 2.71865 4.11901 3.42457 3.87760 3.76349 2.53352 3.25715 4.28293 3.17901 3.97952 1.08670 2.81583 2.99582 3.24866 3.48785 5.37578 4.07543 1120 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 943 3.02495 5.04223 3.44585 2.84610 4.45537 3.61867 3.65525 3.84288 1.84578 3.33211 4.23684 3.23056 4.02873 2.81176 1.17623 3.05224 3.21971 3.54313 5.39485 4.22098 1121 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95968 4.68203 0.61958 0.77255 0.51031 0.91707\n- 944 3.20946 4.58442 4.64724 4.09594 3.12425 4.42146 4.74530 2.00110 3.92825 0.96864 2.83349 4.38883 4.65405 4.13571 4.10746 3.76837 3.44415 2.01919 5.17333 4.05114 1122 l - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40499 3.72496 3.29356 2.67742 2.69355 4.24691 2.90345 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58479 3.61505\n- 0.13331 2.08097 * 0.44009 1.03277 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_D.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_RL__RL_D.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2738 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_RL__RL_D\n-LENG 905\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:13 2021\n-NSEQ 100\n-EFFN 0.588989\n-CKSUM 363873917\n-GA 100 100;\n-STATS LOCAL MSV -12.5664 0.69584\n-STATS LOCAL VITERBI -13.4972 0.69584\n-STATS LOCAL FORWARD -6.7524 0.69584\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52940 4.33955 2.92136 2.61773 3.31577 2.93058 3.75807 2.78428 2.69313 2.36631 3.67250 3.11614 3.46879 3.08990 2.84492 2.68595 2.88502 2.61745 4.26772 3.55441\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24549 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.21725 1.84549 3.28813 0.33423 1.25840 0.00000 *\n- 1 2.49307 4.29223 3.33488 2.82216 3.50030 3.36568 3.71395 2.86137 2.73796 2.57605 2.28967 3.12983 3.86355 3.09076 3.07757 2.45757 2.64166 2.61844 4.92986 3.61515 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03028 3.90808 4.63043 0.61958 0.77255 0.48416 0.95767\n- 2 2.18241 4.53875 2.97661 2.47485 3.79939 3.16266 3.67235 3.18134 2.51667 2.84363 3.43268 2.95882 3.79960 2.87429 2.96150 2.58986 2.35273 2.83372 5.14127 3.85022 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02972 3.92660 4.64895 0.61958 0.77255 0.49514 0.94030\n- 3 3.16096 4.50669 4.66526 4.14736 3.21349 4.41170 4.78545 1.38438 3.97577 1.33680 3.05585 4.41211 4.67135 4.21588 4.15292 3.78330 3.40592 1.89142 5.22548 4.04461 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02972 3.92660 4.64895 0.61958 0.77255 0.49514 0.94030\n- 4 2.69103 4.96343 3.01785 2.43161 4.28035 3.44479 3.41162 3.59009 1.89833 3.22103 4.02831 2.66548 3.82883 2.52871 2.14205 2.64417 2.90396 3.30182 5.37618 3.97716 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02972 3.92660 4.64895 0.61958 0.77255 0.49514 0.94030\n- 5 3.00359 4.91570 3.47259 2.94955 4.20890 3.54627 3.68794 3.79430 2.13716 3.28673 4.25005 3.31586 4.02023 2.96312 1.03354 3.06746 3.24884 3.50550 5.29957 4.08776 7 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02972 3.92660 4.64895 0.61958 0.77255 0.49514 0.94030\n- 6 3.24670 4.66449 4.33660 4.00231 1.08985 4.07566 3.86528 2.64643 3.87673 2.05505 3.41954 4.04292 4.48899 4.02840 4.00345 3.53222 3.53524 2.68644 4.10276 2.45570 8 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02972 3.92660 4.64895 0.61958 0.77255 0.49514 0.94030\n- 7 2.34174 4.26290 3.25355 3.07174 4.13022 2.99178 4.18015 3.66010 3.14915 3.37613 4.29765 3.28793 3.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 898 2.69929 4.26847 3.63629 3.14049 3.49042 3.75181 4.14568 1.96881 3.19363 2.35043 3.40511 3.61847 4.15469 3.51543 3.49441 3.06443 2.88901 1.43598 5.08558 3.85553 934 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 899 2.68687 5.16899 2.05220 1.95182 4.47338 3.20207 3.63513 3.94863 2.49363 3.47006 4.27116 2.45326 3.77319 2.77540 2.95293 2.21829 2.97660 3.54773 5.64612 4.21821 935 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 900 2.68185 4.87809 3.22570 2.60889 4.19066 3.51632 3.59244 3.37413 1.59598 3.03183 3.97130 3.06415 3.89565 2.74206 2.06740 2.79882 2.97022 3.17689 5.30326 4.05366 936 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 901 3.19037 4.62189 4.45615 3.95607 3.05755 4.27623 4.59246 2.18619 3.70369 0.92700 2.77910 4.24668 4.57072 4.00552 3.88739 3.66321 3.44169 2.26425 5.06670 3.85457 937 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 902 2.32692 4.28542 3.14987 2.89720 4.12467 3.01370 4.02609 3.58522 2.89473 3.27449 4.15654 3.17641 3.71660 3.28654 3.07249 1.22955 2.72253 3.13020 5.47754 4.18814 938 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 903 2.52658 4.80120 2.92191 1.88475 4.05698 3.39289 3.59633 3.37267 2.23242 2.95223 3.80794 2.92426 3.79735 2.70300 2.72405 2.63616 2.81282 3.04676 5.29346 3.96993 939 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 904 2.20893 4.28868 3.10137 2.87951 4.23509 2.67092 4.06644 3.63386 2.99018 3.32836 4.19686 3.17198 1.47775 3.32235 3.32248 2.48391 2.78497 3.16262 5.55133 4.31475 940 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 3.91602 4.63836 0.61958 0.77255 0.50514 0.92488\n- 905 3.40801 4.76722 4.15780 3.87453 2.71094 3.77896 3.95343 3.43328 3.59572 2.82073 4.06509 4.01475 4.30029 3.98108 3.71647 3.61131 3.71057 3.32483 0.80188 2.71073 941 w - - -\n- 2.68620 4.42227 2.77522 2.73123 3.46356 2.40505 3.72497 3.29354 2.67740 2.69357 4.24692 2.90348 2.73742 3.18146 2.89803 2.37880 2.77520 2.98521 4.58479 3.61505\n- 0.11902 2.18735 * 0.62976 0.76082 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_TerY__TerYA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_TerY__TerYA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,854 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_TerY__TerYA\n-LENG 277\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:57 2021\n-NSEQ 100\n-EFFN 0.546265\n-CKSUM 2693675324\n-GA 100 100;\n-STATS LOCAL MSV -10.9882 0.70193\n-STATS LOCAL VITERBI -11.8138 0.70193\n-STATS LOCAL FORWARD -5.2915 0.70193\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47647 4.34686 2.83179 2.71061 3.23683 2.71598 3.76636 2.82584 2.80432 2.47168 3.60263 3.11410 3.25083 3.17776 2.98442 2.59122 2.83796 2.62083 4.73036 3.60837\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03627 3.90586 4.16685 0.61958 0.77255 0.00000 *\n- 1 2.99076 4.53513 4.07897 3.67439 3.21957 3.85465 4.40313 2.39791 3.44100 1.80997 1.32596 3.94851 4.31530 3.82099 3.64310 3.34281 3.29655 2.40726 5.06415 3.82842 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90012 4.62246 0.61958 0.77255 0.49116 0.94654\n- 2 1.71658 4.21604 3.32512 2.88604 3.97607 3.05606 3.94450 3.33084 2.86705 3.03854 3.73119 3.17820 3.28605 3.19134 3.22672 1.97568 2.39896 2.93196 5.33573 4.09514 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90012 4.62246 0.61958 0.77255 0.49116 0.94654\n- 3 3.19452 4.77060 3.70252 3.34587 2.17891 3.89982 2.83826 3.37645 3.17579 2.81583 3.93390 3.55728 4.29840 3.50774 3.41052 3.27822 3.43296 3.20219 3.82234 1.18506 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90012 4.62246 0.61958 0.77255 0.49116 0.94654\n- 4 2.66235 4.92032 2.62658 1.72326 4.23842 3.30395 3.63816 3.59318 2.42493 3.24017 4.06784 2.84205 3.78993 2.62438 2.86324 2.49189 2.63603 3.30666 5.45441 4.09901 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90012 4.62246 0.61958 0.77255 0.49116 0.94654\n- 5 1.11443 4.13517 3.46014 3.21713 4.04697 2.97530 4.23500 3.16607 3.21433 3.07143 4.05104 3.34814 3.72016 3.54971 3.47920 2.41412 2.73238 2.75410 5.50650 4.26003 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90012 4.62246 0.61958 0.77255 0.49116 0.94654\n- 6 2.69825 5.00523 2.59643 2.04631 4.32530 3.31060 3.62520 3.76476 2.37718 3.31403 4.13457 2.82664 3.29222 1.98998 2.80195 2.55226 2.94824 3.40135 5.49880 4.13750 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90012 4.62246 0.61958 0.77255 0.49116 0.94654\n- 7 3.05258 4.46339 4.37525 3.99195 3.39264 4.09660 4.71481 1.04433 3.82063 1.97282 3.32349 4.23340 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90586 4.62821 0.61958 0.77255 0.48576 0.95510\n- 270 2.70624 4.47861 3.38688 3.29040 4.43254 0.67939 4.40883 4.04008 3.47623 3.69008 4.66593 3.55111 3.87082 3.79772 3.70881 2.87908 3.19007 3.56195 5.51908 4.53549 271 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90586 4.62821 0.61958 0.77255 0.48576 0.95510\n- 271 2.43041 4.27561 3.45743 3.21077 3.99806 3.11384 4.22558 3.12925 3.15441 2.99157 4.03980 3.41493 3.82015 3.54751 3.41160 2.63203 1.11656 2.82067 5.43293 4.21464 272 t - - -\n- 2.68617 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69353 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.03607 3.66289 4.62821 0.64805 0.74038 0.48576 0.95510\n- 272 2.92594 4.86569 3.40440 2.89660 4.21899 3.49737 3.73706 3.74594 2.12122 3.28246 4.22423 3.18286 3.98209 2.93259 1.11734 2.99317 3.18425 3.44123 5.31002 4.09046 276 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90586 4.62821 0.61958 0.77255 0.48576 0.95510\n- 273 1.16240 4.21092 3.28661 3.03066 4.09089 3.01241 4.11924 3.32190 2.98527 3.12983 4.05680 3.25978 3.46024 3.40173 3.34593 2.48374 2.75916 2.92937 5.48142 4.25141 277 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90586 4.62821 0.61958 0.77255 0.48576 0.95510\n- 274 1.68980 4.13355 3.33030 3.06411 4.19626 2.91175 4.14984 3.54272 3.11911 3.29418 4.15373 3.24005 3.65500 3.42596 3.42676 1.41656 2.67799 3.04700 5.56100 4.32916 278 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90586 4.62821 0.61958 0.77255 0.48576 0.95510\n- 275 2.84068 4.92309 2.70963 2.52844 4.14415 3.34518 3.77222 3.73310 2.46563 3.27957 4.23257 3.01581 3.89468 1.32188 2.78662 2.86432 3.12946 3.42306 5.39148 4.05714 279 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90586 4.62821 0.61958 0.77255 0.48576 0.95510\n- 276 3.19040 4.61576 4.46621 3.96069 2.96141 4.29230 4.56377 2.17917 3.74253 0.93582 2.83392 4.24793 4.57506 4.01180 3.92878 3.66535 3.43825 2.25787 5.00841 3.75703 280 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03035 3.90586 4.62821 0.61958 0.77255 0.48576 0.95510\n- 277 2.96705 4.85218 3.45884 2.96801 4.28064 3.36857 3.81200 3.79169 2.21974 3.32593 4.27932 3.33330 3.99255 3.01825 1.00570 3.04540 3.23646 3.48592 5.33411 4.17554 281 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02053 3.89604 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_TerY__TerYB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_TerY__TerYB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,752 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_TerY__TerYB\n-LENG 243\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:58 2021\n-NSEQ 100\n-EFFN 1.046753\n-CKSUM 1235717982\n-GA 38 38;\n-STATS LOCAL MSV -10.9238 0.70317\n-STATS LOCAL VITERBI -11.5337 0.70317\n-STATS LOCAL FORWARD -5.4621 0.70317\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46594 4.39772 2.81903 2.61319 3.17624 3.06234 3.76461 2.93333 2.71635 2.37050 3.61481 3.13484 3.51173 3.07664 2.99982 2.55656 2.81005 2.68661 4.14028 3.59909\n- 2.68623 4.42230 2.77524 2.73128 3.46358 2.40517 3.72492 3.29359 2.67737 2.69359 4.24502 2.90351 2.73744 3.18147 2.89786 2.37891 2.77524 2.98523 4.58482 3.61508\n- 0.20990 1.82008 3.60017 0.57220 0.83076 0.00000 *\n- 1 3.35254 4.69865 4.88135 4.31647 2.69051 4.55715 4.76942 2.33204 4.17752 1.27967 1.37705 4.55512 4.75141 4.27156 4.29061 3.89432 3.57053 2.48024 5.07520 3.91319 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02269 4.19295 4.91529 0.61958 0.77255 0.51121 0.91572\n- 2 2.70607 4.89634 3.12081 2.53906 3.74366 3.37593 3.65577 3.57522 1.72422 3.15611 3.97761 3.03704 3.89004 2.80093 2.07303 2.73440 2.81257 3.00725 5.36477 4.05945 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02269 4.19295 4.91529 0.61958 0.77255 0.51121 0.91572\n- 3 2.48120 4.10426 3.65879 3.08387 3.35648 3.62657 3.79253 2.58924 2.94497 1.90958 3.33822 3.43678 4.00263 2.93950 3.06290 2.88747 2.83953 2.01163 4.82919 3.61307 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02269 4.19295 4.91529 0.61958 0.77255 0.47776 0.96803\n- 4 2.57139 4.95643 2.58137 1.85151 4.23401 3.42024 3.62491 3.67116 2.39623 2.77921 3.80679 2.76707 3.81818 2.75085 2.81310 2.62769 2.78681 3.09822 5.43313 4.06683 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02232 4.20944 4.93179 0.61958 0.77255 0.49060 0.94742\n- 5 3.41122 4.75171 4.67663 4.23963 0.96570 4.38135 3.90583 2.81526 4.08131 2.07535 3.48481 4.21693 4.68590 4.16171 4.17547 3.72785 3.64343 2.62403 4.11362 2.36065 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02232 4.20944 4.93179 0.61958 0.77255 0.49060 0.94742\n- 6 2.10051 4.12955 3.19332 2.60623 3.75870 3.50240 3.33374 3.01798 2.55613 2.56151 3.66597 3.11235 3.88933 2.72268 2.98103 2.27898 2.84349 2.83298 5.12184 3.84012 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02232 4.20944 4.93179 0.61958 0.77255 0.49060 0.94742\n- 7 1.71852 4.44202 3.20046 2.85670 4.44699 1.26262 4.22040 3.82959 3.17671 3.52483 4.36693 3.29317 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02229 4.21078 4.93313 0.61958 0.77255 0.48843 0.95085\n- 236 2.54286 4.39125 3.42591 2.85579 3.54310 3.57266 3.61940 2.51789 2.67161 2.60763 3.46008 3.27781 3.95461 3.11113 2.46709 2.65059 2.78654 2.03513 4.96651 3.72553 246 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02229 4.21078 4.93313 0.61958 0.77255 0.48843 0.95085\n- 237 3.07123 4.57123 4.89804 4.33443 3.05672 4.51546 4.86142 1.87036 4.21545 0.96404 3.05674 4.55431 4.74399 4.33766 4.33844 3.85560 3.47160 1.95979 5.23661 4.13581 247 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02229 4.21078 4.93313 0.61958 0.77255 0.48843 0.95085\n- 238 2.20817 4.63226 3.04537 2.59025 3.84962 3.47541 3.71595 3.10869 2.49893 2.77310 3.73853 3.07861 3.87393 2.91232 2.86265 1.99891 2.75058 2.74036 5.18855 3.89420 248 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02229 4.21078 4.93313 0.61958 0.77255 0.48843 0.95085\n- 239 2.58774 4.25046 4.21380 3.64600 1.67023 3.88465 4.18611 2.35170 3.52819 1.93988 3.20156 3.86597 3.88650 3.74764 3.71869 3.18686 3.02118 2.11168 4.81183 3.56819 249 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20463 4.20897 1.77084 0.61958 0.77255 0.48843 0.95085\n- 240 2.58643 5.03618 2.32086 1.98462 4.34141 3.20635 3.58294 3.80200 2.27767 3.19744 4.09534 2.83577 3.67636 2.69981 2.67472 2.48459 2.85460 3.29196 5.49333 4.10184 250 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03107 4.75342 0.61958 0.77255 0.67722 0.70933\n- 241 2.47597 4.91278 2.71413 2.27668 4.19251 3.10562 3.51504 3.63343 2.32345 3.13851 3.79718 2.65684 3.77336 2.67445 2.51664 2.46560 2.74492 3.09313 5.38748 4.02171 251 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06384 4.03107 3.12159 0.61958 0.77255 0.67722 0.70933\n- 242 2.55803 4.89727 2.78898 2.04327 4.17188 2.81916 3.49883 3.49367 2.27228 3.17151 3.96343 2.87737 3.59898 2.71258 2.68212 2.59125 2.82095 3.02140 5.37629 4.01626 252 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10371 3.99496 2.52440 0.61958 0.77255 0.70808 0.67843\n- 243 2.42180 4.26722 2.92740 2.25742 3.80766 3.28652 3.63311 3.02551 2.38015 2.84644 3.68913 2.98787 3.79939 2.82168 2.91709 2.56502 2.70575 2.63999 5.13712 3.83608 253 e - - -\n- 2.68618 4.42248 2.77487 2.73120 3.46384 2.40521 3.72487 3.29356 2.67766 2.69315 4.24720 2.90356 2.73712 3.18176 2.89808 2.37876 2.77535 2.98511 4.58507 3.61519\n- 0.41523 1.07936 * 1.70951 0.19961 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_TerY__TerYC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_TerY__TerYC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1709 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_TerY__TerYC\n-LENG 562\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:58 2021\n-NSEQ 100\n-EFFN 0.668335\n-CKSUM 2283955987\n-GA 200 200;\n-STATS LOCAL MSV -12.1732 0.69750\n-STATS LOCAL VITERBI -12.9336 0.69750\n-STATS LOCAL FORWARD -6.2975 0.69750\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49354 4.37339 3.00476 2.73471 3.25507 2.86558 3.74736 2.78028 2.66544 2.44650 3.65638 3.06180 3.33935 3.08378 2.95184 2.56860 2.87141 2.66162 4.44292 3.44076\n- 2.68620 4.42224 2.77522 2.73125 3.46356 2.40515 3.72497 3.29353 2.67741 2.69355 4.24673 2.90345 2.73742 3.18147 2.89799 2.37881 2.77520 2.98521 4.58479 3.61498\n- 0.04750 3.54362 4.04656 1.11607 0.39685 0.00000 *\n- 1 2.99431 4.55974 4.06349 3.65098 3.23165 3.88309 4.38559 2.45840 3.40286 1.83222 1.28717 3.93020 4.33567 3.73062 3.60964 3.33304 3.29521 2.47381 5.07396 3.82692 18 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02810 3.98200 4.70434 0.61958 0.77255 0.49446 0.94135\n- 2 1.84387 4.29636 3.26661 2.85377 4.06984 3.09148 3.95707 3.44498 2.86120 3.00587 3.97493 3.17343 2.27154 3.18843 3.23350 2.03192 2.68392 3.03138 5.41182 4.15784 19 a - - -\n- 2.68617 4.42225 2.77520 2.73123 3.46353 2.40512 3.72495 3.29353 2.67741 2.69355 4.24690 2.90347 2.73740 3.18145 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.03096 3.84292 4.70434 0.66269 0.72456 0.49446 0.94135\n- 3 3.40814 4.85267 4.00116 3.75195 2.30376 3.95868 3.67411 3.40236 3.60635 2.82781 4.06622 3.86027 4.43039 3.88598 3.76724 3.53360 3.69559 3.27822 3.95142 0.80145 25 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02810 3.98200 4.70434 0.61958 0.77255 0.49446 0.94135\n- 4 2.90201 4.64016 3.52118 3.37671 4.36096 3.32151 4.44444 3.93541 3.44354 3.55004 4.60518 3.67195 0.64702 3.82900 3.67592 3.07313 3.35239 3.56816 5.51664 4.48341 26 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02810 3.98200 4.70434 0.61958 0.77255 0.49446 0.94135\n- 5 2.27884 4.22250 3.29635 3.07785 4.23789 2.97053 4.19052 3.64143 3.13483 3.37938 4.26226 3.27426 3.71818 3.47171 3.43143 1.07456 2.59817 3.14461 5.60845 4.34370 27 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02810 3.98200 4.70434 0.61958 0.77255 0.49446 0.94135\n- 6 3.29371 4.65872 4.65334 4.15559 2.33603 4.40700 4.47270 2.28808 4.00970 0.92456 2.94990 4.36834 4.65231 4.14751 4.14713 3.77890 3.52697 2.40410 4.76160 3.37366 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02810 3.98200 4.70434 0.61958 0.77255 0.49446 0.94135\n- 7 3.04944 5.17990 2.53805 0.87917 4.54031 3.34678 3.94436 4.01608 2.83888 3.61607 4.58629 2.99926 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 555 3.02158 5.17435 3.39323 2.73999 4.61857 3.64884 3.59052 3.96656 1.31603 3.40230 4.26076 3.15689 4.01192 2.56052 1.73538 3.00872 3.18607 3.64167 5.45001 4.27002 650 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 556 3.00200 4.41551 4.66338 4.10111 2.98618 4.33366 4.68258 1.48754 3.99181 1.41054 2.93000 4.33898 4.58823 4.15787 4.15141 3.66383 3.26818 1.86236 5.14195 4.01110 651 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 557 3.06329 4.44263 4.51328 3.97252 1.68526 4.16623 4.09242 2.26337 3.82973 1.46731 3.04816 4.09924 4.44787 3.95168 3.95045 3.48296 3.28594 2.46937 4.02782 2.93612 652 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 558 2.66298 5.06954 2.51008 2.28078 4.39631 3.20357 3.58927 3.83994 1.74918 3.35109 4.14034 2.86378 3.80682 2.71245 2.40163 2.63382 2.91860 3.45536 5.50202 4.14190 653 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 559 3.13282 4.60746 4.12552 3.67959 2.17640 3.97619 3.65190 3.01392 3.32567 2.47302 3.64284 3.79426 4.36025 3.72505 3.63261 3.34733 3.38014 2.89953 1.41631 2.31645 654 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 560 3.04222 4.46438 4.42866 3.87666 2.63264 4.19003 4.45318 2.13352 3.75145 1.10018 2.98531 4.14220 4.47534 3.94771 3.94020 3.51194 3.00902 2.22751 4.94754 3.72546 655 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 561 2.69800 4.27652 3.88296 3.37005 1.78428 3.67797 3.92047 2.58757 3.26972 2.16707 3.34301 3.61748 4.10578 3.53234 3.51766 2.52300 2.96889 2.31906 4.54857 3.10230 656 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02800 3.98551 4.70786 0.61958 0.77255 0.49090 0.94694\n- 562 2.53013 4.95664 2.56844 2.31717 4.26776 2.53268 3.59968 3.70732 2.19368 3.25583 4.04943 2.86480 3.78606 2.73069 2.41640 2.61039 2.79793 3.33716 5.44403 4.08108 657 k - - -\n- 2.68621 4.42199 2.77514 2.73132 3.46361 2.40522 3.72461 3.29306 2.67744 2.69322 4.24699 2.90356 2.73748 3.18155 2.89810 2.37891 2.77522 2.98527 4.58477 3.61512\n- 0.20115 1.70260 * 1.09968 0.40493 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Tmn__TmnA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Tmn__TmnA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3842 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Tmn__TmnA\n-LENG 1273\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:39:49 2021\n-NSEQ 100\n-EFFN 0.393677\n-CKSUM 1986518640\n-GA 200 200;\n-STATS LOCAL MSV -13.0493 0.69506\n-STATS LOCAL VITERBI -14.1884 0.69506\n-STATS LOCAL FORWARD -7.4104 0.69506\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58282 4.15545 2.84591 2.71305 3.21439 2.95284 3.77338 2.66732 2.78381 2.30693 3.65170 3.00428 3.46010 3.25309 3.00215 2.64726 2.92093 2.55656 4.71898 3.45188\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.00000 *\n- 1 2.90630 4.46931 3.96053 3.54961 3.17595 3.77153 4.30424 2.34340 3.32148 1.78520 1.54852 3.83684 4.23343 3.71001 3.53624 3.24576 3.21089 2.33927 5.00443 3.75764 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 2 2.96602 4.41112 4.21192 3.82647 3.32025 3.97202 4.57167 1.18825 3.65276 1.92632 3.27156 4.08362 4.41342 4.01114 3.85903 3.46118 3.26763 1.85088 5.19201 3.92141 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 3 2.90630 4.46931 3.96053 3.54961 3.17595 3.77153 4.30424 2.34340 3.32148 1.78520 1.54852 3.83684 4.23343 3.71001 3.53624 3.24576 3.21089 2.33927 5.00443 3.75764 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 4 2.24981 4.18457 3.10693 2.90838 4.04780 2.91334 4.04041 3.53201 2.98151 3.24596 4.15191 3.15408 3.50875 3.33306 3.28060 1.28268 2.72093 3.06737 5.41547 4.13034 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 5 2.35330 4.20543 3.37215 3.08762 3.82982 3.08083 4.09894 2.87487 3.00066 2.78870 3.85231 3.31386 3.76601 3.40574 3.27102 2.55728 1.45062 2.62807 5.32358 4.05897 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 6 2.64794 4.41665 3.24652 3.07536 4.07353 3.10901 4.15797 3.59942 3.12584 3.23464 4.28256 3.38935 0.99902 3.51730 3.37900 2.81336 3.08348 3.25417 5.28109 4.19384 6 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 7 3.20364 4.60694 3.96768 3.65467 2.59056 3.64001 3.80472 3.22563 3.37939 2.63404 3.86313 3.82109 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1266 2.74250 4.31067 4.00733 3.67020 3.49142 3.63467 4.48712 2.06292 3.53657 2.19481 3.47178 3.87274 4.20151 3.90347 3.75666 3.13479 3.10716 1.13797 5.26087 3.98619 1266 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1267 2.91489 4.75548 3.39740 2.92916 4.08887 3.41598 3.77059 3.62667 2.21395 3.15805 4.16265 3.29419 3.92464 2.99704 1.11463 3.00441 3.18790 3.35480 5.20723 4.03663 1267 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1268 2.90331 5.01204 1.04601 2.29096 4.37882 3.15047 3.86327 3.94874 2.93256 3.57318 4.55173 2.84210 3.79767 3.10400 3.43543 2.87685 3.24096 3.59769 5.56355 4.26854 1268 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1269 2.74250 4.31067 4.00733 3.67020 3.49142 3.63467 4.48712 2.06292 3.53657 2.19481 3.47178 3.87274 4.20151 3.90347 3.75666 3.13479 3.10716 1.13797 5.26087 3.98619 1269 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1270 2.88452 4.97195 2.45973 1.15093 4.30840 3.22304 3.80573 3.74571 2.67596 3.37750 4.35773 2.89248 3.82440 3.02478 3.07416 2.87709 3.18897 3.43917 5.49604 4.22096 1270 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1271 3.15507 4.58241 4.12301 3.82358 1.15950 3.86052 3.84587 2.69133 3.73315 2.08197 3.43548 3.92611 4.32264 3.92492 3.87352 3.42805 3.45702 2.67545 4.12358 2.50265 1271 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1272 3.13052 4.65340 3.71639 3.43215 2.30383 3.73393 3.58628 3.15177 3.29206 2.62681 3.83622 3.62341 4.21081 3.61826 3.49209 3.27484 3.41742 3.01868 3.94366 1.11728 1272 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03419 3.78882 4.51117 0.61958 0.77255 0.48576 0.95510\n- 1273 2.90331 5.01204 1.04601 2.29096 4.37882 3.15047 3.86327 3.94874 2.93256 3.57318 4.55173 2.84210 3.79767 3.10400 3.43543 2.87685 3.24096 3.59769 5.56355 4.26854 1273 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02314 3.77777 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Upx__UpxA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Gao_Upx__UpxA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3836 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Gao_Upx__UpxA\n-LENG 1271\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 13:40:00 2021\n-NSEQ 100\n-EFFN 0.778198\n-CKSUM 3402056038\n-GA 250 250;\n-STATS LOCAL MSV -13.0399 0.69507\n-STATS LOCAL VITERBI -13.9715 0.69507\n-STATS LOCAL FORWARD -7.6766 0.69507\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49444 4.32153 2.89420 2.66371 3.27830 2.89371 3.74124 2.78193 2.76171 2.33443 3.60581 3.13436 3.47650 3.11165 2.89076 2.68300 2.90796 2.58431 4.33400 3.60413\n- 2.68624 4.42231 2.77506 2.73119 3.46360 2.40519 3.72492 3.29342 2.67741 2.69352 4.24648 2.90353 2.73745 3.18151 2.89796 2.37884 2.77526 2.98522 4.58483 3.61502\n- 0.21516 2.80809 2.01542 1.41977 0.27677 0.00000 *\n- 1 3.04221 4.52695 4.30196 3.77952 3.13008 4.11370 4.47380 2.17267 3.55477 1.59772 1.55143 4.07375 4.44982 3.86908 3.76603 3.46914 3.30110 2.21696 5.06739 3.86739 17 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02966 3.92848 4.65082 0.61958 0.77255 0.61409 0.77900\n- 2 2.51946 4.61162 2.68529 2.50635 4.25763 3.11188 3.85848 3.79743 2.74035 3.42162 4.27266 1.60914 3.75922 3.06922 3.14428 2.08145 2.90607 3.35091 5.55425 4.18901 18 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03628 3.92848 4.13768 0.61958 0.77255 0.61409 0.77900\n- 3 2.79449 5.30669 1.81343 1.73797 4.57803 3.23716 2.91405 4.08529 2.56699 3.58826 4.40088 2.60161 3.78857 2.80731 3.10697 2.71237 3.05722 3.67383 5.74542 4.28582 19 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02986 3.92205 4.64440 0.61958 0.77255 0.61951 0.77264\n- 4 2.42266 4.90508 2.52487 2.19055 4.17663 3.33130 2.79465 3.61421 2.40129 3.18537 3.98838 2.84006 3.67330 2.73625 2.87930 2.37953 2.77079 3.26086 5.39801 3.94102 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02986 3.92205 4.64440 0.61958 0.77255 0.61951 0.77264\n- 5 2.71681 4.31151 3.24055 3.19422 2.27933 3.73300 3.93074 2.45142 3.13304 1.76176 3.23471 3.53864 4.09782 3.40399 3.43017 3.01310 2.95289 2.34022 4.69383 3.33772 21 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09279 3.92205 2.67640 0.61958 0.77255 0.61951 0.77264\n- 6 2.14757 4.26424 3.24618 2.79226 3.88893 3.11951 3.86537 2.97477 2.77181 2.94165 3.80222 3.13508 3.09107 3.10617 3.14346 1.83843 2.54581 2.86772 5.25507 4.00224 22 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03177 3.86103 4.58338 0.61958 0.77255 0.66801 0.71894\n- 7 2.59791 4.94389 2.60896 2.16168 4.21803 3.32020 2.76333 3.65955 2.35691 3.16046 4.01841 2.62346 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1264 2.59808 4.39460 3.07841 2.46931 4.12542 3.01318 3.68008 3.53260 2.38163 3.12956 3.95235 3.02202 3.82867 2.83870 1.88855 2.23753 2.86326 3.18781 5.34976 4.04978 1287 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1265 2.47609 4.28845 3.61532 3.09275 3.56578 3.51728 4.01008 2.27214 3.02377 2.52202 3.50284 3.43661 2.20639 3.34212 3.35137 2.78618 2.86823 2.01836 5.07256 3.84222 1288 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1266 2.69886 5.16573 2.26134 1.99132 4.49362 3.29931 3.68705 3.96425 2.55614 3.49413 4.29555 2.43162 3.81721 2.82857 3.07570 1.83594 2.95658 3.56382 5.67483 4.25447 1289 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1267 2.53900 5.40366 1.23995 1.97807 4.73274 3.25080 3.79059 4.19927 2.79097 3.74775 4.59917 2.73587 3.86340 2.95764 3.36926 2.82607 3.20906 3.79071 5.93469 4.45344 1290 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1268 3.32337 4.66042 4.82381 4.30141 3.14696 4.55307 4.88452 1.81017 4.11356 0.89795 2.97385 4.56687 4.77192 4.30388 4.25773 3.93204 3.56033 2.14898 5.22531 4.08558 1291 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1269 2.92780 4.53354 3.74275 3.00138 3.35053 3.85651 4.20067 2.47484 3.14099 1.12397 3.29449 3.69386 4.26548 3.55541 3.39641 3.23273 3.18613 2.38282 5.08722 3.84334 1292 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1270 2.52325 5.01694 2.82184 2.02443 4.32383 3.38950 3.60071 3.76549 2.14578 3.29849 4.08584 2.26894 3.80691 2.72492 2.60913 2.64213 2.88962 3.18933 5.47102 4.10748 1293 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05328 4.77563 0.61958 0.77255 0.48830 0.95105\n- 1271 2.96557 4.37093 4.37565 3.84206 1.83545 4.03583 3.93214 2.55726 3.70888 1.68507 3.22325 3.95284 4.35819 3.85413 3.84605 3.34441 3.19289 2.24975 4.28591 2.22907 1294 l - - -\n- 2.68624 4.42183 2.77525 2.73129 3.46367 2.40513 3.72452 3.29354 2.67744 2.69342 4.24703 2.90351 2.73736 3.18146 2.89814 2.37882 2.77524 2.98519 4.58490 3.61486\n- 0.24004 1.54459 * 1.26682 0.33090 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GasderMIN__bGSDM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/GasderMIN__bGSDM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,833 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME bGSDM\n-LENG 270\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Oct 11 16:41:56 2021\n-NSEQ 19\n-EFFN 3.966064\n-CKSUM 3549766888\n-GA 50 50;\n-STATS LOCAL MSV -10.5509 0.70219\n-STATS LOCAL VITERBI -11.4973 0.70219\n-STATS LOCAL FORWARD -5.5117 0.70219\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42777 4.67863 2.96442 2.67560 3.23299 2.79072 3.92846 2.87177 2.67709 2.33781 3.75591 3.09912 3.32190 3.03401 3.01172 2.61739 2.86111 2.59601 5.01108 3.63765\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.45129 5.15160 1.02888 0.61958 0.77255 0.00000 *\n- 1 3.91593 5.35867 5.13135 4.87072 3.94182 4.59242 5.41465 3.22843 4.59634 2.46815 0.37319 5.02424 5.11720 4.94407 4.68487 4.31222 4.27121 3.32267 5.82941 4.65398 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01342 4.71372 5.43607 0.61958 0.77255 1.25751 0.33458\n- 2 1.78263 3.14981 3.59644 3.04253 3.83095 3.65697 4.03883 3.20082 3.00743 2.89941 2.91100 2.67349 4.10179 3.32090 3.38732 2.20822 2.23278 2.94068 5.24477 3.99741 2 a - - -\n- 2.68632 4.42020 2.77534 2.73137 3.46278 2.40527 3.72509 3.29319 2.67755 2.69369 4.24704 2.90361 2.73754 3.18160 2.89815 2.37849 2.77534 2.98491 4.58491 3.61517\n- 1.10706 0.97700 1.22747 0.27710 1.41873 0.65171 0.73637\n- 3 2.77272 4.27710 4.13665 3.55354 2.81880 3.85847 4.15353 2.70948 3.44401 1.93076 2.15248 3.80013 4.22785 3.68196 2.85227 2.13262 3.00483 2.28030 4.88262 3.68665 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01408 4.66582 5.38817 0.61958 0.77255 0.55331 0.85576\n- 4 2.53473 4.76224 3.52456 2.53221 3.09889 2.84987 4.01765 3.30520 2.93508 2.50688 2.05943 3.42621 2.83257 3.26257 2.40608 3.01274 3.10274 3.05299 5.31959 4.05217 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01049 4.95830 5.68065 0.61958 0.77255 0.94112 0.49461\n- 5 2.57373 2.55280 2.37991 2.34597 4.45887 3.66736 3.86372 3.30290 2.34685 3.03617 4.24378 3.16949 3.33510 2.57157 3.11135 2.58316 2.70803 3.53629 3.85757 4.29689 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01049 4.95830 5.68065 0.61958 0.77255 0.94112 0.49461\n- 6 2.99939 1.77589 3.70417 3.10385 4.07708 3.88483 4.07004 3.43681 2.34502 2.57380 3.98480 3.53757 4.26862 3.30343 1.91407 3.13996 2.28144 3.18484 5.41894 4.17630 8 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01049 4.95830 5.68065 0.61958 0.77255 0.94112 0.49461\n- 7 2.86336 5.37221 2.72059 2.55402 4.71663 2.92743 3.82315 4.20198 1.87885 3.67699 4.41344 2.02290 3.32345 2.55'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10274 5.82509 0.61958 0.77255 0.63113 0.75926\n- 263 2.12254 5.28060 3.23923 2.14571 4.57064 1.84831 3.92417 4.01649 2.68795 3.56452 3.47314 3.22294 3.41315 2.18431 3.16754 2.92313 3.16012 3.06294 5.75489 4.38319 320 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00907 5.10274 5.82509 0.61958 0.77255 0.40454 1.10047\n- 264 3.40092 4.75109 5.29836 4.69124 1.96389 4.59775 4.91123 2.85212 4.49796 0.97387 2.78318 4.73838 4.89646 4.58392 3.26253 3.91827 3.62623 1.92162 5.31249 4.18306 321 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15160 5.87394 0.61958 0.77255 0.48576 0.95510\n- 265 3.15093 4.52597 5.00500 3.29404 3.00719 4.33527 4.67252 1.75986 4.22265 1.07139 3.55070 4.45771 4.68171 4.36896 4.27448 3.64771 2.69130 2.22923 5.17644 4.00783 322 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15160 5.87394 0.61958 0.77255 0.48576 0.95510\n- 266 2.94367 5.44292 2.17979 1.97372 4.78329 3.71810 3.90607 3.40138 2.15540 3.74604 4.48494 2.30349 4.11192 3.00407 2.35291 2.90801 2.79297 2.76262 5.87822 4.47026 323 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00864 5.15160 5.87394 0.61958 0.77255 0.48576 0.95510\n- 267 3.34612 4.68624 5.29185 4.69255 2.76563 4.57098 4.91637 1.92479 4.50114 1.22151 3.55820 4.72250 4.88602 4.61083 3.36018 3.89535 3.57691 1.38134 5.34470 4.19666 324 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14849 5.15160 2.02345 0.61958 0.77255 0.48576 0.95510\n- 268 2.13537 5.41278 2.15214 1.82652 4.75390 3.12596 3.86603 4.23872 2.61072 3.71735 4.45762 3.13239 3.11214 2.66020 3.10595 2.54925 2.46667 3.80195 5.84906 4.43707 325 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32567 5.01304 1.30451 0.61958 0.77255 0.83963 0.56541\n- 269 2.77519 5.25392 2.07026 1.95310 4.58440 2.70541 3.73949 4.06113 2.26516 3.55280 3.44560 3.01611 3.94210 2.46700 2.97449 2.74250 3.00708 3.06091 5.69470 4.29092 326 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01359 4.70096 5.42331 0.61958 0.77255 0.83829 0.56643\n- 270 2.46468 5.02227 3.21756 2.41257 3.45225 3.02017 3.20209 3.67841 2.32141 3.28101 2.77446 3.17977 2.80300 3.00284 3.11721 2.13783 3.05009 2.92523 5.52447 4.18867 327 s - - -\n- 2.68496 4.42298 2.77449 2.73142 3.46427 2.40495 3.72472 3.29427 2.67814 2.69428 4.24763 2.90420 2.73739 3.18170 2.89745 2.37832 2.77523 2.98501 4.58550 3.61491\n- 0.54554 0.86638 * 1.55551 0.23709 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hachiman__HamA_1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hachiman__HamA_1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,893 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Hachiman__HamA_1\n-LENG 290\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 7 10:31:04 2021\n-NSEQ 126\n-EFFN 8.063416\n-CKSUM 974018828\n-GA 20 20;\n-STATS LOCAL MSV -10.5921 0.70156\n-STATS LOCAL VITERBI -11.6710 0.70156\n-STATS LOCAL FORWARD -5.1687 0.70156\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56300 4.51126 2.76237 2.62671 3.28571 2.89312 3.67149 2.86465 2.62739 2.44962 3.74776 2.97156 3.29976 3.13537 2.88154 2.58266 2.86047 2.81804 4.69666 3.51490\n- 2.68618 4.42247 2.77537 2.73140 3.46328 2.40501 3.72517 3.29376 2.67736 2.69377 4.24385 2.90342 2.73762 3.18169 2.89823 2.37873 2.77521 2.98508 4.58499 3.61470\n- 0.37580 1.79246 1.91928 1.40512 0.28148 0.00000 *\n- 1 4.01105 5.65853 4.38152 3.18115 4.55136 4.61877 5.25677 3.83365 4.12321 3.22633 0.32269 4.60187 5.18263 4.61657 4.33528 4.24606 4.34051 3.79760 6.22677 5.01840 10 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04791 5.19923 3.18777 0.61958 0.77255 0.74025 0.64817\n- 2 2.63303 5.47560 2.19702 2.66825 4.82235 3.73873 3.95788 4.30341 2.55932 3.79081 4.53701 2.32890 1.95115 3.06117 3.20580 2.22748 2.30949 3.87171 5.92959 4.52076 11 p - - -\n- 2.68629 4.42268 2.77476 2.73065 3.46396 2.40555 3.72537 3.29278 2.67733 2.69262 4.24627 2.90389 2.73753 3.18102 2.89843 2.37894 2.77562 2.98561 4.58378 3.61546\n- 1.28527 0.76033 1.36291 0.64644 0.74215 0.83823 0.56647\n- 3 2.84682 4.42306 4.01356 3.44264 3.53005 2.49709 4.17390 2.52437 3.36076 2.16903 3.53786 3.34011 4.26809 3.62859 3.63148 3.15984 2.29118 2.68312 5.01751 1.75042 14 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06794 4.86802 2.84741 0.61958 0.77255 1.10574 0.40192\n- 4 2.82612 5.09988 2.88304 1.78309 2.70543 3.64151 3.84105 2.69750 2.62276 3.36775 4.16428 2.76550 4.03257 2.70616 2.78633 2.84085 2.63523 3.02299 5.58753 4.23516 15 e - - -\n- 2.68575 4.42329 2.77560 2.73159 3.46479 2.40556 3.72543 3.29283 2.67663 2.69239 4.24818 2.90226 2.73789 3.17983 2.89946 2.37834 2.77551 2.98561 4.58440 3.61688\n- 1.03034 0.44726 5.58984 2.04200 0.13900 0.48276 0.95992\n- 5 2.71229 5.43351 2.18422 2.20893 4.75162 3.30958 3.96397 4.21902 2.44734 3.31418 2.59920 2.89155 4.16669 3.06969 3.00428 2.61923 2.52649 3.62865 2.61479 4.48857 37 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00781 5.25192 5.97427 0.61958 0.77255 0.87859 0.53677\n- 6 3.00391 5.00279 2.84969 3.23884 2.09806 3.02142 4.35766 3.52682 3.13457 2.24328 1.77446 3.33320 4.50086 3.63335 3.70618 2.40075 2.64789 3.28622 5.57037 4.31631 38 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00578 5.55140 6.27375 0.61958 0.77255 0.87859 0.53677\n- 7 2.09900 4.91682 4.07106 3.02708 2.54939 2.30300 4.42737 2.66985 3.45843 2.45035 3.63328 3.25862 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.70922 0.67733\n- 283 3.34893 4.62665 5.24165 4.67676 3.40464 4.69821 5.08895 1.57660 4.54315 1.37584 2.16145 4.81672 4.91349 4.62335 4.59925 4.05364 3.57890 1.56887 5.39327 4.30644 844 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.70922 0.67733\n- 284 2.87535 5.26682 3.10886 2.06545 4.64509 3.59119 3.70655 4.07717 1.78478 3.54191 4.32461 3.07026 3.98274 2.81778 1.78721 2.31815 3.08813 3.68097 5.64356 4.31853 845 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.70922 0.67733\n- 285 2.98841 5.13337 3.44258 2.79806 4.42146 3.72991 3.75809 3.84158 1.82655 3.36912 4.20953 2.75802 4.09419 2.90303 1.69416 3.00749 3.18190 3.52665 2.24146 4.23640 846 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.70922 0.67733\n- 286 0.98513 4.47334 3.59575 3.21048 4.21039 3.33745 4.26745 3.45525 3.21748 3.26613 4.14827 2.63864 3.99182 3.53580 3.56117 2.74362 2.97837 2.54676 5.60583 4.36084 847 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.70922 0.67733\n- 287 3.43393 4.67794 5.35839 4.82676 3.56895 4.87880 5.35616 1.39390 4.71614 1.22731 3.34096 4.99680 5.07543 4.83511 4.80830 4.26237 3.67350 1.44089 5.63486 4.52868 848 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.70922 0.67733\n- 288 2.23050 4.66710 3.21780 2.47562 3.87205 2.52577 3.78983 2.79604 2.66110 2.92050 3.77215 3.15659 3.94410 2.99694 3.09151 2.10228 2.91025 2.98341 5.22481 3.27614 849 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.70922 0.67733\n- 289 2.43996 4.54079 2.99048 2.10607 2.71869 3.59780 3.83172 2.53578 2.76940 2.76017 3.63532 3.24883 3.98305 3.09139 3.17180 2.82958 2.90882 2.82360 5.09188 2.81864 850 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01797 4.42386 5.14621 0.61958 0.77255 0.36777 1.17856\n- 290 2.77584 4.25230 4.21335 3.12314 3.33818 3.88286 4.18490 2.17273 3.50035 2.12383 1.82247 3.85051 4.24609 3.73371 3.14681 3.16975 3.00775 1.95537 4.87587 3.68696 851 m - - -\n- 2.68623 4.42230 2.77524 2.73128 3.46358 2.40517 3.72401 3.29359 2.67745 2.69359 4.24694 2.90351 2.73744 3.18123 2.89783 2.37891 2.77524 2.98523 4.58482 3.61508\n- 0.10434 2.31178 * 0.66469 0.72244 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hachiman__HamA_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hachiman__HamA_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1637 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Hachiman__HamA_2\n-LENG 538\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 7 11:27:35 2021\n-NSEQ 113\n-EFFN 2.920868\n-CKSUM 3576283166\n-GA 20 20;\n-STATS LOCAL MSV -11.6803 0.69768\n-STATS LOCAL VITERBI -12.6364 0.69768\n-STATS LOCAL FORWARD -5.8643 0.69768\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60463 4.24632 2.88616 2.58116 3.30928 3.16798 3.60048 2.74678 2.56402 2.38175 3.74720 3.05608 3.52174 3.04203 2.92858 2.60618 2.85940 2.70226 4.60589 3.46614\n- 2.68664 4.42271 2.77494 2.73140 3.46400 2.40559 3.72449 3.29333 2.67787 2.69344 4.23763 2.90332 2.73786 3.18192 2.89807 2.37852 2.77566 2.98479 4.58523 3.61549\n- 1.36020 0.96876 1.01106 1.15192 0.37984 0.00000 *\n- 1 3.02658 4.36670 4.88815 4.30277 2.99973 4.27143 4.63246 1.52409 4.14198 1.65246 2.63233 4.38815 4.58036 4.27770 4.20431 3.59704 2.79658 1.70648 5.08779 3.93801 5 i - - -\n- 2.68576 4.42251 2.77408 2.73129 3.46380 2.40526 3.72521 3.29329 2.67767 2.69381 4.24716 2.90373 2.73747 3.18172 2.89791 2.37892 2.77489 2.98544 4.58503 3.61529\n- 0.86095 0.58539 3.89479 0.68561 0.70074 0.71792 0.66897\n- 2 2.80276 4.77238 3.37726 2.80378 3.96065 3.67578 3.86682 3.33899 1.83329 2.08430 2.46134 3.27636 4.05807 2.59328 3.02882 2.65581 3.02887 3.07586 5.29863 4.02625 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62690 5.34925 0.61958 0.77255 0.83732 0.56717\n- 3 2.63780 4.37011 4.81634 4.22924 3.44649 4.21949 4.57707 2.02319 4.06923 1.33866 2.89866 4.32121 4.55574 4.23277 4.15124 3.53697 2.61021 1.67627 5.09153 3.92114 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67139 5.39374 0.61958 0.77255 0.91560 0.51129\n- 4 2.75509 5.12803 2.59293 2.50404 4.42058 2.68032 3.08932 3.31606 2.50557 2.86090 4.18403 2.60959 3.94295 2.86236 2.88771 1.93569 2.84080 3.49037 5.59451 4.21792 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67139 5.39374 0.61958 0.77255 0.87703 0.53788\n- 5 2.56530 4.26671 3.99186 3.72603 3.38803 3.92481 4.24455 2.02155 3.60378 2.44956 2.80436 3.92250 3.46859 3.82159 3.77699 3.21665 2.41328 1.44734 4.91260 3.72073 11 v - - -\n- 2.68662 4.42269 2.77543 2.73167 3.46331 2.40557 3.72539 3.29233 2.67693 2.69343 4.24734 2.90355 2.73784 3.18190 2.89768 2.37842 2.77512 2.98475 4.58521 3.61454\n- 0.41147 1.10012 5.40558 1.42879 0.27391 0.29349 1.36907\n- 6 2.84618 3.52527 2.55516 2.88066 3.97125 3.74416 3.96908 2.81523 2.62576 2.78751 2.25486 2.64274 3.19483 3.19190 3.28255 2.63637 2.64581 3.00710 5.34228 3.47296 18 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01106 4.90609 5.62844 0.61958 0.77255 0.48576 0.95510\n- 7 2.59272 5.34208 2.50956 1.96452 4.68328 2.65891 3.80270 3.76212 2.53984 3.64586 4.38421 2.52527 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01106 4.90609 5.62844 0.61958 0.77255 0.48576 0.95510\n- 531 2.74688 5.22170 2.29015 2.13293 4.51607 3.63557 3.83012 2.68941 2.42851 2.99442 4.27630 2.10167 4.02857 2.94605 3.07176 2.83092 2.68297 3.02485 5.68615 4.30783 656 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01106 4.90609 5.62844 0.61958 0.77255 0.48576 0.95510\n- 532 2.43785 5.33811 3.03262 1.32339 4.67305 3.62624 3.82233 4.14930 2.23924 3.63932 4.38632 3.09978 4.02579 2.92459 2.79970 2.33024 2.84890 3.63809 5.77930 4.37709 657 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01106 4.90609 5.62844 0.61958 0.77255 0.48576 0.95510\n- 533 2.84376 5.29823 2.83395 2.32839 4.62140 3.04986 3.81341 4.09122 1.82741 2.32068 4.34512 3.10095 4.01774 2.91772 2.54894 2.10736 3.07474 3.67714 5.74352 3.85952 658 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01106 4.90609 5.62844 0.61958 0.77255 0.48576 0.95510\n- 534 3.29365 2.25832 5.27029 4.68284 3.59315 4.56235 4.93665 1.97788 4.50361 1.28370 2.56075 4.71968 4.86393 4.61443 4.52617 3.89625 3.52711 1.66946 5.34683 4.20257 659 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07267 4.90609 2.76947 0.61958 0.77255 0.48576 0.95510\n- 535 3.03993 5.46784 3.30197 2.30511 4.85999 3.33544 3.86770 4.29968 1.67450 3.74481 4.51604 3.23750 4.14921 2.55593 1.43634 2.69049 3.25083 3.88795 5.83111 4.49974 660 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13550 4.84517 2.12988 0.61958 0.77255 0.62702 0.76396\n- 536 2.39578 5.27907 2.62482 1.89250 4.61957 2.94890 3.73851 4.10287 2.26508 3.58237 4.32156 2.23833 3.94316 2.83689 2.62142 2.74090 2.80296 3.38432 5.71422 4.30501 661 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11159 4.72297 2.33615 0.61958 0.77255 0.84312 0.56276\n- 537 2.13824 5.00293 2.65784 2.18391 4.25998 2.75920 3.76165 3.68568 2.54814 2.82847 4.07098 3.07358 3.95044 2.89977 2.76738 2.76112 2.97533 2.35397 5.49554 4.14611 662 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10832 4.62604 2.37656 0.61958 0.77255 0.97251 0.47503\n- 538 2.71166 4.57750 3.38845 2.15805 3.74171 3.63429 3.86860 2.48568 2.57254 2.79974 3.28652 3.17352 4.01848 3.12335 3.19570 2.44847 2.94343 2.00442 5.14125 3.87880 663 v - - -\n- 2.68624 4.42231 2.77478 2.73109 3.46360 2.40519 3.72500 3.29360 2.67747 2.69335 4.24696 2.90352 2.73745 3.18152 2.89807 2.37893 2.77525 2.98524 4.58483 3.61509\n- 0.19332 1.73851 * 0.42579 1.05916 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hachiman__HamB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hachiman__HamB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3044 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Hachiman__HamB\n-LENG 1007\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 7 10:39:27 2021\n-NSEQ 121\n-EFFN 4.641632\n-CKSUM 675211813\n-GA 50 50;\n-STATS LOCAL MSV -12.6257 0.69557\n-STATS LOCAL VITERBI -13.5792 0.69557\n-STATS LOCAL FORWARD -6.6917 0.69557\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45171 4.56345 2.96539 2.60579 3.32473 2.96165 3.72997 2.80585 2.71349 2.33202 3.75686 3.08253 3.40038 3.05242 2.86298 2.60766 2.83183 2.72491 4.51248 3.63313\n- 2.68615 4.42278 2.77572 2.73081 3.46407 2.40565 3.72547 3.29407 2.67793 2.69370 4.23728 2.90358 2.73704 3.18199 2.89853 2.37939 2.77287 2.98571 4.58530 3.61556\n- 1.44638 0.95193 0.97132 1.23977 0.34172 0.00000 *\n- 1 2.08204 4.29952 3.77854 3.20820 3.43445 3.70876 4.00368 2.11770 3.13868 2.35838 3.00860 3.54842 2.59767 3.41691 3.43613 2.79036 2.58860 2.53759 4.91383 3.69940 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04122 4.46073 3.54644 0.61958 0.77255 1.17238 0.37053\n- 2 2.43528 5.63041 1.25698 1.70601 4.93223 3.44928 3.90420 4.44222 2.64628 3.92346 4.73166 2.90401 4.01900 3.04863 3.40873 2.95230 3.32042 4.00452 6.07532 4.58890 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01773 4.43724 5.15959 0.61958 0.77255 1.19141 0.36211\n- 3 1.96130 5.21988 2.70708 1.04331 4.71754 3.46191 4.00452 4.09798 2.88425 3.72002 4.57461 3.07144 4.04708 3.17102 3.36090 2.94221 3.26336 3.70691 5.93238 4.54642 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01773 4.43724 5.15959 0.61958 0.77255 0.93582 0.49802\n- 4 3.68791 4.92707 5.57640 5.00663 3.36706 5.06671 5.40701 1.24326 4.86868 1.05443 2.25737 5.19321 5.17019 4.84080 4.87599 4.44380 3.90365 2.41545 5.52772 4.52446 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03822 4.54300 3.61709 0.61958 0.77255 1.09878 0.40538\n- 5 2.55976 4.47132 3.61595 3.05480 3.67201 3.66493 3.98243 1.86016 2.93963 2.72664 3.62505 3.44674 4.07995 3.29524 2.39231 2.75034 2.00838 2.73764 5.10584 3.87290 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01629 4.52106 5.24341 0.61958 0.77255 1.11954 0.39516\n- 6 1.63019 4.81675 3.17847 2.19301 4.22647 3.48027 3.86216 3.63081 2.68421 3.25465 4.07180 3.15365 3.94952 3.02574 3.13452 2.12705 2.46593 3.02582 5.50398 4.18387 10 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01629 4.52106 5.24341 0.61958 0.77255 1.11954 0.39516\n- 7 1.93001 4.71938 2.98556 2.70119 2.34280 3.56901 3.83553 3.32947 2.71090 2.98702 3.83862 3.18672 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02402 5.14158 4.02365 0.61958 0.77255 0.65326 0.73470\n- 1000 2.05115 5.27609 3.25673 2.46309 4.55756 3.73649 3.93157 3.69909 2.42348 3.55373 4.33412 2.98649 4.12812 2.54768 2.42897 2.45243 2.51373 2.38893 3.52959 4.38005 1387 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00886 5.12642 5.84877 0.61958 0.77255 0.69377 0.69252\n- 1001 1.96372 4.38124 3.23688 4.05707 2.85858 4.09713 4.41531 2.09953 3.89708 1.69901 2.38184 4.16668 4.46335 4.07728 3.51585 3.39590 3.19188 2.62948 4.99786 2.82564 1388 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10237 5.82472 0.61958 0.77255 0.69377 0.69252\n- 1002 2.79340 4.64943 3.39152 3.10308 3.78389 3.92859 4.18415 2.28950 2.54155 2.18966 3.75337 3.28695 4.30747 3.21176 3.57569 2.93848 3.01530 2.44313 1.96169 3.54210 1389 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00908 5.10237 5.82472 0.61958 0.77255 0.69377 0.69252\n- 1003 2.11843 5.27743 3.08391 2.37847 4.56650 2.65803 3.90513 3.23890 2.44934 2.57752 3.65697 2.96134 3.32065 2.88390 3.02553 2.30314 2.70451 3.40407 5.74518 4.37079 1390 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03645 5.08108 3.52070 0.61958 0.77255 0.69377 0.69252\n- 1004 2.58878 5.35650 2.66152 1.86251 4.67977 3.35195 3.09139 2.90557 2.61462 2.84138 4.40294 2.71161 4.07442 2.73008 2.28434 2.87206 3.13040 3.73538 4.63735 3.79452 1391 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07842 5.05416 2.67308 0.61958 0.77255 0.75765 0.63255\n- 1005 2.83758 4.86272 3.08188 2.63450 1.84018 3.40171 3.17162 3.44839 2.78761 2.57188 3.94706 2.96763 4.09944 3.12658 2.65218 2.92717 2.55233 2.84587 5.39792 4.10219 1392 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12175 4.88657 2.23411 0.61958 0.77255 0.77839 0.61461\n- 1006 2.35437 4.89282 3.08340 2.57314 3.14210 2.94778 3.84279 2.83111 2.49286 2.42642 3.97062 2.96592 4.02105 2.91334 2.22525 2.84096 2.84726 3.21133 5.41243 4.09753 1393 r - - -\n- 2.68629 4.42663 2.77489 2.73263 3.46530 2.40431 3.72455 3.29265 2.68095 2.69361 4.24898 2.90519 2.73551 3.18098 2.89688 2.38081 2.77431 2.98273 4.56516 3.61365\n- 0.85361 0.67116 2.76448 3.44709 0.03236 0.75186 0.63769\n- 1007 2.64034 4.64559 3.42650 2.86355 3.81022 3.68185 3.14216 3.18608 2.64209 2.03188 3.73944 3.14669 3.41151 3.16155 3.02573 2.48614 2.59396 2.93541 2.72638 3.56861 1438 l - - -\n- 2.68361 4.42822 2.77358 2.73534 3.46460 2.40510 3.72760 3.29240 2.67950 2.68826 4.24924 2.90483 2.73630 3.18339 2.89400 2.38178 2.77654 2.98181 4.58170 3.61697\n- 0.66743 0.71954 * 3.68956 0.02530 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hna__Hna.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Hna__Hna.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2543 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Hna__Hna\n-LENG 840\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 17:58:17 2023\n-NSEQ 138\n-EFFN 3.609192\n-CKSUM 3580596061\n-GA 100 100;\n-STATS LOCAL MSV -12.4869 0.69605\n-STATS LOCAL VITERBI -13.3111 0.69605\n-STATS LOCAL FORWARD -6.6810 0.69605\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54345 4.38104 2.87803 2.58384 3.36342 3.03173 3.74329 2.77764 2.57697 2.45787 3.71967 2.98362 3.49030 2.93874 2.91584 2.61581 2.83755 2.76509 4.52575 3.54306\n- 2.68591 4.42068 2.77574 2.73175 3.46396 2.40511 3.72483 3.29292 2.67760 2.69315 4.24436 2.90397 2.73754 3.18127 2.89672 2.37908 2.77555 2.98556 4.58404 3.61582\n- 0.26254 2.47258 1.92047 3.14352 0.04409 0.00000 *\n- 1 4.23886 5.65618 5.44660 5.23894 4.24485 4.82504 5.74354 3.57180 4.97225 2.77183 0.25551 5.36407 5.37508 5.31060 5.02829 4.63330 4.61280 3.68435 6.11185 4.95997 153 M - - -\n- 2.68616 4.42187 2.77533 2.73123 3.46368 2.40521 3.72506 3.29311 2.67718 2.69331 4.24665 2.90335 2.73750 3.18172 2.89780 2.37897 2.77525 2.98539 4.58497 3.61535\n- 0.44434 1.12418 3.38626 1.21292 0.35286 0.34819 1.22405\n- 2 2.87434 4.32535 4.72483 4.12014 2.68331 3.39313 4.39923 1.85223 3.63137 2.12406 2.19310 3.58373 3.92510 4.10121 3.87001 2.85183 3.15599 1.82676 4.94454 3.76450 182 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01507 5.03535 4.77374 0.61958 0.77255 0.59572 0.80110\n- 3 2.36048 5.29627 1.61643 2.57336 3.95549 3.68112 3.87348 3.18423 2.45884 3.25411 4.34815 2.28561 3.65491 2.98514 2.97699 2.75197 3.12189 3.52813 5.75461 4.37007 183 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00976 5.03004 5.75239 0.61958 0.77255 0.60947 0.78447\n- 4 4.54785 5.64877 5.77664 5.55087 0.45036 5.31867 4.24003 3.80476 5.33289 2.22986 4.56837 5.00352 5.57600 5.09755 5.18975 4.69612 4.75282 4.02347 3.74051 2.34750 184 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01559 5.03004 4.71799 0.61958 0.77255 0.60947 0.78447\n- 5 2.64552 5.37809 2.72806 2.51958 4.36789 2.85725 3.85042 3.60759 1.84806 3.47080 4.42079 2.35473 4.05585 2.89393 2.84232 2.02556 2.80803 3.76457 5.81542 4.19084 185 k - - -\n- 2.68641 4.42217 2.77531 2.73150 3.46335 2.40534 3.72507 3.29285 2.67701 2.69376 4.24685 2.90338 2.73726 3.18160 2.89773 2.37891 2.77510 2.98534 4.58461 3.61506\n- 0.32075 1.32934 4.63102 1.07921 0.41531 0.59731 0.79915\n- 6 2.55288 5.39309 2.89104 2.35287 4.44022 3.26866 3.69664 3.91448 1.46594 3.60534 4.43411 2.75280 3.61146 2.72136 2.67071 2.38966 3.05171 3.78305 5.82650 4.41638 205 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24075 5.02351 1.57321 0.61958 0.77255 0.62605 0.76507\n- 7 2.75300 4.42220 3.88017 3.30690 3.04524 3.64758 3.82977 2.51162 2.68301 1.41554 3.40907 3.41931 4.20'..b'.68618 4.42226 2.77520 2.73124 3.46354 2.40509 3.72495 3.29355 2.67741 2.69351 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.03281 3.79414 4.62741 0.46752 0.98498 0.56813 0.83605\n- 833 2.72548 4.14652 3.20248 2.63039 3.42094 3.55966 3.96037 3.55036 2.44966 2.70652 3.77255 3.22747 3.84142 2.90597 2.96339 2.28208 1.74240 2.85430 5.52981 4.21484 1355 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 5.03386 3.92774 0.61958 0.77255 0.56872 0.83529\n- 834 2.68710 5.37006 3.04626 1.87782 4.70416 3.56581 3.85192 3.69032 2.05648 3.38241 4.17408 2.86862 3.75754 2.68274 2.67067 2.31488 2.61197 2.89025 5.80936 4.04056 1356 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00982 5.02390 5.74625 0.61958 0.77255 0.58992 0.80826\n- 835 2.70918 4.83316 2.67885 2.39572 4.40781 3.48211 3.76881 3.42400 1.89116 3.23737 3.99049 2.82071 3.00076 2.86414 2.69098 2.35116 2.71131 3.17449 5.79982 4.03154 1357 k - - -\n- 2.68621 4.42237 2.77532 2.73123 3.46357 2.40525 3.72507 3.29333 2.67693 2.69346 4.24702 2.90354 2.73714 3.18159 2.89802 2.37895 2.77532 2.98524 4.58489 3.61516\n- 0.43044 1.19291 3.06965 0.08966 2.45618 0.60574 0.78894\n- 836 2.29145 4.01766 4.80657 4.19519 2.38348 4.06374 4.04523 2.15202 3.99279 1.61917 3.22893 4.20700 3.55293 4.13491 4.02144 3.19676 2.92627 2.06977 4.90540 2.94152 1359 l - - -\n- 2.68609 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29341 2.67742 2.69356 4.24691 2.90348 2.73737 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.22543 3.12571 1.84564 0.36099 1.19398 0.64228 0.74674\n- 837 2.70981 5.22421 3.10415 2.50710 4.53015 3.40655 3.79455 3.47391 1.72850 3.42323 3.92505 2.94940 3.99583 2.55028 2.45766 2.20903 2.74641 3.35757 5.68081 3.58546 1361 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 4.83789 4.21127 0.61958 0.77255 0.98025 0.47035\n- 838 2.68221 5.31471 2.34883 2.30452 4.65844 3.41952 3.45219 3.80732 1.97241 3.54562 4.00570 2.71908 3.65507 2.55618 2.48877 2.41371 2.79165 3.59718 5.74818 4.17954 1362 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10648 4.82685 2.37518 0.61958 0.77255 0.99618 0.46091\n- 839 2.54039 4.42116 3.36897 2.55898 3.78908 3.41729 3.77183 2.87887 2.50114 2.08216 3.30475 2.87843 3.47141 2.99315 2.94634 2.60818 2.86395 2.75973 5.27625 3.49792 1363 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13100 4.73352 2.17164 0.61958 0.77255 0.50471 0.92553\n- 840 2.69175 5.27759 2.96248 2.33538 4.40469 3.23869 3.60159 3.57871 1.88112 3.04237 4.06157 2.83831 3.12621 2.69546 2.74004 2.34585 2.84662 3.05613 5.72312 4.13222 1364 k - - -\n- 2.68576 4.42297 2.77558 2.73123 3.46388 2.40528 3.72520 3.29333 2.67682 2.69376 4.24718 2.90332 2.73704 3.18173 2.89795 2.37899 2.77499 2.98518 4.58527 3.61553\n- 0.73993 0.64845 * 1.32288 0.30975 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,509 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME ISG15-like__BilA\n-LENG 162\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:44 2021\n-NSEQ 102\n-EFFN 3.626404\n-CKSUM 1511200769\n-GA 10 10;\n-STATS LOCAL MSV -10.2560 0.70822\n-STATS LOCAL VITERBI -10.8328 0.70822\n-STATS LOCAL FORWARD -4.2109 0.70822\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47110 4.41705 2.85949 2.50791 3.38782 2.91410 3.30755 2.90396 2.63032 2.48761 3.89034 3.16619 3.40124 3.06522 2.87568 2.78086 2.78339 2.52481 4.87980 3.92967\n- 2.68601 4.42301 2.77515 2.73103 3.46430 2.40515 3.72345 3.29398 2.67780 2.69376 4.24396 2.90250 2.73715 3.18145 2.89843 2.37914 2.77512 2.98537 4.58553 3.61579\n- 0.42813 1.93466 1.59062 2.32629 0.10276 0.00000 *\n- 1 2.84585 4.71305 2.89064 2.66317 3.87538 3.76084 3.99984 3.23338 2.92450 2.74828 1.33790 3.41085 4.14867 3.25415 3.15953 2.99720 2.88808 2.70069 5.27672 4.01434 19 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01165 4.85412 5.57646 0.61958 0.77255 0.96336 0.48063\n- 2 2.82274 5.32924 2.85101 2.14209 4.67249 3.59394 3.55678 4.15713 1.86235 3.63347 4.37069 2.82134 3.48549 2.68189 2.85892 2.18795 2.14755 3.71897 5.76256 4.35267 20 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11817 4.85412 2.26661 0.61958 0.77255 0.90608 0.51769\n- 3 2.31013 5.23835 2.81812 2.26546 4.56002 3.56810 3.75790 3.79095 2.24399 3.53363 3.92966 2.51075 3.59928 2.86232 2.87885 2.51551 1.98694 3.33698 5.68537 4.28903 21 t - - -\n- 2.68655 4.42283 2.77526 2.72981 3.46412 2.40571 3.72537 3.29221 2.67738 2.69377 4.24748 2.90405 2.73758 3.18140 2.89814 2.37899 2.77556 2.98317 4.58535 3.61561\n- 0.35763 1.29290 3.64221 1.78733 0.18321 0.45262 1.01049\n- 4 2.74940 4.31101 4.58148 3.98298 2.99377 4.02557 4.13405 1.56344 3.20704 2.39844 2.27085 4.09395 3.97258 4.00451 3.49485 3.32415 2.38149 2.10025 4.92827 3.74502 36 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01042 4.96489 5.68724 0.61958 0.77255 0.69157 0.69473\n- 5 2.58659 5.36889 2.47101 1.93115 4.70965 3.64395 3.30987 3.63179 2.07700 3.32809 4.06861 3.11308 4.03731 2.75116 2.22752 2.69009 2.70209 3.50229 5.80412 4.39585 37 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01024 4.98280 5.70514 0.61958 0.77255 0.73070 0.65695\n- 6 3.32483 4.87710 5.72261 5.22155 4.21604 5.17889 5.79078 1.25193 5.13006 1.87436 3.99969 5.33465 5.43085 5.34684 5.25021 4.57643 3.49892 0.93688 6.16972 4.96608 38 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03151 4.98280 3.72280 0.61958 0.77255 0.73070 0.65695\n- 7 2.87582 4.65423 3.66718 2.29574 1.68692 3.83182 3.60727 2.95630 2.79130 2.58178 3.75422 3.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 155 3.07325 4.83298 5.29577 4.81545 4.24182 4.60820 5.40592 2.40350 4.68957 2.66703 4.09670 4.88299 5.07617 4.93560 4.84189 4.00935 2.05201 0.63119 6.00708 4.80440 240 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 156 2.74057 4.83371 3.56764 3.00433 3.48846 3.83892 3.32997 3.38113 2.76344 2.17658 3.54279 3.47141 1.73752 3.30477 2.17815 3.00947 3.08936 3.00125 5.38778 4.11801 241 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 157 2.41819 4.74452 2.92752 2.03211 3.97356 2.56184 3.65048 4.22853 1.77836 3.39611 4.44873 2.79977 4.07793 2.97027 2.69931 2.55465 2.95394 3.64672 5.84256 4.43488 242 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 158 2.84967 5.38816 1.77102 2.34694 4.71899 3.68938 3.10804 3.21053 1.96085 3.68728 4.43270 3.16238 3.30367 2.78971 3.10971 2.80909 3.05951 2.68880 5.82931 4.42697 243 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 159 2.98008 4.72750 3.82218 3.24029 2.39004 3.93738 4.16034 2.30860 2.59410 2.79258 3.82659 3.64999 4.31388 3.31526 1.43876 3.18623 2.66892 3.00368 5.29441 4.06024 244 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 160 2.04287 4.39243 4.53481 3.94261 2.89186 4.06728 4.38286 2.26931 3.80255 2.58660 3.51036 4.09872 2.58370 4.00204 3.94199 2.72836 2.48283 1.60599 5.01029 3.65230 245 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 161 3.04362 5.76835 2.79502 1.71898 5.09570 3.77674 4.10414 4.59792 2.68414 4.06376 4.83021 1.31486 4.26764 1.93815 3.44557 3.13674 3.45647 4.15260 6.19388 4.74563 246 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07823 5.80057 0.61958 0.77255 0.48576 0.95510\n- 162 4.65372 6.16949 5.50524 5.56290 6.44624 0.06371 6.44654 6.45875 5.85580 5.86987 6.94685 5.67567 5.55563 6.09717 5.84184 4.87455 5.19670 5.79174 7.11740 6.62558 247 G - - -\n- 2.68533 4.42146 2.77537 2.73141 3.46382 2.40503 3.72467 3.29356 2.67764 2.69383 4.24718 2.90300 2.73743 3.18169 2.89790 2.37881 2.77547 2.98546 4.58443 3.61531\n- 0.21651 1.63641 * 1.13295 0.38873 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,500 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME ISG15-like__BilB\n-LENG 159\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:44 2021\n-NSEQ 106\n-EFFN 2.054138\n-CKSUM 2459360403\n-GA 10 10;\n-STATS LOCAL MSV -10.3480 0.70849\n-STATS LOCAL VITERBI -10.9927 0.70849\n-STATS LOCAL FORWARD -4.9232 0.70849\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46187 4.38880 2.93335 2.66000 3.31117 2.98777 3.55701 3.07119 2.73297 2.52693 3.78927 3.11810 3.05328 2.98565 2.81401 2.72238 2.86541 2.78720 3.49035 3.40642\n- 2.68533 4.42259 2.77540 2.73111 3.46388 2.40547 3.72529 3.29383 2.67775 2.69385 4.24064 2.90346 2.73753 3.18159 2.89835 2.37894 2.77475 2.98535 4.58511 3.61537\n- 1.13223 1.04060 1.12563 1.17963 0.36729 0.00000 *\n- 1 2.38303 4.49274 2.88714 2.20273 4.03443 3.40396 3.34708 3.40414 2.47455 2.99117 3.33274 2.95539 3.17884 2.82321 2.80935 2.55813 2.85685 2.67434 5.31013 3.98047 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 4.25553 4.27058 0.61958 0.77255 0.67679 0.70978\n- 2 2.37804 4.40410 3.49886 2.65586 3.30645 3.22785 3.87846 2.82036 2.89055 2.53401 2.92497 3.19964 3.64055 3.03684 3.25416 2.81640 2.62566 2.01646 4.98302 3.74413 12 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01846 4.39699 5.11933 0.61958 0.77255 0.34012 1.24371\n- 3 2.48841 4.26125 3.48417 2.72422 3.56161 3.73055 3.98858 2.66907 2.92113 2.26200 2.21411 3.32204 3.77094 3.20912 3.23711 2.87736 2.97017 2.09211 5.01525 3.78641 13 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01464 4.62735 5.34970 0.61958 0.77255 0.48472 0.95678\n- 4 2.43451 4.89926 2.68841 2.31610 4.52563 2.83526 3.71208 3.99731 2.40090 3.33494 4.24753 2.69626 2.94639 2.74094 2.87194 2.32417 2.32383 3.48277 5.64657 4.24838 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01451 4.63601 5.35836 0.61958 0.77255 0.49521 0.94018\n- 5 2.37543 4.84555 3.17097 2.68376 4.06444 3.61062 3.65165 3.20305 2.65157 2.91203 3.93767 3.13443 1.58010 2.76159 3.01600 2.83692 3.00120 3.17008 5.37570 4.07033 15 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01451 4.63601 5.35836 0.61958 0.77255 0.47990 0.96455\n- 6 2.27439 4.21941 1.59450 2.45307 4.49293 2.93198 3.80016 3.94798 2.57983 3.48712 4.26175 3.05846 3.96011 2.92223 2.99631 2.27817 3.02435 3.54981 5.66785 4.28838 16 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01444 4.64084 5.36319 0.61958 0.77255 0.48576 0.95510\n- 7 2.58086 5.20389 3.02408 1.83075 4.52820 3.53341 3.29356 3.99614 2.40784 2.91568 4.00742 2.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01478 4.61775 5.34009 0.61958 0.77255 0.53520 0.88081\n- 152 2.08572 5.24323 1.73977 2.15521 4.56960 3.09083 3.75398 4.04138 2.52113 3.54663 4.30564 3.00140 3.94240 2.86451 2.79429 2.75694 2.81014 3.45318 5.70101 4.29799 185 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01478 4.61775 5.34009 0.61958 0.77255 0.53520 0.88081\n- 153 2.44178 4.48227 3.41666 3.01832 3.43737 3.71052 3.65809 2.98559 2.96823 2.27114 3.46104 3.43210 4.09029 3.17011 2.73853 2.95316 2.97254 2.69948 5.04906 1.78160 186 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01478 4.61775 5.34009 0.61958 0.77255 0.53520 0.88081\n- 154 2.27470 4.43501 3.45721 2.75027 3.56657 3.43921 3.77847 3.02945 2.69082 2.33712 3.66265 3.28153 3.19986 3.07793 3.16948 2.48248 2.60660 2.74399 3.09810 3.35060 187 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01478 4.61775 5.34009 0.61958 0.77255 0.53520 0.88081\n- 155 2.64526 3.92890 3.08651 2.55867 4.11742 2.29228 3.61929 3.52720 2.59614 2.52362 3.96572 3.11910 3.04488 2.62857 2.81497 2.45304 2.89167 2.99178 5.40268 3.96449 188 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01478 4.61775 5.34009 0.61958 0.77255 0.53520 0.88081\n- 156 1.80527 3.98812 3.34889 2.69479 3.83767 3.29111 3.64178 2.82076 2.76468 2.85063 3.59227 3.17396 3.00405 3.00756 2.81288 2.64486 2.96621 2.61414 5.21534 3.94001 189 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12919 4.61775 2.19533 0.61958 0.77255 0.53520 0.88081\n- 157 2.11373 4.80918 3.15877 2.59957 4.02405 3.20684 3.61895 3.36429 2.53818 2.80361 3.88737 3.10684 3.55346 2.78186 2.32292 2.56692 2.59268 2.74741 4.90609 4.01465 190 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04713 4.50511 3.35280 0.61958 0.77255 0.71341 0.67329\n- 158 2.15008 4.37749 3.04005 2.50923 4.06551 3.04102 3.73822 3.23742 2.49094 2.78959 3.91529 2.96418 3.91994 2.83723 2.34723 2.45193 2.83062 2.87724 5.35268 4.02886 191 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14494 4.47160 2.09152 0.61958 0.77255 0.75316 0.63654\n- 159 1.75907 4.71835 3.15672 2.60875 4.00656 3.33619 3.75895 3.24394 2.51074 3.04176 3.87375 3.09714 2.91076 2.93673 2.79645 2.36093 2.88858 2.99403 5.31360 4.00779 192 a - - -\n- 2.68318 4.42252 2.77560 2.73109 3.46372 2.40550 3.72553 3.29412 2.67799 2.69344 4.24722 2.90382 2.73733 3.18148 2.89824 2.37910 2.77530 2.98504 4.58535 3.61562\n- 0.56270 0.84320 * 1.77244 0.18623 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,527 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME ISG15-like__BilC\n-LENG 168\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:45 2021\n-NSEQ 104\n-EFFN 1.298096\n-CKSUM 180146045\n-GA 10 10;\n-STATS LOCAL MSV -10.0658 0.70769\n-STATS LOCAL VITERBI -11.0018 0.70769\n-STATS LOCAL FORWARD -5.1224 0.70769\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46352 4.31600 2.90562 2.69088 3.36411 2.89168 3.34376 2.88088 2.76927 2.46514 3.65926 3.18864 3.30868 3.02584 2.86234 2.66174 2.87256 2.64134 4.33721 3.51019\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18923 4.33414 1.83703 0.61958 0.77255 0.00000 *\n- 1 3.19579 4.66138 4.53142 4.03029 3.21406 4.25919 4.66791 2.32953 3.77997 1.64294 1.18582 4.28802 4.60536 4.08295 3.96078 3.64154 3.46545 2.33116 5.18729 3.99480 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19836 4.16818 1.80516 0.61958 0.77255 0.68590 0.70045\n- 2 2.38501 4.69316 2.92610 2.45454 3.94757 3.38915 3.57990 3.19045 2.44665 2.97643 3.80162 2.55756 3.61309 2.79703 2.77696 2.47336 2.43321 2.94967 5.23754 3.91818 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05554 3.99748 3.33359 0.61958 0.77255 0.74854 0.64066\n- 3 2.61004 4.20665 3.69414 3.12982 2.29125 3.62701 3.80997 2.63543 3.05285 2.35710 3.31529 3.44944 3.52492 3.32224 3.33870 2.30831 2.84281 2.47743 4.14304 2.93998 3 f - - -\n- 2.68603 4.42253 2.77542 2.73151 3.46360 2.40540 3.72515 3.29274 2.67746 2.69318 4.24717 2.90349 2.73765 3.18165 2.89757 2.37879 2.77492 2.98532 4.58439 3.61531\n- 0.56638 0.88304 3.96863 1.38177 0.28919 0.81369 0.58558\n- 4 2.39526 4.16741 3.57395 3.11024 2.91725 3.61084 3.88962 2.08935 3.03083 2.18741 3.20258 3.44710 3.98498 3.31110 3.00705 2.87623 2.65741 2.35709 4.77766 3.56419 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04725 4.01211 3.57346 0.61958 0.77255 0.82146 0.57944\n- 5 2.62757 4.91119 2.99267 2.40968 4.20752 2.90680 3.26153 3.51438 2.12315 3.17691 3.98787 2.91706 3.82972 2.72848 2.02413 2.59979 2.88974 3.28096 5.36292 4.04823 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02779 3.99265 4.71500 0.61958 0.77255 0.83582 0.56831\n- 6 2.14507 4.60829 2.82187 2.51705 3.80850 3.42593 3.50549 3.21048 2.48958 2.85672 3.70118 3.01075 3.82039 2.84238 2.66477 2.50864 2.80098 2.87059 3.76220 3.83918 11 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02779 3.99265 4.71500 0.61958 0.77255 0.76873 0.62288\n- 7 2.39358 4.02190 3.81188 3.23351 2.80121 3.63574 3.91878 2.54426 3.13992 1.80543 2.96048 3.52'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02218 4.21530 4.93764 0.61958 0.77255 0.44907 1.01671\n- 161 2.50587 4.14244 3.97245 3.39025 2.31699 3.71196 4.00538 2.53570 3.28721 1.95159 3.19106 3.64457 3.52374 3.33971 3.24750 2.99042 2.67543 2.16259 4.74919 3.31707 175 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02009 4.31325 5.03560 0.61958 0.77255 0.52405 0.89678\n- 162 2.96801 4.33116 4.72242 4.13852 2.25225 3.94707 4.49924 2.00935 3.98657 1.37062 3.14440 4.25874 4.48558 4.12781 4.07272 3.49618 3.19927 1.79497 4.96378 3.79214 176 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02009 4.31325 5.03560 0.61958 0.77255 0.52405 0.89678\n- 163 2.59851 3.92153 3.26396 2.67370 3.64260 3.54488 3.22089 3.10593 2.34548 2.54793 3.57166 3.04659 3.92934 3.00617 2.53612 2.69027 2.75797 2.68089 4.74651 2.94960 177 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02009 4.31325 5.03560 0.61958 0.77255 0.52405 0.89678\n- 164 2.60950 4.03322 3.91619 3.35509 3.06291 3.74797 4.05323 1.93730 3.38569 1.82841 3.23931 3.53605 3.93826 3.61131 3.57534 3.03372 2.67022 2.03929 4.74784 3.55431 178 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10128 4.31325 2.48976 0.61958 0.77255 0.52405 0.89678\n- 165 2.65658 5.04477 2.67813 2.16728 4.35934 2.35847 3.64008 3.81525 2.40980 3.34727 4.12111 2.90276 3.50838 2.75917 2.57799 2.50108 2.46805 3.42463 5.52381 4.13956 179 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07020 4.23375 2.93199 0.61958 0.77255 0.55199 0.85756\n- 166 2.52642 3.82641 3.06408 2.87760 3.09171 3.15605 3.82488 2.73249 2.83602 2.34509 3.35368 3.19147 3.42540 3.14233 2.84806 2.71565 2.68193 2.56097 3.94106 3.69225 180 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07387 4.22215 2.87286 0.61958 0.77255 0.63641 0.75329\n- 167 2.48521 4.29340 3.43737 2.77981 3.19056 3.00409 3.73690 2.70691 2.88215 2.30599 3.39765 3.26484 3.47166 3.18056 3.22777 2.77819 2.77058 2.48213 3.06709 3.41034 181 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08547 4.17147 2.71073 0.61958 0.77255 0.57847 0.82270\n- 168 2.41932 4.83320 2.99115 2.24242 4.08086 3.16561 3.63419 3.23012 2.37303 2.96610 3.90349 2.95698 3.54664 2.71658 2.60937 2.30259 2.73970 3.02976 5.33115 3.99102 182 e - - -\n- 2.68591 4.42293 2.77566 2.73150 3.46357 2.40545 3.72486 3.29356 2.67785 2.69318 4.24640 2.90410 2.73710 3.18165 2.89569 2.37903 2.77563 2.98548 4.58192 3.61546\n- 0.42507 1.06052 * 2.27039 0.10900 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ISG15-like__BilD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1382 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME ISG15-like__BilD\n-LENG 453\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:45 2021\n-NSEQ 102\n-EFFN 2.343933\n-CKSUM 2352659598\n-GA 10 10;\n-STATS LOCAL MSV -11.7104 0.69854\n-STATS LOCAL VITERBI -12.3469 0.69854\n-STATS LOCAL FORWARD -6.2192 0.69854\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.26821 4.29155 2.97525 2.72925 3.40107 2.71831 3.71564 2.95282 2.82180 2.40181 3.69513 3.22061 3.37989 3.09558 2.87040 2.69151 2.79295 2.61073 4.21264 3.79205\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28657 4.73450 1.42553 0.61958 0.77255 0.00000 *\n- 1 3.56983 5.04134 4.76999 4.45084 3.64006 4.33399 5.04912 2.88593 4.18200 2.17554 0.57133 4.64305 4.83040 4.53887 4.30846 3.96112 3.90462 2.95557 5.53149 4.33500 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04641 4.46517 3.38604 0.61958 0.77255 0.89823 0.52305\n- 2 2.47884 5.00300 2.86129 2.45986 4.29806 3.34961 3.69633 3.52395 2.34482 3.29840 4.08400 2.46050 3.41875 2.82326 2.94739 2.50857 1.90833 3.37192 5.49950 4.13491 2 t - - -\n- 2.68547 4.42286 2.77529 2.73143 3.46331 2.40510 3.72440 3.29376 2.67794 2.69398 4.24621 2.90352 2.73681 3.18137 2.89807 2.37893 2.77512 2.98522 4.58431 3.61564\n- 0.51447 0.92524 5.15885 1.79601 0.18147 0.53565 0.88017\n- 3 2.60729 4.83167 2.99759 2.15905 3.63740 3.44862 3.49890 3.19587 2.59974 2.82693 2.70765 2.90581 3.19315 2.82750 3.00285 2.79680 2.67279 2.82561 4.41942 4.04169 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61134 5.33369 0.61958 0.77255 0.61274 0.78059\n- 4 2.46824 4.57129 3.19048 2.84086 3.34865 3.41970 3.72642 2.36227 2.87810 2.19097 3.31962 3.02912 3.53412 3.12323 3.18064 2.50219 2.47703 2.82035 5.13839 3.88380 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01436 4.64633 5.36868 0.61958 0.77255 0.49640 0.93833\n- 5 2.69973 4.93520 2.42407 2.59119 3.74464 3.49278 3.80749 3.05691 2.35172 2.44509 3.18712 2.74732 3.56327 2.96422 3.07645 2.32943 2.71920 3.18226 5.44364 4.11517 29 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01359 4.70085 5.42320 0.61958 0.77255 0.56458 0.84072\n- 6 1.89564 5.05276 2.85706 2.48561 3.67888 3.13334 2.76359 3.53290 2.55232 3.32342 4.11619 3.08515 3.24545 2.90605 2.96208 2.37823 2.67419 3.23501 5.53754 4.18133 30 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01359 4.70085 5.42320 0.61958 0.77255 0.56458 0.84072\n- 7 2.76500 5.13560 1.68467 2.31480 4.42658 3.35337 3.75544 3.49380 2.51628 2.95439 4.19112 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02545 4.66869 4.15123 0.61958 0.77255 0.54073 0.87304\n- 446 2.14682 3.90768 3.78965 3.21809 2.64598 3.56239 3.51413 2.87270 3.15619 2.12507 3.50121 3.19254 2.58472 3.43894 3.21737 3.03147 2.74575 2.39034 4.98647 3.76767 584 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07051 4.67735 2.83400 0.61958 0.77255 0.58835 0.81022\n- 447 2.47348 4.89887 3.19384 2.71008 4.51438 1.16677 4.05121 3.94384 2.86481 3.54191 4.35451 3.26709 2.87843 3.22007 2.91652 2.72537 3.10690 3.53141 5.76112 4.44605 585 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04822 4.62156 3.29043 0.61958 0.77255 0.68367 0.70272\n- 448 2.68957 4.25256 4.01893 3.43869 2.11991 3.33516 3.34981 2.71032 3.34328 1.99497 3.15867 3.71022 4.16911 3.58971 3.39849 2.51293 2.77621 2.44814 4.85572 2.84398 586 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58856 5.31091 0.61958 0.77255 0.73382 0.65406\n- 449 2.42667 4.00246 4.04005 3.34513 3.14872 3.80046 3.47162 2.34998 3.36098 2.16174 3.35752 3.72272 3.86825 3.60389 3.27275 2.70234 2.53944 1.74701 4.85110 3.65200 587 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58856 5.31091 0.61958 0.77255 0.73382 0.65406\n- 450 2.28840 5.17432 2.92598 2.16934 4.24695 3.17959 3.61336 3.96339 2.30453 3.16722 3.93868 2.85204 3.05749 2.51297 2.63294 2.54113 2.65431 3.55156 5.62213 3.78419 588 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58856 5.31091 0.61958 0.77255 0.73382 0.65406\n- 451 1.99130 4.27263 3.95869 3.22489 3.26194 3.65261 4.07012 2.29714 3.29391 2.21328 3.10298 3.44596 3.70346 3.26633 3.54643 2.84577 2.80847 2.05353 4.87589 3.22682 589 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11986 4.58856 2.27508 0.61958 0.77255 0.73382 0.65406\n- 452 2.41602 4.77979 2.63701 2.19371 4.42228 3.10975 3.67250 3.88357 2.34868 2.75751 4.02511 2.96421 3.57671 2.63622 2.35253 2.53207 2.82195 3.34095 5.56792 4.17989 590 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13167 4.48559 2.18836 0.61958 0.77255 0.61877 0.77350\n- 453 2.45847 3.93357 3.08557 2.75029 3.56888 3.44081 3.83943 3.06845 2.59332 2.18420 3.66280 3.11250 3.53921 3.00360 2.94910 2.37175 2.88406 2.53865 4.54383 3.51755 591 l - - -\n- 2.68497 4.42247 2.77503 2.73114 3.46397 2.40511 3.72543 3.29403 2.67795 2.69397 4.24744 2.90380 2.73726 3.18202 2.89683 2.37856 2.77556 2.98499 4.58530 3.61582\n- 0.74131 0.64720 * 2.00088 0.14528 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/JukAB__JukA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/JukAB__JukA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,833 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME JukAB__JukA\n-LENG 270\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Sep 19 10:46:49 2022\n-NSEQ 106\n-EFFN 4.810242\n-CKSUM 546663148\n-GA 20 20;\n-STATS LOCAL MSV -10.5828 0.70219\n-STATS LOCAL VITERBI -11.5236 0.70219\n-STATS LOCAL FORWARD -5.1225 0.70219\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43392 4.43268 2.95506 2.65856 3.48566 2.81389 3.74902 2.90414 2.67809 2.35769 3.65977 3.10158 3.34365 3.05540 2.88072 2.61523 2.79889 2.71200 4.68221 3.60777\n- 2.68622 4.42229 2.77524 2.73100 3.46358 2.40517 3.72499 3.29358 2.67732 2.69359 4.24631 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98505 4.58481 3.61507\n- 0.19387 2.22644 2.68354 1.10140 0.40408 0.00000 *\n- 1 3.63756 5.01699 5.09027 4.60652 3.36573 4.72958 5.10810 2.56141 4.30545 1.65122 0.77618 4.82775 5.01263 4.55428 4.42098 4.16176 3.89653 2.69868 5.43313 4.26325 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12265 4.54794 2.25532 0.61958 0.77255 0.52648 0.89325\n- 2 2.69930 5.15142 2.19758 2.39776 4.47311 3.46569 3.66607 3.94258 2.20844 3.44659 3.47523 2.94280 3.20323 2.12266 2.90024 2.35086 2.93161 3.53008 5.59863 4.20180 7 q - - -\n- 2.67972 4.42041 2.77793 2.73425 3.46242 2.40719 3.72007 3.29141 2.68241 2.68354 4.24596 2.90614 2.73934 3.17944 2.90078 2.38222 2.77806 2.98045 4.57302 3.61594\n- 0.98946 0.94024 1.43679 4.67458 0.00937 0.68498 0.70138\n- 3 2.61466 4.25285 3.64709 3.07837 3.38552 3.22293 3.90723 2.22701 3.00941 2.08936 3.36557 3.43733 4.00971 2.91853 3.32029 2.72698 2.41276 2.28574 4.85686 3.63796 274 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02167 4.23835 4.96069 0.61958 0.77255 0.95275 0.48724\n- 4 2.44752 4.94659 2.76315 2.42522 4.22570 3.44422 3.63844 3.65816 2.38582 3.22124 3.22744 2.95255 3.83898 2.39246 2.08534 2.51650 2.87801 3.30274 5.42372 4.07071 275 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02167 4.23835 4.96069 0.61958 0.77255 0.95275 0.48724\n- 5 2.66337 4.87979 2.79592 2.47360 4.14260 3.45852 3.67155 3.56069 2.29511 2.61131 3.96528 2.99099 3.86290 2.81883 2.58300 1.83478 2.89701 3.22967 5.37940 4.04563 276 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02167 4.23835 4.96069 0.61958 0.77255 0.69752 0.68880\n- 6 2.53173 4.89707 3.31239 2.75132 4.11888 3.51280 3.87818 3.51409 2.53961 3.14747 1.69822 3.24584 4.06413 2.77459 2.54206 2.23900 3.05602 3.22225 5.42055 4.12225 277 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01283 4.75786 5.48021 0.61958 0.77255 0.83381 0.56985\n- 7 2.60243 5.31090 3.03763 1.88736 4.63766 3.37507 3.18460 4.11091 2.46439 3.60832 2.61521 2.41004 4.01857'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01780 4.43320 5.15555 0.61958 0.77255 0.75514 0.63477\n- 263 2.39910 4.92750 3.05084 2.40436 4.18162 3.20723 3.20326 3.60622 2.38184 3.19323 3.99576 3.01910 3.39549 2.84001 2.44347 2.46292 2.76193 2.39080 5.42065 4.07545 705 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01780 4.43320 5.15555 0.61958 0.77255 0.59817 0.79810\n- 264 2.23005 5.07869 2.61565 1.87983 4.38882 3.42213 3.62954 3.85091 2.20586 3.36984 3.67300 2.90470 3.43974 2.74118 2.87427 2.49161 2.88893 3.45112 5.53493 4.14420 706 e - - -\n- 2.68567 4.42188 2.77565 2.73039 3.46360 2.40639 3.72545 3.29110 2.67776 2.69151 4.24541 2.90435 2.73668 3.18201 2.89938 2.37935 2.77546 2.98445 4.58470 3.61647\n- 0.83090 0.58404 5.00559 3.42578 0.03306 0.57494 0.82723\n- 265 2.67091 4.41356 3.63674 3.14371 3.58234 1.71405 4.05475 2.85361 3.03975 2.35195 2.26892 3.48744 4.05319 3.38937 3.35142 2.90159 2.96951 2.66233 5.10901 3.86034 883 g - - -\n- 2.68624 4.42185 2.77535 2.73102 3.46347 2.40546 3.72539 3.29300 2.67762 2.69322 4.24664 2.90369 2.73712 3.18078 2.89830 2.37899 2.77492 2.98543 4.58522 3.61510\n- 0.46692 1.64214 1.71756 2.25361 0.11095 0.61849 0.77383\n- 266 2.88201 5.07705 3.19799 2.44612 4.45737 3.56899 3.62211 3.82833 1.88476 3.33044 4.16719 3.08497 3.95498 2.75644 1.51236 2.88171 2.74123 3.49542 5.44710 4.20597 907 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02607 4.05585 4.77819 0.61958 0.77255 0.80107 0.59575\n- 267 2.69814 4.95886 2.93347 2.17059 4.26447 3.43553 3.62065 3.68021 2.27686 3.23254 4.04457 2.95124 3.84726 2.49650 2.26747 2.70224 2.14455 3.33398 5.41713 4.09424 908 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02607 4.05585 4.77819 0.61958 0.77255 0.80107 0.59575\n- 268 2.80119 4.28411 4.08639 3.52266 3.41821 3.93678 4.26403 1.74055 2.87079 2.07345 3.32719 3.82751 4.28673 3.69147 3.62944 3.23480 3.04050 1.52595 5.06110 3.85503 909 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02607 4.05585 4.77819 0.61958 0.77255 0.55777 0.84976\n- 269 2.87481 4.42446 3.75585 3.41905 3.06724 3.62174 4.15536 2.29160 3.18930 1.28029 3.21356 3.71451 4.11846 3.62188 3.39820 3.19500 3.19113 2.25715 4.83043 3.48996 910 l - - -\n- 2.68586 4.42413 2.77590 2.73059 3.46276 2.40637 3.72404 3.29145 2.67632 2.69257 4.24635 2.90412 2.73946 3.17885 2.89881 2.38003 2.77462 2.98421 4.58550 3.61580\n- 0.21967 1.69184 4.33992 4.46385 0.01158 0.38613 1.13843\n- 270 2.64443 4.19615 3.79162 3.22968 2.31732 3.67949 3.82768 2.29455 2.85826 2.13075 3.22423 3.52154 4.04153 3.39006 3.37697 2.95618 2.87516 2.38168 4.51085 2.76879 1099 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02134 3.85761 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/JukAB__JukB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/JukAB__JukB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,974 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME JukAB__JukB\n-LENG 317\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Sep 19 10:46:12 2022\n-NSEQ 89\n-EFFN 12.013153\n-CKSUM 1310029515\n-GA 20 20;\n-STATS LOCAL MSV -10.7967 0.70085\n-STATS LOCAL VITERBI -12.0055 0.70085\n-STATS LOCAL FORWARD -5.3096 0.70085\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42007 4.72954 3.04349 2.63571 3.46530 2.86896 3.71456 2.80372 2.72107 2.27756 3.65241 3.06251 3.42801 2.86116 2.98137 2.59395 2.88486 2.74069 4.84964 3.66567\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24590 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.44972 2.33728 1.32576 0.36693 1.18044 0.00000 *\n- 1 4.40471 5.69642 6.18520 5.74563 3.94290 5.57692 6.11476 2.66444 5.45111 2.24288 0.36382 5.88050 5.80601 5.52552 5.45634 5.08206 4.67848 3.19959 6.16365 5.07626 2 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20495 5.28839 1.71336 0.61958 0.77255 0.76020 0.63031\n- 2 2.67375 4.97061 3.43676 2.57670 3.30790 3.79616 4.01200 2.54577 2.57622 2.20750 3.44927 2.74328 3.26411 2.59745 3.30388 2.33193 2.59107 3.27976 5.50261 4.20269 3 l - - -\n- 2.68464 4.41941 2.77601 2.72964 3.46235 2.40564 3.72337 3.29160 2.67871 2.69411 4.24802 2.90291 2.73931 3.18219 2.89855 2.37984 2.77407 2.98527 4.58547 3.61369\n- 0.55408 0.93984 3.36074 2.45667 0.08962 1.17126 0.37103\n- 3 3.11015 4.69762 4.24719 2.87349 3.81499 3.12262 3.42260 2.06654 2.85571 1.88210 2.05293 3.45760 4.52567 3.41117 3.87961 3.41539 3.34203 2.16590 5.29629 3.57092 121 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29180 5.40291 1.39199 0.61958 0.77255 1.21953 0.35008\n- 4 2.92755 5.43040 2.24493 1.84617 3.68427 3.19149 3.88986 4.25579 2.26288 3.17849 4.47196 2.47140 4.09578 2.60449 3.11826 2.49144 2.69640 3.31407 5.86507 4.45607 122 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00892 5.12003 5.84237 0.61958 0.77255 0.37099 1.17136\n- 5 2.84547 5.24463 3.66093 3.46417 4.40906 3.63352 4.51418 3.14689 2.29576 2.92908 1.41171 3.52079 4.01115 3.76319 3.84502 2.39149 2.07148 2.72213 5.80348 4.53783 123 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00427 5.85388 6.57622 0.61958 0.77255 0.94509 0.49208\n- 6 2.10583 4.95437 2.96661 3.16473 3.60306 4.58229 4.88543 1.62991 4.23924 1.95006 2.45135 4.56537 3.23374 3.83563 4.41796 3.04161 3.32826 2.20581 5.56579 4.37412 124 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03676 5.95602 3.39605 0.61958 0.77255 0.94509 0.49208\n- 7 2.42910 5.01134 3.61771 2.43092 2.44302 3.10296 4.79849 2.09853 3.46570 2.20786 2.78531 3.87166 3.3987'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07913 5.21551 2.64997 0.61958 0.77255 0.76020 0.63031\n- 310 1.77494 5.17045 3.30885 1.77510 4.42145 3.09345 3.95688 3.37590 2.74713 3.20557 4.23969 3.27609 4.14497 2.81071 3.21552 2.48620 2.70068 2.68755 5.66711 4.32290 848 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00897 5.11417 5.83651 0.61958 0.77255 0.92640 0.50414\n- 311 2.71414 3.47869 4.59196 3.99684 2.18456 3.19979 4.40431 2.58236 3.84897 2.04212 3.51447 4.13529 3.47494 3.15768 3.26019 2.99574 2.78271 2.15445 5.01351 2.40688 849 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00897 5.11417 5.83651 0.61958 0.77255 0.92640 0.50414\n- 312 2.20092 3.12071 3.72804 2.58866 3.48025 3.28278 3.35027 2.85967 3.12318 2.42739 3.78201 3.58624 3.48384 3.14313 3.49419 2.06822 3.14844 2.24657 5.25714 4.01455 850 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00954 5.05268 5.77502 0.61958 0.77255 0.92640 0.50414\n- 313 1.96116 5.10657 3.25104 2.69334 4.35485 3.69485 3.89645 3.77756 2.28612 2.89714 3.46272 2.76480 3.13922 3.03898 2.57369 2.35671 2.69806 2.69634 5.60231 4.25910 851 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01029 4.97733 5.69968 0.61958 0.77255 0.92640 0.50414\n- 314 2.09949 4.30402 4.05224 3.47416 3.42404 3.84315 4.14008 2.19168 2.90020 2.18774 3.42114 3.75241 4.21724 3.63209 3.62100 2.66310 2.62807 1.77636 4.92373 3.72185 852 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01403 4.66919 5.39153 0.61958 0.77255 0.92640 0.50414\n- 315 2.25200 4.85024 2.95031 2.47356 4.25483 3.37606 3.71319 3.68818 2.50153 3.26587 4.06441 2.55794 3.83630 2.35086 2.95988 2.03774 2.49971 3.31175 5.47710 4.13074 853 s - - -\n- 2.68627 4.42234 2.77528 2.73132 3.46363 2.40522 3.72439 3.29304 2.67750 2.69364 4.24699 2.90356 2.73714 3.18155 2.89810 2.37896 2.77479 2.98527 4.58486 3.61512\n- 0.69223 0.70846 4.94218 0.11845 2.19190 0.92640 0.50414\n- 316 2.21336 4.91555 2.89069 2.41756 4.26688 2.71821 3.65829 3.70087 2.14773 3.26235 4.05992 2.93735 3.82492 2.30684 2.85193 2.38890 2.88960 3.33143 5.45986 4.11010 855 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13577 4.85811 0.61958 0.77255 0.92640 0.50414\n- 317 2.45701 4.23222 3.03840 2.85871 3.82898 2.93596 3.94135 3.32130 2.89425 2.97299 4.03071 3.18116 1.53846 3.29454 3.15208 2.62206 2.88364 2.99890 5.07425 3.95466 856 p - - -\n- 2.68599 4.42260 2.77525 2.73101 3.46389 2.40527 3.72376 3.29389 2.67722 2.69390 4.24725 2.90348 2.73717 3.18137 2.89768 2.37902 2.77495 2.98553 4.58512 3.61538\n- 0.23827 1.55111 * 2.41601 0.09352 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Kiwa__KwaA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Kiwa__KwaA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,596 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Kiwa__KwaA\n-LENG 191\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 09:35:47 2021\n-NSEQ 50\n-EFFN 4.824829\n-CKSUM 2404019599\n-GA 20 20;\n-STATS LOCAL MSV -10.1502 0.70593\n-STATS LOCAL VITERBI -11.2817 0.70593\n-STATS LOCAL FORWARD -4.9275 0.70593\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70594 4.30976 3.22126 2.92604 2.94192 3.09659 3.98351 2.45794 2.73499 2.22312 3.43488 3.05736 3.38962 3.30983 3.17490 2.62056 2.82402 2.56970 4.65379 3.18490\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13807 3.79318 2.24019 0.61958 0.77255 0.00000 *\n- 1 2.83748 4.41957 3.85714 3.44545 3.14815 3.69625 4.22280 2.30692 3.21976 1.77968 1.77615 3.74254 4.16383 3.61890 3.44456 3.16376 3.14345 2.28940 4.95946 3.69958 1 m - - -\n- 2.68591 4.42025 2.77520 2.73181 3.46369 2.40477 3.72458 3.29302 2.67853 2.69303 4.24767 2.90466 2.73714 3.18258 2.89624 2.37943 2.77550 2.98413 4.58587 3.61425\n- 0.34089 1.28457 4.41516 3.88472 0.02077 0.44019 1.03258\n- 2 4.81691 6.18331 5.97047 5.84657 4.82753 5.23007 6.30399 4.23390 5.62245 3.37404 0.13227 5.94103 5.81835 5.94159 5.62461 5.19936 5.22080 4.36926 6.61972 5.52400 188 M - - -\n- 2.68652 4.42220 2.77628 2.73165 3.46423 2.40550 3.72395 3.29332 2.67699 2.69469 4.24329 2.90296 2.73848 3.18082 2.89725 2.37915 2.77392 2.98432 4.58542 3.61418\n- 1.22150 0.98657 1.10154 2.11642 0.12836 0.48576 0.95510\n- 3 2.63146 5.30401 2.91759 2.06512 3.93946 3.59945 3.78631 4.11569 1.86613 3.21217 3.70196 3.07144 3.99246 2.10084 2.30600 2.78966 3.05288 3.68894 5.74246 4.33975 211 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01163 4.85594 5.57828 0.61958 0.77255 0.86744 0.54477\n- 4 2.88676 4.63107 3.37246 2.52593 2.69751 3.35521 4.10639 2.86139 3.11933 1.84035 2.82390 3.01686 4.23664 3.08374 3.48278 2.69793 2.71653 2.47373 5.20976 3.97099 212 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01020 4.98668 5.70903 0.61958 0.77255 0.72151 0.66557\n- 5 2.91643 5.41625 2.78714 2.61307 4.75733 3.69124 3.52911 4.23994 2.31515 3.03884 4.45811 2.10127 3.55282 2.59712 1.84198 2.42570 3.14745 3.80478 5.85096 3.48763 213 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00919 5.09049 5.81283 0.61958 0.77255 0.94806 0.49019\n- 6 2.92689 4.91448 3.10395 2.92508 2.77393 3.08298 4.03393 2.81507 2.46251 2.15091 4.00139 2.66034 3.07908 3.24268 2.91124 3.03016 2.34156 3.00191 5.45627 3.61227 214 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00919 5.09049 5.81283 0.61958 0.77255 0.83837 0.56636\n- 7 2.97538 4.38790 4.71740 4.11615 2.66120 3.32782 4.43976 1.78222 3.13644 1.80291 3.16421 3.57841 4.48460 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01033 4.97411 5.69646 0.61958 0.77255 0.55426 0.85448\n- 184 2.71473 5.15595 2.76050 2.23020 4.47303 2.86358 3.68902 3.44252 1.86854 2.86393 4.20446 2.73149 3.34039 2.79543 2.92330 2.52800 2.77245 3.53153 5.60576 4.21231 455 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11130 4.54822 2.35662 0.61958 0.77255 0.55426 0.85448\n- 185 2.62668 5.00988 2.67675 2.36176 4.30554 3.41116 3.27788 3.75842 2.36656 3.29354 4.06540 2.66672 3.80806 2.49956 2.66825 2.16177 2.59776 3.37438 5.47210 3.46754 456 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02242 4.20483 4.92718 0.61958 0.77255 0.69417 0.69213\n- 186 2.26596 4.82971 3.00118 2.45773 4.09798 2.97535 3.64700 3.18167 2.11704 3.10844 3.92062 2.97285 3.83353 2.35079 2.85671 2.65292 2.62591 3.18140 5.34147 4.00972 457 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08355 4.15926 2.74058 0.61958 0.77255 0.69417 0.69213\n- 187 2.67997 5.07577 2.65332 2.09864 4.37308 3.34276 3.04217 3.83172 2.36611 3.35620 4.14673 2.26857 3.17366 2.41710 2.82699 2.64837 2.91788 3.44733 5.52368 4.13852 458 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02795 3.98704 4.70938 0.61958 0.77255 0.74888 0.64035\n- 188 2.73436 5.13813 2.00543 1.88858 4.42401 3.19037 3.60044 3.87667 2.14005 3.42114 4.25729 2.67168 3.73776 2.75752 2.93399 2.67281 2.99528 3.50199 5.60144 4.18900 459 e - - -\n- 2.68621 4.42228 2.77522 2.73095 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24693 2.90350 2.73742 3.18149 2.89804 2.37878 2.77522 2.98521 4.58480 3.61506\n- 0.36663 1.22027 4.44090 0.25153 1.50331 0.64219 0.74685\n- 189 2.68012 4.93710 2.67609 2.09492 4.21546 3.33092 2.95617 3.65110 2.07664 3.20874 4.03560 2.84215 3.78680 2.73249 2.66945 2.38088 2.91513 3.30979 5.39133 4.05371 461 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03368 3.80334 4.52569 0.61958 0.77255 0.69417 0.69213\n- 190 2.54316 4.54034 3.07445 2.65079 4.00638 3.23068 3.67393 3.45894 2.25714 3.07467 3.96231 3.04410 3.76946 2.87527 1.90594 2.22792 2.85957 3.11634 5.23978 3.96315 462 r - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40504 3.72496 3.29356 2.67728 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.23851 2.19230 2.29724 0.64903 0.73930 0.47448 0.97341\n- 191 2.25200 4.22336 3.57327 3.05481 3.49915 3.46268 3.97453 2.15281 2.98267 2.40739 3.42301 3.39468 3.10206 3.30322 3.30795 2.78418 2.81460 2.01933 5.03165 3.80374 465 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02251 3.80490 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Kiwa__KwaB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Kiwa__KwaB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,968 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Kiwa__KwaB\n-LENG 315\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 09:35:55 2021\n-NSEQ 50\n-EFFN 9.121704\n-CKSUM 1735192869\n-GA 20 20;\n-STATS LOCAL MSV -11.0266 0.70090\n-STATS LOCAL VITERBI -11.9094 0.70090\n-STATS LOCAL FORWARD -5.2589 0.70090\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71453 4.73188 2.75476 2.57446 3.02851 3.20170 3.94810 2.65378 2.46281 2.42603 3.69757 2.81801 3.69537 3.06265 3.02666 2.66947 2.84984 2.77259 5.12065 3.42363\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69345 4.24633 2.90349 2.73742 3.18128 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.01405 4.38511 6.50745 0.81633 0.58349 0.00000 *\n- 1 5.95696 7.17322 6.89763 6.88711 6.07810 6.01192 7.31350 5.67370 6.81062 4.72644 0.03737 6.99096 6.64422 7.09442 6.71329 6.31195 6.39953 5.81301 7.59547 6.67676 4 M - - -\n- 2.68679 4.42349 2.77460 2.73059 3.46405 2.40616 3.72444 3.29315 2.67628 2.69277 4.24574 2.90224 2.73772 3.18225 2.89887 2.37968 2.77482 2.98512 4.58368 3.61559\n- 1.04601 1.29749 0.97963 1.49516 0.25388 0.48576 0.95510\n- 2 3.06794 5.57195 2.03130 2.48792 3.14849 3.84256 3.28008 4.39820 2.33315 3.22748 4.61336 1.91944 3.44552 3.12728 2.85804 2.77379 2.29482 3.96108 6.00630 4.59703 20 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11876 5.41243 2.23011 0.61958 0.77255 1.58930 0.22824\n- 3 3.07894 4.75139 4.03713 2.99861 3.88091 4.07833 4.33604 1.99397 1.61276 1.68117 3.24358 3.11540 4.45511 3.69890 3.72182 3.33062 3.31025 2.68483 5.34129 4.11658 21 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00723 5.32914 6.05149 0.61958 0.77255 1.43532 0.27186\n- 4 2.81705 5.57886 2.67891 1.83237 4.92385 2.61962 4.02767 2.95289 2.53878 3.88411 4.61969 2.44184 3.54830 2.10630 3.25645 2.26356 3.29879 3.96948 6.01146 4.60005 22 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00670 5.40523 6.12757 0.61958 0.77255 1.76008 0.18878\n- 5 2.72528 5.55717 2.98781 1.76532 3.59912 3.28819 4.02863 3.10278 2.48219 3.85928 4.59978 2.63276 4.23408 2.42032 3.25781 2.21854 2.38206 3.94381 5.99432 3.49792 23 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00670 5.40523 6.12757 0.61958 0.77255 1.57960 0.23074\n- 6 2.72259 4.53173 5.05887 4.44734 2.99123 4.31281 4.64372 1.97135 3.38521 1.08189 3.64908 4.45740 3.66740 4.38550 4.27143 3.62186 2.97734 2.23768 5.15329 3.20849 24 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00651 5.43359 6.15594 0.61958 0.77255 0.78907 0.60562\n- 7 3.20279 5.38803 2.41725 3.05502 2.83177 4.03782 4.24273 3.01928 1.54770 2.51467 4.45999 3.20300 4.42736 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00483 5.73077 6.45312 0.61958 0.77255 0.94712 0.49079\n- 308 1.13775 5.35162 2.95780 3.86321 4.98735 4.19983 4.94334 4.36405 3.87044 4.05108 4.89370 4.21160 4.79199 4.17715 4.26487 2.05905 1.61126 2.06576 6.34599 5.08970 433 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00483 5.73077 6.45312 0.61958 0.77255 0.94712 0.49079\n- 309 2.71721 5.60151 2.05482 2.79591 3.91661 4.05364 4.24855 2.88425 3.01325 3.02719 4.65886 2.04607 2.37993 3.05359 3.09032 2.50753 3.13244 2.76286 6.07278 3.83547 434 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00483 5.73077 6.45312 0.61958 0.77255 0.94712 0.49079\n- 310 1.89341 5.74967 2.57116 2.52767 5.09020 3.51117 4.21626 4.57243 2.95485 4.05398 4.79375 2.62604 4.42059 3.31487 3.04406 1.26167 3.10021 3.12146 6.18736 4.77937 435 s - - -\n- 2.68629 4.42236 2.77530 2.73106 3.46365 2.40484 3.72430 3.29365 2.67725 2.69366 4.24700 2.90357 2.73722 3.18157 2.89811 2.37897 2.77530 2.98529 4.58488 3.61514\n- 0.12431 2.72186 2.97320 0.68435 0.70203 0.42980 1.05166\n- 311 2.79103 5.77099 3.09266 2.95757 5.11584 2.92739 4.22332 4.60032 0.97383 4.07546 4.81226 3.06928 4.43072 2.77329 2.60893 3.22699 2.56300 3.51544 6.20327 4.79427 440 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03101 5.75216 3.59876 0.61958 0.77255 0.86394 0.54731\n- 312 2.49566 5.75410 2.18595 2.12228 5.10001 4.01498 3.59834 4.58657 2.11345 3.51807 3.68655 2.65516 4.40847 2.92592 2.26269 2.35613 2.86050 3.16163 6.18629 4.77484 441 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00485 5.72601 6.44836 0.61958 0.77255 0.96452 0.47992\n- 313 3.24506 5.73509 3.07746 2.94575 5.07211 4.02160 4.20895 4.55190 2.09555 2.66826 4.77802 2.82632 2.47114 2.55948 1.93800 2.33911 3.47609 2.24636 6.17232 4.76705 442 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00485 5.72601 6.44836 0.61958 0.77255 0.96452 0.47992\n- 314 1.90003 4.79685 3.29082 3.47637 3.90016 4.42428 4.72733 2.01741 3.39445 1.99624 3.31285 4.40684 4.79375 4.29956 3.41835 3.71025 3.55327 1.44179 5.40832 3.40375 443 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18444 5.72601 1.80079 0.61958 0.77255 0.74055 0.64789\n- 315 2.06010 5.64300 1.99243 2.35274 4.98923 3.35385 4.08922 4.47614 2.00702 3.94877 4.68343 2.21207 3.58099 2.54033 2.96275 2.83324 3.02324 4.03428 6.07493 4.66307 444 d - - -\n- 2.68619 4.42349 2.77528 2.72914 3.46478 2.40522 3.72382 3.29286 2.67742 2.69422 4.24508 2.90405 2.73748 3.18134 2.89883 2.37874 2.77546 2.98457 4.58601 3.61627\n- 0.85371 0.55483 * 1.12415 0.39294 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Kiwa__KwaB_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Kiwa__KwaB_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,890 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Kiwa__KwaB_2\n-LENG 289\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jan 6 17:16:02 2022\n-NSEQ 30\n-EFFN 2.860107\n-CKSUM 3227873219\n-GA 20 20;\n-STATS LOCAL MSV -10.9418 0.70159\n-STATS LOCAL VITERBI -11.8440 0.70159\n-STATS LOCAL FORWARD -5.3913 0.70159\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59520 4.56704 2.87915 2.56271 3.00722 3.26544 3.80870 2.68451 2.54233 2.45928 3.69870 2.92013 3.67001 2.97572 2.99481 2.65306 2.79342 2.73174 5.11504 3.45748\n- 2.68651 4.42258 2.77553 2.73115 3.46387 2.40535 3.72528 3.29314 2.67774 2.69305 4.23895 2.90334 2.73758 3.18179 2.89811 2.37920 2.77513 2.98532 4.58390 3.61536\n- 0.76089 1.19966 1.46338 1.08353 0.41309 0.00000 *\n- 1 2.73846 4.48763 3.57108 2.63908 3.13343 3.70487 3.95332 2.98958 2.95590 2.52071 1.81425 3.42243 3.13906 3.26833 2.94992 2.94704 2.50930 2.76201 5.06523 3.82598 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01483 4.61402 5.33637 0.61958 0.77255 0.35683 1.20361\n- 2 2.64032 5.22742 2.22399 2.38335 4.52954 3.60639 3.80485 3.98696 2.56221 3.03581 2.28012 2.41825 4.00320 2.70374 3.04771 2.26892 3.05544 3.59491 5.68659 4.30165 11 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83762 5.55996 0.61958 0.77255 0.56732 0.83712\n- 3 2.29706 5.34029 2.81632 2.13271 4.68095 2.81877 2.60144 4.16607 2.53432 3.64379 4.38341 2.14431 3.61180 2.51817 3.02929 2.52412 3.06569 3.72881 5.77474 4.36262 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83762 5.55996 0.61958 0.77255 0.56732 0.83712\n- 4 3.80715 5.05114 5.76836 5.19024 2.48533 5.16468 5.48951 2.02387 5.04511 0.73965 3.29693 5.32079 5.29273 4.99411 5.01878 4.53451 4.02299 1.89050 5.62414 4.59100 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83762 5.55996 0.61958 0.77255 0.56732 0.83712\n- 5 2.85684 3.55152 4.71008 4.10416 1.45784 4.01426 4.32790 2.29117 3.91253 1.92016 3.01216 3.26998 4.37649 4.06073 3.95772 3.32158 3.08878 2.48309 4.84150 3.04675 14 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83762 5.55996 0.61958 0.77255 0.56732 0.83712\n- 6 0.93479 4.66633 4.90545 4.41459 4.03866 4.29734 5.07837 2.04793 4.31138 2.76993 3.90945 4.53493 4.79108 4.56018 4.50547 3.68724 3.51220 1.57554 5.76699 4.56684 15 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83762 5.55996 0.61958 0.77255 0.56732 0.83712\n- 7 2.60484 4.31325 4.26622 3.67931 3.41685 3.92702 3.77207 2.04887 2.24087 1.63890 3.12633 3.89722 4.2966'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88978 5.61213 0.61958 0.77255 0.48576 0.95510\n- 282 1.35570 4.68661 4.42390 4.08082 5.05480 3.48813 5.01792 4.48095 4.06170 4.17044 4.96456 4.04359 4.27921 4.31115 4.33059 1.16044 1.56254 3.83140 6.39411 5.23184 368 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88978 5.61213 0.61958 0.77255 0.48576 0.95510\n- 283 3.36914 5.63030 2.96381 2.87507 4.82392 3.78140 3.09739 4.71783 3.22449 4.22221 5.09581 0.60999 4.41141 3.56082 3.64535 3.03410 3.70461 4.27692 6.13346 4.63929 369 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88978 5.61213 0.61958 0.77255 0.48576 0.95510\n- 284 3.16226 5.04871 4.49477 4.45855 5.35333 3.77753 5.45471 5.07963 4.61656 4.73453 5.61571 4.40851 4.60301 4.86994 4.77657 0.23921 3.72406 4.34911 6.62615 5.48202 370 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88978 5.61213 0.61958 0.77255 0.48576 0.95510\n- 285 2.87245 4.99244 3.32881 2.76658 4.22644 3.71226 3.91532 3.23740 1.39242 3.24716 4.07823 3.26969 4.10307 2.82396 3.12306 2.44443 2.78335 2.20873 5.51064 4.20014 371 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88978 5.61213 0.61958 0.77255 0.48576 0.95510\n- 286 2.99051 5.24947 3.37149 2.77803 4.55095 3.77369 3.90001 3.42559 2.14348 3.50774 4.31429 3.28211 4.15298 2.37223 1.32666 2.99819 2.78197 2.79028 5.68491 4.37312 372 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88978 5.61213 0.61958 0.77255 0.48576 0.95510\n- 287 2.15701 5.02043 3.25786 2.69875 4.25774 3.67562 3.88133 3.67023 2.02591 3.27951 3.47836 3.21437 2.23652 3.03585 2.64478 2.75544 2.81608 2.55677 5.52892 4.19999 373 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88978 5.61213 0.61958 0.77255 0.48576 0.95510\n- 288 2.36500 4.28495 3.46784 3.27474 3.04534 3.98963 4.30617 1.75031 3.76731 1.78837 2.99421 4.04601 4.35622 3.95404 3.88180 3.28665 3.08859 2.07023 4.90284 3.14855 374 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23128 4.88978 1.61466 0.61958 0.77255 0.48576 0.95510\n- 289 2.44497 5.22202 2.34153 2.46304 4.54940 2.69650 3.72401 4.02299 2.17357 3.51986 4.26792 2.27538 3.92764 2.82659 2.74175 2.60833 2.81103 3.23454 5.66578 3.63740 375 k - - -\n- 2.68630 4.42237 2.77531 2.73135 3.46366 2.40506 3.72439 3.29314 2.67704 2.69367 4.24701 2.90344 2.73751 3.18132 2.89812 2.37898 2.77531 2.98502 4.58489 3.61515\n- 0.35236 1.21412 * 0.37986 1.15187 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Amidase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Amidase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1835 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_Amidase\n-LENG 604\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:36 2021\n-NSEQ 11\n-EFFN 1.044678\n-CKSUM 1834549889\n-GA 20 20;\n-STATS LOCAL MSV -11.9778 0.69720\n-STATS LOCAL VITERBI -12.9073 0.69720\n-STATS LOCAL FORWARD -6.5280 0.69720\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.44543 4.18208 2.92951 2.68923 3.34657 2.91054 3.63161 2.85505 2.74806 2.51298 3.67829 3.11213 3.19589 3.04693 2.91842 2.64157 2.82764 2.56720 4.35708 3.65973\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20157 4.21393 1.78518 0.61958 0.77255 0.00000 *\n- 1 3.10746 4.63160 4.23178 3.84076 3.29098 3.96019 4.53749 2.48366 3.59884 1.86316 1.09157 4.09681 4.42429 3.97126 3.78402 3.47257 3.41739 2.50847 5.15226 3.92727 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03888 4.76122 0.61958 0.77255 0.67334 0.71336\n- 2 2.67874 4.23763 3.98373 3.46031 3.47788 3.72284 4.23355 1.83114 3.36433 2.35964 3.41408 3.73008 4.16937 3.65628 3.62855 2.35688 2.96366 1.56231 5.07955 3.85835 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03888 4.76122 0.61958 0.77255 0.67334 0.71336\n- 3 2.44678 4.85626 2.95852 2.28465 4.13146 3.41899 2.76956 3.54757 2.33398 3.12874 3.94316 2.94917 3.82334 2.76286 2.40310 2.65989 2.39797 3.21474 5.34333 4.01767 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03888 4.76122 0.61958 0.77255 0.44747 1.01956\n- 4 2.08972 4.34788 4.49256 3.97279 3.63558 4.11946 4.68904 1.62322 3.87826 2.33806 3.49511 4.19237 4.51912 4.14569 4.10413 3.47464 3.20365 1.24881 5.38451 4.17736 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02313 4.17390 4.89625 0.61958 0.77255 0.53495 0.88117\n- 5 2.59852 3.59686 3.74219 3.16714 3.31691 3.63272 3.92474 2.12995 3.07006 2.38471 2.60243 3.49041 4.01466 3.35612 2.76769 2.41240 2.83498 2.42840 4.80257 3.59236 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02313 4.17390 4.89625 0.61958 0.77255 0.53495 0.88117\n- 6 2.88024 5.22892 2.98909 1.64615 4.61124 3.53304 3.65249 4.02632 1.81716 3.49051 4.29728 3.01478 3.94403 2.77353 2.05733 2.84540 3.08883 3.64803 5.58562 4.28488 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02313 4.17390 4.89625 0.61958 0.77255 0.53495 0.88117\n- 7 3.15887 4.51453 4.77253 4.28626 3.51967 4.40912 4.95299 1.91815 4.13093 1.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21393 4.93627 0.61958 0.77255 0.48576 0.95510\n- 597 2.69402 5.18465 2.33660 1.96684 4.51282 3.39223 3.63139 3.99251 2.27137 3.47991 4.23680 2.86023 3.82344 2.32020 2.68971 2.23578 2.93026 3.56758 5.62013 4.20874 625 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21393 4.93627 0.61958 0.77255 0.48576 0.95510\n- 598 1.82112 4.86901 3.16426 2.72295 4.39597 3.45717 3.82770 3.72899 1.39513 3.35299 4.21317 3.16649 3.96207 2.98988 2.71877 2.82712 3.05956 3.37707 5.55203 4.28283 626 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21393 4.93627 0.61958 0.77255 0.48576 0.95510\n- 599 3.34249 4.64446 5.03055 4.48451 3.30515 4.66140 5.05141 1.90179 4.35031 0.94669 3.09286 4.71575 4.86841 4.48412 4.47472 4.02564 3.57771 1.68449 5.37542 4.28353 627 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21393 4.93627 0.61958 0.77255 0.48576 0.95510\n- 600 2.26958 4.64362 2.67234 2.58386 3.80663 3.49035 2.85309 3.22811 2.57364 2.87983 2.86266 3.07626 3.88178 2.91305 3.00831 2.71323 2.85591 2.95074 5.15887 2.98353 628 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21393 4.93627 0.61958 0.77255 0.48576 0.95510\n- 601 1.92436 5.33311 1.97169 1.59464 4.65980 3.35004 3.77568 4.13137 2.67751 3.65772 4.46550 2.83252 3.89390 2.91982 3.21794 2.79751 3.13076 3.72063 5.83245 4.38730 629 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21393 4.93627 0.61958 0.77255 0.48576 0.95510\n- 602 2.23594 4.51468 3.29256 2.73159 3.68331 3.54083 2.88835 3.04482 2.32706 2.30355 3.61234 3.18781 3.92809 3.01367 3.02989 2.77809 2.86561 2.38557 5.07109 3.80681 630 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02221 4.21393 4.93627 0.61958 0.77255 0.48576 0.95510\n- 603 3.25086 4.54977 5.03298 4.46665 2.78132 4.56077 4.90706 1.70319 4.34146 1.14757 3.06099 4.64062 4.77694 4.42911 4.42252 3.90746 3.47841 1.72033 5.22969 4.12274 631 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13857 4.21393 2.16623 0.61958 0.77255 0.48576 0.95510\n- 604 2.77033 5.19079 2.25060 1.83899 4.54720 2.25526 3.72271 4.02305 2.60940 3.55056 4.35399 2.80676 3.83660 2.86699 3.13693 2.11123 3.04206 3.61317 5.72952 4.30284 632 e - - -\n- 2.68560 4.42232 2.77526 2.73130 3.46360 2.40494 3.72501 3.29361 2.67747 2.69361 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58483 3.61510\n- 0.33020 1.26862 * 0.47419 0.97388 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Cap4_nuclease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Cap4_nuclease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1133 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Lamassu-Fam__LmuA_effector_Cap4_nuclease\n-LENG 370\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 1 10:32:00 2021\n-NSEQ 54\n-EFFN 5.454712\n-CKSUM 146383651\n-GA 20 20;\n-STATS LOCAL MSV -11.3051 0.69975\n-STATS LOCAL VITERBI -12.1264 0.69975\n-STATS LOCAL FORWARD -5.3355 0.69975\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54456 4.44550 2.87826 2.54170 3.26807 3.10967 3.72832 2.78566 2.46937 2.40727 3.73317 2.99331 3.67991 3.00087 3.02226 2.54674 2.84465 2.79280 4.70792 3.60388\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31723 5.42167 1.31894 0.61958 0.77255 0.00000 *\n- 1 4.56608 5.95599 5.74873 5.59060 4.56909 5.05559 6.06516 3.93976 5.34388 3.10438 0.17566 5.69515 5.62856 5.67165 5.36893 4.95462 4.95766 4.06679 6.39954 5.27697 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11023 5.11341 2.31917 0.61958 0.77255 0.97086 0.47603\n- 2 2.20063 5.12762 3.30968 2.50906 4.36887 3.74482 3.94801 3.37466 2.32098 2.54887 3.12929 2.24881 4.13482 3.09565 3.21027 2.37506 2.23755 3.46112 5.62815 4.29046 2 a - - -\n- 2.68633 4.42398 2.77544 2.72986 3.46470 2.40507 3.72576 3.29384 2.67777 2.69384 4.24783 2.90237 2.73776 3.18027 2.89854 2.37835 2.77629 2.98350 4.58435 3.61677\n- 1.03693 0.58846 2.40484 1.91288 0.15976 1.29506 0.32004\n- 3 2.96717 4.40088 4.56804 2.67522 2.52450 4.09941 4.41281 1.37815 3.83911 1.71889 3.47790 4.13425 4.46143 4.03514 3.97239 2.90038 3.19964 2.57208 5.01986 3.83108 26 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98798 5.71032 0.61958 0.77255 1.40711 0.28084\n- 4 2.24814 4.48956 4.01999 2.85676 3.01096 3.93541 4.21145 2.29543 2.17324 1.72910 3.59834 3.77695 4.30997 3.64370 3.65819 3.19890 2.75306 2.46310 5.08942 3.87802 27 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98798 5.71032 0.61958 0.77255 1.40711 0.28084\n- 5 2.91315 5.40654 1.85081 1.81647 4.73974 3.10245 2.59437 4.22111 2.62288 3.16009 4.45313 3.13000 4.06899 2.97358 3.11874 2.58831 2.48668 3.79136 5.84543 4.43520 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98798 5.71032 0.61958 0.77255 1.03053 0.44132\n- 6 3.00524 4.44080 1.97586 4.01255 2.91753 4.14079 4.45852 2.20142 3.87454 2.28811 2.55738 4.17110 4.50362 4.07357 4.01450 3.43640 2.44664 1.69791 5.07849 3.89261 29 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00924 5.08418 5.80652 0.61958 0.77255 0.93914 0.49587\n- 7 2.44390 4.59485 4.05840 2.33907 2.78849 4.00921 4.28115 3.06736 2.95218 1.439'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 363 2.65432 5.55264 2.62084 1.24533 4.88722 3.28890 4.03362 4.36575 2.77278 3.85358 4.59643 3.31660 4.23845 3.13354 2.50594 2.39531 2.78458 3.27117 3.95038 4.58752 499 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 364 2.19260 4.54972 5.12984 4.51593 3.06345 4.34844 4.68107 1.67383 4.30446 1.40930 2.41642 4.50742 4.70703 4.43318 4.31535 3.66034 2.91853 2.77389 5.16920 2.74421 500 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 365 3.11738 4.65989 3.42478 3.79115 3.77140 4.18202 4.46869 2.05684 2.66442 1.99405 3.17167 2.87398 4.55468 3.95440 3.94927 2.62383 3.34933 1.84289 5.26391 2.41672 501 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00667 5.40908 6.13143 0.61958 0.77255 0.53812 0.87670\n- 366 3.06625 3.96158 2.90408 1.73224 4.92465 3.15813 4.02652 4.41115 2.11011 3.88434 4.61923 2.96592 4.23306 2.53762 2.10556 2.26457 2.67110 3.96984 6.01088 4.59948 502 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15120 5.40908 1.99619 0.61958 0.77255 0.53812 0.87670\n- 367 3.00289 3.90851 3.29764 2.28471 4.70854 1.87385 3.98351 3.34738 1.80095 3.69131 4.45684 3.27969 4.18558 2.77213 2.44137 2.98712 2.75649 3.77307 3.78098 4.47977 503 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00770 5.26558 5.98793 0.61958 0.77255 0.96894 0.47720\n- 368 3.03249 2.15274 3.74445 2.37172 4.02688 3.96431 4.19918 2.12405 2.29848 2.10404 3.96566 2.40170 4.34725 3.46702 3.52353 3.19800 3.26375 3.14674 5.43440 4.17869 504 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15596 5.26558 1.97158 0.61958 0.77255 0.96894 0.47720\n- 369 2.01150 5.28593 2.80211 1.99433 4.57066 3.73249 2.83267 4.01578 2.69608 2.99935 4.34418 3.22900 4.12623 3.05134 3.17636 2.08132 3.16671 2.34721 5.75759 4.38621 505 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14448 5.11856 2.05146 0.61958 0.77255 0.98886 0.46521\n- 370 2.61795 5.39956 2.34763 2.01926 3.48664 3.66962 3.16696 4.22588 2.59328 3.70364 4.44099 2.58340 4.06329 2.40747 2.69622 2.09664 3.12655 3.78869 5.83388 3.58804 506 e - - -\n- 2.68640 4.42312 2.77489 2.73109 3.46441 2.40576 3.72506 3.29441 2.67738 2.69349 4.24777 2.90339 2.73667 3.18074 2.89888 2.37791 2.77505 2.98475 4.58522 3.61591\n- 1.02922 0.44205 * 1.14031 0.38525 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Cap4_nuclease_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Cap4_nuclease_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1142 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_Cap4_nuclease_II\n-LENG 373\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:41 2021\n-NSEQ 1468\n-EFFN 34.129051\n-CKSUM 1033511821\n-GA 20 20;\n-STATS LOCAL MSV -11.1581 0.69969\n-STATS LOCAL VITERBI -13.7090 0.69969\n-STATS LOCAL FORWARD -4.5319 0.69969\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68506 4.42360 2.70411 2.53531 3.27475 2.91998 3.69118 2.80569 2.57555 2.42191 4.07687 2.94668 3.32851 3.11847 2.92071 2.55799 2.92640 2.94426 4.47206 3.41010\n- 2.68833 4.40996 2.77667 2.73158 3.46608 2.41037 3.72175 3.29203 2.68263 2.69042 4.15763 2.90639 2.73833 3.18458 2.89851 2.38153 2.77532 2.98214 4.58158 3.62294\n- 1.24804 0.75560 1.41386 2.04790 0.13812 0.00000 *\n- 1 2.86411 6.10773 2.87432 3.03926 5.86749 2.81453 5.01630 3.87821 2.78711 3.10845 1.42086 2.85610 3.74985 3.61750 3.75254 2.04052 2.46575 3.09954 6.97314 5.06304 103 m - - -\n- 2.68555 4.42913 2.77451 2.72717 3.46667 2.41150 3.72932 3.28293 2.67726 2.69000 4.25063 2.90241 2.73623 3.17998 2.90154 2.38001 2.77516 2.98029 4.59292 3.62044\n- 2.13599 0.14546 4.06011 1.68708 0.20464 1.99866 0.14562\n- 2 2.50422 6.55285 3.06760 2.05356 3.90092 3.34814 4.08794 2.65991 2.41351 2.59302 4.48949 2.97497 2.79333 2.80026 3.71344 2.24966 2.80511 2.96751 6.98709 4.74914 136 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31016 6.85298 1.32572 0.61958 0.77255 1.28262 0.32477\n- 3 2.78913 6.38462 2.94786 2.20197 5.45789 2.88534 4.10979 2.64370 2.26920 2.99717 2.80042 2.93214 3.06290 2.68388 3.07781 2.59387 2.52226 3.76688 6.81728 3.99178 137 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01090 6.63606 4.65390 0.61958 0.77255 0.63696 0.75267\n- 4 2.82424 4.00483 2.68429 2.71230 4.74376 3.73027 4.29325 2.48901 3.11772 2.19064 2.43821 3.02279 3.95937 3.59117 2.88920 2.23875 2.83377 2.69963 6.94403 3.49012 138 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00196 6.91659 6.94607 0.61958 0.77255 1.25681 0.33486\n- 5 2.71460 4.54862 2.94543 2.22498 5.32230 3.56167 4.77423 4.33415 1.95462 4.65158 3.40743 2.26571 2.12172 3.47507 2.38053 2.36753 2.80056 4.38271 7.08623 4.76111 139 k - - -\n- 2.68712 4.42006 2.77528 2.73068 3.46390 2.40555 3.72588 3.29204 2.67641 2.69242 4.24692 2.90204 2.73833 3.18197 2.89862 2.37961 2.77584 2.98508 4.58571 3.61390\n- 0.07424 2.71448 5.23724 1.53781 0.24188 0.80614 0.59163\n- 6 3.18199 5.38527 2.55068 3.10947 2.89145 3.65187 2.55403 4.01951 3.06591 3.98160 3.87574 2.21891 2.98144 2.84272 2.20149 2.08881 2.55966 3.61578 5.29074 5.01549 149 s - - -\n- 2.68691 4.42426 2.77609 2.72365 3.45756 2.41016 3.72033 3.29168 2.67659 2.69506 4.25073 2.90328 2.73948 3.18031 2.90118 2.37917 2.77042 2.98716 4.59188 3.61599\n- 0.56208 0.84556 7.32094 1.65918 0.21109 1.55004 0.23856\n- 7 3.22283 6.71253 1.11739 2.31878 6.05894 3.40078 4.37982 5.54589 '..b'.68768 4.40891 2.77308 2.73344 3.46460 2.40956 3.72455 3.28164 2.67698 2.69136 4.23280 2.90167 2.74076 3.18552 2.89859 2.38095 2.77600 2.98473 4.57834 3.61411\n- 0.88928 0.70850 2.33650 1.33664 0.30480 0.98435 0.46790\n- 366 3.87072 5.44195 5.47094 5.54459 1.14634 5.51029 3.80121 2.81474 5.24684 2.03084 3.77793 5.46018 5.65699 4.72611 4.15953 3.87183 4.57202 3.14534 2.49849 1.53896 1892 f - - -\n- 2.68683 4.41024 2.77685 2.73544 3.45888 2.40752 3.72698 3.27606 2.67506 2.69231 4.24723 2.90638 2.73705 3.18567 2.89921 2.38014 2.77596 2.98402 4.58898 3.61396\n- 0.70803 0.74145 3.47487 1.06308 0.42372 1.78256 0.18417\n- 367 3.04727 6.66099 1.63914 1.63745 5.64749 3.81202 4.86092 3.80445 2.02162 3.22997 4.70835 2.90968 3.47719 2.72505 2.72477 3.01759 3.36852 3.88790 7.09290 5.34405 1896 e - - -\n- 2.68265 4.42304 2.77480 2.72932 3.46350 2.40801 3.72730 3.29206 2.67466 2.69293 4.24699 2.90467 2.73992 3.18104 2.89957 2.38098 2.77554 2.98192 4.58789 3.61383\n- 1.14836 0.76668 1.52193 0.81909 0.58131 0.45398 1.00813\n- 368 2.50992 6.56991 2.18755 1.49180 5.33643 2.88530 4.69205 4.47753 2.02351 4.57436 5.45059 2.50292 4.17461 2.82351 3.39744 2.69549 2.81514 3.89744 5.69816 4.50505 1900 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16169 6.86336 1.90888 0.61958 0.77255 0.78724 0.60715\n- 369 3.13847 2.91188 3.03410 1.69813 5.08738 3.88661 3.59756 2.88182 1.86994 2.57690 4.27503 3.07185 4.61554 2.82906 2.12438 3.56771 4.12458 3.92333 6.98551 4.07039 1901 e - - -\n- 2.68501 4.42285 2.77512 2.73086 3.46413 2.40537 3.72554 3.29304 2.67800 2.69286 4.24749 2.90334 2.73791 3.18206 2.89810 2.37921 2.77434 2.98532 4.58536 3.61550\n- 0.39722 1.65456 1.99040 0.19622 1.72503 1.33004 0.30716\n- 370 3.33631 3.38563 3.55324 4.27827 2.94571 4.93427 3.57508 2.02700 4.42242 0.87447 3.26461 4.87507 3.45131 4.87918 4.61996 3.74685 3.87883 2.65003 4.76404 3.86182 1905 l - - -\n- 2.68892 4.42266 2.77261 2.72778 3.46091 2.40662 3.72554 3.29316 2.67530 2.69295 4.24890 2.90206 2.74023 3.18097 2.89863 2.37933 2.77783 2.98600 4.58231 3.61338\n- 0.89172 1.20646 1.23514 1.46793 0.26189 1.33966 0.30372\n- 371 2.53123 5.83525 2.90538 2.02010 4.36014 2.76412 4.73099 4.30980 2.48169 3.39293 4.02480 2.02618 2.75180 3.71518 3.20974 2.33760 2.91043 3.36106 6.75300 3.00057 1918 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12245 6.55741 2.17307 0.61958 0.77255 1.88134 0.16533\n- 372 2.64905 4.85160 2.56703 2.21727 5.22650 2.34722 4.33072 3.83919 1.87698 2.39972 3.88811 2.37904 4.00836 2.69449 3.25585 3.27103 3.91152 3.37975 6.73218 3.66171 1919 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18058 6.52428 1.80941 0.61958 0.77255 1.29920 0.31849\n- 373 2.64572 4.64555 2.15810 1.98023 5.67719 2.62744 3.92734 5.05128 1.74110 4.54633 4.60341 2.55835 3.66954 2.87000 2.53202 2.80029 3.52272 3.64289 6.76260 4.47736 1920 k - - -\n- 2.68525 4.41553 2.77692 2.71768 3.46500 2.40723 3.72572 3.28915 2.66993 2.68904 4.24608 2.89964 2.74861 3.18230 2.90418 2.38388 2.77793 2.98479 4.58245 3.62212\n- 1.85057 0.17096 * 2.25098 0.11126 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_FMO.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_FMO.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2504 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Lamassu-Fam__LmuA_effector_FMO\n-LENG 827\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 31 13:53:40 2022\n-NSEQ 32\n-EFFN 1.753906\n-CKSUM 1769284354\n-GA 20 20;\n-STATS LOCAL MSV -12.6197 0.69610\n-STATS LOCAL VITERBI -13.4013 0.69610\n-STATS LOCAL FORWARD -6.4920 0.69610\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.31625 4.53714 2.95120 2.66905 3.41645 2.86915 3.64110 2.89507 2.79087 2.39340 3.70638 3.13626 3.35946 3.00522 2.85286 2.69143 2.83134 2.65854 4.24164 3.72339\n- 2.68513 4.42067 2.77573 2.73175 3.46413 2.40506 3.72495 3.29290 2.67736 2.69289 4.24191 2.90404 2.73792 3.18146 2.89768 2.37945 2.77579 2.98536 4.58466 3.61527\n- 0.89803 0.99662 1.49832 2.05591 0.13694 0.00000 *\n- 1 2.44263 4.46145 3.35444 2.51706 3.62519 3.56295 3.81069 2.97863 2.76009 2.53200 3.09754 3.23892 2.73739 3.08156 3.15163 2.67236 2.65846 2.21715 5.03709 3.78165 53 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05337 4.28776 3.26412 0.61958 0.77255 0.39042 1.12940\n- 2 2.89379 4.45392 2.80014 3.45794 3.41370 3.95402 4.24161 2.58946 3.39024 1.38426 2.23992 3.79861 4.30547 3.65025 3.67055 3.23131 3.12627 2.20179 5.05876 3.87290 54 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.47168 5.19403 0.61958 0.77255 0.58738 0.81144\n- 3 2.69229 5.04615 2.65982 2.44852 3.86216 3.48817 3.68695 3.77913 2.30598 2.93683 4.10523 2.25203 3.25821 2.80752 2.93217 2.44888 2.26233 3.40563 5.51792 4.14579 55 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.47168 5.19403 0.61958 0.77255 0.58738 0.81144\n- 4 2.41344 4.63965 3.27515 2.54755 3.39633 3.58112 3.37989 3.20439 2.69896 2.41605 3.73323 3.19741 2.11799 3.03314 3.12040 2.65943 2.71183 2.94013 5.19051 3.91045 56 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.47168 5.19403 0.61958 0.77255 0.58738 0.81144\n- 5 2.32788 5.07645 2.74145 2.17295 3.65266 3.48264 3.37889 3.58857 2.43210 2.87227 4.13007 2.73393 3.87495 2.43006 2.61012 2.67638 2.63960 3.44112 5.53882 4.15884 57 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.47168 5.19403 0.61958 0.77255 0.58738 0.81144\n- 6 3.21403 5.88679 1.02048 1.72271 5.15916 3.46472 3.53015 4.70990 3.03660 4.16501 5.00429 2.44285 4.08993 3.16591 3.65905 3.07712 3.50029 4.25142 6.30907 4.76483 58 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.47168 5.19403 0.61958 0.77255 0.58738 0.81144\n- 7 2.73951 4.15594 4.42842 3.83507 3.24610 3.88643 4.21191 1.52113 3.67361 2.15983 3.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.49998 5.22233 0.61958 0.77255 0.54331 0.86946\n- 820 1.89132 5.20125 2.43761 2.21148 4.52574 3.08023 3.69670 3.99998 2.36310 3.49936 4.25353 2.95405 3.89142 2.47090 2.94980 2.41251 2.75548 3.58204 5.64874 4.24461 918 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.49998 5.22233 0.61958 0.77255 0.54331 0.86946\n- 821 3.02073 4.44511 4.52182 3.93588 3.42021 4.18217 4.49609 1.33397 3.72664 1.59480 3.32368 4.16024 4.50863 4.00431 2.71052 3.49099 3.25337 2.13705 5.12583 3.95853 919 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01664 4.49998 5.22233 0.61958 0.77255 0.54331 0.86946\n- 822 2.57890 5.03403 2.59749 1.59914 4.31203 3.50256 3.70234 3.50113 2.47220 2.84716 3.57789 2.80064 3.89682 2.82693 2.95028 2.70332 2.93485 3.22452 5.51047 4.14375 920 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07911 4.49998 2.73408 0.61958 0.77255 0.54331 0.86946\n- 823 2.69420 5.13185 2.96388 1.99688 4.45416 3.16099 3.66014 3.91873 2.09883 3.42540 4.18233 2.95264 3.12864 2.76687 2.25457 2.53630 2.72642 3.17456 5.57828 4.18938 921 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01770 4.43858 5.16092 0.61958 0.77255 0.63513 0.75474\n- 824 2.45320 4.65836 3.24508 2.36777 3.84456 2.63608 3.78850 3.03105 2.65856 2.65988 3.74737 3.16936 3.95354 2.84290 2.75455 2.78705 2.91209 2.12144 5.20235 3.91750 922 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01770 4.43858 5.16092 0.61958 0.77255 0.63513 0.75474\n- 825 2.27406 5.05397 2.82737 2.05588 4.34500 2.73176 3.67599 3.79399 2.26216 2.70707 4.11155 2.79045 3.87226 2.79459 2.92053 2.67729 2.72095 3.24940 5.52211 4.14635 923 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01770 4.43858 5.16092 0.61958 0.77255 0.63513 0.75474\n- 826 2.20471 5.14923 2.48742 2.03958 4.47164 2.99593 3.21111 3.94276 2.18012 3.44502 4.19759 2.93759 3.86083 2.76548 2.89871 2.66292 2.68949 3.19128 5.59584 4.19708 924 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24577 4.43858 1.57945 0.61958 0.77255 0.63513 0.75474\n- 827 2.46008 4.94310 2.76124 2.22128 4.21889 3.03634 3.62101 3.13278 2.39091 2.99269 4.00359 2.92528 3.42799 2.56974 2.64010 2.46388 2.73582 3.29609 5.42020 4.05591 925 e - - -\n- 2.68541 4.42242 2.77527 2.73121 3.46371 2.40511 3.72485 3.29371 2.67749 2.69363 4.24707 2.90352 2.73757 3.18130 2.89818 2.37881 2.77537 2.98523 4.58494 3.61497\n- 0.57259 0.83025 * 0.76265 0.62817 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Hydrolase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Hydrolase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1058 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_Hydrolase\n-LENG 345\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:44 2021\n-NSEQ 135\n-EFFN 2.072296\n-CKSUM 216224634\n-GA 20 20;\n-STATS LOCAL MSV -11.5187 0.70023\n-STATS LOCAL VITERBI -12.3597 0.70023\n-STATS LOCAL FORWARD -5.7285 0.70023\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64384 4.45792 2.83067 2.59880 3.39098 3.02746 3.42766 2.67781 2.55624 2.43451 3.76377 2.86743 3.54238 3.06135 3.09381 2.53948 2.81705 2.79480 4.80533 3.63736\n- 2.68639 4.42217 2.77523 2.73117 3.46385 2.40524 3.72492 3.29305 2.67733 2.69316 4.24469 2.90344 2.73757 3.18143 2.89807 2.37915 2.77529 2.98521 4.58446 3.61528\n- 0.63946 1.69371 1.24276 1.63214 0.21755 0.00000 *\n- 1 2.59082 4.60551 3.11342 2.57323 3.78721 3.34449 3.62742 3.17051 2.53798 2.70960 2.01082 2.88285 3.92315 2.98019 3.06105 2.66768 2.81784 2.82692 5.15220 3.87136 22 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02004 4.31602 5.03836 0.61958 0.77255 0.53484 0.88131\n- 2 2.56044 4.57864 3.13397 2.48805 4.06877 3.26814 3.75008 3.12510 2.27938 3.09698 2.59464 2.54400 3.68165 2.85608 2.96667 2.39624 2.71466 3.02317 5.35846 4.03583 23 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01651 4.50793 5.23028 0.61958 0.77255 0.45292 1.00997\n- 3 2.80756 4.18782 4.68282 4.07671 2.62805 3.97974 4.31189 1.79524 3.88548 1.80644 2.48825 4.11127 4.33439 4.02878 3.92640 3.21498 2.50315 2.02229 4.81882 3.48680 24 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61137 5.33372 0.61958 0.77255 0.55838 0.84895\n- 4 2.73800 5.20446 3.00343 2.19440 4.37905 3.51702 3.70368 3.43948 1.85621 3.50160 4.24993 2.61948 3.90989 2.43147 2.63104 2.43628 2.50648 3.52394 5.64573 4.24762 25 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61137 5.33372 0.61958 0.77255 0.55838 0.84895\n- 5 3.43460 4.68463 5.42103 4.88456 3.37024 4.86925 5.34893 1.19221 4.76842 1.55347 3.50746 5.00685 5.10092 4.90166 4.84709 4.24344 3.55059 1.34336 5.67862 4.53965 26 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61137 5.33372 0.61958 0.77255 0.55838 0.84895\n- 6 2.74673 5.19259 3.02250 2.37911 4.51696 3.52729 2.82843 3.84271 1.84558 3.28560 4.00133 2.67713 3.91903 2.76653 2.43457 2.54445 2.39858 3.57235 5.63470 4.24461 27 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61137 5.33372 0.61958 0.77255 0.47920 0.96568\n- 7 2.24328 3.85356 4.60694 4.00128 2.59245 3.92380 4.25394 2.11911 3.81395 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03074 4.46928 3.97320 0.61958 0.77255 0.34196 1.23918\n- 338 2.49177 4.87505 3.04639 2.03419 3.93196 3.58894 3.79763 2.98648 2.33677 2.79976 3.95122 3.07470 3.97768 2.96373 2.94941 2.48046 2.78772 2.48972 5.39085 3.41786 526 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01447 4.63889 5.36124 0.61958 0.77255 0.50750 0.92130\n- 339 2.64570 3.00407 4.25635 3.75872 2.72014 3.89309 4.21719 2.34637 3.75201 1.73278 2.68658 3.51445 3.67984 3.91540 3.82108 3.14227 2.94359 2.04364 4.76596 3.07624 527 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01447 4.63889 5.36124 0.61958 0.77255 0.50750 0.92130\n- 340 2.66792 5.23011 2.53785 2.15755 4.56563 2.91900 3.70727 3.54892 2.30004 3.44936 4.12301 2.40301 3.73247 2.64894 2.92039 2.15937 2.76352 3.51712 5.66853 4.26326 528 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01447 4.63889 5.36124 0.61958 0.77255 0.50750 0.92130\n- 341 2.74782 5.24896 2.42324 1.89914 4.22544 3.16655 3.55242 4.07226 2.25450 3.38083 4.29130 2.22021 3.91372 2.73868 2.86755 2.53346 2.74603 3.63701 5.68418 4.27504 529 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04358 4.63889 3.41196 0.61958 0.77255 0.50750 0.92130\n- 342 2.70615 5.23031 2.53824 1.74188 4.56966 3.34967 3.69618 3.87356 2.10233 3.44318 4.15196 2.62568 3.68129 2.71625 2.82833 2.56069 2.78924 3.43618 5.66630 4.16377 530 e - - -\n- 2.68626 4.42233 2.77527 2.73124 3.46361 2.40516 3.72489 3.29338 2.67739 2.69362 4.24697 2.90333 2.73747 3.18146 2.89808 2.37861 2.77527 2.98517 4.58484 3.61511\n- 0.36122 1.41510 2.80886 0.27469 1.42633 0.47661 0.96991\n- 343 2.72515 4.13224 4.49319 3.89064 2.60151 3.76483 4.19510 1.75896 3.71647 1.70140 3.08797 3.88534 4.23768 3.88429 3.52739 2.95694 2.76957 2.26568 4.75125 3.27445 534 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02509 4.58256 4.23053 0.61958 0.77255 0.60764 0.78666\n- 344 2.72081 5.19390 2.85057 2.01319 4.52371 3.46854 3.45341 3.54812 2.11563 3.42177 4.23868 2.71336 3.89323 2.53621 2.65505 2.49647 2.49673 3.03135 5.63563 4.23443 535 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01546 4.57294 5.29528 0.61958 0.77255 0.56760 0.83675\n- 345 2.76493 4.15652 4.27960 3.99176 2.45490 3.92401 4.13380 1.88115 3.80633 1.62786 3.24501 4.04044 4.28415 3.95897 3.86075 3.23086 2.94201 1.97916 4.76730 3.05883 536 l - - -\n- 2.68651 4.42110 2.77507 2.73060 3.46390 2.40527 3.72531 3.29366 2.67740 2.69342 4.24731 2.90349 2.73762 3.18140 2.89823 2.37927 2.77511 2.98453 4.58304 3.61496\n- 0.47728 0.96882 * 1.34753 0.30095 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Lipase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Lipase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1052 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_Lipase\n-LENG 343\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:42 2021\n-NSEQ 194\n-EFFN 3.821625\n-CKSUM 722441817\n-GA 20 20;\n-STATS LOCAL MSV -11.3286 0.70026\n-STATS LOCAL VITERBI -12.1735 0.70026\n-STATS LOCAL FORWARD -5.0195 0.70026\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50728 4.54017 2.85471 2.57134 3.34289 2.99818 3.49824 2.88292 2.55907 2.55305 3.76244 3.01879 3.45800 3.01752 2.94824 2.58558 2.87866 2.71932 4.18325 3.52288\n- 2.68276 4.40885 2.77607 2.73400 3.46228 2.40225 3.72517 3.29610 2.68021 2.69350 4.24212 2.90520 2.73698 3.18323 2.89706 2.37973 2.77499 2.98478 4.58398 3.61915\n- 1.56508 0.86246 0.99748 2.99649 0.05125 0.00000 *\n- 1 2.07670 4.62751 3.41518 2.82216 3.31636 3.40892 3.90087 2.86136 2.82613 2.71083 3.08807 2.72871 3.31303 3.15097 2.97766 2.18600 2.85812 2.75087 5.18692 3.92180 84 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04290 4.65595 3.42702 0.61958 0.77255 0.66162 0.72570\n- 2 2.52961 5.01026 3.23647 2.67765 4.24515 2.80191 3.86304 3.55494 2.37431 3.18987 1.97909 2.93480 3.37113 2.92656 2.36297 2.83692 3.05661 3.02768 5.51516 4.18457 85 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01164 4.85499 5.57733 0.61958 0.77255 0.70134 0.68502\n- 3 2.65234 4.28410 4.36488 3.88197 3.18961 4.03097 4.35529 1.93775 3.69769 2.11616 2.72155 4.13503 3.84587 4.05377 3.95928 3.33452 2.24179 1.63577 4.90366 3.28027 86 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01428 4.94673 4.95208 0.61958 0.77255 0.77845 0.61456\n- 4 2.45044 5.33613 2.60943 1.73986 4.66596 3.49202 3.74491 3.55438 2.42854 3.63490 2.73135 3.02766 3.56987 2.52315 2.96565 2.69829 2.77168 3.37624 5.77804 4.37645 87 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01040 4.96674 5.68908 0.61958 0.77255 0.76643 0.62487\n- 5 2.34162 4.44149 3.78486 3.44837 2.50512 3.70654 4.23806 2.74943 3.46116 2.12739 3.30645 3.37386 4.02442 3.71608 3.04571 2.87618 2.12397 2.56926 2.88150 3.40655 88 t - - -\n- 2.68622 4.42259 2.77487 2.73083 3.46249 2.40535 3.72529 3.29337 2.67730 2.69333 4.24724 2.90381 2.73761 3.18181 2.89827 2.37921 2.77520 2.98553 4.58511 3.61328\n- 0.74528 1.64630 1.10071 1.41318 0.27888 0.75559 0.63438\n- 6 2.73573 4.30985 3.90494 3.32718 3.42717 3.78262 4.05994 1.71522 2.87174 2.41187 3.29109 3.64253 4.03877 3.18890 3.13146 2.96875 2.59494 1.94411 4.91140 3.70367 94 i - - -\n- 2.68681 4.41944 2.77493 2.73079 3.46413 2.40515 3.72445 3.29335 2.67623 2.69377 4.24689 2.90326 2.73811 3.18115 2.89753 2.37921 2.77574 2.98568 4.58552 3.61522\n- 1.15285 0.38656 5.32372 1.36221 0.29584 0.23267 1.57221\n- 7 2.70318 5.37752 3.04179 2.62338 4.70394 2.02192 3.82395 4.17690 2.17125 3.53'..b'.68621 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69332 4.24693 2.90350 2.73743 3.18150 2.89804 2.37881 2.77523 2.98500 4.58480 3.61507\n- 0.11112 2.44932 3.97280 0.22753 1.59209 0.54012 0.87390\n- 336 2.59789 5.40552 2.74589 2.21455 4.74372 2.68958 3.76937 3.85336 2.14804 3.32656 3.62193 3.15773 3.78728 2.88231 2.11236 2.22767 2.98955 3.57514 5.84233 4.11708 567 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04608 5.08377 3.24843 0.61958 0.77255 0.58585 0.81335\n- 337 2.62657 5.39693 2.89302 2.03796 4.73815 2.75925 3.85811 4.05007 2.06628 3.45893 4.05318 3.13962 3.24993 2.90893 2.33188 2.12733 2.93038 3.50159 5.83192 4.42333 568 e - - -\n- 2.68619 4.42226 2.77520 2.73122 3.46355 2.40513 3.72495 3.29355 2.67742 2.69356 4.24690 2.90334 2.73740 3.18147 2.89801 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.15757 3.59263 2.13490 0.43195 1.04767 0.68061 0.70585\n- 338 2.40102 5.35721 2.28630 2.21243 4.70189 2.46718 3.68603 4.18774 2.21221 3.66230 4.19743 2.79561 4.01361 2.46886 2.82444 2.36685 2.93461 3.74766 5.79000 4.37902 570 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02655 4.92496 3.96679 0.61958 0.77255 0.92756 0.50338\n- 339 2.41230 5.33536 2.90289 2.17530 4.67444 3.20856 3.46454 3.58937 2.21401 3.53825 4.37760 2.74355 2.60553 2.69791 2.53415 2.57497 2.94377 3.12552 5.77164 4.08202 571 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07839 4.90944 2.68796 0.61958 0.77255 0.95314 0.48699\n- 340 2.51737 5.29877 2.70364 2.18060 4.63326 2.45773 3.15909 3.57199 2.21914 3.19109 4.34222 2.89310 3.42646 2.83139 2.91209 2.37840 2.85725 3.27090 5.73782 4.33332 572 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03304 4.84283 3.70456 0.61958 0.77255 1.05208 0.42957\n- 341 2.56130 5.31383 2.35818 1.84445 4.65755 3.12081 3.51241 3.71109 2.23195 3.47940 4.35489 2.56106 3.53029 2.63202 2.92207 2.52316 3.03734 3.52059 5.74727 4.33701 573 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04929 4.82183 3.21787 0.61958 0.77255 1.04685 0.43239\n- 342 2.73135 4.74894 2.51227 2.05969 4.58109 3.29625 3.59258 3.77011 2.31485 2.49124 4.30248 2.58384 3.06103 2.69700 2.99878 2.63553 2.89594 3.24331 5.70149 4.14880 574 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18616 4.79414 1.82277 0.61958 0.77255 0.99359 0.46243\n- 343 2.65741 5.03684 2.85014 2.37323 4.30037 3.39199 3.40869 3.22766 2.29582 3.00423 4.09998 2.95139 3.12485 2.71022 3.01346 2.45106 2.75197 2.29142 4.94766 4.16612 575 v - - -\n- 2.68420 4.42355 2.77455 2.72916 3.46508 2.40549 3.72632 3.29420 2.67878 2.69452 4.24799 2.90431 2.73729 3.18171 2.89832 2.37877 2.77365 2.98419 4.58632 3.61695\n- 0.85342 0.55505 * 2.38885 0.09622 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Mrr.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Mrr.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1031 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_Mrr\n-LENG 336\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:42 2021\n-NSEQ 829\n-EFFN 7.807926\n-CKSUM 48051107\n-GA 20 20;\n-STATS LOCAL MSV -11.0092 0.70041\n-STATS LOCAL VITERBI -12.4649 0.70041\n-STATS LOCAL FORWARD -4.8823 0.70041\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57454 4.31796 2.74493 2.56319 3.28555 2.92778 3.53739 2.98847 2.59977 2.50513 3.89844 3.08369 3.25086 3.02899 2.87038 2.68118 2.86466 2.81953 4.31089 3.36850\n- 2.68442 4.42065 2.77779 2.73323 3.46321 2.40680 3.72319 3.29289 2.67867 2.69324 4.22860 2.90591 2.73918 3.18230 2.89484 2.37865 2.77528 2.98388 4.57875 3.61518\n- 0.92095 0.88102 1.67398 2.92412 0.05521 0.00000 *\n- 1 2.80699 4.58339 5.12063 4.50837 3.06694 4.15489 4.69736 2.25017 4.25427 1.79885 1.45756 4.13730 3.71877 4.14151 3.92992 3.35753 3.21577 1.90296 5.20450 4.02750 113 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00594 5.52426 6.24661 0.61958 0.77255 0.68090 0.70555\n- 2 2.76906 3.44947 2.69125 2.53745 3.16037 3.41708 3.90803 3.11065 2.24181 2.45979 3.01317 3.10840 3.53149 3.11781 2.85822 2.50880 2.86702 3.31615 5.96114 3.67826 114 k - - -\n- 2.68358 4.42422 2.77765 2.73286 3.46454 2.40776 3.72675 3.29751 2.68065 2.69085 4.24638 2.90455 2.73201 3.18412 2.89438 2.37802 2.77426 2.98392 4.58514 3.61426\n- 0.89744 0.78423 1.99569 3.02753 0.04965 0.90802 0.51638\n- 3 2.44658 5.60893 2.67659 2.42920 4.34994 2.95023 3.03476 3.62901 2.31312 3.53412 4.41878 2.92718 3.44007 2.23302 2.88740 2.70740 2.54155 2.75466 6.04275 4.35864 215 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11494 5.47964 2.25944 0.61958 0.77255 1.11566 0.39705\n- 4 2.69293 4.54526 4.82740 3.89688 3.05497 3.83330 4.17795 2.13692 3.74800 2.23879 3.21863 4.01913 4.14486 4.17337 3.69004 2.66894 1.90350 1.86501 4.93474 2.71097 216 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01255 5.40460 4.83130 0.61958 0.77255 1.43300 0.27259\n- 5 2.13978 4.29885 3.07614 2.42905 3.78875 3.24981 3.97724 3.33889 2.20800 2.89461 4.08127 2.69254 3.27203 2.43328 3.06040 2.85730 3.01434 2.87416 5.91725 3.47970 217 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01538 5.40143 4.53247 0.61958 0.77255 1.10231 0.40362\n- 6 2.64564 4.64002 3.44907 3.12752 2.53140 3.66385 3.81998 2.94160 2.89855 2.25279 3.59108 3.00137 3.31900 3.32103 2.56729 2.80649 2.89259 2.46041 5.53198 2.62914 218 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00638 5.45344 6.17579 0.61958 0.77255 1.12564 0.39222\n- 7 2.62471 5.60374 3.10230 2.66603 4.94165 1.14067 3.80004 4.23051 2.55513 3.90594 '..b'.68618 4.42225 2.77518 2.73121 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37885 2.77520 2.98519 4.58477 3.61503\n- 0.00999 4.78733 6.43721 0.51500 0.91007 0.48067 0.96330\n- 329 2.80260 5.70271 3.41950 2.56297 4.86102 3.95290 3.62088 3.16232 1.93305 3.06532 3.04404 2.94499 4.42146 2.72782 1.71150 2.80181 2.76231 3.13800 5.75907 4.58084 832 r - - -\n- 2.68621 4.42228 2.77515 2.73100 3.46357 2.40511 3.72498 3.29357 2.67744 2.69356 4.24693 2.90341 2.73743 3.18146 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.02713 3.68131 6.45173 0.62104 0.77086 0.53162 0.88589\n- 330 3.22684 4.80609 5.41363 4.80088 3.21620 4.62358 4.96076 1.76627 4.58846 1.02305 3.18728 4.78809 4.97665 4.71207 3.44409 3.93811 3.44459 1.75141 5.43690 4.18800 837 l - - -\n- 2.68465 4.42246 2.77549 2.73127 3.46383 2.40510 3.72524 3.29371 2.67768 2.69345 4.24719 2.90376 2.73769 3.18176 2.89813 2.37827 2.77549 2.98548 4.58506 3.61533\n- 0.41268 1.08901 6.45173 0.07963 2.56994 0.53162 0.88589\n- 331 2.80825 5.75551 2.26669 2.30554 4.76158 2.99389 3.77912 3.26618 2.01239 3.87040 4.79602 2.92595 3.65403 3.00319 2.23277 2.60831 2.38477 3.63891 5.80341 3.94680 842 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00484 5.72938 6.45173 0.61958 0.77255 0.53162 0.88589\n- 332 6.19868 7.14368 6.76786 6.77837 4.66787 5.99993 6.11231 6.30212 6.55359 4.64784 6.81254 6.60049 6.57166 6.74036 6.42991 6.33130 6.56371 6.25580 0.05516 4.61851 843 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00885 5.72892 5.19166 0.61958 0.77255 0.51687 0.90729\n- 333 2.81724 2.70552 4.36417 4.60943 3.78186 4.31669 4.63584 2.07869 3.47762 1.73561 3.44467 4.45528 4.85756 4.55657 3.20549 3.70779 3.10326 1.28330 5.04947 4.05620 844 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01316 5.72649 4.62381 0.61958 0.77255 0.54504 0.86707\n- 334 2.19096 5.64192 2.42489 2.42730 4.60234 3.66457 3.28963 3.17378 2.13794 3.07541 2.92540 3.00084 3.59000 2.99995 2.38873 2.68953 3.20778 3.33377 6.17245 4.56298 845 k - - -\n- 2.68762 4.40385 2.77354 2.73073 3.46060 2.40644 3.72648 3.29421 2.67870 2.69222 4.24614 2.90457 2.73661 3.18244 2.89682 2.38007 2.77637 2.98535 4.58637 3.61461\n- 0.76316 0.98258 1.83594 1.60204 0.22500 0.58929 0.80906\n- 335 2.77621 5.48988 1.76105 2.06646 3.66581 3.23991 3.88610 4.03084 2.25622 3.85747 4.49790 2.52402 3.17866 2.90051 2.82792 2.54663 3.12579 3.87375 6.08183 4.27991 854 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.40167 5.54280 1.11815 0.61958 0.77255 1.18907 0.36313\n- 336 2.48171 5.44748 2.01779 1.77809 4.56641 2.84546 3.81706 4.00931 2.41669 3.66614 4.48856 2.54746 3.35143 2.99882 2.90957 2.80259 3.05085 3.46289 5.88109 4.15072 855 e - - -\n- 2.68620 4.42207 2.77439 2.73016 3.46407 2.40529 3.72512 3.29366 2.67759 2.69390 4.24747 2.90370 2.73763 3.18090 2.89813 2.37888 2.77532 2.98512 4.58504 3.61557\n- 0.99185 0.46345 * 0.66168 0.72564 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_PDDEXK.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_PDDEXK.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1988 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_PDDEXK\n-LENG 655\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:43 2021\n-NSEQ 179\n-EFFN 8.874069\n-CKSUM 2710625146\n-GA 20 20;\n-STATS LOCAL MSV -11.8495 0.69687\n-STATS LOCAL VITERBI -12.6165 0.69687\n-STATS LOCAL FORWARD -6.2052 0.69687\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.25088 4.62042 2.81227 2.59638 3.43591 2.97818 3.68363 3.02905 2.88589 2.25196 3.92631 3.23926 3.32905 3.07100 2.76380 2.66859 2.86816 2.73165 4.51084 3.64029\n- 2.68496 4.42423 2.77545 2.73221 3.46437 2.40584 3.72442 3.29256 2.67874 2.69393 4.22806 2.90355 2.73773 3.18186 2.89945 2.37945 2.77450 2.98302 4.58622 3.61701\n- 0.98880 0.88513 1.53564 1.58222 0.23006 0.00000 *\n- 1 2.50933 4.12323 4.34410 3.07902 3.81635 4.27093 4.54542 3.23770 3.69967 2.34894 1.61711 3.65526 2.33337 3.67553 3.09663 2.90680 2.86802 2.21463 5.43350 3.88276 26 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16243 5.61510 1.92224 0.61958 0.77255 0.73657 0.65153\n- 2 2.75259 4.93648 2.03034 2.54478 4.21395 3.28619 2.42187 4.07820 2.86793 3.54479 2.65873 2.93012 3.05299 3.07713 3.24369 2.02934 2.98770 3.63455 6.06563 4.66601 27 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57387 6.29622 0.61958 0.77255 1.45282 0.26646\n- 3 2.47845 4.31601 2.43083 2.58524 5.00955 3.29452 3.09717 4.49548 2.62300 3.96979 4.70521 2.81354 2.41038 2.83041 3.07138 1.67564 2.97221 3.78097 6.09726 3.89815 28 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57387 6.29622 0.61958 0.77255 0.96364 0.48046\n- 4 2.98112 4.65964 4.13649 4.61102 3.22956 4.44883 3.65612 1.97815 4.40041 1.23296 2.84223 4.60454 4.30229 4.53549 4.41581 3.34203 3.20631 1.77874 5.28111 3.21160 29 l - - -\n- 2.68559 4.42254 2.77443 2.73078 3.46383 2.40512 3.72524 3.29383 2.67770 2.69359 4.24719 2.90376 2.73748 3.18145 2.89830 2.37907 2.77484 2.98548 4.58506 3.61532\n- 0.17441 1.87979 4.90310 0.88454 0.53257 0.57172 0.83138\n- 5 2.18313 5.74825 2.06022 1.77814 4.55365 3.76838 3.99745 3.42392 2.69938 2.48382 4.36626 2.80915 4.14715 2.92355 3.20951 2.77958 3.21345 2.86629 6.18693 4.78204 33 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02363 5.75732 3.90246 0.61958 0.77255 0.96962 0.47679\n- 6 2.11856 5.74458 2.20090 2.25034 5.08301 2.98193 3.78304 3.40115 2.69596 3.25534 4.02798 3.35463 3.96460 2.54210 2.78724 2.66204 2.62144 3.46535 3.18000 4.25817 34 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10169 5.73849 2.37012 0.61958 0.77255 1.03649 0.43804\n- 7 2.11193 4.47418 3.23068 2.48925 4.04462 4.00829 3.67566 3.05423 2.28064 2.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71631 6.43866 0.61958 0.77255 1.10846 0.40058\n- 648 2.92796 5.69016 3.29954 2.95548 5.01127 3.58959 4.21180 4.48059 2.39200 2.50269 4.73735 2.51061 2.82040 3.31644 2.56827 2.27799 1.61038 3.10704 6.13764 4.74172 1001 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71631 6.43866 0.61958 0.77255 1.10846 0.40058\n- 649 3.98941 6.08800 3.49900 3.92520 6.47741 2.62123 5.64113 6.08446 4.90929 5.63634 6.48839 3.92069 0.26187 4.89223 5.45228 4.06176 4.50290 5.30016 7.71519 6.35102 1002 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71631 6.43866 0.61958 0.77255 1.10846 0.40058\n- 650 2.87326 5.62682 3.55542 2.99850 4.92263 4.04441 3.11677 3.77466 2.64382 3.91048 4.68229 2.93408 4.43658 3.35252 3.02209 0.82032 3.18933 3.70130 6.09073 4.43332 1003 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71631 6.43866 0.61958 0.77255 1.10846 0.40058\n- 651 2.24240 5.73931 1.89288 2.11298 4.68755 3.03386 3.52467 3.51985 2.55798 3.29475 4.24831 3.28379 4.40451 3.08028 2.99571 2.20582 2.66051 3.71116 6.17389 3.83623 1004 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01257 5.71631 4.68812 0.61958 0.77255 1.10846 0.40058\n- 652 2.47266 4.72030 5.11719 4.51261 3.44003 4.46877 3.83139 2.38947 3.05500 1.62706 2.27095 4.57525 4.83415 3.81538 3.67847 3.13651 2.77181 1.97845 5.33936 2.63912 1005 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04822 5.70868 3.12916 0.61958 0.77255 1.13174 0.38931\n- 653 3.11665 3.94830 3.48710 2.93088 4.96804 3.60708 3.84751 4.43461 2.29688 3.68188 4.69910 2.96868 3.83403 3.29101 2.16178 1.41568 1.97104 3.85802 6.10068 3.93313 1006 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20413 5.66562 1.70824 0.61958 0.77255 1.25087 0.33723\n- 654 2.84392 5.57812 3.25092 2.58345 4.91076 3.56066 3.91212 4.07744 1.73022 2.48827 4.62207 2.83835 3.50375 3.01190 2.26191 2.83907 2.16818 2.92350 6.01830 4.61501 1007 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15715 5.46777 1.95754 0.61958 0.77255 1.38774 0.28720\n- 655 2.41379 5.40493 3.05434 2.80319 3.72191 2.71479 4.03931 3.76327 2.23461 2.88230 4.46130 3.10024 2.80948 3.02863 2.63742 2.60692 3.10618 3.55552 5.87390 2.14272 1008 y - - -\n- 2.67907 4.42436 2.77788 2.73409 3.46865 2.40690 3.72255 3.29232 2.67128 2.69614 4.24697 2.90703 2.73713 3.18120 2.89158 2.37973 2.77446 2.98716 4.59034 3.62008\n- 1.55269 0.23785 * 2.46294 0.08903 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Protease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Protease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1298 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_Protease\n-LENG 425\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:45 2021\n-NSEQ 135\n-EFFN 7.419891\n-CKSUM 4288315312\n-GA 20 20;\n-STATS LOCAL MSV -11.2143 0.69889\n-STATS LOCAL VITERBI -12.7945 0.69889\n-STATS LOCAL FORWARD -5.5949 0.69889\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73456 4.27297 2.83952 2.56549 3.24602 2.92469 3.69255 2.59613 2.56603 2.46473 3.86831 2.87777 3.47549 3.13198 3.08941 2.58634 2.90900 2.74800 4.88595 3.40651\n- 2.68661 4.42268 2.77544 2.73137 3.46397 2.40556 3.72538 3.29389 2.67734 2.69350 4.23608 2.90291 2.73760 3.18190 2.89844 2.37892 2.77513 2.98503 4.58520 3.61522\n- 1.01928 1.42653 0.91879 0.78848 0.60612 0.00000 *\n- 1 2.79396 5.11905 3.40494 2.55663 4.34392 3.81308 4.01858 3.35722 2.05588 3.09746 1.52750 2.70883 3.81278 3.18060 2.87814 3.01970 3.20150 2.97775 5.63064 4.30838 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04692 5.18335 3.21330 0.61958 0.77255 0.62604 0.76508\n- 2 2.79179 5.20925 3.31629 2.99829 4.42368 3.16368 3.57106 3.10122 2.66674 2.96369 1.95737 2.24474 4.33844 3.08593 3.43953 2.57759 2.21766 2.90655 5.72910 4.02671 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00647 5.43899 6.16134 0.61958 0.77255 0.93391 0.49925\n- 3 2.71332 5.29263 2.79502 2.19878 3.59818 3.40674 3.63431 3.20652 2.83293 2.40211 2.61249 3.06231 3.33040 3.33184 3.16589 2.72278 2.61477 2.52323 5.80234 3.73375 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00610 5.49842 6.22076 0.61958 0.77255 0.36924 1.17525\n- 4 2.96198 5.39807 3.25936 2.29729 4.33117 4.04750 3.58331 2.45468 2.39390 2.32336 2.28575 3.30233 3.61882 3.17125 3.35842 2.23118 3.27101 2.98089 5.90379 3.49303 11 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00525 5.64871 6.37105 0.61958 0.77255 0.68970 0.69661\n- 5 3.21060 5.72191 1.45119 1.51665 4.53223 3.97750 4.16955 4.55228 2.60483 3.66880 4.76326 2.15717 4.37446 3.14917 3.18072 2.89636 3.44227 4.11215 6.15459 3.87275 12 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03269 5.64871 3.55280 0.61958 0.77255 0.68970 0.69661\n- 6 3.18204 5.66216 2.73750 2.33631 3.33837 3.71439 3.46230 2.59267 2.22560 2.59691 4.70616 2.34260 4.35380 2.71847 2.32086 2.68433 3.35162 3.16684 6.10250 4.18303 13 k - - -\n- 2.68623 4.42067 2.77524 2.73128 3.46330 2.40496 3.72499 3.29359 2.67745 2.69360 4.24694 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58482 3.61508\n- 0.04331 3.20324 6.34375 0.55843 0.84888 0.39660 1.11659\n- 7 2.87841 4.68859 5.28427 4.66869 2.66248 4.48598 4.13019 1.24261 4.45258 1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41879 6.14114 0.61958 0.77255 1.34247 0.30273\n- 418 3.07081 4.67270 2.29760 1.53604 4.92504 3.20449 4.03181 3.23765 1.99631 3.52574 4.62118 3.16677 4.23818 2.65830 2.79438 2.63604 2.85037 3.97081 6.01333 4.60265 695 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41879 6.14114 0.61958 0.77255 1.34247 0.30273\n- 419 2.67359 3.78897 3.21728 1.77374 4.38521 3.63127 3.79460 2.71469 1.88861 2.77654 4.51014 2.79336 4.26273 3.17945 3.12061 2.36692 3.30638 3.54160 5.91996 3.75867 696 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41879 6.14114 0.61958 0.77255 1.34247 0.30273\n- 420 3.22852 4.59863 5.16801 4.56192 1.98149 4.39389 4.25074 2.41296 4.35029 1.69529 3.68237 4.54179 4.75136 4.47265 4.35897 3.70672 3.22281 2.28444 5.12980 1.41512 697 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41879 6.14114 0.61958 0.77255 1.34247 0.30273\n- 421 2.97739 5.09012 2.98213 1.91599 4.90521 2.64622 4.03503 3.86014 2.58948 3.86910 3.64411 1.86656 4.24063 3.13344 2.72318 2.47434 2.52781 3.95374 6.00308 3.17275 698 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00661 5.41879 6.14114 0.61958 0.77255 1.34247 0.30273\n- 422 2.41233 5.57899 2.21162 1.57820 4.92303 2.82207 4.03209 3.64705 2.36496 3.88383 3.93492 2.90837 4.23837 3.00204 2.55381 2.86232 3.13762 3.30655 6.01229 4.60196 699 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05827 5.41879 2.95318 0.61958 0.77255 1.02173 0.44624\n- 423 2.00910 4.52327 5.08002 3.74559 3.07494 4.31194 4.64449 1.89743 4.25851 2.09900 3.36074 4.46489 4.67557 4.39528 4.27706 3.40283 3.37692 1.68191 5.14641 2.05354 700 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00658 5.42304 6.14539 0.61958 0.77255 1.33470 0.30549\n- 424 3.78023 5.07936 5.77662 5.19106 1.94215 5.06978 5.43217 1.02288 4.30452 1.43318 3.79532 5.23367 5.33708 5.08740 5.01822 4.41151 4.01027 2.22296 5.77630 4.64971 701 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03544 5.42304 3.49320 0.61958 0.77255 0.75723 0.63292\n- 425 2.70133 5.62772 2.98954 2.16838 4.97355 3.42171 4.07575 4.46006 1.64392 3.29873 4.66818 2.04854 3.50968 2.87593 2.81362 2.39367 3.07444 3.43096 6.05994 4.64853 702 k - - -\n- 2.68712 4.42114 2.77524 2.72775 3.46387 2.40616 3.72492 3.29300 2.67651 2.69420 4.24822 2.90150 2.73827 3.18174 2.89853 2.38011 2.77546 2.98493 4.58609 3.61381\n- 0.78180 0.61172 * 1.26611 0.33118 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Sir2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_Sir2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1322 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_Sir2\n-LENG 433\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:46 2021\n-NSEQ 47\n-EFFN 1.029846\n-CKSUM 72100033\n-GA 20 20;\n-STATS LOCAL MSV -11.6731 0.69878\n-STATS LOCAL VITERBI -12.5774 0.69878\n-STATS LOCAL FORWARD -5.7289 0.69878\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69627 4.62926 2.85625 2.56591 3.18124 3.12986 3.56878 2.69407 2.55036 2.39066 3.67822 2.95767 3.66557 3.04500 3.01853 2.68001 2.93487 2.71000 4.57229 3.22051\n- 2.68628 4.42180 2.77529 2.73133 3.46376 2.40526 3.72516 3.29267 2.67741 2.69331 4.24534 2.90339 2.73761 3.18168 2.89823 2.37894 2.77541 2.98524 4.58420 3.61435\n- 0.23478 1.60236 4.84890 1.66104 0.21065 0.00000 *\n- 1 2.64626 4.56606 3.22112 2.68883 3.76150 3.50861 3.73875 3.13628 2.54106 2.79999 2.08892 2.68287 3.91093 2.76744 2.75094 2.77026 2.72098 2.87833 5.11715 3.85242 24 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.12655 4.84890 0.61958 0.77255 0.48576 0.95510\n- 2 2.76245 5.25197 1.76970 2.24297 4.56663 3.07787 3.67690 4.05039 2.26383 3.55012 4.33285 2.58397 3.83231 2.60277 3.02822 2.32561 3.01315 3.63285 5.70663 4.27582 25 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.12655 4.84890 0.61958 0.77255 0.48576 0.95510\n- 3 2.46094 4.52809 3.18947 2.62871 3.39760 3.10191 3.42243 2.93979 2.60568 2.75853 3.61895 2.74664 3.16714 2.93838 2.84570 2.70870 2.81920 2.51769 5.07735 3.44098 26 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.12655 4.84890 0.61958 0.77255 0.48576 0.95510\n- 4 2.59521 4.62337 2.97025 2.50604 3.37544 3.46587 3.23832 2.99706 2.53976 2.60122 3.70784 2.27494 3.85402 2.87985 2.97661 2.63729 2.82672 2.93084 5.14177 3.52707 27 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.12655 4.84890 0.61958 0.77255 0.48576 0.95510\n- 5 3.31935 4.61571 4.97702 4.45396 3.28903 4.63864 5.02777 1.25786 4.29155 1.23060 3.09942 4.68795 4.85390 4.46843 4.42474 4.02039 3.55878 1.96272 5.35734 4.22030 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.12655 4.84890 0.61958 0.77255 0.48576 0.95510\n- 6 2.67152 5.12790 2.61078 1.80729 4.44638 3.37504 3.61164 3.91586 2.09755 3.41793 4.18381 2.67699 3.80485 2.47237 2.85070 2.63441 2.75086 3.33638 5.56934 4.16893 29 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02427 4.12655 4.84890 0.61958 0.77255 0.48576 0.95510\n- 7 2.60972 5.16560 2.34468 1.90732 4.48588 3.36118 3.31508 3.96532 2.20284 3.32467 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20601 4.92835 0.61958 0.77255 0.48576 0.95510\n- 426 3.13468 4.86337 3.87555 3.82349 4.93384 0.36060 4.90998 4.62789 4.04935 4.23478 5.22257 4.04148 4.26383 4.34774 4.23614 3.31817 3.64151 4.09145 5.92743 5.05153 476 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20601 4.92835 0.61958 0.77255 0.48576 0.95510\n- 427 2.71983 5.20316 2.41601 1.76280 4.52429 2.58113 3.65253 4.00302 2.22626 3.49775 4.26357 2.85292 3.83349 2.76822 2.73757 2.52187 2.96008 3.58354 5.64579 4.23068 477 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20601 4.92835 0.61958 0.77255 0.48576 0.95510\n- 428 2.71019 5.07713 2.95606 2.04294 4.39980 3.46076 3.62644 3.83829 1.77702 3.35391 4.13669 2.64991 3.85851 2.74421 2.49259 2.69279 2.93414 2.91271 5.50687 4.15599 478 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20601 4.92835 0.61958 0.77255 0.48576 0.95510\n- 429 2.94444 5.17064 2.37886 2.58645 4.53668 3.51756 3.80376 4.01367 2.41242 3.53367 4.38190 3.09057 4.00154 2.95763 1.17483 2.93385 3.19192 3.65170 5.62203 4.32103 479 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20601 4.92835 0.61958 0.77255 0.48576 0.95510\n- 430 2.67515 3.61855 4.27198 3.30195 2.45274 3.81610 4.13499 1.83384 3.54437 1.83648 3.17174 3.84585 4.17432 3.74402 3.68534 3.11423 2.79230 2.19738 4.74565 3.55890 480 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18216 4.20601 1.88633 0.61958 0.77255 0.48576 0.95510\n- 431 2.57709 5.02825 2.51903 2.22410 4.32031 3.13915 3.20383 3.77575 2.32742 3.05145 4.09172 2.21465 3.78618 2.72573 2.87414 2.49520 2.87378 3.39197 5.49213 4.10443 481 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04812 4.05007 3.52127 0.61958 0.77255 0.65470 0.73313\n- 432 2.73732 5.22216 2.25056 1.65941 4.52840 2.80171 3.64403 4.00908 2.47380 3.51083 4.29670 2.68877 3.80313 2.61145 2.77057 2.67855 2.98619 3.59659 5.66870 4.24126 482 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08070 3.93312 2.84816 0.61958 0.77255 0.67395 0.71272\n- 433 2.48907 4.81324 2.73177 2.28150 4.06952 3.36944 3.57458 3.48702 2.16748 2.92463 3.88514 2.88911 3.77103 2.50133 2.71555 2.59874 2.80942 2.85723 5.29969 3.96214 483 k - - -\n- 2.68614 4.42233 2.77520 2.73100 3.46362 2.40521 3.72494 3.29350 2.67746 2.69363 4.24698 2.90339 2.73736 3.18141 2.89797 2.37893 2.77528 2.98527 4.58485 3.61470\n- 0.27322 1.43097 * 0.94307 0.49336 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_hypothetical.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuA_effector_hypothetical.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1004 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuA_effector_hypothetical\n-LENG 327\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:46 2021\n-NSEQ 54\n-EFFN 2.982788\n-CKSUM 383054733\n-GA 20 20;\n-STATS LOCAL MSV -11.2203 0.70061\n-STATS LOCAL VITERBI -12.1316 0.70061\n-STATS LOCAL FORWARD -5.1418 0.70061\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60054 4.37986 2.78229 2.53451 3.39342 3.12590 3.67555 2.78694 2.52117 2.50095 3.72405 2.98449 3.48652 3.02514 2.92605 2.64930 2.84004 2.77575 4.73023 3.28298\n- 2.68644 4.42348 2.77555 2.73163 3.46369 2.40499 3.72371 3.29212 2.67816 2.69353 4.24067 2.90379 2.73818 3.18186 2.89755 2.37867 2.77508 2.98538 4.58600 3.61471\n- 0.49135 1.02777 3.49340 2.13913 0.12529 0.00000 *\n- 1 3.05752 4.46092 4.77001 4.17731 3.44100 4.21427 4.54886 2.66509 4.01601 1.17652 1.94164 4.29484 3.32566 4.18049 4.11182 3.52347 2.84880 2.07001 5.08337 3.92499 37 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01128 4.88628 5.60863 0.61958 0.77255 0.55285 0.85640\n- 2 2.83531 2.77886 3.17565 2.16103 4.41293 3.64386 3.83985 3.84882 1.90120 2.52660 4.20362 3.02724 3.40507 2.74410 2.96248 2.84158 2.47548 3.49232 5.62183 3.78418 38 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01128 4.88628 5.60863 0.61958 0.77255 0.55285 0.85640\n- 3 3.93272 5.16479 5.80719 5.26836 0.99499 5.24543 5.30095 1.56471 5.11585 1.58138 3.39124 5.33938 5.37244 5.04459 5.08271 4.62230 4.14762 2.75958 5.40722 4.10304 39 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01128 4.88628 5.60863 0.61958 0.77255 0.55285 0.85640\n- 4 2.64034 3.36521 3.14055 2.58328 4.53721 3.63086 3.48958 3.99129 2.12825 3.52054 4.28851 2.66971 4.02397 2.93606 2.41949 1.68095 2.69740 3.60203 5.69336 4.31446 40 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01128 4.88628 5.60863 0.61958 0.77255 0.55285 0.85640\n- 5 2.84193 5.33518 2.21382 1.52609 4.67199 3.61039 3.27612 3.67886 2.36436 3.36404 4.37862 3.08037 4.00765 2.66406 3.03516 2.80661 2.43785 3.72149 5.77203 4.36492 41 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01128 4.88628 5.60863 0.61958 0.77255 0.55285 0.85640\n- 6 3.06906 4.44434 4.85747 4.28154 1.31429 4.20361 4.32572 2.11038 4.09322 1.99366 3.51006 4.28203 4.55548 4.21608 4.13388 2.88047 3.29973 2.66723 4.72675 2.37516 42 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01128 4.88628 5.60863 0.61958 0.77255 0.55285 0.85640\n- 7 1.21853 4.34845 4.47205 3.88275 2.97016 3.41232 4.34249 2.46913 3.74662 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01133 4.88198 5.60432 0.61958 0.77255 0.58423 0.81539\n- 320 3.78974 5.02875 5.78147 5.21475 3.02872 5.18233 5.55967 0.86724 5.07815 1.38815 2.91059 5.34185 5.32876 5.06371 5.07119 4.55659 4.01237 2.19968 5.72286 4.68475 454 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01133 4.88198 5.60432 0.61958 0.77255 0.58423 0.81539\n- 321 2.62493 5.32917 2.93351 2.35446 3.70338 3.60761 3.79448 4.15045 1.51087 3.63151 4.37154 2.63574 4.00122 2.60102 2.37326 2.63508 2.89274 3.71717 5.76413 4.35784 455 k - - -\n- 2.68628 4.42235 2.77530 2.73133 3.46364 2.40502 3.72504 3.29364 2.67751 2.69365 4.24700 2.90357 2.73750 3.18156 2.89811 2.37808 2.77530 2.98528 4.58487 3.61513\n- 0.33947 1.25817 5.60432 0.10781 2.28082 0.42877 1.05357\n- 322 5.42529 6.33812 5.85004 5.83903 4.38404 5.09788 5.64779 5.69601 5.68921 4.86876 6.24241 5.88854 5.69658 5.99861 5.60091 5.63676 5.79153 5.58331 0.08990 4.35420 457 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01088 4.92244 5.64479 0.61958 0.77255 0.48576 0.95510\n- 323 3.55771 4.86897 5.53328 5.09060 4.31802 4.91184 5.79875 2.03148 4.98459 2.84107 4.09123 5.18306 5.31140 5.26643 5.15339 4.34587 2.88812 0.48020 6.29543 5.06843 458 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01088 4.92244 5.64479 0.61958 0.77255 0.48576 0.95510\n- 324 2.84853 5.31157 1.82361 2.38043 4.63730 3.62771 3.81776 3.06171 2.05584 3.60831 4.35764 2.66256 4.02161 2.92093 2.71082 2.81991 2.57827 2.98203 5.75571 4.35697 459 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09992 4.92244 2.43255 0.61958 0.77255 0.48576 0.95510\n- 325 2.81145 5.28195 2.14293 1.79804 4.61049 3.59093 3.78007 3.33997 2.33754 3.58010 4.32705 3.06498 3.30177 2.88202 2.48367 2.68205 2.88225 3.05836 5.72456 3.87034 460 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07003 4.83440 2.81872 0.61958 0.77255 0.68454 0.70183\n- 326 2.86938 5.37526 1.71662 2.03040 4.70794 3.58314 3.81370 4.19317 2.35431 3.67437 4.42342 2.41615 4.00700 2.91912 2.78831 2.82527 3.10502 3.76034 5.80953 2.68771 461 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07189 4.77696 2.79784 0.61958 0.77255 0.78830 0.60627\n- 327 2.52567 5.31520 2.39768 1.40242 4.64886 3.55512 3.77002 4.13106 2.25504 3.61490 4.36175 2.88279 3.96781 2.87342 2.85281 2.77809 3.05178 3.70030 5.75142 3.50894 462 e - - -\n- 2.68641 4.42248 2.77450 2.73091 3.46377 2.40517 3.72518 3.29301 2.67738 2.69378 4.24713 2.90359 2.73763 3.18150 2.89824 2.37910 2.77520 2.98444 4.58500 3.61527\n- 0.38852 1.13339 * 0.86670 0.54531 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Amidase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Amidase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3662 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_Amidase\n-LENG 1213\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:40 2021\n-NSEQ 11\n-EFFN 1.264893\n-CKSUM 402856922\n-GA 20 20;\n-STATS LOCAL MSV -12.8800 0.69516\n-STATS LOCAL VITERBI -14.0635 0.69516\n-STATS LOCAL FORWARD -7.0798 0.69516\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40004 4.37091 2.89110 2.55906 3.41666 3.06252 3.75961 2.93608 2.65997 2.38989 3.77835 3.10370 3.55674 2.88301 2.78448 2.58739 2.82352 2.71690 4.90966 3.72400\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.00000 *\n- 1 3.39889 4.88684 4.58016 4.23277 3.50207 4.20102 4.86334 2.72841 3.97165 2.04688 0.71490 4.44701 4.68391 4.33320 4.11850 3.78387 3.72381 2.78354 5.38770 4.18149 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29991 4.32470 1.40291 0.61958 0.77255 0.48576 0.95510\n- 2 2.74823 4.96735 2.99416 2.50392 4.31034 3.45989 3.63916 3.70914 1.82153 3.25781 4.08566 2.99802 3.88113 2.20726 2.56299 2.75803 2.22003 3.36843 5.43108 4.13362 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02620 4.05098 4.77333 0.61958 0.77255 0.78118 0.61224\n- 3 2.54859 4.37334 3.46234 3.05159 3.63776 3.35696 4.01456 2.97285 2.96142 1.92220 3.71437 3.37051 3.92976 3.33683 3.27251 1.59425 2.90293 2.73473 5.14556 3.83242 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02620 4.05098 4.77333 0.61958 0.77255 0.53594 0.87976\n- 4 2.50761 4.42562 3.52609 3.37046 4.42096 3.15136 4.46399 3.99462 3.46722 3.69361 4.59979 3.53208 3.91951 3.79217 3.73341 0.69000 3.01433 3.45569 5.76893 4.51032 4 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02261 4.19650 4.91885 0.61958 0.77255 0.64507 0.74365\n- 5 1.82813 4.69076 3.05311 2.12006 3.96617 3.44052 3.74313 2.88088 2.58257 2.98980 3.84106 3.05932 3.22591 2.92838 3.01829 2.70356 2.88062 3.01518 5.28973 3.98407 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02261 4.19650 4.91885 0.61958 0.77255 0.64507 0.74365\n- 6 2.87783 4.96904 2.89063 1.33867 4.06988 3.52830 3.86301 3.36559 2.66453 2.19429 4.01231 3.10502 4.00982 3.05476 3.06569 2.92168 3.13220 3.14295 5.45714 4.11578 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02261 4.19650 4.91885 0.61958 0.77255 0.64507 0.74365\n- 7 2.25053 4.33895 3.51170 3.00474 3.73960 3.38217 3.97876 3.02585 2.95367 2.11010 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1206 3.46730 5.12229 4.12552 4.04524 4.96417 3.78559 5.06257 4.65633 4.14736 4.21956 5.30358 4.29632 0.29811 4.52003 4.31955 3.65383 3.94721 4.24382 5.99841 5.09796 1301 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1207 2.78720 4.26915 4.15206 3.57215 3.32305 3.90271 4.20494 1.99723 2.51195 1.86105 2.53495 3.83428 4.25329 3.70232 3.66963 3.18956 3.01931 1.89222 4.92238 3.73769 1302 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1208 2.95865 4.32807 4.63432 4.07416 3.33425 4.17884 4.50112 1.49174 3.93105 2.21788 3.35026 4.22378 4.51106 4.13521 4.06750 3.50278 3.19866 1.41040 5.02334 2.55983 1303 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1209 2.37270 5.35077 1.70167 1.89214 4.68815 3.39760 3.78641 4.17530 2.65820 3.67919 4.46833 2.87766 3.91853 2.92034 3.19283 2.05858 3.12461 3.75087 5.83995 4.39755 1304 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1210 2.74798 4.93444 3.03404 1.59634 2.82980 3.52057 3.72263 3.58239 2.47654 3.16519 4.01026 3.05430 3.93079 2.88807 2.33859 2.77557 2.97969 3.27062 5.36106 4.00073 1305 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1211 2.93960 4.30944 4.65475 4.07653 3.26038 4.14873 4.46490 1.54857 3.92715 1.71423 3.22651 4.21003 4.46947 4.09811 4.03621 3.46595 3.17309 1.75115 4.96454 2.58714 1306 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1212 1.82041 4.42300 3.49609 3.11897 4.49860 2.17296 4.24877 3.93837 3.17559 3.57750 4.37718 3.37660 1.76230 3.46817 3.55335 1.95534 2.87979 3.39056 5.79904 4.55421 1307 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 4.32470 5.04705 0.61958 0.77255 0.48576 0.95510\n- 1213 1.86614 4.46183 3.45802 2.97398 4.22869 2.30067 4.07115 3.63854 2.97017 3.29264 4.11542 3.30782 2.51084 3.28549 3.36744 1.85334 2.86349 2.69907 5.55495 4.29394 1308 s - - -\n- 2.68636 4.42032 2.77537 2.73141 3.46371 2.40530 3.72512 3.29372 2.67722 2.69372 4.24707 2.90364 2.73757 3.18103 2.89772 2.37904 2.77415 2.98536 4.58494 3.61521\n- 0.29808 1.35572 * 1.13127 0.38953 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Cap4_nuclease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Cap4_nuclease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1718 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Lamassu-Fam__LmuB_SMC_Cap4_nuclease\n-LENG 565\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 15:52:45 2021\n-NSEQ 50\n-EFFN 3.378296\n-CKSUM 3680983211\n-GA 20 20;\n-STATS LOCAL MSV -12.2051 0.69747\n-STATS LOCAL VITERBI -12.8015 0.69747\n-STATS LOCAL FORWARD -6.3873 0.69747\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58659 4.43274 2.93023 2.53908 3.22251 3.10382 3.75036 2.82940 2.53758 2.39473 3.79157 2.99122 3.52569 2.89776 2.92137 2.57431 2.85522 2.83578 4.81989 3.46546\n- 2.68623 4.42230 2.77524 2.73128 3.46359 2.40518 3.72499 3.29359 2.67746 2.69360 4.24344 2.90352 2.73744 3.18151 2.89806 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.53329 1.99098 1.28457 0.18426 1.78214 0.00000 *\n- 1 2.87359 4.77881 3.42303 2.94120 4.01583 3.70373 3.99357 3.39170 2.41766 3.06257 1.28468 2.87709 4.13946 3.22922 3.12774 2.55422 3.12461 3.12662 5.36845 4.10848 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.67951 4.37687 0.61958 0.77255 1.03137 0.44086\n- 2 2.78839 5.23088 3.06376 2.15898 4.56166 3.56362 3.28481 4.02499 1.84724 3.52228 4.27879 3.04097 3.95446 2.84280 2.03091 2.48871 2.64742 3.03134 5.66521 4.28178 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67142 5.39376 0.61958 0.77255 1.04088 0.43563\n- 3 2.77612 5.14268 3.07958 2.52657 4.44745 3.56415 3.75634 3.36028 2.10859 3.43105 4.20610 1.86535 3.95921 2.87382 2.72412 2.21064 2.45735 3.51374 5.60874 4.23876 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01400 4.67142 5.39376 0.61958 0.77255 0.44863 1.01750\n- 4 4.24710 5.43225 6.14479 5.55802 2.30110 5.62187 5.78043 2.77944 5.42011 0.63776 1.70741 5.76949 5.56679 5.18710 5.31416 5.02384 4.43363 3.12990 5.69068 4.69363 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01123 4.89046 5.61281 0.61958 0.77255 0.70490 0.68153\n- 5 2.83961 5.28969 2.75875 2.55552 4.61248 3.62123 3.80819 3.08234 1.69601 3.58401 4.33688 2.67921 4.01382 2.63297 2.20053 2.81344 2.72197 2.89639 5.73465 4.34089 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01123 4.89046 5.61281 0.61958 0.77255 0.70490 0.68153\n- 6 4.09643 5.30887 5.87025 5.36170 0.74512 5.35680 5.18636 2.35091 5.20335 1.46283 3.40002 5.39270 5.45122 5.07756 5.14802 4.74297 4.30366 2.98943 5.25026 3.83931 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01123 4.89046 5.61281 0.61958 0.77255 0.70490 0.68153\n- 7 2.85575 5.33622 2.71684 1.78803 4.66757 3.61867 3.81687 2.91701 1.71576 3.63490 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15319 4.71471 2.01687 0.61958 0.77255 0.92012 0.50828\n- 558 2.80071 5.16374 2.54949 2.49802 4.53269 3.50621 3.81406 3.99103 2.60992 3.52772 4.30832 3.03593 1.73666 2.55595 3.09863 2.20668 2.59898 3.59052 5.70727 4.32097 684 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 559 2.92660 4.29225 4.77116 4.18870 1.94312 4.07180 4.21316 2.28127 3.99150 1.79493 2.74335 4.17149 4.41663 4.09814 4.01186 3.38611 3.15609 2.52022 3.33820 2.05333 685 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 560 2.80066 4.50393 3.67291 2.33740 3.58809 3.78265 4.03523 2.58663 3.04381 1.44173 3.52676 3.52011 4.15645 2.88657 3.38471 3.03664 3.03171 2.39734 5.08860 3.86447 686 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 561 1.94693 4.86781 2.85760 2.13436 4.09310 3.56650 3.77752 2.59038 2.59418 3.12024 3.94535 3.11390 3.95730 2.94103 2.78986 2.77543 2.65844 2.79857 5.38442 4.06219 687 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 562 2.72800 4.88297 3.15861 2.59846 4.11087 3.56804 3.77139 2.96353 2.13148 2.78824 3.95767 3.11102 3.95670 2.49775 2.74320 2.08449 2.59779 2.79880 5.39240 4.06951 688 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 1.08287 0.41343\n- 563 2.17851 4.33548 3.84147 2.76711 3.45679 3.77185 4.04749 2.06048 3.18881 2.52358 2.17637 3.60555 4.14653 3.46931 2.97290 3.03555 2.96861 2.31011 4.94061 3.72820 689 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06430 4.57692 2.95676 0.61958 0.77255 1.08287 0.41343\n- 564 2.71465 4.79114 3.19491 2.20322 2.45419 3.57252 3.26687 3.39662 2.61334 3.03384 3.87183 3.13847 3.96053 2.71402 2.68310 2.78569 2.58574 3.10599 5.30301 2.77457 690 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09039 4.52878 2.58188 0.61958 0.77255 0.76244 0.62834\n- 565 2.34830 4.81596 2.88014 2.15593 2.68491 3.56809 3.78261 3.42739 2.42779 3.06283 3.89601 3.12794 3.95840 2.95774 3.06479 2.78036 2.39084 2.52868 5.33928 4.02682 691 e - - -\n- 2.68639 4.42410 2.77444 2.73048 3.46410 2.40563 3.72679 3.29264 2.67828 2.69433 4.24621 2.90352 2.73737 3.18079 2.89845 2.37655 2.77622 2.98530 4.58662 3.61538\n- 0.88290 0.53372 * 2.42384 0.09275 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1856 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II\n-LENG 611\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:41 2021\n-NSEQ 1468\n-EFFN 13.425941\n-CKSUM 3268061611\n-GA 20 20;\n-STATS LOCAL MSV -12.2718 0.69714\n-STATS LOCAL VITERBI -13.7436 0.69714\n-STATS LOCAL FORWARD -5.7433 0.69714\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70901 4.57958 2.81901 2.52359 3.33288 2.95293 3.81832 2.76160 2.51894 2.39384 4.00860 2.87630 3.38323 2.98747 2.87746 2.53868 2.89586 2.93338 4.85542 3.57237\n- 2.68582 4.42319 2.77586 2.73191 3.46435 2.40592 3.72501 3.29455 2.67835 2.69410 4.22464 2.90358 2.73725 3.18222 2.89789 2.37919 2.77506 2.98463 4.58294 3.61555\n- 0.90530 1.28195 1.14544 1.10711 0.40125 0.00000 *\n- 1 3.21814 5.47330 3.34371 3.12010 4.47576 2.58847 4.14523 3.20166 2.31672 3.27511 1.14448 3.23585 4.52789 3.57107 3.36805 2.74998 3.26119 2.96378 5.99019 4.67179 31 m - - -\n- 2.68626 4.42233 2.77521 2.73099 3.46362 2.40510 3.72502 3.29362 2.67738 2.69358 4.24670 2.90314 2.73747 3.18145 2.89809 2.37890 2.77527 2.98523 4.58485 3.61511\n- 0.04941 3.09828 5.78241 0.65254 0.73548 1.27023 0.32957\n- 2 3.20791 5.84828 3.55751 3.05658 3.98339 3.75409 3.82330 3.96339 1.62742 3.53627 2.86105 2.03366 3.69147 2.88853 2.27106 2.42070 2.73751 3.82605 6.28949 3.74828 36 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00394 5.93320 6.65555 0.61958 0.77255 0.22953 1.58428\n- 3 3.33604 3.34125 5.65567 5.03920 2.04128 4.80242 5.18178 2.02105 4.82053 1.83260 1.72942 4.82884 5.05785 4.82493 4.82318 3.79866 3.34158 2.36756 2.84242 2.86118 37 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00302 6.20099 6.92334 0.61958 0.77255 0.71657 0.67026\n- 4 3.28596 6.00415 3.83176 3.07767 3.63780 4.07479 3.52328 3.25576 1.55685 3.44730 4.31775 2.78677 4.73398 1.85876 2.22806 3.04427 2.99870 3.65726 6.45261 2.71519 38 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00300 6.20528 6.92762 0.61958 0.77255 0.74949 0.63981\n- 5 3.95939 5.44793 6.12452 5.53011 2.70912 5.36830 5.72809 0.68327 5.33567 1.51780 4.39648 5.53579 5.68749 5.44792 5.34430 4.23616 4.35435 2.35304 6.15189 4.28847 39 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00300 6.20528 6.92762 0.61958 0.77255 0.73710 0.65104\n- 6 3.11432 5.36693 3.21431 2.50598 5.16592 3.76813 3.17927 3.79245 1.47261 2.46614 4.73533 2.47330 4.72062 2.95033 2.49092 2.12440 3.34106 3.93856 6.49740 4.72089 40 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00397 6.20609 6.24358 0.61958 0.77255 0.74358 0.64513\n- 7 2.62097 5.67967 3.42695 2.16706 5.24007 4.06439 4.13695 4.89933 1.399'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00309 6.17657 6.89891 0.61958 0.77255 0.90698 0.51708\n- 604 3.59980 5.09728 5.71158 5.09848 3.09652 4.91278 5.25110 0.87601 4.61408 1.66465 4.13542 5.07945 5.27072 4.43409 4.88833 4.16874 3.96354 1.74448 5.73337 3.70766 2129 i - - -\n- 2.68645 4.42214 2.77523 2.73134 3.46423 2.40542 3.72396 3.29354 2.67612 2.69401 4.24737 2.90380 2.73755 3.18165 2.89735 2.37914 2.77534 2.98527 4.58559 3.61324\n- 0.88790 1.44047 1.04507 0.95304 0.48706 0.79562 0.60021\n- 605 3.00010 5.76354 3.08944 2.66800 5.03365 3.82821 3.50736 4.24104 2.32065 3.77825 4.75760 2.83671 1.10506 3.18098 3.09205 2.66606 3.10586 3.64112 5.46056 4.78910 2138 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20659 5.75690 1.69561 0.61958 0.77255 1.40144 0.28268\n- 606 2.63540 3.24449 2.65653 2.19173 3.85451 2.92986 3.67310 3.11772 2.23195 2.99130 3.90173 2.85712 3.76834 2.81149 2.64676 2.86974 2.89813 3.76302 3.80405 4.10071 2139 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04544 5.65877 3.19582 0.61958 0.77255 0.93589 0.49797\n- 607 3.12535 5.83583 1.90906 2.12044 5.08653 3.83066 3.04179 4.52060 2.81759 3.45290 4.80954 1.64409 3.36186 2.99713 3.30058 2.21486 3.39839 3.72559 5.58520 4.28329 2140 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05318 5.86057 3.01718 0.61958 0.77255 1.81690 0.17737\n- 608 2.98554 4.78116 3.76249 4.27495 3.30361 4.13271 4.88404 2.69696 4.34456 2.11171 2.54512 4.30646 4.38883 4.19787 4.27455 3.66047 3.61110 1.94196 1.39017 2.75380 2141 w - - -\n- 2.68657 4.42235 2.77456 2.72976 3.46465 2.40573 3.72559 3.29161 2.67785 2.69332 4.24793 2.90377 2.73705 3.18195 2.89780 2.37935 2.77571 2.98491 4.58581 3.61381\n- 0.82301 0.66856 3.02730 0.97061 0.47619 0.82223 0.57884\n- 609 2.96944 5.89576 3.06317 2.11548 4.71507 3.52057 4.04067 3.89885 1.94491 2.83652 3.18574 3.05915 3.40891 2.08952 3.01139 2.10206 3.43708 3.83296 6.32870 3.55915 2145 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20345 5.95839 1.70647 0.61958 0.77255 1.67634 0.20710\n- 610 2.85115 5.77453 2.43517 1.91753 4.89268 2.69827 4.22261 3.75163 2.22414 3.57195 4.12823 2.68915 3.24557 2.48203 2.84484 2.51718 3.13141 3.80634 6.20676 3.16918 2146 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04807 5.75776 3.12877 0.61958 0.77255 1.56221 0.23531\n- 611 2.80305 5.75945 3.11944 1.86147 4.54430 3.52235 3.27510 2.45576 2.50391 2.64167 4.66281 2.86995 4.18476 2.99975 2.71920 2.43276 2.60730 3.12360 6.19795 4.18866 2147 e - - -\n- 2.68472 4.42844 2.77461 2.72505 3.45943 2.40992 3.72872 3.28649 2.67696 2.68799 4.24606 2.90418 2.74163 3.18344 2.90066 2.38012 2.77900 2.98307 4.59130 3.61131\n- 1.71756 0.19785 * 2.48683 0.08684 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_FMO.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_FMO.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3128 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Lamassu-Fam__LmuB_SMC_FMO\n-LENG 1035\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 31 13:53:57 2022\n-NSEQ 32\n-EFFN 2.027344\n-CKSUM 1085856457\n-GA 20 20;\n-STATS LOCAL MSV -13.0478 0.69551\n-STATS LOCAL VITERBI -13.7776 0.69551\n-STATS LOCAL FORWARD -6.7122 0.69551\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.25450 4.55713 2.89326 2.50794 3.55290 3.06978 3.65570 3.06095 2.68003 2.43859 3.80390 3.08620 3.56790 2.86373 2.71652 2.58991 2.80162 2.83552 4.64668 3.87319\n- 2.68602 4.42230 2.77525 2.73121 3.46359 2.40518 3.72500 3.29346 2.67746 2.69353 4.24554 2.90352 2.73745 3.18151 2.89797 2.37892 2.77525 2.98524 4.58482 3.61508\n- 0.10682 2.33722 5.35678 0.71085 0.67576 0.00000 *\n- 1 2.86931 4.49987 4.29106 3.81303 3.68930 3.80547 4.50350 2.84618 3.65265 2.54773 0.98588 3.98430 4.34414 3.95613 3.86500 2.50490 3.20684 2.43869 5.30635 4.09706 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04992 4.63443 3.24474 0.61958 0.77255 0.48576 0.95510\n- 2 2.83303 5.20816 2.63423 2.50282 4.58065 3.51795 3.83622 4.04199 2.44778 3.57368 4.35476 2.60504 3.98442 2.96368 3.12472 1.31836 2.55529 3.63736 5.74899 4.35800 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01505 4.59957 5.32191 0.61958 0.77255 0.44723 1.01998\n- 3 2.81844 5.34077 2.17217 2.12507 4.67755 2.86256 3.76090 4.16780 2.35975 3.64269 4.38858 2.24966 3.52146 2.66844 3.03273 2.08547 3.05529 3.72790 5.77389 4.35105 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63443 5.35678 0.61958 0.77255 0.48576 0.95510\n- 4 3.29493 4.58077 5.21104 4.66813 3.76701 4.67230 5.14738 1.22997 4.54406 1.71434 3.60852 4.78982 4.96055 4.73296 4.65427 4.02956 2.58805 1.39788 5.59854 4.42043 11 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63443 5.35678 0.61958 0.77255 0.48576 0.95510\n- 5 4.66851 5.61939 5.49626 5.41824 1.07907 5.16099 3.83510 4.22978 5.20375 3.38553 4.75943 4.71247 5.42174 4.87937 5.02072 4.57512 4.86669 4.19181 3.91167 0.75931 12 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63443 5.35678 0.61958 0.77255 0.48576 0.95510\n- 6 4.14112 5.40989 5.41607 5.11523 3.62683 4.95002 5.55568 2.91236 4.89388 0.30340 3.50682 5.33348 5.29179 5.05973 4.92196 4.71475 4.41711 3.13428 5.71051 4.59321 13 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01453 4.63443 5.35678 0.61958 0.77255 0.48576 0.95510\n- 7 2.79329 5.16226 3.07910 2.54097 4.50633 3.56123 3.76726 3.95574 2.47875 3.47914 4.25312'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01742 4.45443 5.17677 0.61958 0.77255 0.76512 0.62601\n- 1028 2.02371 5.01816 2.79005 2.45656 4.29826 3.48887 3.68557 3.73939 2.45079 3.29567 4.07890 2.87803 3.88158 2.18241 2.59438 2.39766 2.91840 3.18313 4.26509 4.12791 1109 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01742 4.45443 5.17677 0.61958 0.77255 0.76512 0.62601\n- 1029 2.42665 5.18346 2.94160 2.09168 4.51955 2.92913 3.66043 3.99482 2.22462 3.48186 4.22887 2.59063 3.86869 2.25011 2.43805 2.67180 2.75368 3.56977 5.61861 4.21912 1110 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05003 4.45443 3.29231 0.61958 0.77255 0.76512 0.62601\n- 1030 2.17473 5.09963 2.54510 2.40529 4.40880 3.46347 3.65956 3.86972 2.41142 3.38983 4.15195 2.83426 2.97354 2.24151 2.70312 2.66175 2.71122 3.47128 5.55554 3.57844 1111 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42240 5.14475 0.61958 0.77255 0.80333 0.59391\n- 1031 2.19662 4.64378 3.24357 2.51209 3.19333 3.56119 3.78316 2.96822 2.66065 2.87663 2.85933 3.16547 3.45005 2.78423 2.42934 2.59203 2.90268 2.94403 5.18785 3.90364 1112 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09259 4.42240 2.57138 0.61958 0.77255 0.80333 0.59391\n- 1032 2.15954 5.04125 2.95402 2.32475 4.33870 3.03119 3.64333 3.79110 2.28671 3.32588 3.53090 2.63872 3.39871 2.55394 2.71205 2.37199 2.88898 3.40636 5.50428 4.12584 1113 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06590 4.34918 2.97877 0.61958 0.77255 0.88152 0.53469\n- 1033 2.33162 5.10932 2.93930 2.39946 4.43856 3.09189 3.63578 3.89604 2.14966 3.40108 4.16567 2.43565 3.85079 2.31980 2.33539 2.57315 2.91839 3.49391 5.54997 4.17316 1114 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06026 4.30358 3.10195 0.61958 0.77255 0.92472 0.50525\n- 1034 2.03529 4.59508 3.20334 2.64242 3.49368 3.51551 3.73990 3.16446 2.61536 2.63743 3.25687 3.12359 3.57569 2.71874 2.68472 2.38131 2.85823 2.89695 5.14160 3.85850 1115 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02111 4.26442 4.98677 0.61958 0.77255 0.75721 0.63295\n- 1035 1.81514 4.62018 3.24349 2.70911 3.93048 3.03719 3.82549 2.80553 2.69405 2.97859 3.82595 3.17033 3.91889 2.67735 3.11752 2.12164 2.74291 3.01848 5.27607 3.99071 1116 a - - -\n- 2.68557 4.42256 2.77519 2.73155 3.46354 2.40521 3.72444 3.29385 2.67772 2.69353 4.24721 2.90332 2.73771 3.18154 2.89796 2.37843 2.77519 2.98519 4.58508 3.61534\n- 0.42828 1.05448 * 1.35988 0.29664 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Hydrolase_protease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Hydrolase_protease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3044 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_Hydrolase_protease\n-LENG 1007\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:45 2021\n-NSEQ 135\n-EFFN 7.040863\n-CKSUM 3334030441\n-GA 20 20;\n-STATS LOCAL MSV -13.1632 0.69557\n-STATS LOCAL VITERBI -14.0390 0.69557\n-STATS LOCAL FORWARD -6.8126 0.69557\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74065 4.60251 2.85051 2.41294 3.35147 3.30106 3.82244 2.68086 2.37991 2.40193 3.98604 2.76079 3.67713 2.91826 3.02530 2.50447 2.88291 2.95838 5.20222 3.57765\n- 2.68685 4.42319 2.77554 2.73189 3.46448 2.40533 3.72589 3.29398 2.67672 2.69367 4.22778 2.90301 2.73834 3.18241 2.89835 2.37876 2.77554 2.98492 4.58571 3.61518\n- 0.63266 0.86728 3.02145 1.04275 0.43461 0.00000 *\n- 1 3.00300 4.66394 4.95793 4.35813 2.61609 4.38479 4.70392 2.53331 3.25810 1.86359 1.15280 3.84649 4.75110 4.37197 3.64323 2.77871 3.47769 2.91328 5.28125 4.09866 21 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00552 5.59839 6.32074 0.61958 0.77255 0.71137 0.67525\n- 2 3.78427 6.05407 4.15612 3.02608 5.48925 4.46744 4.44976 2.97037 0.50676 4.29464 5.11559 3.55211 4.82659 3.56742 2.64463 3.75977 3.43997 4.50085 6.35252 5.12296 22 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00552 5.59839 6.32074 0.61958 0.77255 0.71137 0.67525\n- 3 3.86031 5.16210 5.84627 5.26769 2.05940 5.15595 5.52657 0.64034 3.68993 2.17448 3.99299 5.31141 5.44016 5.19752 5.11304 4.49766 4.09407 2.48113 5.90449 4.74601 23 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00552 5.59839 6.32074 0.61958 0.77255 0.71137 0.67525\n- 4 3.25736 5.76243 3.13743 2.79654 5.11115 3.99863 4.19598 4.59333 0.91405 4.06415 4.80777 2.15306 4.40491 3.29644 3.10222 2.39910 2.97675 4.15622 6.18763 4.78214 24 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00552 5.59839 6.32074 0.61958 0.77255 0.71137 0.67525\n- 5 3.17351 5.68579 3.15044 2.51612 4.39685 3.21924 4.13236 4.51829 1.23595 3.99112 4.72643 2.65841 4.33923 2.78281 2.46947 1.94509 3.40460 4.07710 6.11730 4.70629 25 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00552 5.59839 6.32074 0.61958 0.77255 0.71137 0.67525\n- 6 4.37703 5.52201 6.57289 6.15550 4.94222 6.17966 7.15659 1.16669 6.16883 2.23658 4.60925 6.35384 6.31617 6.44581 6.37445 5.67534 4.63920 0.66032 7.27989 6.05519 26 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00552 5.59839 6.32074 0.61958 0.77255 0.71137 0.67525\n- 7 3.04906 5.67527 3.17183 1.26192 5.01870 3.94267 4.13000 2.86901 2.27'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00598 5.51843 6.24078 0.61958 0.77255 0.98489 0.46757\n- 1000 3.15503 5.04472 2.77575 2.74011 1.23358 4.07151 3.67830 3.23951 2.95509 3.12577 3.69302 3.71144 4.45546 3.54818 2.89928 3.29727 3.03579 2.98773 5.60213 2.63915 1718 f - - -\n- 2.68693 4.42300 2.77494 2.73084 3.46429 2.40469 3.72527 3.29262 2.67686 2.69354 4.24765 2.90209 2.73744 3.18137 2.89858 2.37962 2.77529 2.98543 4.58552 3.61503\n- 0.21661 1.76198 3.76995 1.77806 0.18508 0.98489 0.46757\n- 1001 3.07003 5.83349 3.07584 2.66296 5.15794 0.81588 4.26305 4.63995 2.25307 4.12735 4.89038 3.19917 4.44638 2.99542 3.53727 3.28704 3.57612 4.21519 6.26929 3.87942 1735 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03170 5.49710 3.60802 0.61958 0.77255 0.98034 0.47030\n- 1002 3.12896 3.57452 3.59392 2.88274 4.44858 3.98166 4.18925 3.47327 1.20074 2.93830 4.31259 3.01483 4.36946 3.20504 2.92376 2.98861 3.21235 1.97102 5.75336 4.44128 1736 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00621 5.48054 6.20289 0.61958 0.77255 0.95122 0.48820\n- 1003 2.67088 4.95592 5.66578 5.10059 3.69326 4.03758 5.40971 1.58312 4.93641 2.38060 4.10628 5.13470 5.29814 5.10432 4.98885 4.31776 3.89592 0.74185 5.87306 4.68242 1737 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00609 5.49989 6.22224 0.61958 0.77255 1.03635 0.43811\n- 1004 2.55095 4.49969 3.37099 2.29558 4.94132 3.38168 3.51715 3.74999 1.56105 3.90637 4.28725 3.13636 4.28447 2.55704 2.84347 2.15930 2.94073 2.74210 6.04245 4.63666 1738 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03874 5.49989 3.38398 0.61958 0.77255 1.03635 0.43811\n- 1005 2.56592 5.60501 3.09324 2.21589 4.94931 3.87027 3.39888 3.85120 2.20949 3.17286 4.64588 2.84949 2.39460 2.32071 2.82011 2.33165 2.85518 3.04738 6.03816 4.62768 1739 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 5.46744 3.73230 0.61958 0.77255 1.11846 0.39569\n- 1006 2.98084 5.50998 1.91859 1.88848 4.34966 3.61866 4.06691 3.37281 2.69595 2.70951 4.56007 2.89698 3.91979 3.07385 2.96385 2.97208 2.64939 2.26560 5.96435 4.57569 1740 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13839 5.44531 2.08005 0.61958 0.77255 0.82761 0.57464\n- 1007 2.29826 5.47452 2.73728 1.93716 4.32761 3.44623 4.03139 2.76646 2.54512 2.56495 4.52460 2.77775 4.23283 2.65163 3.26764 2.62080 2.61115 3.13512 5.92888 4.07941 1741 e - - -\n- 2.68646 4.42422 2.77417 2.73024 3.46260 2.40649 3.72581 3.29315 2.67802 2.69262 4.24794 2.90116 2.73725 3.18138 2.89898 2.37905 2.77588 2.98561 4.58674 3.61407\n- 0.97618 0.47280 * 1.64493 0.21446 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Lipase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Lipase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1952 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_Lipase\n-LENG 643\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:42 2021\n-NSEQ 194\n-EFFN 2.530975\n-CKSUM 2050659481\n-GA 20 20;\n-STATS LOCAL MSV -12.2368 0.69694\n-STATS LOCAL VITERBI -12.8611 0.69694\n-STATS LOCAL FORWARD -6.6061 0.69694\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58535 4.34184 2.85604 2.55014 3.42629 3.09235 3.77480 2.79250 2.57724 2.38282 3.76505 2.99542 3.52204 2.97559 2.85040 2.56235 2.86267 2.74325 5.10392 3.52565\n- 2.68542 4.42318 2.77421 2.73154 3.46447 2.40567 3.72587 3.29377 2.67803 2.69406 4.24134 2.90385 2.73739 3.18098 2.89854 2.37875 2.77439 2.98493 4.58570 3.61538\n- 0.93319 1.13335 1.25614 2.10299 0.13021 0.00000 *\n- 1 2.27388 4.76595 3.08941 2.45852 3.97443 3.53786 3.75025 3.27552 2.43015 2.95841 2.49955 2.98495 3.14654 2.82369 3.03297 2.64191 2.62501 2.89002 5.29041 3.86895 32 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02999 4.44734 4.02677 0.61958 0.77255 0.87971 0.53598\n- 2 2.46941 5.10167 2.65060 2.15847 4.24524 3.37938 3.66929 3.52183 2.37573 3.39039 3.64741 2.72965 2.95606 2.65957 2.71293 2.51554 2.68685 3.09572 5.55811 4.17165 33 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01715 4.47043 5.19277 0.61958 0.77255 0.50701 0.92204\n- 3 2.54822 4.81389 3.20721 2.67436 3.90495 3.53115 3.83967 3.30612 2.36778 2.65084 2.46434 2.64422 3.13833 2.96423 3.05910 2.57958 2.59333 2.78947 5.34387 4.04144 34 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01383 4.68384 5.40619 0.61958 0.77255 0.67855 0.70796\n- 4 2.58119 5.14412 3.06242 2.46758 4.28837 3.46279 3.54963 3.75484 2.04629 2.98405 4.02914 2.69911 3.66206 2.81499 2.44037 2.07800 2.75606 3.09736 5.60717 4.22815 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01372 4.69183 5.41417 0.61958 0.77255 0.58344 0.81639\n- 5 2.74371 5.18339 3.06497 2.48608 4.48955 3.28383 3.52422 3.78447 2.23652 3.47135 3.64402 3.04835 2.33413 2.59598 2.34220 2.24930 2.79060 3.33581 5.63962 4.25500 36 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01326 4.72520 5.44755 0.61958 0.77255 0.60120 0.79442\n- 6 2.67240 5.13094 3.09785 2.54164 4.30725 1.99748 3.59888 3.69322 2.11913 3.40961 4.18847 2.90564 3.97197 2.73135 2.80595 2.41969 3.01202 3.48950 5.59995 2.81542 37 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.73436 5.45670 0.61958 0.77255 0.61557 0.77726\n- 7 3.80903 5.04424 5.75688 5.17584 2.80340 5.17521 5.49337 1.27933 5.03580 0.90810 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01359 4.70118 5.42353 0.61958 0.77255 0.47187 0.97773\n- 636 3.04952 4.94768 4.11674 4.11812 5.35400 0.31339 5.27514 5.01047 4.43443 4.66567 5.52275 4.18173 4.46178 4.65492 4.63350 3.05138 3.60719 4.25828 6.56998 5.47769 875 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01305 4.74150 5.46385 0.61958 0.77255 0.52314 0.89810\n- 637 4.17855 5.37112 5.88428 5.39002 2.26378 5.43476 5.34601 2.74263 5.23694 0.44707 3.22533 5.51126 5.46278 5.06886 5.16875 4.87108 4.38016 3.04901 5.33382 4.01986 876 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01305 4.74150 5.46385 0.61958 0.77255 0.52314 0.89810\n- 638 3.68484 4.91600 5.64236 5.18725 3.67014 5.16605 5.78735 0.52925 5.08611 2.33266 3.72031 5.34112 5.40425 5.27062 5.21362 4.60649 3.95087 1.91111 6.02681 4.79411 877 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01305 4.74150 5.46385 0.61958 0.77255 0.52314 0.89810\n- 639 2.73921 5.74893 1.07623 2.03974 5.05604 3.60675 3.40178 4.57160 2.93018 4.04044 4.83074 2.35559 4.15314 3.15892 3.49151 2.78663 3.42031 4.12503 6.18182 4.70077 878 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01305 4.74150 5.46385 0.61958 0.77255 0.52314 0.89810\n- 640 3.57990 6.23654 0.67269 2.54364 5.55270 3.66874 4.35359 5.19469 3.53298 4.64651 5.56018 1.79580 4.36688 3.54576 4.23067 3.41947 3.91269 4.70539 6.74512 5.15233 879 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.74150 4.38223 0.61958 0.77255 0.52314 0.89810\n- 641 1.90702 4.33076 4.02229 2.11890 3.29449 3.84576 4.13102 2.42383 3.35691 2.27139 3.32418 3.73588 4.21840 3.61113 3.60830 3.11722 3.01549 2.20604 4.05760 3.00169 880 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16711 4.73321 1.93039 0.61958 0.77255 0.54032 0.87362\n- 642 2.70120 4.92997 2.74035 2.33088 4.16983 3.31101 3.52427 2.92340 2.46469 2.97425 4.00012 2.90174 3.82948 2.90451 3.01935 2.49183 2.23540 2.53763 5.43133 3.86787 881 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04136 4.58143 3.49755 0.61958 0.77255 0.78378 0.61005\n- 643 2.57879 5.08961 2.74121 2.33062 4.38196 2.44539 3.53292 3.73940 2.40136 2.99499 4.14457 2.79676 3.71511 2.78642 2.83813 2.30316 2.83191 2.98108 5.55520 3.55439 882 s - - -\n- 2.68588 4.42327 2.77265 2.72997 3.46381 2.40552 3.72528 3.29327 2.67795 2.69395 4.24756 2.90397 2.73751 3.18136 2.89830 2.37918 2.77598 2.98509 4.58579 3.61507\n- 0.64703 0.74150 * 2.02927 0.14091 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Mrr.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Mrr.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1853 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_Mrr\n-LENG 610\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:43 2021\n-NSEQ 829\n-EFFN 7.124851\n-CKSUM 4085852697\n-GA 20 20;\n-STATS LOCAL MSV -12.1582 0.69715\n-STATS LOCAL VITERBI -12.9815 0.69715\n-STATS LOCAL FORWARD -6.2553 0.69715\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57516 4.48045 2.86095 2.50041 3.38499 2.94281 3.76733 2.84615 2.58496 2.39250 3.91592 3.00722 3.44734 2.97560 2.81080 2.53891 2.83179 2.88668 5.05773 3.63620\n- 2.68583 4.42247 2.77564 2.73147 3.46360 2.40544 3.72545 3.29292 2.67775 2.69300 4.23757 2.90371 2.73723 3.18197 2.89821 2.37917 2.77544 2.98541 4.58494 3.61553\n- 0.60914 1.84495 1.21016 1.41122 0.27951 0.00000 *\n- 1 2.89077 4.54227 4.36961 3.78888 3.65431 3.73374 4.36292 2.97044 3.68606 2.57133 1.06327 3.99031 3.01872 3.87691 3.87270 2.90790 2.87077 2.39687 5.15357 3.86299 22 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00957 5.24189 5.46408 0.61958 0.77255 0.46528 0.98875\n- 2 2.53792 5.45107 3.19472 2.83351 4.21417 3.35931 3.87952 3.56513 2.34597 3.21518 2.14764 2.70334 3.85502 3.22578 2.64013 2.25625 2.17804 3.39446 5.92341 4.40126 23 m - - -\n- 2.68500 4.42402 2.77605 2.73211 3.46129 2.40459 3.72326 3.29485 2.67820 2.69363 4.24833 2.90237 2.73793 3.18272 2.89692 2.37930 2.77541 2.98405 4.58537 3.61534\n- 0.82216 0.64167 3.37823 1.58862 0.22842 0.36204 1.19158\n- 3 3.03040 4.62648 5.22615 4.61057 1.91197 4.42742 4.76079 1.90917 4.39459 1.22863 2.34954 4.59238 4.78701 4.52053 4.29578 3.61837 3.27457 2.60344 5.06959 3.82996 56 l - - -\n- 2.68621 4.42332 2.77456 2.73231 3.46453 2.40578 3.72444 3.29366 2.67848 2.69305 4.24302 2.90454 2.73573 3.18254 2.89839 2.37918 2.77399 2.98345 4.58584 3.61479\n- 0.06170 2.86300 5.90128 3.02502 0.04978 0.47833 0.96711\n- 4 2.99737 5.42169 3.54037 2.67855 3.26989 3.99037 3.58928 2.99945 1.92531 3.05759 4.48798 3.29642 4.38086 2.27950 1.99221 3.03344 2.75830 3.29644 3.69631 3.02932 87 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00561 5.58134 6.30369 0.61958 0.77255 0.56964 0.83409\n- 5 4.10915 5.43344 6.19544 5.62016 2.85662 5.52879 5.89329 0.80443 5.46259 1.27465 3.85982 5.69982 5.71970 5.46955 5.44670 4.89102 4.40051 2.22505 6.11345 4.42604 88 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00561 5.58134 6.30369 0.61958 0.77255 0.56287 0.84297\n- 6 3.02619 3.65189 3.18267 2.37312 4.99981 3.80961 3.55830 3.64867 2.01103 3.22600 4.63668 2.32039 4.32788 2.95262 1.64437 2.70249 2.85591 3.45958 6.09452 4.68627 89 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00561 5.58217 6.30452 0.61958 0.77255 0.56579 0.83912\n- 7 2.22340 4.14212 3.36116 2.39625 3.81486 3.27378 2.64551 4.36732 1.95732 3.86647 4.'..b'.68623 4.42230 2.77507 2.73126 3.46359 2.40514 3.72500 3.29359 2.67746 2.69346 4.24695 2.90352 2.73741 3.18137 2.89802 2.37887 2.77519 2.98524 4.58482 3.61474\n- 0.03059 3.56556 6.29263 0.91490 0.51175 0.55830 0.84906\n- 603 3.15433 5.64321 3.39081 2.89406 4.60040 3.96535 3.89201 4.42391 2.03297 3.62842 4.48467 3.18512 4.39113 3.28235 0.89226 3.07832 3.40504 4.02258 6.08156 3.37813 1328 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00556 5.59158 6.31393 0.61958 0.77255 0.63030 0.76021\n- 604 2.44077 4.15046 4.44586 3.46446 2.56656 4.05901 4.45913 2.27469 3.05968 2.27891 3.63204 3.87759 3.00315 3.29998 2.91989 3.04440 3.09933 2.64240 5.38310 1.96424 1329 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.34093 5.59158 1.25469 0.61958 0.77255 0.59428 0.80287\n- 605 2.76526 5.10879 3.90294 3.69310 4.95527 0.45904 5.04579 2.80984 4.11188 4.01831 4.91172 4.13418 4.64537 4.35882 4.43146 3.40962 3.67358 3.80264 6.36994 5.14407 1330 G - - -\n- 2.68654 4.42270 2.77480 2.73068 3.46399 2.40527 3.72539 3.29399 2.67785 2.69236 4.24687 2.90332 2.73784 3.18140 2.89737 2.37898 2.77553 2.98533 4.58522 3.61499\n- 0.12829 2.13803 5.98692 1.83582 0.17374 0.23026 1.58147\n- 606 3.57925 4.96240 5.59198 4.63089 1.25465 4.82674 5.15348 1.80844 4.78101 1.25076 3.76030 4.99051 5.14167 4.86992 4.77775 4.14911 3.77534 2.53032 5.56340 3.91753 1353 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01016 5.59361 5.05295 0.61958 0.77255 0.62131 0.77055\n- 607 2.91849 4.71979 4.14049 3.76851 1.53724 3.47839 4.46339 2.37142 2.45981 2.14301 3.79913 4.12318 4.64145 3.06976 3.00908 3.33092 3.22752 2.88583 5.40100 2.73526 1354 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07042 5.58902 2.74489 0.61958 0.77255 0.62440 0.76698\n- 608 2.85339 5.57646 3.10646 2.68980 4.59043 3.91551 3.89017 4.11160 2.31052 3.54032 4.62418 3.25736 1.10160 3.15567 2.62946 3.02460 3.25136 3.60348 6.02517 3.99078 1355 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09264 5.52677 2.47097 0.61958 0.77255 0.87458 0.53963\n- 609 2.91112 4.90294 3.01740 2.95583 3.54621 3.39417 3.79070 2.64354 2.95074 1.47988 3.48500 3.39538 3.49236 3.14321 3.07219 2.90209 3.01302 2.40841 5.55182 3.95412 1356 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21858 5.44060 1.65023 0.61958 0.77255 1.05128 0.43000\n- 610 2.61745 5.47260 3.00996 2.53504 4.40098 2.70299 3.72902 3.37734 2.22795 3.27254 4.51555 2.80636 3.26833 2.68621 2.43605 2.06547 2.85507 3.14950 5.91053 4.12250 1357 s - - -\n- 2.68219 4.41952 2.77364 2.72920 3.46177 2.40879 3.72353 3.29504 2.68127 2.69357 4.25000 2.90644 2.73718 3.18131 2.89069 2.37902 2.77759 2.98475 4.58166 3.61802\n- 1.27338 0.32834 * 3.01191 0.05045 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_PDDEXK.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_PDDEXK.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1994 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_PDDEXK\n-LENG 657\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:44 2021\n-NSEQ 179\n-EFFN 3.777420\n-CKSUM 666504431\n-GA 20 20;\n-STATS LOCAL MSV -12.0248 0.69686\n-STATS LOCAL VITERBI -12.9442 0.69686\n-STATS LOCAL FORWARD -6.4138 0.69686\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37467 4.33286 2.91563 2.48520 3.51017 2.96718 3.71987 2.98206 2.61810 2.42046 3.75133 3.12017 3.50277 2.93872 2.79306 2.63495 2.82160 2.73950 4.57120 3.90405\n- 2.68577 4.42341 2.77531 2.73080 3.46454 2.40549 3.72543 3.29398 2.67782 2.69422 4.23526 2.90387 2.73753 3.18171 2.89862 2.37882 2.77425 2.98502 4.58483 3.61619\n- 0.88854 0.84935 1.82604 1.73781 0.19347 0.00000 *\n- 1 2.38679 4.71774 3.55652 2.83307 3.87719 3.60993 3.93190 2.91830 2.70167 2.62957 2.08368 3.17032 3.20829 3.22490 3.23831 2.52338 2.57130 2.45768 5.28055 4.02025 28 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09250 4.93939 2.51097 0.61958 0.77255 0.72486 0.66240\n- 2 2.09820 5.18549 2.95063 2.41074 4.46858 3.37730 3.83480 3.44535 2.35001 3.26630 3.40591 2.96213 3.52631 2.70241 3.07947 2.09938 2.79407 2.67675 5.65717 4.28706 29 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01109 4.90270 5.62504 0.61958 0.77255 0.90948 0.51539\n- 3 2.28443 5.03837 3.03757 2.52558 2.91552 3.16121 3.88214 3.34370 2.46383 2.93927 3.26648 3.05678 2.92304 2.76429 3.00749 2.47098 2.73169 2.92864 5.54247 4.20893 30 a - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40511 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.01519 4.46519 5.63545 0.57618 0.82563 0.49927 0.93388\n- 4 2.70513 5.32813 2.56107 2.42910 4.64340 3.03845 3.79719 3.65988 2.50700 2.63262 3.41391 2.57999 3.19478 2.88784 3.00030 2.24054 2.36372 3.51107 5.77907 4.18099 32 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00971 5.03534 5.75768 0.61958 0.77255 0.55902 0.84809\n- 5 2.21725 5.06558 3.28056 2.06343 3.39240 3.06800 3.95976 3.29470 2.65162 3.03114 3.66364 3.09531 3.52123 3.05100 2.85510 2.42212 2.75049 2.95568 4.96204 3.03502 33 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00942 5.06526 5.78761 0.61958 0.77255 0.57052 0.83295\n- 6 2.43549 5.41377 2.33898 1.97212 4.75703 2.93250 3.66217 4.24173 2.17366 3.39748 3.33824 2.83659 3.95319 2.85964 2.69811 2.59342 2.76015 3.69214 5.84753 3.93842 34 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07536 5.79771 0.61958 0.77255 0.59187 0.80585\n- 7 2.51685 5.41862 2.49546 1.57789 4.76366 3.07100 3.80117 4.24966 2.30331 3.45011 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00973 5.03304 5.75539 0.61958 0.77255 0.69920 0.68713\n- 650 1.43548 5.21888 3.23100 2.67517 4.50597 3.16336 3.90223 3.71447 2.34364 3.50471 4.28864 2.95166 2.58335 3.02726 2.82022 2.65553 3.05935 3.19017 5.70443 4.34028 1019 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00973 5.03304 5.75539 0.61958 0.77255 0.37225 1.16854\n- 651 2.29869 5.43046 2.81632 1.96527 4.65327 3.31421 3.56189 3.94856 2.33004 3.58502 4.47149 2.92114 2.55842 2.74652 2.65608 2.61057 2.55625 3.38043 5.86400 4.45391 1020 e - - -\n- 2.68619 4.42229 2.77524 2.73095 3.46358 2.40512 3.72498 3.29358 2.67745 2.69356 4.24694 2.90351 2.73736 3.18146 2.89799 2.37887 2.77524 2.98522 4.58481 3.61507\n- 0.14546 2.33902 3.24537 0.20918 1.66732 0.48576 0.95510\n- 652 2.45710 5.41668 2.56089 2.04673 4.76024 1.92658 3.87028 3.97903 2.30069 3.72131 4.45785 2.94358 3.00716 2.79892 2.90377 2.75784 2.92079 3.73215 5.85020 4.43990 1022 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07482 5.79717 0.61958 0.77255 0.42393 1.06268\n- 653 2.87259 5.44406 1.80747 2.32380 4.45047 1.97922 3.63782 4.27198 2.52583 3.67397 4.48590 2.62067 4.09957 2.87340 2.92081 2.42455 3.07406 3.83347 5.87765 4.46635 1023 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11152 5.83386 0.61958 0.77255 0.48576 0.95510\n- 654 2.26314 5.43689 2.36040 1.87548 4.78249 2.52977 3.52725 4.26895 2.45993 3.74239 4.47748 2.87151 3.93372 2.55127 2.55794 2.64676 2.98366 3.70938 5.86918 4.45771 1024 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11152 5.83386 0.61958 0.77255 0.48576 0.95510\n- 655 2.76105 4.53722 4.09858 3.37911 2.14418 3.99596 3.37412 3.00574 3.34300 2.60711 3.64727 3.84711 2.73620 3.53406 3.47900 2.99304 2.80083 2.50624 4.62097 1.75760 1025 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01578 5.11152 4.64335 0.61958 0.77255 0.48576 0.95510\n- 656 3.87912 5.21440 5.98424 5.41897 3.78659 5.38824 5.77242 2.38529 5.28324 0.89470 2.24457 5.55300 5.51930 5.25579 5.27037 4.76800 4.20481 1.29891 5.90932 4.88766 1026 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00905 5.10479 5.82714 0.61958 0.77255 0.50666 0.92257\n- 657 5.20651 6.09864 6.00856 5.98870 0.86192 5.60793 4.29563 4.69567 5.74670 3.78059 5.19594 5.20291 5.87991 5.38020 5.51591 5.08741 5.40768 4.70131 0.92441 2.60975 1027 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00610 5.10184 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Sir2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_Sir2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1946 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_Sir2\n-LENG 641\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:46 2021\n-NSEQ 47\n-EFFN 1.006897\n-CKSUM 1936823665\n-GA 20 20;\n-STATS LOCAL MSV -12.2846 0.69695\n-STATS LOCAL VITERBI -13.0178 0.69695\n-STATS LOCAL FORWARD -6.6885 0.69695\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71989 4.37104 2.91524 2.51562 3.33338 3.19326 3.70821 2.66754 2.46166 2.37114 3.67890 2.91197 3.62123 2.98541 2.99911 2.68787 2.90530 2.73610 5.14379 3.29634\n- 2.68622 4.42229 2.77524 2.73127 3.46346 2.40517 3.72499 3.29358 2.67745 2.69359 4.24492 2.90351 2.73744 3.18150 2.89798 2.37891 2.77519 2.98515 4.58481 3.61507\n- 0.28433 1.63803 2.93517 0.40097 1.10767 0.00000 *\n- 1 2.61863 4.27551 3.59937 3.02716 3.39840 3.62383 3.88356 2.54957 2.54530 2.30846 2.29840 3.15657 3.99931 3.24838 3.24245 2.88216 2.85062 2.16994 4.87664 3.65424 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02416 4.13106 4.85341 0.61958 0.77255 0.54082 0.87292\n- 2 2.66234 4.93414 2.88113 2.42202 4.27514 3.39740 3.66032 3.70630 2.10973 3.26695 4.06941 2.64832 3.83636 2.65744 2.82479 1.90685 2.55318 3.34231 5.46223 4.11717 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02416 4.13106 4.85341 0.61958 0.77255 0.54082 0.87292\n- 3 2.70363 5.05934 2.77168 2.41021 4.40133 2.95882 3.61979 3.83985 1.91350 3.35363 4.14026 2.93348 3.84561 2.74039 1.98610 2.49400 2.93221 3.45704 5.50403 4.15673 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02416 4.13106 4.85341 0.61958 0.77255 0.45281 1.01016\n- 4 3.33638 4.62550 5.06253 4.50264 3.24721 4.66778 5.02319 1.27642 4.36614 1.26288 2.55888 4.72355 4.85101 4.47015 4.46705 4.02506 3.56289 2.07693 5.31732 4.24518 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02304 4.17781 4.90016 0.61958 0.77255 0.48576 0.95510\n- 5 2.62637 4.35893 3.48576 2.90886 3.49047 3.59307 3.82480 2.19667 2.35173 2.34430 3.45309 3.31551 3.96970 3.14257 2.67846 2.84195 2.85545 2.48918 4.92926 3.15004 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02304 4.17781 4.90016 0.61958 0.77255 0.48576 0.95510\n- 6 3.27080 4.55456 5.03966 4.49344 3.13064 4.63274 5.02647 1.18686 4.38175 1.43826 3.14952 4.69660 4.84649 4.51085 4.50034 3.99305 3.50583 1.77628 5.36353 4.23482 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02304 4.17781 4.90016 0.61958 0.77255 0.48576 0.95510\n- 7 2.67736 5.02575 2.98051 2.42010 4.33715 3.45143 3.48995 3.77425 1.81952 3.02357 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02329 4.16705 4.88940 0.61958 0.77255 0.51824 0.90526\n- 634 2.51267 4.57547 3.24209 2.62216 3.75351 3.52789 3.73349 2.87982 1.91123 2.27356 3.49469 3.14209 3.91023 2.86214 2.94697 2.75819 2.86624 2.77453 5.11872 3.84873 684 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02329 4.16705 4.88940 0.61958 0.77255 0.51824 0.90526\n- 635 3.00003 4.98800 2.91915 2.83985 4.40161 3.40816 4.20425 4.18767 3.13969 3.80298 4.76448 0.72593 4.07891 3.48629 3.49699 3.06135 3.39691 3.77898 5.67337 4.33559 685 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02329 4.16705 4.88940 0.61958 0.77255 0.51824 0.90526\n- 636 3.24165 5.38174 2.65661 0.66854 4.77048 3.49040 4.11699 4.28570 3.03793 3.85951 4.83195 3.14518 4.11240 3.33366 3.46950 3.20016 3.55181 3.94308 5.88535 4.62208 686 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02329 4.16705 4.88940 0.61958 0.77255 0.51824 0.90526\n- 637 2.69508 4.15578 4.16120 3.57650 2.43657 3.80954 4.09305 1.92305 2.96040 1.78618 3.03133 3.78684 4.16166 3.66341 3.62272 3.10019 2.92566 2.30592 4.73019 3.34260 687 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15800 4.15081 2.03714 0.61958 0.77255 0.51824 0.90526\n- 638 2.63718 4.94491 2.82560 2.38194 4.23913 3.40298 3.58890 3.66973 1.85371 3.01200 4.01348 2.74640 3.80428 2.53851 2.65788 2.56576 2.59958 3.31080 5.40348 4.05811 688 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02704 4.01985 4.74219 0.61958 0.77255 0.65219 0.73585\n- 639 2.58260 4.76893 2.55407 2.11611 3.18436 3.39952 3.61579 3.19714 2.34239 3.02409 3.84273 2.93266 3.79802 2.77197 2.88843 2.51084 2.81519 3.09640 5.27061 3.74449 689 e - - -\n- 2.68619 4.42226 2.77517 2.73124 3.46355 2.40511 3.72495 3.29355 2.67742 2.69356 4.24691 2.90348 2.73740 3.18147 2.89802 2.37882 2.77520 2.98519 4.58478 3.61504\n- 0.09701 2.48008 4.74219 0.41740 1.07516 0.65219 0.73585\n- 640 2.57276 4.62582 3.06748 2.16624 3.82920 3.43526 3.64939 2.84680 2.43744 2.73937 3.53194 2.77526 3.82408 2.76300 2.92082 2.58748 2.68044 2.78599 5.15577 3.85515 691 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08040 4.01985 2.82521 0.61958 0.77255 0.65219 0.73585\n- 641 2.65444 5.07490 2.17072 1.85813 4.06386 3.31763 3.59876 3.82835 2.30040 3.35631 4.14066 2.64384 3.77267 2.72601 2.90450 2.61953 2.89570 3.43789 5.52971 3.84909 692 e - - -\n- 2.68622 4.42229 2.77524 2.73087 3.46358 2.40517 3.72499 3.29351 2.67745 2.69355 4.24694 2.90351 2.73744 3.18150 2.89805 2.37882 2.77524 2.98517 4.58481 3.61507\n- 0.18276 1.78956 * 0.66183 0.72547 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_hypothetical.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuB_SMC_hypothetical.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1838 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuB_SMC_hypothetical\n-LENG 605\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:47 2021\n-NSEQ 54\n-EFFN 1.730347\n-CKSUM 2186697685\n-GA 20 20;\n-STATS LOCAL MSV -11.9712 0.69718\n-STATS LOCAL VITERBI -12.9835 0.69718\n-STATS LOCAL FORWARD -6.4421 0.69718\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65045 4.47996 2.92801 2.53185 3.30804 3.03507 3.73545 2.72739 2.53255 2.42381 3.67867 2.95044 3.60593 2.93672 2.98506 2.61422 2.83679 2.75924 5.06545 3.40276\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40516 3.72497 3.29334 2.67744 2.69358 4.24590 2.90350 2.73743 3.18149 2.89804 2.37890 2.77523 2.98505 4.58480 3.61506\n- 0.29193 2.27965 1.89141 0.44722 1.02000 0.00000 *\n- 1 2.56097 4.43475 3.74306 3.19156 3.56686 3.72827 4.04593 2.75778 2.54870 2.49427 1.50975 3.55052 4.13564 3.38693 3.27426 3.02330 3.01321 2.41012 5.07534 3.86198 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01898 4.36979 5.09214 0.61958 0.77255 0.38188 1.14751\n- 2 2.16315 5.01891 3.04000 2.37413 4.29163 3.16437 3.70896 3.72858 2.36933 3.04384 2.81065 2.46466 3.90431 2.44332 2.86051 2.59131 2.93758 3.37018 5.49727 4.13635 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01635 4.51767 5.24002 0.61958 0.77255 0.49830 0.93538\n- 3 2.44561 5.16018 2.85527 2.21577 4.48163 2.69283 3.68073 3.95095 2.42709 3.45575 4.20892 2.40509 3.88256 2.78614 2.32234 2.40623 2.73301 3.53844 5.60839 3.71517 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01635 4.51767 5.24002 0.61958 0.77255 0.49830 0.93538\n- 4 3.01451 4.43226 4.48292 3.94272 1.17054 4.07702 4.01540 2.70674 3.79759 2.24355 3.51463 4.02434 3.92611 3.95639 3.92332 3.17114 3.24527 2.68680 4.40181 2.29893 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01635 4.51767 5.24002 0.61958 0.77255 0.49830 0.93538\n- 5 2.99061 4.46109 4.28281 3.73752 2.63979 4.02312 3.18026 2.74773 3.61964 2.59688 3.14781 3.90162 4.38079 3.81713 3.80844 3.31307 3.02201 2.74454 4.03961 1.14720 7 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01635 4.51767 5.24002 0.61958 0.77255 0.49830 0.93538\n- 6 3.54093 4.79352 5.39384 4.86286 2.75445 4.91959 5.22438 0.80560 4.73495 1.71569 3.30616 5.01300 5.10504 4.80912 4.80142 4.29798 3.77407 2.14117 5.44885 4.22896 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01635 4.51767 5.24002 0.61958 0.77255 0.49830 0.93538\n- 7 2.75317 5.23914 2.82688 1.83618 4.57703 3.49622 3.44246 4.05399 1.65074 3.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03592 4.44726 3.74759 0.61958 0.77255 0.44389 1.02593\n- 598 3.60150 5.27251 4.39397 4.38602 5.43585 0.20053 5.42136 5.23003 4.64593 4.78349 5.79377 4.56148 4.67547 4.92240 4.77283 3.79675 4.12654 4.63944 6.32546 5.57259 672 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48769 5.21004 0.61958 0.77255 0.52656 0.89315\n- 599 3.86798 5.08068 5.13465 4.79059 0.79203 4.74544 3.90296 3.32209 4.60477 1.94073 3.90122 4.49854 5.01823 4.52187 4.57704 4.10531 4.08258 3.32335 4.03159 1.95919 673 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48769 5.21004 0.61958 0.77255 0.52656 0.89315\n- 600 3.85262 5.11802 5.47703 4.94638 3.25924 5.11210 5.39471 2.47072 4.71163 0.48874 2.69757 5.20344 5.20282 4.76219 4.75453 4.53240 4.07066 2.71249 5.48166 4.44634 674 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48769 5.21004 0.61958 0.77255 0.52656 0.89315\n- 601 2.69560 5.03454 2.64725 2.35329 4.31445 3.49656 2.79722 3.03754 2.34392 2.95072 4.09305 2.30991 3.50935 2.81608 2.93836 2.69411 2.92692 3.38988 5.50763 3.17902 675 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03998 4.48769 3.57746 0.61958 0.77255 0.52656 0.89315\n- 602 3.13566 5.69047 1.30510 2.15324 5.04935 1.65331 4.00203 4.57247 3.01504 4.06013 4.89372 2.92984 4.07075 3.16302 3.61646 2.71005 3.43185 4.12216 6.22116 4.71358 676 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01724 4.46495 5.18730 0.61958 0.77255 0.56237 0.84363\n- 603 2.54769 4.16659 4.50968 3.91561 3.24321 3.93046 4.25362 1.86550 3.74915 2.23584 3.25748 4.01258 4.28788 3.92622 3.84163 3.23657 3.00069 1.35610 3.87799 3.26316 677 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05362 4.46495 3.20152 0.61958 0.77255 0.50246 0.92897\n- 604 2.68035 4.63640 3.02372 2.55580 3.00075 3.57527 3.79898 3.19907 2.68499 2.74544 3.72548 3.18602 3.96081 2.81533 2.57513 2.71162 2.60588 2.62058 5.18265 2.48927 678 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11265 4.45277 2.35507 0.61958 0.77255 0.53464 0.88160\n- 605 2.83713 5.37241 1.96391 2.16437 4.69486 3.01383 3.74842 4.19048 2.18247 3.66925 4.43647 1.95842 3.91179 2.86765 3.09423 2.44749 3.08437 3.75423 5.80908 4.36771 679 n - - -\n- 2.68618 4.42249 2.77509 2.73068 3.46378 2.40534 3.72451 3.29345 2.67724 2.69368 4.24714 2.90326 2.73729 3.18117 2.89811 2.37900 2.77544 2.98542 4.58501 3.61527\n- 0.41869 1.07267 * 1.12596 0.39207 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Cap4_nuclease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Cap4_nuclease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,512 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuC_acc_Cap4_nuclease\n-LENG 163\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:41 2021\n-NSEQ 1217\n-EFFN 17.998920\n-CKSUM 2947676584\n-GA 20 20;\n-STATS LOCAL MSV -10.1408 0.70812\n-STATS LOCAL VITERBI -12.5219 0.70812\n-STATS LOCAL FORWARD -3.9978 0.70812\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.77779 4.48659 2.92311 2.55366 3.15662 2.95316 3.92529 2.67612 2.54137 2.32409 3.88704 2.80284 3.22472 3.21842 3.06301 2.56199 2.90434 2.91230 4.76072 3.42528\n- 2.68752 4.42516 2.77626 2.73065 3.46500 2.40745 3.72638 3.29164 2.67679 2.69363 4.21135 2.90196 2.73931 3.18197 2.89964 2.37901 2.77453 2.98603 4.58585 3.61508\n- 1.23190 1.23231 0.87552 1.72295 0.19667 0.00000 *\n- 1 2.90903 5.04471 4.34665 3.66915 4.13114 4.21975 4.82115 2.28352 2.87048 2.46940 1.19072 4.30748 3.28081 4.15074 4.00369 2.67972 3.03066 2.33767 5.64653 4.38138 25 m - - -\n- 2.68719 4.42461 2.77131 2.73196 3.46540 2.40699 3.72526 3.29394 2.67560 2.69420 4.24849 2.89865 2.73927 3.18209 2.89820 2.38017 2.77649 2.98691 4.58581 3.60445\n- 1.64434 0.21613 6.70142 0.98100 0.46990 0.32930 1.27093\n- 2 3.63199 5.20922 5.54433 4.35274 3.68788 5.00227 5.33553 1.93711 4.59946 1.53392 1.00855 4.08435 5.36603 4.41761 4.46874 4.16823 3.81669 2.76566 5.83090 3.45051 33 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01994 6.40186 4.01287 0.61958 0.77255 1.11525 0.39725\n- 3 3.26259 6.14272 3.51029 2.67099 3.37628 4.09733 3.89292 2.62012 1.93539 3.01427 3.26499 2.60602 2.41334 3.33498 2.76640 2.94477 2.58511 3.29746 6.30155 2.87862 34 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15996 6.39943 1.92304 0.61958 0.77255 1.27027 0.32955\n- 4 3.24010 6.09574 2.31715 2.04880 3.34504 3.42408 4.46818 3.38519 1.56288 3.90871 4.18334 2.56017 3.96995 2.46703 3.20102 3.10261 2.68508 4.07530 6.52810 3.92204 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29284 6.24900 1.37863 0.61958 0.77255 1.67395 0.20765\n- 5 3.45156 4.89500 4.54139 4.78511 2.40592 4.50788 3.82443 1.10662 4.58674 1.69076 4.01351 3.76137 3.89190 4.53239 4.10436 3.44170 3.32221 2.34422 5.51558 3.30984 36 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00377 5.97863 6.70097 0.61958 0.77255 0.80404 0.59333\n- 6 2.92434 5.28084 3.18371 3.26149 2.96094 4.52832 4.67790 1.26800 3.27366 2.07584 3.36045 3.38846 3.83441 4.31672 3.39396 2.96118 3.37677 2.96954 2.94974 4.00308 37 i - - -\n- 2.68646 4.42348 2.77431 2.72928 3.46462 2.40582 3.72525 3.29392 2.67845 2.69347 4.24830 2.90322 2.73656 3.18107 2.89661 2.37878 2.77571 2.98610 4.58497 3.61621\n- 0.30575 1.37657 4.51139 1.34877 0.30051 1.00856 0.45373\n- 7 2.74533 6.14530 1.67067 2.33989 3.65693 3.58082 3.46378 3.56610 2.21064 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10222 6.27819 2.35085 0.61958 0.77255 1.69983 0.20177\n- 156 2.80647 4.63966 3.80308 2.76713 2.25877 2.99475 4.82518 3.51965 3.10589 1.65346 3.69849 3.71285 3.71368 3.48185 3.99130 3.24049 3.24898 3.39563 3.72279 1.84505 801 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03307 6.18663 3.49081 0.61958 0.77255 2.01924 0.14244\n- 157 2.30334 5.68496 2.56552 2.60607 4.00992 3.29131 3.74257 3.14932 2.60590 2.92325 4.70981 2.02648 4.69336 3.22971 2.62375 2.78140 2.46489 3.40265 3.31530 4.02712 802 n - - -\n- 2.68620 4.42227 2.77495 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98504 4.58479 3.61505\n- 0.09711 3.83980 2.64448 0.28155 1.40493 1.74592 0.19175\n- 158 2.85323 5.83940 2.67925 2.72839 3.10527 3.16234 3.76595 3.36720 2.32783 2.52417 3.35839 1.72669 4.66514 3.26551 2.75391 3.14404 2.74421 3.91859 6.40214 3.49930 804 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01679 6.11261 4.23793 0.61958 0.77255 2.06882 0.13506\n- 159 3.34992 4.42501 3.63360 2.81469 2.96907 4.53610 4.47154 3.39584 3.11634 1.14891 3.75456 3.08249 4.91528 3.86977 3.57749 3.47756 2.73885 3.54290 2.08820 3.70820 805 l - - -\n- 2.68630 4.42237 2.77487 2.73114 3.46366 2.40503 3.72506 3.29231 2.67745 2.69367 4.24702 2.90359 2.73752 3.18147 2.89813 2.37899 2.77532 2.98530 4.58489 3.61515\n- 0.14419 3.15877 2.38820 0.82606 0.57585 2.16369 0.12205\n- 160 3.21884 5.89194 2.97096 2.41337 4.61810 1.35987 4.05171 3.86692 2.34067 2.88159 4.72932 3.29923 4.33901 3.36921 2.67815 3.19516 3.65362 3.69275 5.71119 2.27977 810 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03104 6.01036 3.57150 0.61958 0.77255 0.51164 0.91507\n- 161 3.50549 4.64001 4.88782 4.85234 3.61797 4.28331 5.27487 1.33010 3.86563 1.84959 4.03647 4.81482 5.30488 5.03718 4.71412 3.67760 3.68172 1.08039 5.76796 4.05936 811 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06789 6.32270 2.75133 0.61958 0.77255 1.67286 0.20790\n- 162 2.07716 5.51726 3.11836 2.32255 4.78638 2.64877 4.51885 3.53851 1.62339 4.14431 4.40307 2.92396 3.92243 2.71973 2.26700 2.93225 2.83353 3.86351 6.53484 5.03202 812 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06926 6.25663 2.73338 0.61958 0.77255 1.80192 0.18030\n- 163 2.76135 5.98984 3.05337 2.52827 3.11152 3.07803 4.52528 3.04267 1.89735 2.58788 5.03809 2.58340 2.05529 3.58308 3.60800 2.89257 2.90450 3.36058 6.43998 3.83739 813 k - - -\n- 2.68858 4.42350 2.77328 2.72162 3.46185 2.40519 3.72642 3.29142 2.67657 2.69355 4.24770 2.90148 2.74076 3.18325 2.90017 2.38102 2.77766 2.98635 4.58052 3.61637\n- 1.01304 0.45116 * 1.46257 0.26350 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_FMO.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_FMO.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,713 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Lamassu-Fam__LmuC_acc_FMO\n-LENG 230\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 31 13:53:50 2022\n-NSEQ 32\n-EFFN 1.433594\n-CKSUM 1775604686\n-GA 20 20;\n-STATS LOCAL MSV -10.6121 0.70375\n-STATS LOCAL VITERBI -11.5705 0.70375\n-STATS LOCAL FORWARD -5.1152 0.70375\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39271 4.54503 2.86507 2.57629 3.39018 3.13555 3.81483 2.96149 2.70121 2.40360 3.68077 3.15980 3.40667 3.00081 2.73446 2.63689 2.85307 2.64145 4.01692 3.79406\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.00000 *\n- 1 3.29271 4.74540 4.78498 4.30421 3.39404 4.36157 4.91069 2.40347 4.08124 1.84149 0.95977 4.50402 4.74453 4.33924 4.23522 3.76823 3.58344 2.18549 5.38469 4.22869 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 2 2.20880 4.45264 3.57027 3.05317 3.99136 3.38662 4.07526 3.31417 3.01531 3.04674 3.60872 3.39165 3.95458 3.33324 3.38854 1.67891 1.71157 2.75069 5.38113 4.13623 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 3 2.57392 5.05805 2.62378 1.78576 4.35283 3.46368 3.67314 3.49319 2.43991 3.08807 4.11906 2.95683 2.70795 2.79217 2.92325 2.67443 2.61612 3.41928 5.52857 4.15021 3 e - - -\n- 2.68611 4.42230 2.77525 2.73110 3.46359 2.40514 3.72500 3.29359 2.67746 2.69360 4.24695 2.90352 2.73745 3.18140 2.89800 2.37877 2.77514 2.98523 4.58482 3.61508\n- 0.82737 1.41344 1.14101 0.17893 1.80890 0.48576 0.95510\n- 4 2.33106 4.29704 3.42299 2.64354 3.00483 3.53465 3.80111 2.65986 2.81493 2.26058 3.40441 3.27205 3.92107 3.12447 3.17146 2.69830 2.37207 2.53343 4.89225 3.65429 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02688 4.02575 4.74810 0.61958 0.77255 0.88197 0.53438\n- 5 2.26009 4.71363 2.94515 2.34372 4.01945 3.36253 3.27509 3.43141 2.47663 3.04688 3.87022 2.96004 3.29302 2.82559 2.92502 2.30703 2.37631 3.10383 5.29932 3.97642 6 a - - -\n- 2.68605 4.42237 2.77532 2.73136 3.46366 2.40525 3.72487 3.29366 2.67744 2.69367 4.24702 2.90359 2.73704 3.18159 2.89787 2.37853 2.77526 2.98521 4.58489 3.61515\n- 0.35104 1.24695 4.74810 0.98403 0.46809 0.88197 0.53438\n- 6 2.06832 4.36097 3.31460 2.76776 3.61321 3.12876 3.78256 2.97214 2.73009 2.43371 3.10640 3.18613 3.44864 3.05332 3.11359 2.43213 2.65106 2.71161 5.02042 3.76864 11 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02688 4.02575 4.74810 0.61958 0.77255 0.88197 0.53438\n- 7 2.65045 4.94298 2.45305 2.32328 4.34671 2.66470 3.69311 3.80035 2.53306 3.36150 4.16830 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 223 1.43220 4.39153 3.67483 3.17694 3.86066 3.42658 4.12722 3.15652 3.12746 2.11692 3.80910 3.47758 3.99328 3.43691 3.46357 2.14086 2.60948 2.86504 5.29192 4.06446 245 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 224 2.71256 4.68403 3.26922 2.29418 3.86172 3.10244 3.78558 3.26077 2.59642 2.91629 3.37313 3.18571 3.97040 2.99753 2.59397 2.81726 2.94142 2.99282 2.05432 3.92228 246 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 225 2.31248 5.15086 2.90378 1.85767 4.47476 2.80213 3.66365 3.94277 2.28788 3.44658 4.20446 2.93598 3.86415 2.46412 2.74262 2.35998 2.93571 3.53160 5.59812 4.20331 247 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01837 4.40197 5.12431 0.61958 0.77255 0.48576 0.95510\n- 226 2.27118 5.09945 2.97643 2.15617 4.41290 3.47261 3.65473 3.86944 2.18795 3.38647 3.59909 2.95645 3.47118 2.56247 2.13246 2.55591 2.91877 3.47352 5.54743 4.16820 248 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03662 4.40197 3.74201 0.61958 0.77255 0.48576 0.95510\n- 227 2.32941 4.77506 3.15061 2.59024 4.01169 3.18147 3.73728 3.08193 2.40981 3.04004 3.87222 3.09008 3.91378 2.90956 1.96654 2.42532 2.90835 2.77414 5.30826 4.00011 249 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12187 4.38405 2.28018 0.61958 0.77255 0.51292 0.91315\n- 228 2.65296 4.99216 2.95043 2.32093 4.28155 2.37162 3.64219 3.72370 2.22609 3.11341 4.05652 2.94269 3.43699 2.64097 2.75762 2.36944 2.57472 3.35429 5.46545 4.09971 250 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19086 4.28290 1.83289 0.61958 0.77255 0.64623 0.74237\n- 229 2.24012 4.96957 2.95340 2.41335 4.28092 3.42685 3.61129 3.71306 2.02712 3.25554 4.04698 2.93511 3.08987 2.39452 2.53302 2.55039 2.88503 3.34773 5.43456 4.08976 251 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11767 4.11655 2.35690 0.61958 0.77255 0.81147 0.58736\n- 230 2.13244 4.84959 2.84276 2.15479 4.16477 3.36555 3.64541 3.58621 2.41483 3.17127 3.98586 2.92031 3.80930 2.68694 2.67122 2.16437 2.87487 3.24085 5.39167 4.05346 252 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01817 4.01705 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Lipase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Lipase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,527 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuC_acc_Lipase\n-LENG 168\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:42 2021\n-NSEQ 175\n-EFFN 5.049515\n-CKSUM 2208674093\n-GA 20 20;\n-STATS LOCAL MSV -9.8280 0.70768\n-STATS LOCAL VITERBI -10.5113 0.70768\n-STATS LOCAL FORWARD -5.0209 0.70768\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59649 4.69284 2.97317 2.70985 3.22067 3.16069 3.86447 2.80540 2.61751 2.20914 3.68319 3.01514 3.41240 3.08830 2.85732 2.58136 2.85614 2.74202 5.01411 3.27900\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.45132 5.35508 1.02586 0.61958 0.77255 0.00000 *\n- 1 3.81303 5.10068 5.63936 5.09825 3.67438 5.12078 5.54936 2.52615 4.91595 1.91245 0.74908 5.26635 5.32688 5.00602 4.97684 4.50908 4.05442 1.86430 5.77750 4.70467 1 m - - -\n- 2.68473 4.42325 2.77476 2.73165 3.46419 2.40576 3.72343 3.29437 2.67777 2.69360 4.24672 2.90419 2.73734 3.18246 2.89814 2.37796 2.77444 2.98540 4.58576 3.61553\n- 0.60480 0.79795 5.63707 1.72207 0.19686 0.48629 0.95426\n- 2 2.86708 5.34804 2.75014 2.54461 4.64175 3.54612 3.52214 3.32778 2.32039 3.34394 2.16367 2.41135 4.15805 2.92410 2.72622 2.46431 3.12643 2.87917 3.81017 4.43510 12 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03767 5.20745 3.45782 0.61958 0.77255 0.73509 0.65289\n- 3 2.24036 5.41239 2.87753 2.69365 4.37619 3.39795 2.98922 2.93437 2.55551 3.19112 3.91826 1.96465 3.85045 2.69790 2.97817 2.28155 2.89947 3.65476 5.86250 4.46940 13 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 5.21572 4.32042 0.61958 0.77255 0.63219 0.75807\n- 4 2.49707 5.50191 2.53002 2.40148 4.84698 3.76505 3.24104 3.48940 2.07889 3.80719 3.77334 2.50613 2.90033 2.65269 2.60856 2.28696 2.99987 3.61623 5.93459 4.52364 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00775 5.25960 5.98195 0.61958 0.77255 0.79782 0.59840\n- 5 2.52413 5.08358 3.14049 2.82712 4.28981 3.86660 4.07960 2.59215 2.67501 1.53452 4.16401 2.78624 3.39772 3.26044 2.63917 2.93396 2.74828 3.09026 5.60959 4.30230 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00775 5.25960 5.98195 0.61958 0.77255 0.79782 0.59840\n- 6 3.02185 5.08013 3.50239 2.71846 3.92305 3.87883 4.10418 3.11635 2.94875 3.32821 4.16927 3.11356 1.08432 3.00990 3.39001 2.55828 3.25572 3.09342 5.61522 4.31212 16 p - - -\n- 2.68595 4.42273 2.77531 2.73072 3.46402 2.40403 3.72430 3.29333 2.67789 2.69383 4.24738 2.90395 2.73767 3.18162 2.89802 2.37925 2.77568 2.98465 4.58525 3.61456\n- 0.14144 2.34712 3.31726 2.08310 0.13301 0.44093 1.03125\n- 7 2.58404 4.46520 4.03266 3.67641 2.41865 4.21548 4.54036 2.37983 4.08288 2.25919 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00739 5.30770 6.03004 0.61958 0.77255 0.65644 0.73125\n- 161 2.41194 5.50164 3.27379 2.39015 4.83657 3.46120 3.72825 3.81163 2.45341 3.11126 3.82430 1.72409 4.18620 2.61867 2.31729 2.61055 2.77557 3.69641 5.94041 4.53570 239 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00739 5.30770 6.03004 0.61958 0.77255 0.65644 0.73125\n- 162 2.57234 5.52657 2.81661 1.91003 4.87223 2.64227 3.55690 4.08254 2.42693 3.59609 4.18056 3.12734 3.04960 2.30359 2.73659 2.33401 2.65031 3.91752 5.95890 4.54760 240 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02834 5.30770 3.77257 0.61958 0.77255 0.65644 0.73125\n- 163 3.00356 4.45456 4.90151 4.29424 3.29141 4.21576 4.54215 2.10213 2.87886 2.10043 3.57239 4.33688 4.58059 4.25932 3.65744 3.34447 3.29237 1.87940 1.61082 3.26817 241 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03128 5.28689 3.65981 0.61958 0.77255 0.72090 0.66615\n- 164 3.05712 4.09026 4.98000 4.36831 2.06099 4.22361 4.55679 2.25525 4.16298 1.25791 3.55398 4.02762 4.58729 4.30219 4.18633 3.03213 2.30466 2.30921 5.06210 3.88519 242 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 5.26334 4.53460 0.61958 0.77255 0.78775 0.60673\n- 165 2.83266 5.48274 3.11493 2.61326 4.82043 2.91404 3.95423 4.05825 1.51876 3.34692 4.28569 2.80401 4.15984 2.89960 2.05511 2.72745 2.47051 3.67733 5.91978 4.17396 243 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00779 5.25509 5.97743 0.61958 0.77255 0.80979 0.58870\n- 166 2.89921 4.53106 3.36050 2.22962 4.00962 2.36024 3.63627 3.13103 2.61225 3.20084 3.96629 3.00374 3.12107 2.66113 2.85660 2.93918 2.40432 2.40647 5.74938 3.98041 244 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02729 5.25509 3.83031 0.61958 0.77255 0.76195 0.62877\n- 167 2.67030 4.13379 2.44565 2.52169 4.46317 2.76808 3.95555 2.84504 2.41487 3.52903 4.49446 2.62048 2.55954 2.98428 2.83917 2.13417 3.21630 3.35971 5.89311 4.49411 245 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18944 5.24415 1.78797 0.61958 0.77255 0.71727 0.66959\n- 168 2.68301 5.32767 3.20552 2.49754 4.63367 2.62490 3.63888 3.01291 2.19381 3.48074 4.23685 2.57840 3.42356 2.82552 2.63722 2.05617 3.14689 3.16526 4.03877 3.93443 246 s - - -\n- 2.68439 4.42821 2.77097 2.72967 3.46572 2.40402 3.72649 3.29659 2.68254 2.68761 4.24741 2.90690 2.73607 3.18327 2.89820 2.37982 2.77533 2.98540 4.58548 3.61636\n- 1.11590 0.39693 * 2.94668 0.05394 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Mrr.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Mrr.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,491 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuC_acc_Mrr\n-LENG 156\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:43 2021\n-NSEQ 706\n-EFFN 7.608223\n-CKSUM 3183118157\n-GA 20 20;\n-STATS LOCAL MSV -10.0585 0.70879\n-STATS LOCAL VITERBI -10.6344 0.70879\n-STATS LOCAL FORWARD -4.6117 0.70879\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54643 4.55892 2.97540 2.59704 3.28621 2.96712 3.70913 2.86909 2.68582 2.23489 3.67649 3.03326 3.37994 3.14449 2.82685 2.61997 2.88827 2.76679 4.62138 3.52699\n- 2.68677 4.42625 2.77370 2.72894 3.46387 2.40731 3.72782 3.28929 2.67872 2.69196 4.21989 2.90263 2.73849 3.18290 2.89939 2.38027 2.77540 2.98600 4.58846 3.61731\n- 1.11082 0.61465 2.04114 2.18263 0.11962 0.00000 *\n- 1 3.03056 4.61356 5.18957 4.14724 1.92415 4.40519 4.61419 2.10071 4.12398 1.90973 1.49485 4.35159 4.46113 4.49563 4.12440 3.71600 3.27325 2.28155 5.23519 3.91685 44 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03678 5.57898 3.43150 0.61958 0.77255 0.51000 0.91753\n- 2 3.05549 5.36397 3.19119 2.48345 4.67967 3.47962 4.09411 3.18260 2.31073 3.62478 3.14411 2.30366 3.13699 3.20654 2.71373 2.49258 1.81126 3.01931 6.09619 4.69748 45 t - - -\n- 2.68664 4.42009 2.77574 2.73166 3.45557 2.40544 3.72549 3.29386 2.67777 2.69353 4.24713 2.90389 2.73741 3.18187 2.89799 2.37937 2.77559 2.98544 4.58229 3.61513\n- 1.53759 0.75098 1.16092 0.40867 1.09223 0.77075 0.62113\n- 3 2.89721 5.50376 2.82265 2.26349 3.27004 3.42517 3.29803 3.83368 2.00159 3.48371 4.23047 2.17803 3.86585 2.68281 2.92783 2.56726 2.39064 3.50720 5.93801 4.52863 52 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07886 5.27598 2.64902 0.61958 0.77255 1.49446 0.25408\n- 4 2.60928 5.48329 2.93597 2.34745 4.82734 3.53543 3.85768 4.19201 2.08237 3.66172 3.99276 2.79032 3.57504 2.55143 1.98228 2.36792 2.59868 3.29115 5.91659 4.00011 53 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01517 5.22536 4.63783 0.61958 0.77255 1.59485 0.22682\n- 5 2.30924 5.43133 3.18610 2.63712 4.34612 3.71355 3.49251 4.00877 2.07117 3.42189 4.06455 3.09319 3.61611 2.94895 1.50480 2.54206 2.90679 3.68862 5.39599 4.42256 54 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11581 5.23014 2.26334 0.61958 0.77255 1.46380 0.26313\n- 6 2.77435 5.36688 3.12227 2.58800 3.62656 2.92131 2.96535 4.01481 2.32688 3.53825 4.41737 2.91683 1.55879 2.98315 3.05166 2.71626 2.99595 3.53076 5.43221 4.36221 55 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01523 5.16316 4.66748 0.61958 0.77255 0.79247 0.60280\n- 7 2.39243 5.55669 2.67103 2.06492 4.36199 3.57690 3.51895 2.99085 2.26159 3.76570 3.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02161 5.64256 4.02680 0.61958 0.77255 0.78366 0.61015\n- 149 3.04388 5.43697 3.06609 2.39855 4.19727 2.90298 3.83078 4.22273 2.26548 2.92139 3.82281 2.79916 3.34591 2.57983 1.87655 2.55975 3.17794 3.26685 3.39031 4.71301 260 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00967 5.63115 5.10935 0.61958 0.77255 0.83675 0.56760\n- 150 3.03704 5.01486 4.01095 2.83259 3.85383 2.87247 4.17710 3.17647 3.38209 2.85231 4.01303 3.66443 3.90751 3.72201 2.95325 2.79547 3.28422 3.05939 1.13301 3.37519 261 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10600 5.63040 2.33316 0.61958 0.77255 0.79029 0.60461\n- 151 2.77576 5.61898 2.83909 2.55564 4.24961 2.26383 3.76967 2.98285 2.37000 3.53874 4.29029 2.89133 3.89810 2.98911 2.76838 1.94203 2.69235 2.94729 6.05883 4.20265 262 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06437 5.54084 2.84015 0.61958 0.77255 1.12205 0.39395\n- 152 2.18770 5.57714 2.80997 2.01679 4.13860 2.91298 3.12501 2.76272 2.65219 3.08824 4.10281 2.88517 3.95765 3.07785 2.89711 2.36234 2.79076 3.58095 6.01993 3.97469 263 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08113 5.48495 2.60664 0.61958 0.77255 1.17314 0.37019\n- 153 2.59699 5.09651 2.69000 1.17215 4.68686 3.23027 3.96786 4.25677 2.67034 3.43419 4.62290 2.89470 3.96292 2.40582 3.08262 2.82107 3.17056 3.71579 6.01528 4.60497 264 e - - -\n- 2.68612 4.42239 2.77518 2.73137 3.46368 2.40511 3.72508 3.29342 2.67755 2.69358 4.24704 2.90294 2.73753 3.18152 2.89815 2.37889 2.77504 2.98526 4.58491 3.61464\n- 0.27055 2.13232 2.13305 0.66355 0.72365 1.31598 0.31226\n- 154 2.76492 4.46462 4.14639 4.11836 1.16151 3.95830 4.55972 2.28950 4.13392 2.35527 3.54023 4.13913 4.59634 4.28429 4.17813 3.38443 3.07911 1.98608 4.63124 3.58913 271 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16782 5.31211 1.90006 0.61958 0.77255 1.51750 0.24751\n- 155 2.44684 5.45518 2.60244 1.89647 4.80014 3.31422 2.94537 3.95182 2.47067 3.48559 4.06402 2.67231 3.75781 2.22131 2.79175 2.70851 2.77351 3.56097 5.88794 4.28601 272 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01595 5.15995 4.59711 0.61958 0.77255 1.36759 0.29400\n- 156 2.67663 5.36862 2.84330 2.54286 3.59987 2.67235 3.78672 3.22938 2.47485 3.22085 3.89904 2.55697 3.80606 2.90841 2.52493 2.30602 2.64844 3.27122 4.12495 3.58634 273 s - - -\n- 2.68674 4.42478 2.77448 2.72887 3.46445 2.40406 3.72544 3.29188 2.67907 2.69208 4.24866 2.90390 2.73766 3.18206 2.89780 2.37924 2.77614 2.98514 4.58529 3.61712\n- 1.58043 0.23053 * 2.00798 0.14417 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_PDDEXK.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_PDDEXK.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,683 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuC_acc_PDDEXK\n-LENG 220\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:44 2021\n-NSEQ 168\n-EFFN 1.807251\n-CKSUM 2544290970\n-GA 20 20;\n-STATS LOCAL MSV -10.7006 0.70424\n-STATS LOCAL VITERBI -11.2241 0.70424\n-STATS LOCAL FORWARD -5.3324 0.70424\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45784 4.65189 2.89940 2.59905 3.37226 3.02575 3.72748 2.93815 2.66541 2.37731 3.68898 3.15941 3.38563 2.97382 2.70959 2.71471 2.89287 2.74686 4.63027 3.25150\n- 2.68222 4.41845 2.77622 2.73275 3.46345 2.40560 3.72523 3.29288 2.68007 2.69332 4.23932 2.90575 2.73793 3.18331 2.89510 2.37925 2.77557 2.98422 4.58402 3.61476\n- 1.02166 0.98764 1.31846 3.66658 0.02590 0.00000 *\n- 1 2.51984 4.52961 3.11420 2.60100 3.05877 3.43999 3.73188 3.08362 2.61433 2.51715 3.17070 2.97653 3.56438 2.75938 2.60950 2.63574 2.78924 2.75326 4.58364 3.80586 141 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07338 4.18358 2.89121 0.61958 0.77255 0.83103 0.57199\n- 2 2.00089 4.67389 3.04792 2.42166 3.90467 3.01138 3.67963 3.30346 2.45722 2.92165 3.61636 3.00320 3.45917 2.84582 2.95993 2.59247 2.69592 2.76841 5.22038 3.91279 142 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02381 4.14534 4.86769 0.61958 0.77255 0.86802 0.54435\n- 3 2.55774 4.45783 2.92638 2.47380 3.98872 3.14621 3.57207 3.39887 2.39841 3.01558 3.70027 2.94820 3.07256 2.78688 2.89819 2.27693 2.44275 2.88179 5.27316 3.94864 143 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02361 4.15365 4.87599 0.61958 0.77255 0.82204 0.57899\n- 4 2.44039 4.77827 2.92479 2.34316 4.01001 2.91234 3.51788 3.42184 2.46079 2.93457 3.76210 2.98412 3.67319 2.80991 2.76177 2.27796 2.84026 2.62325 5.28844 3.89608 144 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08538 4.18220 2.70943 0.61958 0.77255 0.85345 0.55503\n- 5 2.18393 4.73239 2.99606 2.44419 3.91011 2.84006 3.42133 3.31218 2.46422 2.95798 3.81877 2.92686 3.31157 2.81244 2.79632 2.56077 2.68170 2.92396 5.25615 3.93467 145 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05097 4.12121 3.39716 0.61958 0.77255 0.85932 0.55069\n- 6 2.15766 4.69105 3.01852 2.46653 3.90867 3.31533 3.65825 3.24082 2.44406 2.90629 3.69693 2.97514 3.69146 2.83280 2.67408 2.27877 2.79259 2.84268 5.21665 3.78407 146 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02445 4.11918 4.84152 0.61958 0.77255 0.49240 0.94459\n- 7 2.35182 4.25209 3.73539 3.14073 3.37376 2.99085 3.79059 2.60395 3.09199 2.30441 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01578 4.55278 5.27512 0.61958 0.77255 0.48873 0.95037\n- 213 2.33243 3.85090 4.31138 3.57970 2.87286 3.83388 3.95886 2.03310 3.54645 1.65557 3.07840 3.86833 4.20155 3.48814 3.36615 3.07820 2.79009 2.30692 4.76708 3.51042 406 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01846 4.55278 4.86019 0.61958 0.77255 0.48873 0.95037\n- 214 2.38479 4.75394 3.16228 2.54352 3.11221 3.47955 3.74136 3.28147 2.51595 2.30950 3.83703 3.13129 3.96992 2.86855 2.21941 2.59407 2.86452 3.00868 5.28616 3.65170 407 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01984 4.55014 4.70156 0.61958 0.77255 0.49345 0.94293\n- 215 2.12285 5.09148 2.94649 2.15177 4.30730 2.73487 3.70098 3.58673 2.40866 3.34665 4.14623 2.85059 3.85515 2.46008 2.87296 2.52531 2.86339 2.87534 5.55606 4.17807 408 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03091 4.54618 3.92053 0.61958 0.77255 0.50048 0.93202\n- 216 2.35058 5.18943 2.90066 1.96411 4.52266 3.15782 3.56110 3.89728 2.20636 3.35131 4.16080 2.84480 3.79885 2.48115 2.60147 2.37572 2.81001 3.46372 5.62910 4.22571 409 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03161 4.53004 3.89557 0.61958 0.77255 0.52606 0.89387\n- 217 2.06485 4.45348 3.13043 2.32847 3.98208 3.34725 3.59313 3.25769 2.61382 2.58845 3.82085 3.00632 3.63507 2.89123 2.82649 2.64902 2.53312 2.86339 4.80339 3.71846 410 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11400 4.50884 2.33582 0.61958 0.77255 0.55129 0.85851\n- 218 2.33088 4.89425 2.93762 2.39416 3.80314 2.70853 3.62843 3.37858 2.44911 2.54169 3.96302 2.92665 3.46102 2.54699 2.90704 2.58550 2.85984 3.10444 5.39223 4.05160 411 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15936 4.39033 2.00309 0.61958 0.77255 0.68903 0.69728\n- 219 2.49304 4.84225 2.86520 2.33231 4.08486 3.11278 3.11625 3.45946 2.45182 2.85172 3.79864 2.96457 3.33111 2.66273 2.87964 2.62131 2.61725 2.78071 5.34166 3.63777 412 e - - -\n- 2.68617 4.42231 2.77522 2.73122 3.46359 2.40518 3.72500 3.29350 2.67746 2.69357 4.24663 2.90348 2.73714 3.18152 2.89804 2.37887 2.77522 2.98524 4.58437 3.61503\n- 0.20160 2.41623 2.37175 1.06461 0.42291 0.83850 0.56627\n- 220 2.47276 4.97400 2.83311 2.21938 4.26216 2.56614 3.42384 3.55334 2.34205 3.25542 4.03476 2.82974 3.57588 2.43081 2.85110 2.46377 2.81640 3.28002 5.44478 4.07116 420 e - - -\n- 2.68525 4.42070 2.77522 2.73082 3.46407 2.40425 3.72457 3.29414 2.67796 2.69416 4.24704 2.90382 2.73779 3.18096 2.89768 2.37907 2.77546 2.98539 4.58548 3.61561\n- 0.74419 0.64459 * 2.02696 0.14126 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Sir2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_Sir2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,509 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuC_acc_Sir2\n-LENG 162\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:46 2021\n-NSEQ 47\n-EFFN 1.890442\n-CKSUM 2186822414\n-GA 20 20;\n-STATS LOCAL MSV -10.3405 0.70820\n-STATS LOCAL VITERBI -10.7820 0.70820\n-STATS LOCAL FORWARD -4.9203 0.70820\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.81185 4.65826 3.09436 2.56588 3.05647 3.31221 3.85088 2.62544 2.46622 2.28425 3.58799 2.80435 3.69505 3.05156 3.09049 2.65276 2.95633 2.71875 5.15800 3.11526\n- 2.68653 4.42165 2.77538 2.73142 3.46356 2.40500 3.72530 3.29329 2.67696 2.69316 4.24423 2.90324 2.73775 3.18154 2.89777 2.37922 2.77537 2.98554 4.58512 3.61498\n- 0.56755 1.85999 1.28225 1.94058 0.15504 0.00000 *\n- 1 2.68921 4.55025 3.31158 2.84078 3.75676 2.63265 3.87778 3.12919 2.73583 2.78060 1.77888 3.26927 3.98448 2.56689 3.08167 2.84374 2.95314 2.88669 5.16489 3.90470 13 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02105 4.26734 4.98968 0.61958 0.77255 0.77055 0.62131\n- 2 2.64340 4.65030 3.18456 2.38500 3.84509 3.09334 3.74491 3.23212 2.52910 2.62148 3.20908 3.11573 3.91032 2.94709 3.03980 2.07642 2.52107 2.70409 5.19275 3.90135 14 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01983 4.32636 5.04871 0.61958 0.77255 0.84003 0.56510\n- 3 2.66866 5.12579 2.75183 2.12251 4.45032 3.43469 3.63019 3.92045 1.87547 3.24887 4.17385 2.57138 3.83424 2.73571 2.75394 2.23719 2.90004 3.50581 5.56818 3.85229 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01983 4.32636 5.04871 0.61958 0.77255 0.62152 0.77031\n- 4 2.67477 4.92084 2.88742 2.36087 3.80345 3.49611 3.69647 3.42088 2.26327 2.52177 3.06694 2.72751 3.88647 2.55716 2.63289 2.69667 2.65837 3.26006 5.41387 4.06837 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42577 5.14811 0.61958 0.77255 0.72862 0.65889\n- 5 2.70365 5.17188 2.29569 2.12661 4.49660 3.39473 3.66509 3.38537 1.96936 3.46809 4.22056 2.58981 3.86392 2.77084 2.90720 2.67110 2.42691 3.55189 5.61545 4.21295 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42577 5.14811 0.61958 0.77255 0.43049 1.05036\n- 6 2.71734 5.02792 3.05532 2.41364 4.30027 3.06627 3.52151 3.55230 2.15963 2.84745 2.90169 2.25218 3.91564 2.84720 2.71029 2.42921 2.94819 3.37894 5.50596 4.14592 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01579 4.55202 5.27437 0.61958 0.77255 0.45033 1.01450\n- 7 2.72417 5.10094 2.79348 2.32507 4.39429 3.32651 3.71346 3.46622 2.10995 2.68381 3.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01527 4.58542 5.30777 0.61958 0.77255 0.48576 0.95510\n- 155 2.86578 5.31519 3.09146 2.34445 4.68441 3.59933 3.74026 4.13879 1.48711 3.59999 4.36304 2.31856 3.99211 2.63566 2.29730 2.53599 3.08514 3.72175 5.70546 4.34696 173 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01527 4.58542 5.30777 0.61958 0.77255 0.48576 0.95510\n- 156 2.73374 4.64211 3.36951 2.80481 3.27729 3.19246 3.86461 2.43406 1.87575 2.86772 3.73418 3.27164 4.02498 2.74681 2.86789 2.86736 2.96441 2.31715 5.19426 3.92481 174 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01527 4.58542 5.30777 0.61958 0.77255 0.48576 0.95510\n- 157 2.96231 4.33395 4.75746 4.16526 2.59098 4.16005 4.49685 1.53049 3.24232 1.56416 3.28679 4.25784 4.49192 4.15318 4.07439 3.47452 3.19454 1.90505 4.99935 3.83299 175 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01527 4.58542 5.30777 0.61958 0.77255 0.48576 0.95510\n- 158 2.80087 4.95287 3.24101 2.66155 4.19601 3.62392 3.78815 3.59492 1.64144 2.48432 3.53696 3.16238 4.00624 2.42957 2.51667 2.84325 3.02411 2.67928 5.43653 4.13115 176 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01527 4.58542 5.30777 0.61958 0.77255 0.48576 0.95510\n- 159 2.87720 5.12712 3.07476 2.16271 4.44264 1.47181 3.83605 3.86501 2.53392 2.96656 4.24364 3.13573 4.03393 2.97860 2.42641 2.88579 3.11612 3.51617 5.62222 4.29021 177 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01527 4.58542 5.30777 0.61958 0.77255 0.48576 0.95510\n- 160 2.53293 4.41056 3.69906 2.46757 3.54609 2.34878 4.00855 2.59099 3.07713 2.06926 3.33280 3.51493 4.12092 3.37137 3.41008 2.99558 2.97314 2.04375 5.01203 3.78599 178 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03079 4.58542 3.90603 0.61958 0.77255 0.48576 0.95510\n- 161 2.59579 4.78180 3.21577 2.65600 3.98454 3.58422 3.53777 2.84092 2.33006 2.50552 3.86336 2.65210 3.97167 2.52594 2.96506 2.43822 2.95066 2.60113 5.31021 3.40183 179 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07934 4.57014 2.71937 0.61958 0.77255 0.51363 0.91210\n- 162 2.70989 5.05497 3.02860 1.97796 3.98659 3.28799 3.69868 3.78362 1.97187 2.63760 4.11266 3.00511 3.89969 2.48613 2.78110 2.70634 2.94014 3.41346 5.52241 3.26186 180 k - - -\n- 2.68634 4.42241 2.77517 2.73094 3.46370 2.40502 3.72510 3.29337 2.67744 2.69358 4.24705 2.90289 2.73755 3.18162 2.89801 2.37903 2.77535 2.98516 4.58493 3.61488\n- 0.24417 1.52949 * 1.03050 0.44134 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_hydrolase_protease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_hydrolase_protease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,563 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuC_acc_hydrolase_protease\n-LENG 180\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:45 2021\n-NSEQ 120\n-EFFN 8.272705\n-CKSUM 2301718672\n-GA 20 20;\n-STATS LOCAL MSV -10.3384 0.70671\n-STATS LOCAL VITERBI -11.0827 0.70671\n-STATS LOCAL FORWARD -4.5109 0.70671\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.81096 4.38494 2.89034 2.47488 3.13715 3.39897 3.87657 2.51179 2.41594 2.42067 3.86705 2.74736 3.78451 3.07158 3.06911 2.58474 2.93470 2.87675 4.51875 3.36608\n- 2.68698 4.42305 2.77600 2.73123 3.46434 2.40552 3.72575 3.28998 2.67751 2.69381 4.22946 2.90406 2.73820 3.18227 2.89748 2.37967 2.77457 2.98599 4.58557 3.61469\n- 0.44372 1.23062 2.71441 1.09402 0.40777 0.00000 *\n- 1 3.34503 4.74301 5.15918 4.55407 3.55162 4.49852 4.06662 2.11403 4.36892 2.77379 0.90562 2.76257 4.86249 3.97516 4.42987 3.80362 3.57713 2.19897 5.36172 4.18139 14 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04608 5.72491 3.17561 0.61958 0.77255 0.82446 0.57709\n- 2 3.13588 5.73121 3.46645 1.91164 5.07750 3.99182 2.82567 4.56391 1.83667 3.58813 4.77167 1.69888 3.56981 2.66953 2.91094 2.44539 3.44977 4.12253 6.16291 4.35362 15 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 5.68390 3.48802 0.61958 0.77255 0.97866 0.47131\n- 3 3.23104 5.18581 3.19081 3.25886 3.18005 4.12684 3.88805 1.73823 2.55056 1.67966 4.27495 2.96312 3.89728 3.05264 3.39971 2.42095 3.46254 3.48373 5.73301 3.31852 16 l - - -\n- 2.68621 4.42330 2.77551 2.73088 3.46195 2.40617 3.72468 3.29085 2.67707 2.69336 4.24794 2.90268 2.73844 3.18151 2.89878 2.37905 2.77499 2.98504 4.58582 3.61476\n- 0.87635 0.66577 2.66180 0.93992 0.49538 0.57636 0.82540\n- 4 3.21563 3.87480 3.16900 2.45479 3.40855 4.03838 4.23962 2.70238 1.80519 2.07745 4.52410 2.70382 4.03668 3.12760 3.18023 2.33421 3.22928 2.98858 5.95137 3.96153 22 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.41074 5.65931 1.09854 0.61958 0.77255 1.00029 0.45850\n- 5 2.80294 4.82708 3.77574 2.77622 3.23488 3.96708 3.56047 2.40610 2.25668 2.23884 3.69109 2.79015 4.34891 3.49284 3.56247 2.05745 3.06663 2.62963 5.39713 3.01702 23 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00770 5.26638 5.98872 0.61958 0.77255 1.75108 0.19066\n- 6 2.60070 5.50669 2.60142 2.11876 4.85237 3.30388 3.95512 3.71465 1.97916 3.81223 4.54720 2.37461 4.16161 2.37517 2.79940 2.30473 2.90147 3.89766 5.93900 3.56529 24 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00770 5.26638 5.98872 0.61958 0.77255 1.75108 0.19066\n- 7 2.93770 5.50604 2.43543 1.99045 4.85148 3.65764 3.23474 3.48790 2.4282'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00517 5.66332 6.38567 0.61958 0.77255 1.04586 0.43292\n- 173 2.84340 5.71786 2.39163 1.80244 5.06400 3.48846 4.16506 4.06723 1.64806 3.60128 4.23132 2.71114 4.37161 2.75722 2.57248 2.55824 3.03805 3.76445 6.14991 4.73832 265 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00517 5.66332 6.38567 0.61958 0.77255 1.04586 0.43292\n- 174 3.20623 5.68439 3.02194 2.17346 3.20207 3.43882 3.05844 2.58094 1.95382 3.17750 4.00290 2.60610 4.37827 2.82379 2.52182 2.55525 3.22760 3.57748 4.36264 4.39053 266 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03169 5.66332 3.58536 0.61958 0.77255 1.04586 0.43292\n- 175 3.25122 4.84093 4.38297 2.56562 2.80422 4.29102 4.07177 1.57640 3.11517 1.63786 3.95070 3.44138 4.66567 3.45335 3.05166 3.29870 3.48309 2.37254 5.43932 3.79802 267 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00531 5.63693 6.35928 0.61958 0.77255 1.12413 0.39295\n- 176 3.19202 5.64739 3.01553 2.77505 2.16242 3.02032 3.01083 3.76949 1.97610 2.73520 3.88829 2.73380 4.36753 3.19303 2.66499 2.42011 2.55801 4.02585 6.09381 4.69688 268 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04738 5.63693 3.15320 0.61958 0.77255 1.12413 0.39295\n- 177 3.01572 5.68120 2.24389 1.77312 5.02736 3.94019 3.73330 3.77346 1.99728 3.98691 4.72164 2.01894 4.33412 2.99788 2.96722 2.10217 3.27250 4.07243 6.11313 4.70140 269 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00554 5.59509 6.31743 0.61958 0.77255 1.23334 0.34435\n- 178 3.16599 5.67660 2.58430 1.57767 5.02165 3.01058 3.80206 3.34708 2.65953 3.43117 4.71727 1.79066 3.85706 3.02157 2.89468 2.49868 3.39714 3.82511 6.10929 4.12659 270 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08150 5.59509 2.59633 0.61958 0.77255 1.23334 0.34435\n- 179 3.12798 5.58232 3.11239 1.59440 4.90430 3.09265 3.65351 2.16738 2.84476 2.97191 4.62917 2.23620 4.30324 2.40019 3.33352 2.73412 3.35922 3.38121 6.02902 4.63225 271 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11132 5.51956 2.28924 0.61958 0.77255 1.01049 0.45262\n- 180 3.10610 5.60723 2.90636 2.08408 4.01679 3.25189 4.06832 3.89427 1.94986 3.91069 4.64907 1.36781 4.27407 2.73957 3.29682 3.07007 3.33732 3.99568 3.64433 4.63363 272 n - - -\n- 2.68763 4.42405 2.77485 2.72807 3.46534 2.40542 3.72675 3.28896 2.67662 2.69466 4.24692 2.90479 2.73920 3.18146 2.89981 2.37893 2.77536 2.98328 4.57229 3.61683\n- 0.97886 0.47119 * 1.45480 0.26585 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_hypothetical.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lamassu-Fam__LmuC_acc_hypothetical.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,470 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Lamassu-Fam__LmuC_acc_hypothetical\n-LENG 149\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 8 14:45:47 2021\n-NSEQ 54\n-EFFN 1.664429\n-CKSUM 2288353567\n-GA 20 20;\n-STATS LOCAL MSV -10.0731 0.70955\n-STATS LOCAL VITERBI -10.5590 0.70955\n-STATS LOCAL FORWARD -4.6916 0.70955\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57880 4.60389 3.01760 2.59168 3.11594 3.02895 3.75883 2.78233 2.62023 2.36486 3.59313 2.96746 3.91853 3.06460 2.95632 2.57748 2.83250 2.73729 5.15361 3.15121\n- 2.68627 4.42248 2.77527 2.73062 3.46377 2.40523 3.72517 3.29362 2.67696 2.69378 4.24178 2.90350 2.73763 3.18169 2.89824 2.37910 2.77543 2.98530 4.58500 3.61526\n- 0.39179 1.36627 2.67220 1.22440 0.34805 0.00000 *\n- 1 2.74493 4.88086 3.12026 2.38709 4.11695 3.55402 3.75260 3.51936 2.32620 3.13141 1.85739 2.59620 3.95172 2.91675 2.75705 2.62634 2.97348 3.21322 5.38038 4.07064 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01780 4.43304 5.15539 0.61958 0.77255 0.50574 0.92397\n- 2 2.70175 5.11341 2.72400 2.18804 4.42117 3.47607 3.68130 3.88091 2.44011 3.40467 3.32866 2.13831 3.50080 2.79387 2.92702 2.20820 2.50295 3.48493 5.57392 4.18615 11 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01722 4.46592 5.18827 0.61958 0.77255 0.53965 0.87456\n- 3 2.73757 5.18514 2.95856 2.31300 4.51757 3.49377 3.68208 3.98269 1.78106 3.47833 4.23651 2.35049 3.89450 2.68427 2.76546 2.23853 2.52371 3.57055 5.62050 4.23378 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01722 4.46592 5.18827 0.61958 0.77255 0.53965 0.87456\n- 4 2.58177 4.33706 4.67057 4.09747 3.44395 4.17612 4.55481 1.78262 3.95945 1.48801 3.36665 4.24336 3.93238 4.15365 4.08811 3.49587 3.19986 1.52870 5.11254 3.93575 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01722 4.46592 5.18827 0.61958 0.77255 0.53965 0.87456\n- 5 3.55886 4.83977 5.24752 4.72149 1.07299 4.77847 4.74151 1.98702 4.56822 1.54901 3.18971 4.79940 4.97362 4.58195 4.60040 4.13560 3.77929 2.54987 4.92955 3.51909 14 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01722 4.46592 5.18827 0.61958 0.77255 0.53965 0.87456\n- 6 3.05984 5.48003 2.21772 2.42469 4.97057 2.06287 4.03597 4.49466 3.02677 4.00676 4.83760 1.15241 4.06661 3.20256 3.59248 2.99840 3.38031 4.03221 6.15918 4.69210 15 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01722 4.46592 5.18827 0.61958 0.77255 0.53965 0.87456\n- 7 2.48414 4.44098 3.77472 3.45559 4.65020 2.85238 4.51855 4.07895 3.49502 3.75'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01692 4.48343 5.20577 0.61958 0.77255 0.51159 0.91514\n- 142 1.73845 4.32943 3.76367 3.19841 3.16060 3.69369 4.02055 2.37868 3.13456 2.44285 3.46639 3.54293 4.09520 3.41684 3.44241 2.37822 2.32992 2.57176 4.96246 3.74443 152 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01692 4.48343 5.20577 0.61958 0.77255 0.51159 0.91514\n- 143 2.51825 4.35153 3.66201 3.09186 3.48005 3.32703 3.95330 2.54140 2.69921 2.02971 2.79743 3.24403 4.06829 3.32578 3.13911 2.54970 2.72044 2.29880 4.94096 3.71699 153 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01692 4.48343 5.20577 0.61958 0.77255 0.51159 0.91514\n- 144 2.43676 5.14698 2.88829 2.10498 4.46924 3.47615 3.49010 3.93887 2.04468 3.24803 3.62206 2.46683 3.86901 2.55016 2.64119 2.66729 2.92479 3.24484 5.59319 3.86432 154 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01692 4.48343 5.20577 0.61958 0.77255 0.51159 0.91514\n- 145 2.34293 4.99416 3.03514 2.29353 3.46051 3.50448 3.70651 3.69983 2.22079 3.26936 4.06126 3.01473 3.25576 2.83734 2.80963 1.84325 2.93113 3.34609 5.47959 4.12273 155 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01692 4.48343 5.20577 0.61958 0.77255 0.51159 0.91514\n- 146 2.71023 4.65807 3.30409 2.35318 3.83976 3.60156 3.81531 2.95224 2.43256 1.76559 3.74733 3.10659 3.98576 3.03513 2.69390 2.82698 2.80506 2.76890 5.20102 3.92557 156 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08581 4.48343 2.64590 0.61958 0.77255 0.51159 0.91514\n- 147 2.68415 5.14634 2.84336 1.91373 4.47566 2.83661 3.64606 3.94668 2.02809 3.44224 3.77458 2.93622 3.85427 2.50683 2.45370 2.65500 2.91431 3.52875 4.90334 4.19063 157 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11119 4.41573 2.37361 0.61958 0.77255 0.61352 0.77967\n- 148 2.56532 5.05390 2.98223 1.96426 4.35954 2.96527 3.64281 3.80612 2.10428 3.33491 4.10978 2.95559 3.85634 2.75879 2.16498 2.66862 2.90866 3.23759 4.74902 4.13851 158 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10007 4.32441 2.50123 0.61958 0.77255 0.72751 0.65992\n- 149 2.63310 4.89603 2.99370 2.19433 4.15469 3.21411 3.64345 3.58170 2.41555 3.16202 3.62403 2.73845 3.83817 2.45212 2.41259 2.64982 2.86357 2.74755 5.38230 3.42278 159 e - - -\n- 2.68597 4.42245 2.77509 2.73065 3.46348 2.40514 3.72429 3.29363 2.67754 2.69360 4.24710 2.90338 2.73760 3.18144 2.89821 2.37907 2.77531 2.98539 4.58497 3.61485\n- 0.43719 1.03804 * 1.05639 0.42726 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lit__Lit.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Lit__Lit.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,959 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Lit__Lit\n-LENG 312\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 19 10:26:32 2021\n-NSEQ 51\n-EFFN 2.617859\n-CKSUM 1475824757\n-GA 20 20;\n-STATS LOCAL MSV -11.0276 0.70097\n-STATS LOCAL VITERBI -11.8305 0.70097\n-STATS LOCAL FORWARD -5.6129 0.70097\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43984 4.37002 2.92081 2.52903 3.34228 3.17721 3.51105 2.80214 2.68945 2.43743 3.57777 3.09065 3.39691 3.02670 2.98000 2.63817 2.83253 2.77460 4.17728 3.52624\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.34036 4.82198 1.27141 0.61958 0.77255 0.00000 *\n- 1 3.61282 5.08051 4.81642 4.50451 3.67603 4.36678 5.09527 2.92685 4.23423 2.20972 0.54097 4.69147 4.86669 4.58996 4.35575 4.00524 3.95014 2.99987 5.56807 4.37405 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11577 4.49829 2.32083 0.61958 0.77255 0.98810 0.46566\n- 2 2.70968 4.80666 3.18405 2.61289 3.21857 3.55269 3.73809 3.01541 1.88740 3.04807 3.88512 3.11020 3.93750 2.84859 2.20773 2.77136 2.42808 3.12849 5.31235 4.01073 2 k - - -\n- 2.68574 4.42267 2.77538 2.73148 3.46396 2.40539 3.72440 3.29365 2.67756 2.69331 4.24701 2.90279 2.73757 3.18188 2.89791 2.37909 2.77532 2.98488 4.58519 3.61389\n- 0.45249 1.02722 5.12326 1.56060 0.23573 0.49474 0.94092\n- 3 2.75726 4.33111 3.34642 3.35145 2.87763 3.23008 4.08501 2.42074 2.80654 2.53221 2.10431 3.66682 4.17924 3.53720 3.54523 2.65107 2.64112 2.59198 3.56952 3.07719 24 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28243 4.67528 1.44084 0.61958 0.77255 0.76491 0.62619\n- 4 2.36159 4.98565 3.00389 2.45817 4.27167 2.67815 3.68550 3.42994 2.29160 3.27240 4.06037 2.63150 3.87482 2.51798 2.92787 2.55871 2.23121 3.34778 5.47648 4.11577 25 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01820 4.41105 5.13340 0.61958 0.77255 1.07089 0.41962\n- 5 2.44279 4.03360 2.94296 2.49301 4.19952 2.83703 3.70259 3.51234 2.48840 3.21112 4.00998 2.54349 3.87974 2.84087 2.60719 2.28401 2.31859 3.28031 5.43434 4.08681 26 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01820 4.41105 5.13340 0.61958 0.77255 0.72014 0.66686\n- 6 2.64715 4.94061 2.65592 2.03125 4.18477 3.54344 3.74661 3.60504 2.46832 2.71186 2.84779 3.06862 3.93411 2.89202 3.00774 2.17745 2.94929 3.10800 5.43888 3.47707 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01560 4.56394 5.28628 0.61958 0.77255 0.75423 0.63558\n- 7 2.54766 4.80593 3.28073 2.71911 4.01950 3.62240 2.75483 3.41108 2.64609 2.94935 3.90076 3.20877 2.13831 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01203 4.82198 5.54433 0.61958 0.77255 0.48576 0.95510\n- 305 2.95705 4.35144 4.73488 4.13849 2.80894 4.11991 4.45245 1.89786 3.96701 1.15078 3.36600 4.22101 4.47240 4.12590 4.04229 2.88135 2.62385 2.46504 4.97993 3.80598 385 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01203 4.82198 5.54433 0.61958 0.77255 0.48576 0.95510\n- 306 2.03314 3.50842 2.18129 2.22488 4.57516 3.59007 3.20067 4.04364 2.39696 3.54996 4.30317 2.75499 3.98353 2.88613 3.01504 2.57700 2.72867 3.63248 5.70384 3.48727 386 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01203 4.82198 5.54433 0.61958 0.77255 0.48576 0.95510\n- 307 2.39517 5.32014 2.21049 2.17903 4.66149 3.31331 3.77600 4.14544 2.51424 3.31108 4.36247 2.90753 3.98065 2.05777 2.27920 2.59147 3.04791 3.70892 5.75447 4.34463 387 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01203 4.82198 5.54433 0.61958 0.77255 0.48576 0.95510\n- 308 2.57177 3.50887 4.78036 4.17562 3.36042 4.08402 4.41906 1.95492 3.98572 1.22062 2.80727 4.21381 4.43884 4.13232 3.56750 3.39471 3.14212 2.18467 4.92899 3.75627 388 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03529 4.82198 3.62578 0.61958 0.77255 0.48576 0.95510\n- 309 2.63187 4.91605 2.47942 2.14927 4.64256 3.18677 3.42332 4.12637 2.30642 3.60450 4.34201 2.66315 3.96537 2.52209 2.30037 2.43077 3.02830 3.24749 5.73502 3.40568 389 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.37809 4.79900 1.18222 0.61958 0.77255 0.53799 0.87688\n- 310 2.69846 5.14003 2.95692 1.90977 4.46267 3.47315 3.66157 3.92798 2.19378 3.43290 4.18953 2.36349 3.41596 2.76816 2.45453 2.67277 2.70993 2.99936 5.58432 4.19445 390 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10593 4.43861 2.42247 0.61958 0.77255 1.04624 0.43272\n- 311 2.33302 4.50977 3.33754 2.78720 3.68083 2.61340 3.82286 2.35369 2.75384 2.32784 3.61630 2.77981 3.96415 2.76897 3.14828 2.81101 2.88961 2.79759 5.08329 3.82347 391 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01932 4.35200 5.07434 0.61958 0.77255 1.11966 0.39510\n- 312 2.66948 4.44996 3.45858 2.89506 3.60918 2.98643 3.86640 2.29955 2.21746 2.16380 3.55563 3.32089 4.00296 3.15841 3.17612 2.86312 2.42052 2.69549 5.03578 3.79213 392 l - - -\n- 2.68635 4.42242 2.77536 2.73140 3.46370 2.40511 3.72511 3.29325 2.67731 2.69371 4.24706 2.90322 2.73756 3.18078 2.89789 2.37859 2.77536 2.98535 4.58493 3.61520\n- 0.44134 1.03051 * 0.78580 0.60836 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,236 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad1\n-LENG 71\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:04 2023\n-NSEQ 100\n-EFFN 0.784302\n-CKSUM 3725929883\n-GA 20 20;\n-STATS LOCAL MSV -9.0656 0.71868\n-STATS LOCAL VITERBI -9.5093 0.71868\n-STATS LOCAL FORWARD -4.2773 0.71868\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57804 4.73792 2.63561 2.62219 3.42542 2.73879 3.77534 2.99212 2.48449 2.74492 3.71411 3.20411 3.57772 3.19294 2.80451 2.72717 2.95695 2.61469 3.33295 3.43178\n- 2.68617 4.42188 2.77519 2.73129 3.46362 2.40514 3.72496 3.29361 2.67747 2.69352 4.24625 2.90348 2.73744 3.18138 2.89795 2.37885 2.77525 2.98519 4.58475 3.61507\n- 0.09397 2.50891 4.78718 1.67698 0.20695 0.00000 *\n- 1 2.80192 4.36356 3.89107 3.44380 3.29791 3.83209 4.19509 2.34427 3.27820 1.99069 1.58504 3.75003 4.22451 3.60620 3.53063 3.07566 3.06074 2.22779 4.99075 3.76403 36 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.06484 4.78718 0.61958 0.77255 0.48576 0.95510\n- 2 2.84988 5.38350 1.53368 1.76320 4.67979 3.28332 3.71948 4.17763 2.63946 3.67529 4.48409 2.60542 3.68509 2.78773 3.19369 2.76378 3.01058 3.63065 5.83746 4.37031 37 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.06484 4.78718 0.61958 0.77255 0.48576 0.95510\n- 3 2.98337 5.50475 1.06189 2.09638 4.81803 3.24122 3.82518 4.34027 2.80207 3.86454 4.73204 2.64704 3.88329 3.00229 3.46034 2.79771 3.28791 3.91600 6.02658 4.51492 38 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.06484 4.78718 0.61958 0.77255 0.48576 0.95510\n- 4 3.23434 5.05191 3.74577 3.22174 4.45586 3.68002 3.98108 4.01445 2.33864 3.49556 4.49425 3.56489 4.17645 3.19495 0.72070 3.31142 3.48923 3.73096 5.46280 4.34526 39 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.06484 4.78718 0.61958 0.77255 0.48576 0.95510\n- 5 3.67492 4.97755 4.39797 4.15452 2.88968 3.95642 4.15731 3.71115 3.87491 3.07099 4.33533 4.26583 4.49102 4.25248 3.96800 3.87662 3.98598 3.60667 0.57291 2.88239 40 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.06484 4.78718 0.61958 0.77255 0.48576 0.95510\n- 6 3.07121 4.57919 4.24165 3.70522 3.16881 4.10119 4.37611 2.39901 3.37444 0.95726 2.95209 4.00716 4.43416 3.77390 3.33480 3.45201 3.31534 2.44165 5.03772 3.82349 41 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.06484 4.78718 0.61958 0.77255 0.48576 0.95510\n- 7 2.22609 4.26102 3.36130 3.16671 4.32169 3.00279 4.28265 3.75275 3.25156 3.48560 4.36627 3.34180 3.7641'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04449 4.04852 3.64706 0.61958 0.77255 0.50351 0.92736\n- 64 2.56768 4.91943 2.38818 2.31859 4.19751 2.91933 3.59246 3.63680 2.24148 2.86786 3.98763 2.84249 3.44971 2.66183 2.84881 2.58410 2.75459 3.16605 5.40097 4.03479 99 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02674 4.03077 4.75312 0.61958 0.77255 0.52216 0.89952\n- 65 2.48861 5.00587 2.38919 2.11437 4.30668 2.98156 3.57736 3.68686 2.26665 3.23986 4.06414 2.75783 3.68565 2.67481 2.76878 2.50666 2.83757 3.23753 5.46723 4.08013 100 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03453 4.03077 4.12369 0.61958 0.77255 0.52216 0.89952\n- 66 2.59541 5.02361 2.65690 2.06676 4.33223 3.19566 3.57366 3.78960 1.96802 3.31004 4.01461 2.74664 3.77346 2.65693 2.72408 2.57174 2.72002 3.29831 5.47548 4.09143 101 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03873 4.02319 3.90715 0.61958 0.77255 0.52993 0.88830\n- 67 2.58546 5.03104 2.63976 1.91533 4.33511 3.00008 3.58931 3.79219 2.16351 3.28290 4.09718 2.77266 3.73220 2.71043 2.77094 2.45433 2.79839 3.37114 5.49303 4.10519 102 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09468 4.01171 2.62783 0.61958 0.77255 0.54145 0.87204\n- 68 2.52627 4.89748 2.79909 2.27121 4.17713 3.18353 3.44950 3.61235 2.31648 3.14087 3.96734 2.82243 3.01042 2.61629 2.53886 2.41447 2.79994 3.25482 5.37541 4.01749 103 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06446 3.94617 3.14423 0.61958 0.77255 0.60253 0.79280\n- 69 2.59673 4.98081 2.64095 2.27168 4.28759 3.22784 3.56318 3.72832 2.07939 3.25950 4.04798 2.79429 3.60430 2.65367 2.24605 2.59144 2.78578 3.35402 5.43066 4.07110 104 k - - -\n- 2.68616 4.42226 2.77520 2.73124 3.46355 2.40513 3.72492 3.29355 2.67740 2.69356 4.24691 2.90348 2.73740 3.18145 2.89799 2.37888 2.77517 2.98516 4.58478 3.61504\n- 0.07491 3.65733 3.07110 0.87898 0.53649 0.63159 0.75874\n- 70 2.66334 5.06169 2.29966 2.19230 4.35152 3.29263 3.22671 3.81163 2.32932 3.34222 4.13845 2.21455 3.76242 2.72328 2.71554 2.52644 2.90623 3.42904 5.51837 4.12429 118 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11789 3.87453 2.40309 0.61958 0.77255 0.64908 0.73925\n- 71 1.95894 4.46024 2.77873 2.36999 4.01371 2.43516 3.76694 3.36912 2.65767 3.05831 3.91230 2.95845 3.71821 2.97679 3.07127 2.53500 2.77738 2.91357 5.33915 4.04386 119 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02288 3.78874 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2039 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad2\n-LENG 672\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:06 2023\n-NSEQ 100\n-EFFN 0.503540\n-CKSUM 4210694631\n-GA 150 150;\n-STATS LOCAL MSV -11.9643 0.69680\n-STATS LOCAL VITERBI -13.1072 0.69680\n-STATS LOCAL FORWARD -7.0257 0.69680\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53379 4.37122 2.83208 2.63645 3.16655 2.79225 3.77877 2.81539 2.67573 2.44901 3.65570 3.10063 3.34852 3.17106 2.82288 2.77785 2.93258 2.62840 4.59181 3.47545\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40512 3.72495 3.29354 2.67741 2.69354 4.24687 2.90347 2.73740 3.18147 2.89800 2.37887 2.77518 2.98519 4.58477 3.61503\n- 0.23932 3.74022 1.66554 0.71169 0.67494 0.00000 *\n- 1 2.82639 4.41197 3.83980 3.42858 3.14453 3.68318 4.20966 2.30205 3.20301 1.78060 1.81737 3.72707 4.15228 3.60431 3.42932 3.15024 3.13291 2.28208 4.95259 3.69009 10 l - - -\n- 2.68595 4.42241 2.77515 2.73132 3.46373 2.40532 3.72509 3.29370 2.67707 2.69373 4.24709 2.90365 2.73729 3.18096 2.89778 2.37884 2.77527 2.98530 4.58496 3.61523\n- 0.32529 1.35896 3.87503 1.70481 0.20066 0.62481 0.76650\n- 2 2.38077 4.49668 2.89332 2.48687 3.89169 3.22164 3.65247 3.27616 2.43707 2.93205 3.66602 2.55419 3.72600 2.73639 2.81231 2.40597 2.65292 2.90786 5.19842 3.90825 21 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03822 3.67915 4.40149 0.61958 0.77255 0.62345 0.76807\n- 3 2.43078 4.48026 2.91102 2.51671 3.77845 3.28532 3.65785 3.10923 2.48843 2.75654 3.59645 2.48982 3.75668 2.82602 2.87995 2.58077 2.71076 2.66768 5.12809 3.83230 22 a - - -\n- 2.68617 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73738 3.18146 2.89801 2.37887 2.77518 2.98518 4.58477 3.61503\n- 0.05677 3.38064 3.85538 0.65634 0.73136 0.62938 0.76126\n- 4 2.66311 4.96367 1.99010 2.03333 4.27336 3.17027 3.61171 3.68765 2.44137 3.29040 4.13587 2.66782 3.72020 2.78101 2.99505 2.63579 2.60052 3.33407 5.51317 4.11980 26 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03817 3.68050 4.40284 0.61958 0.77255 0.42117 1.06793\n- 5 2.36976 4.21357 3.60527 3.08791 3.44310 3.39207 3.95756 2.47832 2.96700 2.37089 2.15175 3.41021 3.94026 3.30964 3.26391 2.75726 2.64138 2.33553 4.96963 3.75014 27 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03184 3.85859 4.58094 0.61958 0.77255 0.50005 0.93267\n- 6 2.27245 4.56551 2.81204 2.42089 4.00371 3.17089 3.70332 3.40979 2.56366 3.04480 3.88034 2.78834 3.61792 2.89172 2.99868 1.98999 2.62850 3.06299 5.30718 3.90435 28 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03184 3.85859 4.58094 0.61958 0.77255 0.50005 0.93267\n- 7 2.76070 5.28631 1.57717 1.91154 4.58471 3.11951 3.66865 4.07505 2.62409 3.59382 4.42341 2.58482 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87445 4.59679 0.61958 0.77255 0.48576 0.95510\n- 665 1.84999 4.47988 3.10272 2.60428 3.84081 3.31876 3.71423 3.16349 2.40049 2.87554 3.73668 2.97818 3.79697 2.92725 2.78063 2.60335 2.70935 2.78094 5.17165 3.90223 712 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87445 4.59679 0.61958 0.77255 0.48576 0.95510\n- 666 2.77636 5.00443 3.02305 2.43168 4.35003 3.46896 3.56012 3.64504 1.70452 3.25354 4.08234 2.95408 3.86404 2.19395 2.26504 2.77211 2.92893 3.40390 5.38665 4.11699 713 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87445 4.59679 0.61958 0.77255 0.48576 0.95510\n- 667 2.65404 4.72527 2.91874 2.48953 3.60117 3.40630 2.38931 3.37687 2.43622 2.98022 3.84795 2.57383 3.83951 2.84879 2.82450 2.70592 2.77132 3.08345 4.99680 3.19497 714 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87445 4.59679 0.61958 0.77255 0.48576 0.95510\n- 668 2.42763 4.57957 2.90180 2.55807 4.08943 3.22985 3.74691 3.46382 2.26031 3.08628 3.97817 3.00147 2.05103 2.94167 2.84674 2.56991 2.85717 3.11463 5.36346 4.07368 715 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87445 4.59679 0.61958 0.77255 0.48576 0.95510\n- 669 2.95383 5.06551 2.48819 1.02256 4.41195 3.27522 3.86208 3.86623 2.74284 3.48299 4.45684 2.93379 3.87987 3.07764 3.15196 2.93597 3.25805 3.54984 5.58314 4.30528 716 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87445 4.59679 0.61958 0.77255 0.48576 0.95510\n- 670 2.75385 4.51097 3.36121 3.20045 4.19564 3.19837 4.27783 3.74146 3.25791 3.36812 4.41799 3.50701 0.82396 3.64662 3.50329 2.92138 3.19554 3.38662 5.38174 4.31630 717 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03134 3.87445 4.59679 0.61958 0.77255 0.48576 0.95510\n- 671 2.19982 3.68650 3.34678 2.96179 4.07974 1.83185 4.01659 3.49914 2.95193 3.17670 4.00755 3.03825 3.64572 3.27207 3.24134 1.89865 2.64718 3.02451 5.42596 4.19152 718 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03564 3.87445 4.25138 0.61958 0.77255 0.48576 0.95510\n- 672 2.50929 4.76343 2.95391 2.48022 4.13129 3.35970 3.62183 3.51946 1.74309 3.11388 3.94853 2.94810 3.69038 2.69250 2.62436 2.57654 2.69035 3.11539 5.32578 4.03361 719 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02129 3.86010 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1301 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad3\n-LENG 426\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:07 2023\n-NSEQ 99\n-EFFN 0.848969\n-CKSUM 2740057449\n-GA 200 200;\n-STATS LOCAL MSV -11.1622 0.69887\n-STATS LOCAL VITERBI -12.2754 0.69887\n-STATS LOCAL FORWARD -5.5587 0.69887\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49991 4.48414 2.99935 2.61092 3.36212 2.95599 3.66421 2.82643 2.77102 2.30925 3.68491 3.15262 3.28800 3.07421 2.90131 2.66392 2.86250 2.60369 4.37455 3.50242\n- 2.68618 4.42225 2.77520 2.73124 3.46354 2.40511 3.72495 3.29354 2.67741 2.69355 4.24679 2.90347 2.73740 3.18146 2.89799 2.37887 2.77520 2.98519 4.58477 3.61500\n- 0.05475 3.66135 3.59058 0.72259 0.66454 0.00000 *\n- 1 3.14887 4.66689 4.28377 3.89833 3.31855 3.99598 4.58459 2.51614 3.65335 1.88560 1.02317 4.14812 4.46213 4.02376 3.83276 3.51774 3.46066 2.54585 5.18462 3.96275 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08423 4.80658 0.61958 0.77255 0.50804 0.92049\n- 2 3.19908 4.56593 4.62628 4.25430 3.52547 4.28735 4.94783 0.84837 4.08660 2.07369 3.43355 4.47074 4.70295 4.41630 4.25968 3.80767 3.49642 1.87542 5.45648 4.20971 7 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08423 4.80658 0.61958 0.77255 0.50804 0.92049\n- 3 2.33979 4.25060 3.48343 3.21309 4.20420 3.06269 4.25429 3.48180 3.19743 3.28778 4.18663 3.38370 3.79536 3.54696 3.47956 2.26884 1.09325 3.05018 5.59680 4.36124 8 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08423 4.80658 0.61958 0.77255 0.50804 0.92049\n- 4 3.10708 5.09806 3.53266 2.94560 4.30706 3.68662 3.41225 3.93942 2.05602 3.40076 4.31804 3.32264 4.10614 2.91327 1.00065 3.13754 3.30841 3.63994 5.36147 4.11097 9 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08423 4.80658 0.61958 0.77255 0.50804 0.92049\n- 5 3.26296 4.56425 4.93063 4.39841 3.30453 4.59372 4.99792 1.26865 4.25253 1.30476 3.10636 4.63547 4.81645 4.43286 4.39809 3.96436 3.50336 1.85534 5.35869 4.22652 10 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08423 4.80658 0.61958 0.77255 0.50804 0.92049\n- 6 3.00408 5.43967 2.16091 0.99805 4.75358 3.30190 3.84888 4.24918 2.82336 3.79534 4.67166 2.80543 3.91810 3.02551 3.36120 2.91332 3.29623 3.85386 5.92910 4.48811 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08423 4.80658 0.61958 0.77255 0.50804 0.92049\n- 7 0.96345 4.19924 3.71968 3.42214 4.11807 3.08483 4.37439 3.16135 3.37992 3.10637 4.08734 3.50403 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 419 3.42501 4.82217 4.56045 4.20750 3.24019 4.27360 4.79124 2.46294 3.97315 0.63476 3.20171 4.46058 4.67304 4.28538 4.10880 3.88099 3.71088 2.55924 5.19698 3.97170 542 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 420 3.46604 4.81051 4.63841 4.27917 0.94878 4.35026 3.95723 2.74775 4.11946 1.92629 3.44252 4.25774 4.69559 4.21584 4.20757 3.77782 3.72610 2.78763 4.14716 2.49386 543 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 421 0.72543 4.32403 3.71323 3.52275 4.29814 3.14098 4.51520 3.45946 3.54541 3.32978 4.34115 3.60883 3.90276 3.86623 3.77541 2.67491 2.96870 3.07303 5.70168 4.53009 544 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 422 1.10385 4.18314 3.67415 3.31119 4.18448 3.04429 4.28287 3.41842 3.28083 3.24102 4.11195 3.42689 3.77473 3.57984 3.57223 2.32619 2.23791 2.86934 5.58004 4.37968 545 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 423 2.78759 4.69034 3.13895 2.85553 4.59942 0.72447 4.34642 4.11495 3.32039 3.77254 4.69170 3.41481 3.99077 3.63899 3.63991 2.91702 3.23975 3.64290 5.76791 4.63593 546 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 424 3.10520 4.45376 4.77122 4.29963 3.63822 4.38781 5.03322 1.65282 4.17161 2.16662 3.46436 4.50655 4.75294 4.46479 4.37749 3.79239 3.38914 0.89914 5.58947 4.35791 547 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 425 3.41480 4.74757 4.89417 4.35182 2.65352 4.61753 4.77400 2.27614 4.20077 0.77014 2.78187 4.59879 4.79320 4.29865 4.31748 3.97284 3.63524 2.43653 5.03012 3.80130 548 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02483 4.10399 4.82634 0.61958 0.77255 0.48576 0.95510\n- 426 2.52060 4.73925 2.72968 2.27408 4.37710 1.70021 3.86430 3.81575 2.75332 3.41752 4.24286 2.88354 3.82327 3.04599 3.20561 2.08334 2.94778 3.39207 5.63721 4.29910 549 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.09594 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,659 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad4\n-LENG 212\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:07 2023\n-NSEQ 100\n-EFFN 1.077271\n-CKSUM 2889488774\n-GA 50 50;\n-STATS LOCAL MSV -10.3280 0.70465\n-STATS LOCAL VITERBI -11.3547 0.70465\n-STATS LOCAL FORWARD -4.9414 0.70465\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51224 4.22048 2.83687 2.60365 3.28951 3.02697 3.66412 2.88078 2.63148 2.45808 3.70328 3.12515 3.28306 3.00080 2.90532 2.71223 2.94555 2.67318 3.89683 3.58551\n- 2.68639 4.42253 2.77543 2.73142 3.46376 2.40535 3.72478 3.29362 2.67698 2.69375 4.23955 2.90342 2.73752 3.18168 2.89794 2.37891 2.77537 2.98546 4.58505 3.61531\n- 0.87919 0.62417 3.01232 0.98356 0.46837 0.00000 *\n- 1 2.90006 5.09391 2.98388 2.63138 4.49235 3.55392 3.71016 3.89535 2.16121 3.40991 4.24735 2.97025 3.66267 2.85299 1.24150 2.90413 3.12383 3.54872 5.53130 4.26582 25 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02280 4.18808 4.91043 0.61958 0.77255 0.53935 0.87497\n- 2 2.95275 5.44990 1.34741 2.09231 4.77846 3.32502 3.83095 4.27829 2.79951 3.79225 4.62445 2.80762 2.20044 2.98994 3.36677 2.86587 3.23704 3.85768 5.95762 4.48719 26 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02280 4.18808 4.91043 0.61958 0.77255 0.53935 0.87497\n- 3 2.73258 1.77653 4.21269 3.64904 3.35122 3.82089 4.25252 2.21589 3.49333 2.08368 3.31177 3.85836 4.22896 3.76218 3.50557 3.14350 2.99666 1.95939 4.95931 3.75658 27 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02982 4.18808 4.25389 0.61958 0.77255 0.52731 0.89207\n- 4 2.60508 4.15287 4.24027 3.65933 3.14728 3.59455 4.18810 1.95731 3.53633 1.96747 3.04670 3.85966 4.21644 3.61691 3.70926 3.15831 2.94878 1.55656 4.83592 3.64808 28 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02282 4.18720 4.90955 0.61958 0.77255 0.54040 0.87350\n- 5 3.12324 4.48524 4.66323 4.13172 1.44440 4.26035 4.25037 1.81088 3.98785 1.90204 3.18830 4.23529 4.55472 4.11132 4.09498 3.58772 3.35338 2.29845 4.57580 2.97543 29 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02282 4.18720 4.90955 0.61958 0.77255 0.53360 0.88307\n- 6 3.01271 4.43997 4.39557 3.85008 2.49273 4.09807 4.13181 2.54073 3.70834 1.06787 3.14401 4.02592 4.41495 3.88987 3.86782 3.27930 3.24099 2.51276 4.55237 2.80914 30 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02275 4.19055 4.91290 0.61958 0.77255 0.52672 0.89291\n- 7 2.98506 4.39787 4.52096 3.99628 3.50440 4.17375 4.65197 2.00717 3.84366 1.78425 3.33455 4.21787 4.544'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02224 4.21261 4.93496 0.61958 0.77255 0.50944 0.91837\n- 205 3.61451 5.03021 4.40146 4.09055 2.91610 4.06335 4.14748 3.72791 3.69544 3.11915 4.33146 4.21383 4.57714 4.15199 3.56081 3.80138 3.91614 3.59841 0.59711 2.90164 263 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 4.21261 4.27635 0.61958 0.77255 0.50944 0.91837\n- 206 3.65073 4.96055 4.70001 4.41461 0.74591 4.43520 3.84608 3.06741 4.26289 2.32310 3.72663 4.28765 4.79644 4.31067 4.31728 3.87766 3.91478 3.08810 4.00378 2.27882 264 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02240 4.20589 4.92823 0.61958 0.77255 0.51781 0.90591\n- 207 2.52726 4.55768 3.11906 2.92471 4.38514 3.21847 4.14588 3.80492 2.86646 3.48465 4.36853 3.27023 1.08194 3.38752 3.30334 2.60369 3.00678 3.36305 5.70110 4.41895 265 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02240 4.20589 4.92823 0.61958 0.77255 0.51781 0.90591\n- 208 2.35912 4.57446 3.12656 2.31633 3.67981 3.50063 3.72351 3.04114 2.60503 2.55551 3.33525 3.07894 3.31382 2.81728 2.89251 2.71990 2.83999 2.45016 5.11980 3.72835 266 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05452 4.20589 3.26616 0.61958 0.77255 0.51781 0.90591\n- 209 2.52373 5.01419 2.74781 1.73107 4.30790 3.14859 3.62842 3.75748 2.34972 3.30117 4.08242 2.84346 3.60194 2.69193 2.89078 2.63356 2.67469 3.06668 5.48871 4.10926 267 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06335 4.17449 3.07910 0.61958 0.77255 0.55525 0.85315\n- 210 2.50739 4.53906 3.18267 2.37343 3.66682 3.23458 3.71191 3.06814 2.60102 2.75037 3.62955 2.90309 3.44980 2.93408 3.00005 2.59377 2.63651 2.31764 4.60956 3.56425 268 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10951 4.13519 2.43348 0.61958 0.77255 0.59869 0.79747\n- 211 2.27866 4.45057 3.04829 2.39181 3.87879 3.14958 3.64760 3.27847 2.47824 2.79422 3.74928 2.99681 2.96305 2.68606 2.87991 2.56931 2.76190 2.95600 5.19221 3.57958 269 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13662 4.05185 2.20445 0.61958 0.77255 0.64952 0.73876\n- 212 2.04770 4.14508 3.13884 2.59126 3.75042 3.06609 3.58189 3.13624 2.52200 2.79955 3.65311 3.05807 3.67331 2.72240 2.91181 2.64051 2.64002 2.72736 5.10472 3.82440 270 a - - -\n- 2.68615 4.42228 2.77519 2.73124 3.46357 2.40502 3.72497 3.29357 2.67740 2.69358 4.24693 2.90350 2.73742 3.18149 2.89804 2.37887 2.77519 2.98516 4.58480 3.61506\n- 0.11508 2.21909 * 0.73397 0.65392 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1430 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad5\n-LENG 469\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:09 2023\n-NSEQ 100\n-EFFN 1.211548\n-CKSUM 2386340573\n-GA 50 50;\n-STATS LOCAL MSV -11.5824 0.69835\n-STATS LOCAL VITERBI -12.5685 0.69835\n-STATS LOCAL FORWARD -5.9043 0.69835\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47281 4.33780 3.04159 2.65207 3.35033 2.85193 3.71025 2.78110 2.71383 2.45661 3.60332 3.17212 3.36922 3.07102 2.81865 2.59099 2.87240 2.64362 4.64528 3.46649\n- 2.68625 4.42228 2.77532 2.73134 3.46363 2.40525 3.72497 3.29357 2.67738 2.69366 4.24362 2.90352 2.73750 3.18150 2.89807 2.37888 2.77484 2.98529 4.58478 3.61516\n- 0.49176 1.39864 1.95534 0.91176 0.51386 0.00000 *\n- 1 2.37206 4.17206 4.05558 3.48735 2.32703 3.74484 4.08625 2.46423 3.37547 2.16599 2.07053 3.72274 4.12849 3.61132 3.58340 2.95512 2.86778 2.25244 4.78777 3.57976 32 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03902 4.15477 3.79089 0.61958 0.77255 0.65791 0.72967\n- 2 2.08466 4.39142 3.36797 2.79205 3.63690 3.39433 3.86562 3.04082 2.80363 2.70818 3.66571 3.23557 3.87991 3.12662 3.18797 1.88415 2.56325 2.45884 5.13985 3.88633 33 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08249 4.13970 2.76069 0.61958 0.77255 0.65816 0.72940\n- 3 2.66468 4.94356 2.90484 2.39948 4.24388 3.31389 3.53165 3.57683 2.26895 3.22435 4.02623 2.76352 3.83284 2.75209 2.00664 2.18235 2.89433 3.31701 5.41325 4.07727 34 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02516 4.09073 4.81308 0.61958 0.77255 0.70487 0.68156\n- 4 2.62867 4.53257 3.24330 2.66123 2.47699 3.51530 3.72139 3.07813 1.98277 2.68931 3.50780 3.00563 3.90415 2.96550 2.93996 2.69193 2.85901 2.82527 5.03707 3.74275 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02497 4.09853 4.82088 0.61958 0.77255 0.48746 0.95239\n- 5 2.61743 4.39064 3.25977 2.84768 2.48725 3.57301 3.81244 2.89871 2.26455 2.52497 2.74011 3.27381 3.95347 3.11496 2.98495 2.81283 2.79625 2.66766 4.95537 3.44709 36 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02196 4.22552 4.94786 0.61958 0.77255 0.47800 0.96764\n- 6 2.78326 5.19519 2.91943 2.44912 4.55139 3.49729 3.65201 3.99646 1.86448 3.47458 4.25176 2.23803 3.90094 2.01144 2.48015 2.75032 2.93533 3.59628 5.59303 4.24360 37 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02088 4.27521 4.99755 0.61958 0.77255 0.51808 0.90550\n- 7 2.02776 3.79803 4.06902 3.48362 3.21077 3.59300 4.02843 2.28735 3.36625 2.15267 3.21895 3.69793 3.87'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28017 5.00252 0.61958 0.77255 0.50539 0.92450\n- 462 2.42073 5.11002 2.97708 2.06831 4.43992 3.47066 3.45631 3.79526 2.13709 3.39183 4.16272 2.95285 3.86242 2.59237 1.99990 2.56065 2.93218 3.49426 5.53600 4.17391 519 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28017 5.00252 0.61958 0.77255 0.50539 0.92450\n- 463 2.11091 4.84593 3.05983 2.50125 4.09837 3.47692 3.61585 3.38609 2.13183 3.11127 3.92641 2.98139 3.86953 2.75103 2.68068 2.62457 2.22795 3.11980 5.34901 4.02238 520 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02886 4.28017 4.22633 0.61958 0.77255 0.50539 0.92450\n- 464 3.29075 4.60909 4.99906 4.56512 3.64846 4.58632 5.24854 0.78312 4.40822 2.11553 3.47622 4.74889 4.93213 4.69121 4.57676 4.02536 3.57619 1.72969 5.68215 4.45556 521 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02943 4.27225 4.19631 0.61958 0.77255 0.51595 0.90865\n- 465 2.50551 5.01677 2.96246 1.69836 4.31298 3.39127 3.63277 3.67169 2.22268 3.03442 3.95811 2.94369 3.84266 2.66997 2.58213 2.60839 2.89312 3.38143 5.47406 4.11143 522 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02112 4.26394 4.98629 0.61958 0.77255 0.52683 0.89276\n- 466 2.62969 5.09186 2.88041 1.85178 4.40746 2.67976 3.62700 3.86871 2.12578 3.38153 3.82371 2.79016 3.82984 2.60749 2.79607 2.50818 2.89834 3.46768 5.54012 4.15317 523 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02112 4.26394 4.98629 0.61958 0.77255 0.52683 0.89276\n- 467 2.46777 4.97826 2.77530 2.18315 4.32003 1.66627 3.61720 3.64775 2.59088 3.33680 4.15550 2.75722 3.89543 2.92394 3.02729 2.74877 3.00285 3.39604 5.55623 4.20034 524 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02112 4.26394 4.98629 0.61958 0.77255 0.52683 0.89276\n- 468 2.38705 4.26452 2.94610 2.18214 4.11919 2.19926 3.67606 3.44974 2.43652 3.13672 3.94501 2.94806 3.84842 2.79131 2.93866 2.49261 2.84409 3.14752 5.37260 4.03299 525 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19881 4.26394 1.79440 0.61958 0.77255 0.52683 0.89276\n- 469 2.52615 4.78499 2.86022 2.43728 4.02379 3.29166 3.40373 3.34137 2.41253 3.04279 3.72061 2.84456 3.81152 2.73373 2.17388 2.51318 2.82260 2.87738 4.97444 3.95497 526 r - - -\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72475 3.29347 2.67735 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98516 4.58478 3.61504\n- 0.04819 3.05664 * 0.75863 0.63169 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4187 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad6\n-LENG 1388\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:12 2023\n-NSEQ 100\n-EFFN 0.601196\n-CKSUM 149228474\n-GA 150 150;\n-STATS LOCAL MSV -13.3070 0.69491\n-STATS LOCAL VITERBI -14.1935 0.69491\n-STATS LOCAL FORWARD -7.4810 0.69491\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47186 4.42846 2.83509 2.68836 3.27617 2.87066 3.67770 2.86064 2.73932 2.38576 3.72762 3.10705 3.33718 3.13793 2.80566 2.70610 2.89371 2.62547 4.70617 3.45517\n- 2.68618 4.42222 2.77520 2.73123 3.46353 2.40513 3.72494 3.29354 2.67740 2.69356 4.24671 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98519 4.58470 3.61502\n- 0.06214 3.23895 3.86097 0.72002 0.66698 0.00000 *\n- 1 2.71291 4.44520 3.97604 3.54834 3.29456 3.76357 4.33808 2.37798 3.34024 1.89017 1.48780 3.82065 4.24142 3.71565 3.56661 3.17693 3.15775 2.33932 5.11170 3.89149 17 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02952 3.93314 4.65549 0.61958 0.77255 0.49713 0.93718\n- 2 1.00043 4.18590 3.49478 3.27849 4.09882 3.01609 4.30242 3.20378 3.29137 3.09589 4.10823 3.40852 3.76417 3.62624 3.54609 2.51751 2.76883 2.84325 5.54783 4.33001 18 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02952 3.93314 4.65549 0.61958 0.77255 0.49713 0.93718\n- 3 2.69574 4.79159 3.05697 2.59080 4.22052 3.39670 3.66844 3.56863 1.58573 3.17779 4.03668 3.04294 3.86409 2.83119 2.49904 2.71334 2.30340 3.24006 5.37646 4.11050 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02952 3.93314 4.65549 0.61958 0.77255 0.49260 0.94427\n- 4 2.94660 4.38583 4.42410 3.95276 3.48155 4.09608 4.70647 1.83109 3.78327 2.03955 3.33026 4.18497 4.51450 4.11834 4.00952 3.49103 3.24455 1.05729 5.36819 4.10736 20 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02944 3.93602 4.65836 0.61958 0.77255 0.49437 0.94150\n- 5 3.07437 4.44260 4.60392 4.12507 3.39539 4.30997 4.83268 1.11211 3.95707 1.87197 3.24910 4.36690 4.64944 4.25623 4.15871 3.70431 3.34774 1.67228 5.36625 4.13696 21 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02944 3.93602 4.65836 0.61958 0.77255 0.49437 0.94150\n- 6 2.20789 4.36726 3.08465 2.82913 4.08867 3.09620 3.99599 3.44980 2.86467 3.10585 4.06789 3.16287 1.54375 3.16759 3.19408 2.55663 2.83015 3.06913 5.45899 4.18223 22 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02944 3.93602 4.65836 0.61958 0.77255 0.49437 0.94150\n- 7 3.03772 4.38365 4.66149 4.16682 3.51311 4.33203 4.89983 1.39987 4.04831 2.03053 3.33239 4.40003 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72652 4.44887 0.61958 0.77255 0.66186 0.72545\n- 1381 2.13698 4.29051 3.32323 2.78919 3.53012 3.31761 3.79402 2.54913 2.70628 2.38940 3.46589 3.20571 3.85194 2.96593 3.04977 2.70014 2.75566 2.37599 4.98922 3.74123 1460 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72652 4.44887 0.61958 0.77255 0.66186 0.72545\n- 1382 2.40862 4.76789 2.63336 1.90751 4.08623 3.26335 3.61886 3.46186 2.37503 3.08851 3.94627 2.84228 3.67161 2.74203 2.75215 2.64240 2.87706 3.03995 5.34072 4.01498 1461 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72652 4.44887 0.61958 0.77255 0.66186 0.72545\n- 1383 2.50850 4.45220 2.90138 2.42446 3.89855 3.31568 3.50883 3.25157 2.33519 2.93281 3.77716 2.78629 3.76078 2.60804 2.76226 2.24000 2.79474 2.99865 5.18522 3.88509 1462 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72652 4.44887 0.61958 0.77255 0.66186 0.72545\n- 1384 2.19595 4.27821 2.69958 2.62110 4.15380 1.71963 3.91473 3.55653 2.87076 3.25825 4.12660 2.98264 3.49212 3.16254 3.24080 2.42456 2.73228 3.10055 5.47084 4.20053 1463 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67739 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04579 3.40915 4.44887 0.59018 0.80795 0.65029 0.73792\n- 1385 2.25684 4.21215 3.36231 2.84664 3.10147 3.32081 3.77470 2.65286 2.79203 2.45712 3.30611 3.23146 3.84871 3.10522 3.13897 2.57245 2.72238 2.28710 4.85445 3.52998 1465 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03609 3.73555 4.45790 0.61958 0.77255 0.50168 0.93017\n- 1386 2.64006 4.74458 2.98102 2.45906 4.12478 2.51847 3.63212 3.51721 2.22861 3.11102 3.95615 2.98689 3.81882 2.79823 2.00199 2.69030 2.89608 3.09334 5.31496 4.03551 1466 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03191 3.85669 4.57903 0.61958 0.77255 0.56536 0.83969\n- 1387 2.07449 4.42843 2.93576 2.51672 4.00410 2.08714 3.80296 3.36443 2.67177 2.98680 3.90608 3.02033 3.73683 2.94900 3.06058 2.54371 2.73057 2.95774 5.33343 4.05250 1467 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04016 3.85669 4.00490 0.61958 0.77255 0.56064 0.84594\n- 1388 2.47712 4.41318 3.09368 2.59368 3.75614 3.35923 3.65384 3.05887 2.50663 2.76732 3.67437 2.28738 3.80620 2.86658 2.91448 2.64107 2.74241 2.46749 5.11433 3.82971 1468 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02169 3.84159 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1694 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad7\n-LENG 557\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:13 2023\n-NSEQ 100\n-EFFN 0.625610\n-CKSUM 2306397529\n-GA 100 100;\n-STATS LOCAL MSV -11.9682 0.69753\n-STATS LOCAL VITERBI -12.7934 0.69753\n-STATS LOCAL FORWARD -5.7595 0.69753\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52622 4.35786 2.86457 2.68103 3.13999 2.97867 3.65966 2.86332 2.69652 2.31744 3.63649 3.17292 3.44076 3.11514 2.75047 2.74060 2.90153 2.67384 4.91225 3.36809\n- 2.68612 4.42228 2.77519 2.73123 3.46357 2.40514 3.72489 3.29352 2.67744 2.69358 4.24691 2.90350 2.73736 3.18150 2.89796 2.37888 2.77519 2.98517 4.58459 3.61506\n- 0.05361 3.32998 4.11021 1.25741 0.33462 0.00000 *\n- 1 3.03482 4.57095 4.13792 3.73799 3.24528 3.89547 4.45416 2.42914 3.50144 1.82802 1.22914 4.00522 4.35692 3.87816 3.69704 3.39230 3.34194 2.44467 5.09679 3.86555 17 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02889 3.95452 4.67687 0.61958 0.77255 0.49289 0.94381\n- 2 1.48541 4.22113 3.35066 2.92866 4.00926 2.79838 3.98790 3.20460 2.92784 3.08053 3.92475 3.20773 3.30265 3.24081 3.28526 2.16459 2.62410 2.97138 5.37019 4.13325 18 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02889 3.95452 4.67687 0.61958 0.77255 0.49289 0.94381\n- 3 3.20713 4.64397 4.44148 3.99381 3.08089 4.24407 4.60883 2.16923 3.74075 0.88306 3.02046 4.26331 4.58146 4.05757 3.91608 3.67260 3.47570 2.27399 5.07040 3.81143 19 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02889 3.95452 4.67687 0.61958 0.77255 0.49289 0.94381\n- 4 2.63313 4.76207 2.94008 2.50065 4.09257 3.36043 3.66546 3.53367 2.36248 3.00116 3.97024 2.98305 3.82620 2.14257 2.65320 1.99001 2.89639 3.20118 5.33132 4.01525 20 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02889 3.95452 4.67687 0.61958 0.77255 0.49289 0.94381\n- 5 2.83541 4.97205 3.07466 2.61288 4.41538 3.36717 3.64360 3.80647 1.29482 3.33064 4.18533 3.06115 3.91937 2.79393 2.28124 2.69126 3.06927 3.46378 5.44164 4.19748 21 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02889 3.95452 4.67687 0.61958 0.77255 0.49289 0.94381\n- 6 3.01551 5.14931 3.40089 2.74510 4.59019 3.64075 3.58270 3.93832 1.38212 3.37956 4.24316 3.15629 4.00542 2.62930 1.63426 3.00711 3.18048 3.61819 5.42991 4.25346 22 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02889 3.95452 4.67687 0.61958 0.77255 0.49289 0.94381\n- 7 3.07880 5.21835 0.80716 2.38851 4.60664 3.27376 4.00488 4.21371 3.10478 3.80759 4.78783 2.94887 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 550 2.42603 4.67588 3.00863 1.95996 3.83474 3.41036 3.62909 3.21429 2.40958 2.78313 3.63625 2.97178 3.55834 2.78446 2.88015 2.63234 2.80395 2.87039 5.20356 3.89113 573 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 551 2.57096 4.97993 2.55385 2.24423 4.27774 3.15446 3.53528 3.72975 2.27729 3.26210 4.03807 2.69498 3.57240 2.62366 2.35132 2.56501 2.76131 3.34591 5.43836 3.83635 574 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89800 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03269 3.77570 4.68406 0.60312 0.79208 0.48576 0.95510\n- 552 2.36403 4.86879 2.47713 2.31936 4.18612 2.93804 3.61167 3.59439 2.41106 3.17538 3.99372 2.53949 3.68352 2.71768 2.89810 2.55121 2.56140 3.19447 5.40761 4.04459 576 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03243 3.96171 4.35216 0.61958 0.77255 0.48576 0.95510\n- 553 2.50262 4.80908 2.84609 1.95717 4.09166 3.24193 3.61595 3.41373 2.36648 3.10430 3.91864 2.90053 3.78487 2.69710 2.85922 2.43985 2.53303 3.11673 5.33654 3.99673 577 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02879 3.95807 4.68041 0.61958 0.77255 0.48939 0.94933\n- 554 2.25366 4.51841 3.05168 2.50593 3.92573 2.29270 3.72891 3.22176 2.55180 2.96892 3.80898 3.02999 3.66607 2.92569 2.95184 2.45970 2.55763 2.95607 5.24781 3.95754 578 a - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73737 3.18147 2.89801 2.37887 2.77517 2.98512 4.58477 3.61504\n- 0.05508 3.11640 4.68041 0.63409 0.75592 0.48939 0.94933\n- 555 1.97595 4.44671 3.15996 2.59674 3.75739 3.25237 3.72986 3.08328 2.61576 2.81037 3.66711 3.04670 3.37667 2.89361 2.99810 2.51627 2.61909 2.60133 5.12094 3.84794 581 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03597 3.95807 4.12061 0.61958 0.77255 0.48939 0.94933\n- 556 2.58483 4.26578 3.02776 2.45482 3.98425 2.59833 3.59792 3.38731 2.27392 2.99815 3.82629 2.90485 3.80589 2.74588 2.34633 2.58565 2.82169 2.97702 5.24335 3.93744 582 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04167 3.95108 3.83611 0.61958 0.77255 0.49626 0.93854\n- 557 2.10155 4.53725 2.99881 2.50038 3.90530 2.61550 3.70443 3.22933 2.54093 2.94822 3.78777 3.00933 3.58354 2.83316 2.98704 2.52129 2.53742 2.93646 5.22823 3.93298 583 a - - -\n- 2.68612 4.42233 2.77523 2.73118 3.46362 2.40508 3.72503 3.29362 2.67746 2.69363 4.24698 2.90355 2.73723 3.18141 2.89806 2.37888 2.77515 2.98506 4.58485 3.61511\n- 0.25167 1.50283 * 0.92178 0.50718 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MADS__mad8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5597 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MADS__mad8\n-LENG 1858\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 4 17:24:22 2023\n-NSEQ 100\n-EFFN 0.601196\n-CKSUM 1895026433\n-GA 100 100;\n-STATS LOCAL MSV -13.4455 0.69446\n-STATS LOCAL VITERBI -14.5807 0.69446\n-STATS LOCAL FORWARD -8.1352 0.69446\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43043 4.43151 2.87779 2.66744 3.32807 2.93012 3.70601 2.84048 2.77411 2.36730 3.69217 3.18001 3.27843 3.13779 2.84980 2.65108 2.88752 2.57381 4.55544 3.59049\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05767 3.94486 3.30544 0.61958 0.77255 0.00000 *\n- 1 3.00437 4.54610 4.09736 3.69414 3.22732 3.86741 4.41893 2.40739 3.45979 1.81524 1.29482 3.96613 4.32822 3.83871 3.65988 3.35817 3.31053 2.41870 5.07414 3.83987 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04197 3.91719 3.85345 0.61958 0.77255 0.51220 0.91424\n- 2 2.37923 4.37525 3.00094 2.71672 4.15113 3.07200 3.90802 3.55431 2.65240 3.23019 4.07949 2.97984 3.72388 3.13253 3.10568 1.43614 2.56733 3.12696 5.46214 4.18420 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90558 4.62793 0.61958 0.77255 0.52288 0.89848\n- 3 2.50803 4.83088 3.01604 2.52640 4.15013 3.42111 3.62237 3.54585 2.20025 3.07628 3.97599 3.00131 3.85232 1.87998 2.33855 2.73498 2.93536 3.18138 5.32635 4.04150 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90558 4.62793 0.61958 0.77255 0.52288 0.89848\n- 4 2.40782 4.29980 3.24067 3.09423 4.21992 1.01879 4.23117 3.69670 3.22599 3.41877 4.35811 3.32601 3.75542 3.55555 3.50286 2.57859 2.89308 3.09906 5.52494 4.32306 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90558 4.62793 0.61958 0.77255 0.52288 0.89848\n- 5 3.21178 4.59408 4.57160 4.04513 2.59554 4.36476 4.51486 2.12246 3.90127 0.98082 2.90953 4.30435 4.60362 4.07079 4.06917 3.71207 3.44351 2.26566 4.86920 3.55686 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90558 4.62793 0.61958 0.77255 0.52288 0.89848\n- 6 2.84015 4.93966 3.23386 2.64697 4.21061 3.53887 3.35154 3.65942 2.01510 3.18075 4.04590 3.08653 3.92656 2.49992 1.55294 2.86555 3.03912 3.20369 5.29560 4.04004 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90558 4.62793 0.61958 0.77255 0.52288 0.89848\n- 7 2.91472 5.12352 2.41783 1.10706 4.42530 3.27185 3.80973 3.88890 2.67442 3.48276 4.43195 2.86663 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90025 4.62259 0.61958 0.77255 0.52770 0.89150\n- 1851 1.19773 4.17080 3.27594 2.98314 4.13082 2.67264 4.12570 3.39173 3.08687 3.19801 4.08570 3.23920 3.69051 3.40757 3.39251 2.43221 2.71802 2.92999 5.50838 4.28110 1922 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90025 4.62259 0.61958 0.77255 0.52770 0.89150\n- 1852 2.41546 4.28339 3.35143 3.08804 3.98363 3.11547 4.13412 3.12584 2.97590 2.98565 3.99977 3.33339 3.80454 3.43139 3.29446 2.60611 1.22962 2.81258 5.41312 4.17155 1923 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90025 4.62259 0.61958 0.77255 0.52770 0.89150\n- 1853 2.98518 5.08347 3.38063 2.74077 4.49508 3.61087 3.52249 3.86474 1.55647 3.32622 4.19794 3.14701 3.98527 2.71552 1.49017 2.98840 3.15745 3.55240 5.38352 4.20094 1924 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90025 4.62259 0.61958 0.77255 0.52770 0.89150\n- 1854 2.62598 4.25279 3.92326 3.46503 3.59826 3.58980 4.32566 2.15438 3.34278 2.31059 3.49619 3.70827 4.12486 3.68496 3.61229 2.97726 2.30039 1.40005 5.26655 4.03658 1925 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90025 4.62259 0.61958 0.77255 0.52770 0.89150\n- 1855 0.99542 4.18323 3.45354 3.24357 4.12029 2.94624 4.27619 3.28328 3.27018 3.16598 4.14704 3.38690 3.74262 3.60369 3.52582 2.51279 2.79924 2.89951 5.52046 4.32327 1926 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90025 4.62259 0.61958 0.77255 0.52770 0.89150\n- 1856 2.75532 4.33817 4.13910 3.79303 3.57767 3.73435 4.60845 2.02499 3.66292 2.24924 3.51637 3.97643 4.29578 4.01936 3.88145 3.20848 3.14866 1.03591 5.37779 4.10822 1927 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03053 3.90025 4.62259 0.61958 0.77255 0.52770 0.89150\n- 1857 2.56432 4.89490 2.74763 2.25402 4.17574 2.97824 3.56525 3.60925 2.03155 3.08260 3.89304 2.80277 3.76403 2.63427 2.70887 2.51029 2.79255 3.21746 5.36781 4.01300 1928 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03689 3.90025 4.13625 0.61958 0.77255 0.52770 0.89150\n- 1858 2.61704 5.11976 2.00187 1.94305 4.42086 3.13542 3.62170 3.88879 2.45636 3.41891 4.21943 2.65531 3.76420 2.74528 2.96333 2.38724 2.91191 3.43562 5.60133 4.18335 1929 e - - -\n- 2.68619 4.42234 2.77526 2.73128 3.46357 2.40506 3.72483 3.29357 2.67741 2.69347 4.24692 2.90355 2.73743 3.18146 2.89799 2.37880 2.77515 2.98520 4.58481 3.61512\n- 0.24480 1.52722 * 1.06197 0.42430 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MMB_gp29_gp30__gp29.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MMB_gp29_gp30__gp29.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,953 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MMB_gp29_gp30__gp29\n-LENG 310\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:43 2023\n-NSEQ 86\n-EFFN 1.356873\n-CKSUM 1365655485\n-GA 20 20;\n-STATS LOCAL MSV -11.1554 0.70102\n-STATS LOCAL VITERBI -11.8188 0.70102\n-STATS LOCAL FORWARD -5.8534 0.70102\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49010 4.80959 2.73727 2.49626 3.39559 2.96551 3.79279 2.95143 2.56621 2.58266 3.75637 3.07507 3.51049 2.98198 2.78375 2.68321 2.80743 2.60793 4.22165 3.88457\n- 2.68618 4.42229 2.77521 2.73121 3.46353 2.40516 3.72498 3.29358 2.67741 2.69359 4.24617 2.90348 2.73735 3.18143 2.89800 2.37888 2.77523 2.98519 4.58481 3.61507\n- 0.29968 2.76575 1.62957 0.96989 0.47663 0.00000 *\n- 1 3.11142 4.61725 4.44409 3.97809 3.27241 4.12028 4.64652 2.35473 3.74500 1.76758 1.16923 4.21384 4.53139 4.05907 3.93037 3.52721 3.40779 2.27197 5.21547 4.01968 22 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03292 4.15703 4.09080 0.61958 0.77255 0.50945 0.91836\n- 2 2.49180 4.92025 2.72844 2.26298 4.18438 3.44355 3.64364 3.61670 2.37037 3.14838 3.01558 2.75337 3.10391 2.77596 2.89618 2.40797 2.64310 3.13966 5.40539 3.91466 23 e - - -\n- 2.68574 4.42267 2.77513 2.73058 3.46375 2.40541 3.72492 3.29334 2.67758 2.69356 4.24713 2.90368 2.73742 3.18171 2.89815 2.37881 2.77501 2.98542 4.58519 3.61501\n- 0.80510 1.12937 1.47090 1.75729 0.18936 0.61592 0.77684\n- 3 2.44287 4.93098 2.77053 2.26748 4.22131 3.05450 3.59394 3.66313 2.24027 3.21916 4.00783 2.82238 3.55856 2.48733 2.84524 2.35067 2.56773 3.29620 5.41731 4.04917 58 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02709 4.01796 4.74031 0.61958 0.77255 0.68587 0.70048\n- 4 2.46205 5.06211 2.59948 2.07923 4.37980 3.14961 3.58226 3.84756 2.26485 3.28741 4.11281 2.78726 3.19159 2.60468 2.55108 2.55320 2.78017 3.43850 5.51038 4.11457 59 e - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90343 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.03823 3.51981 4.84028 0.55867 0.84856 0.71954 0.66743\n- 5 2.54721 5.13551 2.32986 2.00969 4.46053 3.14742 3.23850 3.93925 2.27501 3.43160 4.18572 2.65830 3.79381 2.59803 2.77980 2.49002 2.81421 3.51615 5.57603 4.16557 61 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02380 4.14575 4.86809 0.61958 0.77255 0.51759 0.90623\n- 6 2.42944 4.88066 2.71880 2.35332 3.83114 3.26950 3.65151 3.40076 2.38533 3.06133 3.84053 2.93088 3.44605 2.75416 2.59791 2.42164 2.72342 2.99654 5.37321 3.45456 62 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02100 4.26968 4.99203 0.61958 0.77255 0.57992 0.82085\n- 7 2.54479 5.08298 2.51631 2.18537 4.10990 3.18904 3.28543 3.86787 2.34419 3.32788 4.13131 2.7503'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35464 5.07699 0.61958 0.77255 0.50482 0.92536\n- 303 2.70216 5.51929 1.02594 2.16752 4.86175 3.30199 3.90736 4.35737 2.88016 3.87081 4.69759 2.77484 3.99242 3.06487 3.45359 2.81414 3.30470 3.73157 6.04461 4.56837 444 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35464 5.07699 0.61958 0.77255 0.50482 0.92536\n- 304 2.44006 5.27816 1.83750 2.19530 4.59939 2.70591 3.61555 4.08568 2.38766 3.57390 4.33543 2.63827 3.87971 2.63288 3.01315 2.54326 3.01318 3.65792 5.71842 4.29262 445 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35464 5.07699 0.61958 0.77255 0.50482 0.92536\n- 305 2.69246 5.12151 1.88350 2.06117 4.42895 3.08803 3.66113 3.72937 2.42917 3.18384 4.17666 2.77445 3.85313 2.77458 2.92114 2.53459 2.80861 3.49260 5.57689 3.85336 446 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10258 4.35464 2.46928 0.61958 0.77255 0.50482 0.92536\n- 306 2.36293 5.00337 2.65503 2.28558 4.30818 3.36772 3.63809 3.65733 2.40524 3.30073 4.07610 2.68294 3.14278 2.75766 2.88785 2.15711 2.55251 3.26302 5.48628 4.11014 447 s - - -\n- 2.68619 4.42226 2.77520 2.73120 3.46347 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37885 2.77520 2.98519 4.58477 3.61504\n- 0.28905 2.94842 1.61644 0.45368 1.00864 0.61257 0.78079\n- 307 2.33156 4.92559 2.50884 2.25437 4.20795 3.03991 3.60294 3.64793 2.38692 3.00863 3.99924 2.88033 3.78678 2.59231 2.82967 2.44098 2.59620 3.28504 5.41292 4.04577 449 e - - -\n- 2.68610 4.42227 2.77514 2.73122 3.46356 2.40515 3.72497 3.29356 2.67743 2.69350 4.24692 2.90345 2.73742 3.18148 2.89803 2.37886 2.77522 2.98520 4.58479 3.61505\n- 0.08744 3.07730 3.27964 0.94492 0.49219 0.81985 0.58071\n- 308 2.38555 4.88967 2.81819 2.15530 4.20209 3.17132 3.61952 3.63939 2.41150 3.20757 4.00367 2.76376 3.24896 2.59491 2.88530 2.30217 2.59653 3.27588 5.41627 4.05494 458 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02675 4.03030 4.75264 0.61958 0.77255 0.84266 0.56311\n- 309 2.32538 4.71783 3.00363 2.41305 3.95056 3.03395 3.39882 3.21923 2.43534 2.97756 3.80147 2.96222 3.45499 2.66707 2.74005 2.43244 2.71037 2.88781 5.23729 3.91605 459 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05016 4.03030 3.46873 0.61958 0.77255 0.84266 0.56311\n- 310 2.47620 4.72169 2.93514 2.42133 3.97706 3.39283 3.62978 3.38596 2.43315 2.95798 3.82543 2.90197 2.97690 2.68953 2.72707 2.24539 2.81176 2.79738 5.25688 3.93517 460 s - - -\n- 2.68566 4.42252 2.77530 2.73096 3.46381 2.40525 3.72502 3.29369 2.67768 2.69382 4.24717 2.90374 2.73720 3.18152 2.89817 2.37836 2.77500 2.98537 4.58504 3.61530\n- 0.52063 0.90177 * 1.39678 0.28421 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MMB_gp29_gp30__gp30.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MMB_gp29_gp30__gp30.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,329 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MMB_gp29_gp30__gp30\n-LENG 102\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:44 2023\n-NSEQ 38\n-EFFN 1.980713\n-CKSUM 957864104\n-GA 20 20;\n-STATS LOCAL MSV -9.6761 0.71705\n-STATS LOCAL VITERBI -10.1246 0.71705\n-STATS LOCAL FORWARD -4.4928 0.71705\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37246 4.40697 3.08149 2.88710 3.64290 2.83608 3.73883 2.71640 2.85563 2.30470 3.53455 3.22073 3.23156 3.30079 2.90975 2.58882 2.75287 2.37203 4.95912 3.82610\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12978 3.82609 2.30339 0.61958 0.77255 0.00000 *\n- 1 2.86569 4.43945 3.90039 3.48834 3.15851 3.72822 4.25625 2.32073 3.26196 1.77984 1.67708 3.78157 4.19276 3.65622 3.48274 3.19776 3.17074 2.30903 4.97743 3.72352 1 m - - -\n- 2.68586 4.42218 2.77515 2.73087 3.46343 2.40519 3.72519 3.29370 2.67755 2.69355 4.24746 2.90362 2.73775 3.18202 2.89723 2.37907 2.77474 2.98533 4.58459 3.61531\n- 0.24375 1.58624 4.45485 2.78510 0.06371 0.56076 0.84578\n- 2 1.86001 4.30270 3.16651 2.75279 3.90607 3.12566 3.80658 3.17227 2.57385 2.91262 3.81439 3.10088 3.71750 3.03716 2.52623 2.51835 2.47174 2.84190 5.24924 4.00194 56 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10509 3.73251 2.57932 0.61958 0.77255 0.56076 0.84578\n- 3 2.66131 4.79137 2.38391 1.64436 4.23430 2.62946 3.69180 3.65855 2.56075 3.29447 4.19068 2.77615 3.71414 2.89524 2.97504 2.67434 2.97826 3.30577 5.45152 4.13754 57 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03873 3.66615 4.38849 0.61958 0.77255 0.60696 0.78747\n- 4 2.75045 4.80047 2.91132 2.27901 4.12313 3.35308 3.58357 3.52381 2.09242 3.09995 4.00557 2.97541 3.82172 2.76152 1.80189 2.78748 2.98909 3.22789 5.25789 4.00945 58 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03873 3.66615 4.38849 0.61958 0.77255 0.60696 0.78747\n- 5 2.44321 4.22335 3.07202 2.95287 4.06931 1.13551 4.07388 3.62841 3.10306 3.30773 4.29286 3.23994 3.60789 3.44698 3.35046 2.61168 2.90900 3.19946 5.20806 4.16845 59 g - - -\n- 2.68620 4.42227 2.77522 2.73114 3.46356 2.40515 3.72465 3.29356 2.67743 2.69346 4.24692 2.90349 2.73742 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.17739 2.35548 2.69264 0.80260 0.59450 0.52737 0.89198\n- 6 2.33360 4.29770 3.69453 3.24644 3.35249 3.52985 4.12047 2.36984 3.08643 2.04189 2.08653 3.54669 4.03249 3.46135 3.35486 2.91343 2.94447 2.26065 5.05896 3.83176 63 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03575 3.74490 4.46724 0.61958 0.77255 0.59815 0.79812\n- 7 2.71425 5.07788 2.13244 1.89612 4.29102 3.21383 2.67049 3.80566 2.47073 3.35522 4.19084 2.70170'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 95 2.70691 4.65112 2.46891 1.62063 3.96638 3.08299 3.69865 3.35547 2.54163 3.04445 4.07334 2.85139 3.68416 2.95007 2.88420 2.75326 3.02447 3.08728 5.20645 3.96684 291 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 96 2.55012 4.21076 3.63410 3.32845 3.33794 3.33778 4.18944 2.19688 3.18802 2.12700 3.40593 3.55687 3.94172 3.58899 3.42029 2.85401 2.93688 1.58574 5.04786 3.74030 292 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 97 2.41830 4.18693 2.99515 2.81889 3.76596 2.89361 3.89664 3.25277 2.84987 2.90834 3.97532 3.14069 1.73083 3.25416 3.10408 2.58502 2.84436 2.93826 5.01823 3.89551 293 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 98 2.67035 4.63702 1.53926 2.26713 3.98358 2.98699 3.72420 3.50818 2.76129 3.19664 4.20612 2.78486 3.62459 2.99670 3.19255 2.70252 3.01826 3.19655 5.21582 3.95749 294 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 99 2.29610 4.12466 3.17278 2.95097 3.70231 2.96175 3.98701 2.80387 2.88762 2.66805 3.77660 3.19825 3.65060 3.31094 3.14282 2.49709 1.88038 2.54044 5.17549 3.92765 295 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 100 2.73608 4.35465 3.69136 3.29455 3.12595 3.56189 4.10410 2.27943 3.06564 1.81569 2.19735 3.59995 4.05324 3.49087 3.30115 3.03636 3.05244 2.23556 4.89977 3.60848 296 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 101 2.35784 4.11716 2.95569 2.83515 3.89406 1.45955 3.94012 3.44085 2.96016 3.13575 4.14287 3.13056 3.49763 3.32206 3.20048 2.52785 2.81560 3.04321 5.04504 3.99617 297 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04329 3.55727 4.27962 0.61958 0.77255 0.56076 0.84578\n- 102 2.21619 4.11029 2.96755 2.79787 3.73691 2.84744 3.89804 3.22917 2.83986 2.99061 3.97961 3.06166 3.56394 3.22978 3.11486 1.71679 2.67608 2.84885 5.14727 3.82400 298 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02934 3.54333 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MazEF__MazE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MazEF__MazE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,263 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MazEF__MazE\n-LENG 80\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Aug 3 10:36:50 2023\n-NSEQ 100\n-EFFN 1.370239\n-GA 20 20;\n-CKSUM 1733343316\n-STATS LOCAL MSV -9.2103 0.71855\n-STATS LOCAL VITERBI -9.5542 0.71855\n-STATS LOCAL FORWARD -4.2156 0.71855\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57941 4.72212 2.97378 2.55399 3.76927 2.83452 3.78027 2.62411 2.68805 2.38998 3.60705 2.98814 3.33035 3.13171 2.93414 2.70486 2.94239 2.45211 4.17104 3.99850\n- 2.68622 4.42224 2.77529 2.73123 3.46358 2.40518 3.72506 3.29345 2.67737 2.69357 4.24374 2.90356 2.73743 3.18155 2.89804 2.37894 2.77526 2.98527 4.58489 3.61505\n- 0.27203 1.49094 4.34225 0.86104 0.54943 0.00000 *\n- 1 2.41334 4.22521 3.84877 3.27622 3.35315 3.58637 4.00245 2.48603 3.18887 2.37297 1.75361 3.58106 3.70522 3.45680 3.45484 2.86599 2.67352 2.43499 4.84390 3.57346 23 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03352 4.36674 3.89852 0.61958 0.77255 0.49609 0.93881\n- 2 2.67493 5.07530 2.91961 2.34445 4.38469 3.34570 3.31084 3.83897 2.24753 3.36049 4.12758 2.94522 3.78396 2.27564 2.08000 2.59487 2.72916 3.04050 5.52540 4.01339 24 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01931 4.35253 5.07487 0.61958 0.77255 0.46685 0.98611\n- 3 2.36627 4.41803 3.47077 2.90711 3.57478 2.88007 3.87120 2.69577 2.86563 2.58569 3.45801 3.32769 3.99582 2.74419 3.23533 2.60851 2.60148 1.99120 5.00687 3.76453 25 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 4.37365 5.09599 0.61958 0.77255 0.48576 0.95510\n- 4 2.59564 4.41894 3.46064 2.89475 3.39198 3.61317 3.56995 2.61166 2.67362 2.52040 3.40751 2.93171 3.99390 2.96379 3.22586 2.76249 2.20337 2.19222 4.99448 3.61883 26 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 4.37365 5.09599 0.61958 0.77255 0.48576 0.95510\n- 5 3.36390 4.59498 5.31757 4.82189 3.82046 4.88540 5.49674 1.25119 4.73489 2.09667 3.58523 5.00117 5.11980 4.96236 4.89443 4.28972 3.61871 0.95880 5.86720 4.67507 27 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 4.37365 5.09599 0.61958 0.77255 0.48576 0.95510\n- 6 2.75478 5.29023 3.35963 2.74473 4.71759 3.45761 3.73034 4.09665 1.12062 3.54785 4.36961 3.20729 4.08375 2.64958 2.06769 3.00928 3.21851 3.73804 5.62118 4.38091 28 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 4.37365 5.09599 0.61958 0.77255 0.48576 0.95510\n- 7 3.34314 5.46184 3.76576 3.04224 4.98690 3.91595 3.78089 4.30103 0.83594 3.67968 4.55374 3.42115 4.263'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 4.37365 5.09599 0.61958 0.77255 0.48576 0.95510\n- 73 2.32187 5.05699 2.82113 2.05845 4.28379 3.16476 3.64604 3.81291 2.33279 3.19276 4.02468 2.91242 3.02217 2.70272 2.80384 2.39991 2.75435 3.14220 5.51782 4.13569 103 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02723 4.37365 4.25054 0.61958 0.77255 0.48576 0.95510\n- 74 2.20433 4.89641 2.82486 2.47218 4.22715 3.45087 3.77180 3.64771 2.52233 3.18233 4.06345 3.03366 1.80823 2.92820 3.01233 2.54463 2.91655 3.30267 5.48368 4.14483 104 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01906 4.36548 5.08782 0.61958 0.77255 0.47822 0.96729\n- 75 2.58305 4.39689 3.52254 2.95405 3.54088 3.63396 3.88263 2.78162 2.69043 2.58811 3.30530 3.27410 4.01473 2.81582 3.14877 2.82388 2.73675 1.61194 4.97912 3.74406 105 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 4.37365 5.09599 0.61958 0.77255 0.48576 0.95510\n- 76 2.75023 4.78026 2.74157 2.92158 4.81039 0.73818 4.38336 4.33525 3.44044 3.97540 4.82917 3.32003 4.03339 3.63263 3.85964 2.75116 3.21880 3.77077 6.09040 4.79070 106 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05005 4.37365 3.31844 0.61958 0.77255 0.48576 0.95510\n- 77 2.78018 5.20356 2.93495 2.43224 4.55687 3.13346 3.66539 4.00666 1.50471 3.48635 4.25773 2.55442 3.90789 2.60303 2.39967 2.66901 3.00221 3.60210 5.60812 4.25060 107 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34310 5.06544 0.61958 0.77255 0.53012 0.88803\n- 78 3.46096 5.58854 2.80720 0.50444 5.01036 3.65498 4.31893 4.56849 3.26958 4.11789 5.10039 3.32278 4.29026 3.54296 3.70844 3.40976 3.77804 4.21289 6.08671 4.84853 108 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34310 5.06544 0.61958 0.77255 0.53012 0.88803\n- 79 2.24277 3.90333 3.98070 3.26626 3.14694 3.72205 4.01621 2.41484 3.20315 1.97543 3.16436 3.65388 4.09324 3.46292 3.23562 2.89701 2.87237 1.83993 4.76224 3.56438 109 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01950 4.34310 5.06544 0.61958 0.77255 0.53012 0.88803\n- 80 2.70321 4.18840 4.38750 3.80447 2.80878 3.89230 4.10176 2.31180 3.64906 1.59579 3.21435 3.92176 4.24544 3.82380 3.76297 3.08696 2.99985 2.40057 2.20381 3.16511 110 l - - -\n- 2.68615 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.02444 3.72378 * 0.55685 0.85100 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MazEF__MazF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MazEF__MazF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,356 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME MazEF__MazF\n-LENG 111\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Aug 3 10:36:57 2023\n-NSEQ 100\n-EFFN 0.680542\n-GA 20 20;\n-CKSUM 4167529658\n-STATS LOCAL MSV -9.9656 0.71516\n-STATS LOCAL VITERBI -10.4086 0.71516\n-STATS LOCAL FORWARD -4.4189 0.71516\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50933 4.18423 2.98417 2.71799 3.42918 2.85296 3.80630 2.78351 2.63272 2.45263 3.66308 3.16917 3.22414 3.06984 2.93121 2.71087 2.89610 2.50252 4.22304 3.53106\n- 2.68615 4.42228 2.77520 2.73125 3.46357 2.40514 3.72497 3.29355 2.67737 2.69358 4.24632 2.90349 2.73741 3.18148 2.89802 2.37885 2.77522 2.98517 4.58480 3.61506\n- 0.18530 2.64147 2.32394 0.90140 0.52088 0.00000 *\n- 1 2.51796 4.28083 3.50588 2.98554 3.46510 3.43161 3.90270 2.64667 2.77341 2.42551 1.95709 3.36373 3.95031 3.23920 3.12754 2.77980 2.85208 2.40093 4.96426 3.73322 14 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03037 3.90543 4.62778 0.61958 0.77255 0.47290 0.97602\n- 2 2.41168 4.31708 3.29688 2.78745 3.47602 3.38155 3.75607 2.79166 2.66012 2.54332 2.98216 3.20992 3.60611 3.02829 3.03734 2.65547 2.73752 2.14060 4.90426 3.66132 15 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02837 3.97245 4.69479 0.61958 0.77255 0.47552 0.97171\n- 3 2.42897 4.76738 2.92806 2.39521 4.01252 3.25140 3.55591 3.37330 2.34261 3.03090 3.63541 2.86653 3.61456 2.67924 2.69377 2.25057 2.60968 3.10484 5.27344 3.94077 16 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02773 3.99496 4.71730 0.61958 0.77255 0.48955 0.94908\n- 4 2.46472 4.87107 2.73063 2.33744 4.15214 3.31044 3.55655 3.58461 2.35438 3.13336 3.94891 2.79556 3.51062 2.69825 2.27093 2.48210 2.72114 3.08940 5.36309 4.00894 17 r - - -\n- 2.68617 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03088 3.84100 4.71730 0.62179 0.76999 0.48955 0.94908\n- 5 3.08927 4.26365 4.09904 3.78159 1.87637 4.02718 3.56100 2.99755 3.65393 2.55814 3.61843 3.81425 4.36657 3.78067 3.68110 3.33542 3.31474 2.83327 3.17493 1.32330 20 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02773 3.99496 4.71730 0.61958 0.77255 0.48340 0.95889\n- 6 3.00166 4.36657 4.59259 4.07395 3.56019 4.28096 4.81297 1.58556 3.95653 2.10860 3.33731 4.31798 4.62088 4.23983 4.18011 3.64321 3.09698 1.09035 5.43771 4.23395 21 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 7 2.92635 4.66120 3.54740 3.40569 4.38770 3.34163 4.47166 3.96694 3.47405 3.57956 4.63573 3.69903 0.62'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 104 3.03887 5.14023 3.39295 2.78364 4.57929 3.64046 3.63209 3.94289 1.14318 3.40098 4.27942 3.19156 4.02930 2.77272 1.90831 3.03926 3.21772 3.62628 5.45071 4.27299 123 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 105 1.96210 4.25883 3.98397 3.45115 3.49276 3.76628 4.25650 1.69300 3.35617 2.23132 3.39821 3.74248 4.19615 3.65441 3.63315 3.04330 2.94618 1.89523 5.12217 3.90829 124 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 106 2.43247 4.54021 3.03326 2.46866 3.89884 3.33837 3.61965 3.21006 2.03824 2.93253 3.69264 2.89042 3.80940 2.78396 2.50482 2.54062 2.79613 2.97812 5.22510 3.91256 125 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 107 1.60795 4.23418 3.64344 3.14986 3.67880 3.36160 4.07202 2.63875 3.07381 2.43100 3.60782 3.43309 3.92015 3.39524 3.39021 2.65406 2.64956 2.11053 5.17667 3.95118 126 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 108 3.25007 4.67841 4.49609 4.05488 3.09418 4.28470 4.65577 2.20214 3.79961 0.83326 3.02931 4.31864 4.61935 4.10874 3.96672 3.72242 3.51916 2.31267 5.09472 3.84166 127 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 109 3.03773 4.38667 4.63414 4.08879 3.29586 4.31996 4.72115 1.36301 3.97197 1.60173 3.19093 4.32788 4.60585 4.19281 4.15852 3.56492 3.28133 1.63853 5.24307 4.06607 128 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 110 2.50858 4.69620 2.74305 2.47655 4.23114 1.62840 3.79567 3.64116 2.48609 3.26125 4.10724 2.97805 3.81675 2.98619 2.86002 2.62941 2.93050 3.26793 5.49111 4.18355 129 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25623 3.99862 1.57168 0.61958 0.77255 0.48576 0.95510\n- 111 2.53679 4.38462 3.22592 2.66719 3.55221 3.35972 3.58656 2.75041 2.37235 2.32641 3.48850 3.10980 3.68358 2.92917 2.85633 2.67913 2.67474 2.64342 4.94308 3.63708 130 l - - -\n- 2.68620 4.42229 2.77523 2.73123 3.46355 2.40514 3.72498 3.29356 2.67739 2.69355 4.24686 2.90349 2.73732 3.18147 2.89798 2.37883 2.77521 2.98518 4.58481 3.61507\n- 0.26318 1.46362 * 0.52268 0.89876 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1178 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnA\n-LENG 385\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:57 2021\n-NSEQ 795\n-EFFN 3.854542\n-CKSUM 3480712767\n-GA 100 100;\n-STATS LOCAL MSV -11.6339 0.69949\n-STATS LOCAL VITERBI -12.4177 0.69949\n-STATS LOCAL FORWARD -5.6132 0.69949\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67663 4.63268 2.87260 2.57220 3.14032 3.02263 3.82846 2.81897 2.58913 2.47077 3.73482 2.91871 3.31086 2.99393 2.80645 2.58199 2.83991 2.85239 4.75222 3.49551\n- 2.68697 4.42240 2.77484 2.73084 3.46161 2.40648 3.72644 3.28984 2.67752 2.69273 4.23821 2.90264 2.73894 3.18312 2.89811 2.37928 2.77632 2.98509 4.58271 3.61471\n- 0.86613 1.05091 1.47054 2.89217 0.05705 0.00000 *\n- 1 2.62467 4.30231 4.35041 3.55597 2.86300 3.58033 4.16841 2.41627 3.16750 1.80555 1.71794 3.59433 4.31760 3.83684 3.62399 3.22070 2.94797 2.48388 4.91494 3.69921 147 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03278 4.86195 3.70856 0.61958 0.77255 0.91831 0.50948\n- 2 2.28980 5.26990 2.95833 2.17738 4.58860 3.19832 3.75856 3.39194 2.26984 3.41334 3.69682 2.38763 3.79406 2.84582 2.96428 2.38198 2.43359 3.25312 5.71871 4.32424 148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05731 4.87036 3.03602 0.61958 0.77255 0.99066 0.46415\n- 3 2.40618 5.27041 2.16678 2.16205 3.90309 3.46504 3.36276 3.39191 2.41192 3.17273 4.14226 2.66905 3.44880 2.73626 2.93796 2.73628 2.60078 3.45863 5.71548 4.18469 149 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05580 4.83182 3.07266 0.61958 0.77255 1.03429 0.43925\n- 4 2.76209 4.76216 2.72577 2.56316 3.45413 3.48220 3.84472 2.80197 2.66542 2.29631 3.74448 2.57470 3.65906 2.73933 3.19745 2.69671 2.95521 2.42050 4.70660 3.78845 150 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05936 4.79824 3.00813 0.61958 0.77255 1.10835 0.40063\n- 5 2.76024 5.22436 2.75783 1.98811 4.35891 3.49720 3.75547 3.18097 2.22435 2.45741 4.25170 2.65493 3.37666 2.49274 2.94137 2.66196 2.90009 3.48935 5.67363 4.12369 151 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08052 4.75311 2.67746 0.61958 0.77255 1.14289 0.38404\n- 6 2.57591 4.72347 2.80988 2.29496 3.69644 3.21267 3.74006 2.87064 2.36926 3.35866 3.93010 2.39089 3.88281 2.70859 2.71191 2.46949 2.78941 3.45707 5.58660 3.37943 152 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03886 4.69331 3.54193 0.61958 0.77255 1.06420 0.42312\n- 7 2.76138 5.11700 2.23436 2.29762 4.30041 2.89174 3.69381 3.64995 2.29968 3.47741 4.15866 2.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00918 5.09094 5.81329 0.61958 0.77255 0.59232 0.80529\n- 378 2.68099 4.29564 4.58693 3.69057 2.87734 4.11083 4.43881 1.60909 3.93979 1.40025 2.87261 4.23822 4.47553 4.05459 3.81562 3.21856 3.07171 2.41583 4.96472 3.58174 2163 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02053 5.09094 4.25670 0.61958 0.77255 0.59232 0.80529\n- 379 2.41962 4.00716 4.90151 4.28775 2.40236 3.99581 4.45671 1.49843 3.94467 1.70886 3.15874 4.28019 4.48665 4.10269 4.06981 3.41721 3.14653 2.13179 4.88763 3.72449 2164 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01094 5.07970 5.36908 0.61958 0.77255 0.58563 0.81363\n- 380 2.52085 5.42126 2.73095 1.97785 4.71172 3.47398 3.67113 3.83743 1.76394 3.65468 4.07029 2.58072 4.07925 2.59946 2.65539 2.56944 3.06701 3.73280 5.66294 3.78921 2165 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02162 5.08569 4.18637 0.61958 0.77255 0.59866 0.79750\n- 381 2.73816 5.41518 2.84218 1.70880 4.69553 3.09391 3.79781 3.85549 1.94120 3.21912 4.21914 2.92307 4.07492 2.48332 2.77270 2.48129 2.90618 3.67049 5.84854 4.43830 2166 e - - -\n- 2.68618 4.42204 2.77520 2.73123 3.46350 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61500\n- 0.09141 4.02082 2.66758 0.49637 0.93838 0.63512 0.75474\n- 382 2.39972 4.31971 4.35714 3.82464 3.12510 3.69036 3.73959 1.75518 3.56482 2.22017 3.38754 3.74755 4.39183 3.74757 3.77927 2.85486 2.32114 1.98323 4.97407 3.15919 2168 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05819 5.00638 2.99911 0.61958 0.77255 0.77926 0.61387\n- 383 2.75738 4.09383 4.18733 3.66047 3.24706 3.73118 4.26160 1.77108 3.30309 1.68110 2.97167 3.75178 3.75314 3.77272 3.51142 3.17014 2.34114 2.45381 4.91402 3.63391 2169 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08743 4.96236 2.56754 0.61958 0.77255 0.88123 0.53490\n- 384 2.70832 4.72054 2.84140 2.42123 4.59037 2.33935 3.60601 3.16914 2.22204 2.98571 4.32091 2.44819 3.95388 2.54174 2.69938 2.66891 2.92246 3.56108 4.85517 3.99353 2170 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20834 4.88417 1.71203 0.61958 0.77255 0.64643 0.74216\n- 385 2.50771 4.01323 2.69018 2.58834 4.04150 2.94507 3.17596 2.86836 2.48732 2.94994 3.47433 2.59435 4.01635 2.99314 3.05204 2.77025 2.79005 2.84992 5.45813 3.07903 2171 k - - -\n- 2.68701 4.42282 2.77469 2.73095 3.46310 2.40606 3.72539 3.29046 2.67659 2.69293 4.24502 2.90158 2.73847 3.18157 2.89904 2.37933 2.77618 2.98578 4.58611 3.61384\n- 0.89111 0.52797 * 2.09382 0.13149 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1058 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnB\n-LENG 345\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:58 2021\n-NSEQ 795\n-EFFN 3.848476\n-CKSUM 1122656791\n-GA 100 100;\n-STATS LOCAL MSV -11.2300 0.70022\n-STATS LOCAL VITERBI -12.4164 0.70022\n-STATS LOCAL FORWARD -5.0940 0.70022\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64758 4.55973 2.96274 2.60783 3.26428 2.83703 3.56333 2.73621 2.63757 2.39894 3.77906 2.91130 3.40046 3.02343 3.01277 2.56625 2.84934 2.75788 4.85327 3.62390\n- 2.68636 4.42265 2.77546 2.73134 3.46394 2.40553 3.72516 3.29329 2.67736 2.69336 4.24251 2.90285 2.73776 3.18150 2.89839 2.37879 2.77538 2.98481 4.58517 3.61468\n- 0.25660 1.95032 2.47580 1.68941 0.20411 0.00000 *\n- 1 2.80023 4.56251 3.94936 3.03659 3.66631 3.93801 4.20170 2.93490 2.93358 2.63160 1.13760 3.64874 3.94524 3.56072 3.43816 3.19588 3.13477 2.44269 5.15434 3.93590 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00967 5.03931 5.76165 0.61958 0.77255 0.42665 1.05755\n- 2 3.82795 5.14716 5.84046 5.23918 3.01882 5.16087 5.46548 1.01885 5.06652 1.10923 2.54906 5.32869 5.32781 5.01949 5.02235 4.51192 4.08589 2.75385 5.20593 4.57967 11 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00903 5.10740 5.82974 0.61958 0.77255 0.51557 0.90921\n- 3 2.92334 5.06514 2.73303 2.26368 4.67616 3.64327 3.41622 3.69101 1.93016 3.73053 4.31717 2.38285 4.09166 2.88389 2.57807 2.53298 2.12594 3.65393 5.86113 3.61478 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11163 5.83398 0.61958 0.77255 0.52426 0.89648\n- 4 2.83528 5.31141 2.93438 2.16749 4.15372 3.21680 3.73423 4.21792 1.86783 3.60127 4.47363 2.61995 4.09060 2.28481 2.55724 2.17677 2.99880 3.57970 5.86579 3.99809 13 k - - -\n- 2.68623 4.42230 2.77525 2.73129 3.46348 2.40518 3.72500 3.29296 2.67738 2.69353 4.24665 2.90344 2.73745 3.18152 2.89806 2.37882 2.77525 2.98524 4.58482 3.61508\n- 0.12683 2.15249 5.83398 0.23931 1.54726 0.52426 0.89648\n- 5 3.15209 4.51153 5.09728 4.49019 3.12554 4.34670 4.68575 1.30750 3.93373 1.31536 3.18394 4.50083 4.68723 4.41132 4.30580 3.66354 3.23187 2.11168 5.15147 3.68575 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11163 5.83398 0.61958 0.77255 0.52426 0.89648\n- 6 2.76171 3.89828 2.79376 2.06991 4.66613 3.38397 2.99497 3.78882 1.92722 3.25601 4.46442 2.81716 4.09232 2.80554 2.66922 2.49458 2.58444 3.63228 5.85809 3.72852 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11163 5.83398 0.61958 0.77255 0.52426 0.89648\n- 7 2.96279 4.46652 3.91602 3.12243 3.54962 3.81986 4.34525 1.54919 3.45923 1.33351 3.50196 3.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01634 5.05760 4.62025 0.61958 0.77255 0.46112 0.99581\n- 338 2.77263 5.38846 1.40473 2.58923 4.71577 3.38966 3.89030 4.18941 2.63260 3.62807 4.23677 2.62070 4.09411 2.80911 2.86849 2.31746 2.81113 3.68190 3.96074 4.43195 1090 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04658 5.10024 3.23362 0.61958 0.77255 0.56634 0.83840\n- 339 2.79904 4.02909 4.77240 4.16575 2.84784 4.09431 4.42083 2.67687 3.93251 1.00393 2.67643 3.94788 4.45918 4.13440 3.47612 3.24167 3.00263 2.44717 4.95520 3.61424 1091 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00944 5.06310 5.78545 0.61958 0.77255 0.66603 0.72102\n- 340 2.05659 5.33284 2.28746 2.35829 3.44671 3.34802 3.81719 3.81607 2.41188 3.00466 3.45547 2.85902 4.08312 2.80456 2.85737 2.43114 2.83260 3.46089 5.78555 4.13584 1092 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01874 5.06310 4.40282 0.61958 0.77255 0.66603 0.72102\n- 341 2.55474 5.40121 2.85163 1.91073 4.31252 3.05478 3.56169 3.62888 2.10363 3.60547 4.23811 2.80197 3.87634 2.53492 2.48799 2.70675 2.87881 3.23594 5.83582 3.72958 1093 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02094 5.05389 4.24471 0.61958 0.77255 0.68877 0.69754\n- 342 3.05650 4.45104 4.84202 4.24001 3.22360 3.68167 4.53706 2.32648 4.06187 0.81045 3.02164 4.31700 4.56386 3.81179 4.12933 3.37678 3.28735 2.59297 5.05789 3.89127 1094 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04117 5.04258 3.38492 0.61958 0.77255 0.71571 0.67108\n- 343 2.29524 4.28263 3.60057 3.94316 2.43896 3.87635 4.18375 2.25912 3.61965 1.54881 2.46384 3.92140 4.40516 3.98782 3.55177 3.08717 3.04856 2.53256 4.96174 3.57760 1095 l - - -\n- 2.68623 4.42231 2.77525 2.73129 3.46359 2.40518 3.72476 3.29354 2.67737 2.69340 4.24649 2.90342 2.73745 3.18152 2.89794 2.37892 2.77522 2.98524 4.58482 3.61484\n- 0.23076 2.96323 1.86807 0.91518 0.51157 0.78513 0.60892\n- 344 2.69698 5.31726 2.57976 1.94097 4.65835 2.39897 3.77864 4.12377 2.13973 3.62072 4.22791 3.03560 3.98463 2.86774 2.33192 2.56648 2.67556 3.70578 5.38161 4.23168 1102 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18122 4.84647 1.84583 0.61958 0.77255 1.06248 0.42403\n- 345 2.55123 4.41285 3.73101 3.04272 3.31698 2.81091 3.86554 2.20346 2.97968 2.27398 2.88411 3.26818 3.16691 3.41127 2.83090 2.96844 2.96446 2.64096 3.49997 3.72188 1103 i - - -\n- 2.68612 4.42230 2.77521 2.73108 3.46392 2.40513 3.72501 3.29381 2.67703 2.69385 4.24698 2.90370 2.73769 3.18124 2.89638 2.37890 2.77559 2.98543 4.58532 3.61550\n- 0.74515 0.64372 * 1.23155 0.34509 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2507451963.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2507451963.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,938 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2507451963\n-LENG 305\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:19 2021\n-NSEQ 144\n-EFFN 4.478027\n-CKSUM 343337184\n-GA 10 10;\n-STATS LOCAL MSV -11.1078 0.70115\n-STATS LOCAL VITERBI -11.8228 0.70115\n-STATS LOCAL FORWARD -5.1863 0.70115\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53924 4.39423 2.91088 2.53960 3.22650 3.02099 3.47139 2.98489 2.68609 2.40321 3.82861 3.03872 3.43836 3.01105 2.81868 2.59236 2.85604 2.78012 4.15186 3.65072\n- 2.68575 4.42264 2.77538 2.73162 3.46364 2.40506 3.72533 3.29368 2.67762 2.69362 4.24364 2.90385 2.73731 3.18185 2.89710 2.37898 2.77538 2.98521 4.58340 3.61542\n- 0.70059 2.52005 0.85979 2.01885 0.14249 0.00000 *\n- 1 2.92629 4.39214 4.41194 3.82964 3.46907 4.03733 4.37677 2.57916 3.64562 2.33435 1.39082 4.03661 4.40724 3.91377 3.32901 3.34181 2.85615 1.68499 5.05498 3.87232 19 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01357 4.70239 5.42474 0.61958 0.77255 0.69727 0.68904\n- 2 2.73301 5.24199 2.67948 2.38257 4.53544 3.66078 3.61507 3.69797 2.57596 3.52498 2.48450 2.95382 2.85507 2.86314 2.94218 2.12890 2.61184 2.75902 5.70689 4.32942 20 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01038 4.96906 5.69140 0.61958 0.77255 0.31823 1.29989\n- 3 2.75248 4.51379 3.78227 3.56499 2.83491 4.09629 4.39212 2.64624 3.69051 1.80482 1.94582 3.03266 2.70863 3.63760 3.90121 3.20638 2.87913 2.30761 5.12209 3.92577 21 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00813 5.21231 5.93466 0.61958 0.77255 0.60607 0.78854\n- 4 2.86840 5.40329 1.88572 2.04569 4.26463 2.99258 3.75957 3.23703 2.69655 2.37498 4.45238 3.09748 3.80367 2.52774 3.18350 2.60867 3.11624 3.27706 5.85532 4.46419 22 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00813 5.21231 5.93466 0.61958 0.77255 0.49412 0.94188\n- 5 2.52639 4.42631 5.01210 4.39751 2.53916 3.83889 4.55691 1.94272 4.18410 1.38782 2.37178 4.38460 4.58471 4.31398 4.19339 3.53530 3.28458 2.31981 5.04758 2.91456 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 5.23300 5.95535 0.61958 0.77255 0.53927 0.87508\n- 6 2.92565 3.98177 5.02267 4.41111 1.47124 4.24520 4.58222 2.19103 4.20147 2.40785 3.55614 4.40336 4.60621 4.33617 4.21598 3.55774 2.65707 1.56158 5.07647 3.10831 24 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 5.23300 5.95535 0.61958 0.77255 0.53927 0.87508\n- 7 4.29420 5.52501 5.96886 5.49352 1.49226 5.42956 4.20466 3.15346 5.29255 0.58140 3.756'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01362 5.19983 4.82647 0.61958 0.77255 0.65783 0.72976\n- 298 4.52195 4.95398 5.55853 5.23011 2.16554 5.27628 1.65879 4.33385 5.05901 3.71674 4.90941 4.20286 5.57454 5.00074 4.39281 4.62465 4.73386 4.20366 4.10868 0.64678 462 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19448 5.91682 0.61958 0.77255 0.67318 0.71352\n- 299 3.50211 4.89676 3.08901 4.99272 4.14798 4.99529 5.47296 1.12708 4.87640 1.69910 4.00195 5.11010 5.29093 5.07454 4.98978 4.35172 3.85834 1.26878 5.94369 4.75067 463 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19448 5.91682 0.61958 0.77255 0.67318 0.71352\n- 300 4.34589 6.07870 4.20189 4.85571 6.39295 0.09906 6.15345 6.26809 5.47909 5.75962 6.73832 5.13446 5.41825 5.61005 5.67720 4.51186 4.88252 5.54963 7.22465 6.49037 464 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19448 5.91682 0.61958 0.77255 0.67318 0.71352\n- 301 2.90876 5.12474 3.12822 2.05258 4.79681 3.58909 3.92476 4.27856 2.08456 3.55984 3.82696 3.05728 2.52404 2.77619 1.89455 2.67289 2.84020 3.17138 5.89381 4.48656 465 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19448 5.91682 0.61958 0.77255 0.67318 0.71352\n- 302 4.13128 6.17542 4.35545 3.75185 5.48735 4.57188 1.33948 5.10658 0.71533 4.42789 5.33975 4.11286 4.95638 3.61040 2.82024 4.09291 4.26341 4.78923 6.26030 5.07748 466 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00827 5.19448 5.91682 0.61958 0.77255 0.67318 0.71352\n- 303 3.20043 4.57332 5.08034 4.47337 2.66724 4.37710 4.70336 1.76436 4.27971 0.98039 3.51427 4.51131 3.29858 4.40701 3.57697 3.69003 3.43044 2.51113 5.17945 4.02107 467 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08365 5.19448 2.59429 0.61958 0.77255 0.67318 0.71352\n- 304 2.74770 5.35629 2.89207 2.62815 4.66818 2.06444 3.90662 3.68585 2.06676 3.09387 4.26041 3.19732 2.63217 2.69508 3.05452 2.65300 2.51702 3.45379 5.80936 3.78129 468 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13714 5.11975 2.10232 0.61958 0.77255 0.85922 0.55076\n- 305 2.71747 5.24430 2.93580 2.26760 4.53508 3.59808 3.86592 2.98220 2.50003 2.63846 4.29967 2.67785 3.75347 2.50274 3.00641 2.58825 2.08742 3.10762 5.71093 3.70798 469 t - - -\n- 2.68691 4.42369 2.77530 2.73157 3.46359 2.40516 3.72380 3.29221 2.67604 2.69381 4.24834 2.90461 2.73828 3.18274 2.89749 2.37829 2.77521 2.98501 4.58512 3.61300\n- 0.78462 0.60935 * 1.84014 0.17292 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2512525018.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2512525018.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,749 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2512525018\n-LENG 242\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:20 2021\n-NSEQ 96\n-EFFN 1.526367\n-CKSUM 4154471569\n-GA 10 10;\n-STATS LOCAL MSV -10.8495 0.70323\n-STATS LOCAL VITERBI -11.8643 0.70323\n-STATS LOCAL FORWARD -5.1169 0.70323\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70336 4.29738 2.91805 2.61150 3.27336 3.34845 3.61414 2.63516 2.53054 2.32353 3.65925 2.97073 3.67720 3.02614 2.96246 2.65974 2.83127 2.73589 4.93954 3.23551\n- 2.68625 4.42232 2.77526 2.73130 3.46361 2.40509 3.72501 3.29361 2.67734 2.69362 4.24501 2.90332 2.73746 3.18153 2.89808 2.37894 2.77507 2.98525 4.58484 3.61510\n- 0.20839 2.03735 2.85189 0.83044 0.57245 0.00000 *\n- 1 2.77931 4.44925 3.77805 3.28727 3.55051 3.71918 4.14003 2.76129 3.15983 2.48824 1.37761 2.75305 4.17194 3.51260 3.44611 3.04800 3.05744 2.36719 5.10436 3.85744 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01862 4.38862 5.11097 0.61958 0.77255 0.43846 1.03572\n- 2 2.60134 5.08253 2.98342 2.33938 4.38486 3.18000 3.66832 3.83869 1.99157 2.65626 4.13595 2.67578 3.32066 2.62785 2.69437 2.67537 2.47798 3.45026 5.54013 4.16130 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02259 4.44204 4.55040 0.61958 0.77255 0.48576 0.95510\n- 3 2.67915 4.52237 3.37454 2.60386 2.16211 2.93405 3.84360 3.05225 2.79036 2.51238 3.61918 2.97607 3.39345 2.92854 3.18560 2.84104 2.91097 2.80844 5.07863 3.05010 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01773 4.43719 5.15953 0.61958 0.77255 0.49356 0.94277\n- 4 2.70045 5.05853 2.98869 2.44758 4.35532 3.14679 3.68347 3.80180 1.95334 3.34339 4.12152 2.82408 3.88320 2.59011 2.89878 1.91661 2.69223 3.42515 5.52664 3.45543 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01773 4.43719 5.15953 0.61958 0.77255 0.49356 0.94277\n- 5 3.45873 4.74087 5.28664 4.70963 3.30102 4.77527 5.11478 1.98420 4.57300 1.12117 1.72120 4.88003 4.94991 4.60448 4.61388 4.12800 3.67903 1.91143 5.35833 4.31722 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01773 4.43719 5.15953 0.61958 0.77255 0.49356 0.94277\n- 6 2.22958 3.41170 4.71344 4.25073 3.86627 3.86471 4.84665 2.23818 4.12515 2.66933 3.76014 4.25219 4.44321 4.35887 4.28250 3.28071 3.20399 0.85931 5.54477 4.34994 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01773 4.43719 5.15953 0.61958 0.77255 0.49356 0.94277\n- 7 3.23335 3.53954 4.96547 4.38961 3.30667 4.45620 4.82340 2.32273 4.23770 0.81421 2.791'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44204 5.16439 0.61958 0.77255 0.48576 0.95510\n- 235 2.52165 4.43267 3.84626 3.62381 4.57029 3.23505 4.62841 3.89162 3.61948 3.68165 4.56005 3.68857 4.01077 3.94365 3.86693 2.38128 0.70047 3.38371 5.95455 4.74582 282 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44204 5.16439 0.61958 0.77255 0.48576 0.95510\n- 236 3.02190 1.81650 4.44397 3.93177 2.81043 4.02285 4.03924 2.85348 3.74214 2.33319 3.59998 4.01428 4.42920 3.95880 3.88782 3.36059 3.28282 2.69070 4.43828 1.45009 283 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44204 5.16439 0.61958 0.77255 0.48576 0.95510\n- 237 3.36452 4.61388 5.31242 4.77937 3.63950 4.80958 5.29871 1.16642 4.67126 1.80890 2.85307 4.92914 5.03437 4.81795 4.77101 4.18569 3.60631 1.29794 5.63558 4.50125 284 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44204 5.16439 0.61958 0.77255 0.48576 0.95510\n- 238 3.25915 4.54268 5.16231 4.61851 2.14379 4.61403 5.01237 1.27601 4.48904 2.10831 3.39189 4.73044 4.88064 4.63021 4.57345 3.97251 3.50042 1.38384 5.38313 4.17441 285 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44204 5.16439 0.61958 0.77255 0.48576 0.95510\n- 239 3.20478 5.36294 3.57903 2.93753 4.82875 3.83781 3.80448 4.17744 2.00445 3.61703 4.46913 3.35707 4.21010 2.64418 0.98060 2.69476 3.37859 3.84404 5.66714 4.48329 286 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44204 5.16439 0.61958 0.77255 0.48576 0.95510\n- 240 2.69289 4.95147 3.02183 1.81650 4.21105 3.49738 3.71020 3.63625 2.49793 3.22202 4.02376 2.60883 3.05524 2.84944 2.96751 2.71027 2.58678 2.56809 5.44674 3.68182 287 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44204 5.16439 0.61958 0.77255 0.48576 0.95510\n- 241 2.62297 4.21779 4.15267 3.57001 3.32717 3.84734 4.15097 1.58567 2.74229 2.15494 3.31836 3.80367 4.21169 3.68801 3.64325 3.13437 2.97116 1.97514 4.86019 3.10315 288 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19969 4.44204 1.77643 0.61958 0.77255 0.48576 0.95510\n- 242 2.63608 4.77128 2.86453 2.41160 4.00451 3.46603 3.69558 2.77714 2.47026 3.03405 3.86104 3.02264 3.40954 2.86250 2.97288 2.16079 2.21637 3.10146 5.29879 3.97795 289 s - - -\n- 2.68646 4.42253 2.77534 2.73151 3.46352 2.40541 3.72522 3.29382 2.67731 2.69349 4.24718 2.90347 2.73744 3.18160 2.89796 2.37800 2.77471 2.98546 4.58505 3.61509\n- 0.49877 0.93465 * 1.23719 0.34277 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2512642389.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2512642389.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,932 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2512642389\n-LENG 303\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:20 2021\n-NSEQ 1\n-EFFN 0.394531\n-CKSUM 2946172339\n-GA 10 10;\n-STATS LOCAL MSV -10.6299 0.70115\n-STATS LOCAL VITERBI -12.0423 0.70115\n-STATS LOCAL FORWARD -5.3672 0.70115\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34160 4.11393 2.82780 2.75428 3.35345 2.83370 3.76996 2.91564 2.86069 2.43610 3.78378 3.16568 3.15081 3.24042 2.83137 2.62481 2.85637 2.58571 4.39510 3.66733\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.74304 4.31099 4.00832 3.67118 3.49189 3.63543 4.48797 2.06276 3.53756 2.19514 3.47211 3.87363 4.20220 3.90440 3.75760 3.13557 3.10768 1.13696 5.26148 3.98686 1 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 1.14050 4.15466 3.38133 3.17137 3.97240 2.98086 4.20281 3.08585 3.18551 2.97092 4.01400 3.34102 3.71247 3.53493 3.44037 2.50673 2.77844 2.75485 5.40802 4.19948 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.92522 2.99738 1.11342 3.00509 3.18856 3.35571 5.20785 4.03738 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.56812 4.34916 3.22461 3.11481 4.25372 0.86950 4.23808 3.83505 3.28449 3.49924 4.47611 3.38949 3.73762 3.61564 3.52760 2.73807 3.04301 3.37964 5.36871 4.35359 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 3.13146 4.65406 3.71740 3.43325 2.30367 3.73473 3.58651 3.15261 3.29315 2.62748 3.83698 3.62422 4.21158 3.61918 3.49304 3.27572 3.41836 3.01955 3.94353 1.11591 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.3082'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 296 1.14050 4.15466 3.38133 3.17137 3.97240 2.98086 4.20281 3.08585 3.18551 2.97092 4.01400 3.34102 3.71247 3.53493 3.44037 2.50673 2.77844 2.75485 5.40802 4.19948 296 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 297 2.90401 5.01295 1.04487 2.29127 4.37980 3.15095 3.86380 3.94988 2.93321 3.57417 4.55270 2.84246 3.79820 3.10451 3.43620 2.87744 3.24166 3.59874 5.56440 4.26936 297 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 298 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.92522 2.99738 1.11342 3.00509 3.18856 3.35571 5.20785 4.03738 298 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 299 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 299 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 300 2.96657 4.41143 4.21298 3.82754 3.32069 3.97284 4.57258 1.18727 3.65384 1.92656 3.27184 4.08459 4.41414 4.01212 3.86003 3.46203 3.26815 1.85079 5.19261 3.92210 300 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 301 2.27811 4.19614 3.13798 2.95218 3.99460 2.92773 4.06323 3.50701 3.02019 3.23457 4.16932 3.18887 3.66017 3.37661 3.30725 1.22353 2.75243 3.06046 5.37431 4.07821 301 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 302 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 302 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 303 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.92522 2.99738 1.11342 3.00509 3.18856 3.35571 5.20785 4.03738 303 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2515675032.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2515675032.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,986 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2515675032\n-LENG 321\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:20 2021\n-NSEQ 1\n-EFFN 0.386719\n-CKSUM 707155588\n-GA 10 10;\n-STATS LOCAL MSV -11.1210 0.70069\n-STATS LOCAL VITERBI -12.1511 0.70069\n-STATS LOCAL FORWARD -5.1918 0.70069\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.79844 4.34314 2.93793 2.53379 3.03682 3.06705 3.78279 2.61206 2.39512 2.41110 3.66453 2.95782 3.78899 3.31340 2.99756 2.74748 2.96923 2.61028 4.84324 3.24665\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 3.12282 4.64800 3.70817 3.42312 2.30521 3.72744 3.58448 3.14490 3.28320 2.62135 3.83004 3.61676 4.20459 3.61078 3.48429 3.26762 3.40977 3.01159 3.94473 1.12856 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 314 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 314 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 315 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 315 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 316 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 316 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 317 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 317 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 318 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 318 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 319 2.90498 4.73416 3.04585 2.79929 3.22761 3.37669 1.34600 3.59367 2.64509 3.09797 4.13594 3.21124 3.92565 3.16509 2.91493 2.97722 3.20636 3.33076 4.69349 3.18152 319 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 320 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 320 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 321 2.65336 4.64266 2.66692 2.54469 3.99250 3.12706 3.85602 3.68605 2.75358 3.34399 4.30178 1.32693 3.77577 3.13079 3.10330 2.72538 3.03360 3.31735 5.30916 3.94892 321 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2518623264.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2518623264.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,842 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2518623264\n-LENG 273\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:20 2021\n-NSEQ 14\n-EFFN 1.329590\n-CKSUM 1315319812\n-GA 10 10;\n-STATS LOCAL MSV -11.1083 0.70210\n-STATS LOCAL VITERBI -11.7317 0.70210\n-STATS LOCAL FORWARD -5.3901 0.70210\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56881 4.18959 2.94765 2.63593 3.22684 3.00405 3.59317 2.77494 2.62453 2.47260 3.62215 2.93923 3.58115 3.01814 3.02589 2.56038 2.88848 2.66864 4.73415 3.43640\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.00000 *\n- 1 3.43425 4.91860 4.62015 4.27851 3.52990 4.22890 4.90207 2.76027 4.01555 2.07246 0.68178 4.48804 4.71451 4.37608 4.15807 3.82079 3.76117 2.81855 5.41718 4.21300 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 2 2.71984 5.20322 2.42825 1.92405 4.53012 3.43825 3.66362 4.00854 2.10932 3.49823 4.25329 2.90774 3.85980 2.09606 2.90510 2.67990 2.95445 3.58557 5.63906 3.30734 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 3 3.35092 4.58707 5.29357 4.78609 3.73822 4.85051 5.41809 1.21582 4.69370 1.86641 3.50862 4.96225 5.07826 4.89490 4.83709 4.24576 3.60134 1.10342 5.77499 4.60411 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 4 2.62795 3.06238 4.05012 3.49412 2.59342 3.64631 4.12100 2.65280 3.39293 2.45243 3.38993 3.70316 4.10060 3.63366 3.61295 1.71961 2.90792 2.03452 4.88140 3.66481 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 5 3.39563 4.63963 5.28981 4.77263 3.61600 4.85917 5.37558 0.96193 4.66549 1.64927 3.38680 4.96285 5.06829 4.83202 4.79291 4.25085 3.64146 1.59685 5.68899 4.55282 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 6 3.22194 5.18560 3.11223 3.06007 4.63731 3.59042 4.44149 4.48627 3.40632 4.08060 5.05403 0.52594 4.27632 3.73843 3.75813 3.28457 3.63318 4.05519 5.88335 4.56898 6 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 7 3.06171 5.65783 1.34174 1.59172 4.96666 3.39978 3.90315 4.49076 2.88407 3.96802 4.790'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 266 2.42929 4.37468 3.20183 2.94961 3.51369 3.62372 3.87933 2.39031 2.90524 2.29867 3.47884 3.35781 3.08546 3.20871 3.26131 2.86904 2.28968 2.64203 4.95834 2.88255 271 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 267 3.37618 5.07593 4.14539 4.11706 5.19810 0.26385 5.17884 4.94343 4.36175 4.52372 5.52236 4.31231 4.47853 4.64852 4.51839 3.56579 3.89328 4.37789 6.13793 5.32547 272 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 268 3.13026 5.01110 3.43268 3.03318 3.03675 3.83248 3.79301 3.62629 2.83420 3.12309 4.13455 3.43972 4.26069 1.62750 3.13952 3.19013 3.36747 3.39924 4.60582 1.48441 273 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 269 2.67231 4.56798 3.31955 2.75330 3.73924 3.58082 3.80129 2.56243 2.12829 2.44541 3.65884 3.21573 3.96396 2.44505 3.07123 2.64526 2.90245 2.37605 5.12326 3.85768 274 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 270 3.50838 4.82152 4.98981 4.54817 0.94536 4.58713 4.37218 2.06824 4.39321 1.96468 3.35446 4.55976 4.87025 4.45286 4.45659 3.97231 3.75177 2.58447 4.56800 2.99853 275 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01926 4.35504 5.07739 0.61958 0.77255 0.48576 0.95510\n- 271 3.04912 1.77025 4.90954 4.37911 3.64034 4.31753 4.89014 1.44941 4.24653 2.33920 3.51176 4.48645 4.68868 4.46132 4.37910 3.68546 3.31982 1.53676 5.41500 4.21894 276 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12850 4.35504 2.22797 0.61958 0.77255 0.48576 0.95510\n- 272 2.33686 3.44674 3.15114 2.21367 3.86341 3.48224 3.73170 3.24482 2.58726 2.62731 3.75300 2.64656 3.88497 2.92886 3.02061 2.71035 2.33993 2.96155 5.20369 3.90931 277 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11673 4.24800 2.34465 0.61958 0.77255 0.62569 0.76549\n- 273 2.15701 4.55519 3.18057 2.18426 3.68679 3.50814 3.74588 3.08316 2.63892 2.42014 3.64885 3.13462 3.90732 2.98458 3.04388 2.75581 2.86647 2.83116 5.08134 2.78940 278 a - - -\n- 2.68636 4.42243 2.77538 2.73141 3.46372 2.40531 3.72413 3.29307 2.67724 2.69373 4.24708 2.90365 2.73684 3.18164 2.89775 2.37889 2.77499 2.98536 4.58495 3.61521\n- 0.27197 1.43497 * 1.35584 0.29804 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2524775996.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2524775996.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,893 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2524775996\n-LENG 290\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:20 2021\n-NSEQ 1\n-EFFN 0.378906\n-CKSUM 1698782386\n-GA 10 10;\n-STATS LOCAL MSV -10.7184 0.70149\n-STATS LOCAL VITERBI -12.0508 0.70149\n-STATS LOCAL FORWARD -5.2584 0.70149\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72478 4.04193 2.85190 2.67752 3.15993 2.98101 3.80031 2.52556 2.61439 2.40493 3.64200 2.82648 3.63614 3.27607 2.98195 2.76889 2.97917 2.58194 5.01346 3.34414\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 2.89119 4.99618 1.06597 2.28568 4.36159 3.14207 3.85418 3.92897 2.92145 3.55591 4.53483 2.83593 3.78851 3.09537 3.42210 2.86658 3.22882 3.57945 5.54867 4.25414 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.33193 3.70624 3.52388 3.42842 2.50191 2.77276 2.74326 5.39725 4.18738 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 6 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.2667'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 283 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 283 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 284 3.11415 4.64195 3.69890 3.41295 2.30689 3.72010 3.58249 3.13717 3.27320 2.61522 3.82311 3.60928 4.19757 3.60236 3.47549 3.25950 3.40117 3.00361 3.94606 1.14147 284 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 285 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 285 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 286 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 286 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 287 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 287 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 288 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 288 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 289 2.89895 4.72874 3.04051 2.79363 3.22377 3.37182 1.36189 3.58658 2.63965 3.09158 4.12932 3.20571 3.92061 3.15945 2.90971 2.97135 3.20025 3.32383 4.68970 3.17794 289 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 290 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 290 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2525400098.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2525400098.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,788 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2525400098\n-LENG 255\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:20 2021\n-NSEQ 18\n-EFFN 1.076660\n-CKSUM 3215194166\n-GA 10 10;\n-STATS LOCAL MSV -11.0468 0.70274\n-STATS LOCAL VITERBI -12.0689 0.70274\n-STATS LOCAL FORWARD -5.0439 0.70274\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72858 3.46224 2.95729 2.56261 3.29238 3.25927 3.61881 2.73673 2.46951 2.51020 3.62986 2.86602 3.53983 3.04726 3.00922 2.69722 2.91167 2.81546 5.05011 3.12662\n- 2.68625 4.42232 2.77526 2.73130 3.46361 2.40506 3.72501 3.29361 2.67730 2.69344 4.24492 2.90353 2.73746 3.18153 2.89808 2.37894 2.77526 2.98518 4.58484 3.61510\n- 0.55673 1.67304 1.43027 0.70495 0.68149 0.00000 *\n- 1 2.41101 4.55938 3.25726 2.68295 3.76669 3.49667 3.68711 3.11400 2.17546 2.77390 2.48756 3.13006 3.88814 2.90336 2.44242 2.75881 2.86651 2.86067 5.09750 3.84536 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02854 3.96659 4.68894 0.61958 0.77255 0.75072 0.63871\n- 2 2.67325 5.02666 2.65708 1.92538 4.33984 3.33409 3.61455 3.78395 2.14281 3.32410 4.12351 2.50435 3.79324 2.74939 2.82986 2.44599 2.61066 3.40854 5.50512 4.13176 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02854 3.96659 4.68894 0.61958 0.77255 0.75072 0.63871\n- 3 2.74033 5.19425 1.98200 2.19293 4.51300 3.27493 3.65138 3.99220 2.16652 3.50614 4.30597 2.17726 3.79296 2.79013 3.00945 2.43878 2.99877 3.58525 5.67094 4.24458 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02854 3.96659 4.68894 0.61958 0.77255 0.75072 0.63871\n- 4 2.55719 4.32485 3.35388 2.48085 3.08424 3.51393 3.75338 2.54143 2.52298 2.52135 3.41929 3.21650 3.89460 3.06011 3.10705 2.75563 2.78864 2.42422 4.88487 3.07184 8 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02854 3.96659 4.68894 0.61958 0.77255 0.44015 1.03265\n- 5 2.62419 4.18733 3.81439 3.24246 2.62891 3.67457 3.95777 2.58710 3.15296 2.11429 2.36586 3.10120 4.04884 3.41935 3.41641 2.94817 2.36351 2.40210 4.77580 3.55659 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16818 4.89053 0.61958 0.77255 0.56208 0.84402\n- 6 2.60503 4.39214 3.38049 2.57162 3.52940 3.55344 3.18937 2.43163 2.75047 2.60573 3.49109 3.24530 3.93443 3.08312 2.77668 2.79304 2.83579 2.30670 4.95366 2.90227 10 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16818 4.89053 0.61958 0.77255 0.56208 0.84402\n- 7 3.32965 4.61804 5.05143 4.50606 3.29956 4.67407 5.06837 1.54104 4.37637 1.05330 3.082'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02184 4.23080 4.95314 0.61958 0.77255 0.48576 0.95510\n- 248 3.03426 4.45033 4.42797 3.88798 2.83950 4.12629 4.12785 1.99802 3.72778 1.71146 3.28125 4.04841 4.44863 3.92782 3.88660 3.43874 3.26423 2.42549 4.53972 1.60717 304 y - - -\n- 2.68627 4.42133 2.77528 2.73132 3.46363 2.40522 3.72503 3.29363 2.67732 2.69346 4.24698 2.90338 2.73748 3.18128 2.89792 2.37896 2.77491 2.98527 4.58486 3.61512\n- 0.29495 1.39282 4.95314 0.67471 0.71193 0.48576 0.95510\n- 249 2.62255 3.45525 4.26328 3.66979 2.76658 3.13040 4.06854 1.69619 3.52010 2.21433 2.88609 3.80415 4.12085 3.71046 3.64202 3.05267 2.85539 2.26160 4.66635 3.05681 307 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02184 4.23080 4.95314 0.61958 0.77255 0.48576 0.95510\n- 250 2.62548 4.48044 4.69521 4.12454 3.26176 4.32843 4.67198 1.80781 3.99424 1.11613 2.72355 4.34645 4.60236 4.16263 4.14102 3.65262 3.33994 2.16100 5.15123 4.03677 308 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02184 4.23080 4.95314 0.61958 0.77255 0.48576 0.95510\n- 251 2.29440 4.54142 2.88360 2.67728 3.74373 2.76872 3.76204 2.52915 2.66193 2.79677 3.14288 3.14573 3.90147 2.99102 3.07958 2.32356 2.84975 2.84935 5.12050 3.84496 309 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02184 4.23080 4.95314 0.61958 0.77255 0.48576 0.95510\n- 252 2.62535 4.63572 2.90492 2.59962 3.30426 3.50048 3.71569 3.21197 1.96573 2.45365 3.72008 3.08941 3.88792 2.91896 3.00388 2.71927 2.59244 2.93766 5.16032 3.27146 310 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02184 4.23080 4.95314 0.61958 0.77255 0.48576 0.95510\n- 253 2.60949 4.32761 3.49934 2.93479 3.46900 2.74709 3.32613 2.82680 2.88058 2.23267 2.93534 3.33501 3.97104 3.18745 3.22892 2.42720 2.84483 2.21885 4.91615 3.68165 311 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14694 4.23080 2.10282 0.61958 0.77255 0.48576 0.95510\n- 254 2.94628 5.13868 3.32244 2.70167 4.57356 3.61837 3.64122 3.94443 1.47833 3.41267 4.25066 3.14429 4.00012 2.77107 1.66504 2.54384 3.13846 3.60119 5.49128 4.27090 312 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02471 4.10857 4.83092 0.61958 0.77255 0.62581 0.76535\n- 255 2.64558 4.66602 3.15691 2.42462 3.87179 3.49595 3.68377 2.59611 2.44284 2.61914 3.75169 2.73919 3.88255 2.87513 2.17413 2.73105 2.87184 2.96607 5.18273 3.89875 313 r - - -\n- 2.68627 4.42234 2.77529 2.73132 3.46363 2.40522 3.72504 3.29246 2.67733 2.69364 4.24699 2.90335 2.73749 3.18155 2.89810 2.37887 2.77515 2.98509 4.58486 3.61512\n- 0.38948 1.13137 * 0.60091 0.79476 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2525488910.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2525488910.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,902 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2525488910\n-LENG 293\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:21 2021\n-NSEQ 2\n-EFFN 0.652344\n-CKSUM 1255580245\n-GA 10 10;\n-STATS LOCAL MSV -11.1406 0.70151\n-STATS LOCAL VITERBI -11.9473 0.70151\n-STATS LOCAL FORWARD -5.4434 0.70151\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70949 4.32622 2.77027 2.65123 3.09400 3.24928 3.69530 2.73152 2.54921 2.39381 3.70833 2.89311 3.63662 3.07843 2.99041 2.63830 2.84941 2.69047 4.84406 3.32846\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28011 3.97985 1.48896 0.61958 0.77255 0.00000 *\n- 1 3.00589 4.51197 3.96584 3.61120 3.09283 3.80161 4.30991 2.29733 3.38003 1.06516 3.16968 3.89899 4.26476 3.78160 3.57609 3.36498 3.30886 2.29790 4.91647 3.60647 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.68473 0.70164\n- 2 2.84388 4.91085 2.44816 1.23867 4.24160 3.19216 3.77494 3.66826 2.63869 3.31048 4.29673 2.87234 3.79208 2.99757 3.02840 2.84444 3.14921 3.36866 5.43986 4.16859 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.37885 1.15406\n- 3 3.10711 4.48162 4.60639 4.06532 3.20306 4.32261 4.69361 1.48268 3.90553 1.65844 1.95599 4.32411 4.59620 4.12648 4.07980 3.67204 3.34866 2.00682 5.17236 4.03390 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 4 3.21415 4.54676 4.75451 4.23136 3.20639 4.47841 4.84460 1.43420 4.06237 1.21637 3.03590 4.48988 4.71896 4.27578 4.22398 3.85039 3.45526 1.94620 5.24229 4.08341 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 5 3.11510 4.50531 4.48604 4.10669 3.44810 4.18065 4.81570 0.95411 3.93687 2.01329 3.36788 4.33708 4.60245 4.27471 4.12127 3.68716 3.41273 1.85411 5.36043 4.10733 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 6 2.81499 4.81349 2.77205 2.66884 4.19411 3.25799 4.01159 3.92856 2.92480 3.56352 4.51883 0.98116 3.91553 3.28529 3.28245 2.87856 3.20086 3.53989 5.48779 4.13532 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 7 2.94690 5.51021 1.49807 1.46219 4.79599 3.21775 3.76421 4.31235 2.78267 3.81831 4.6751'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.68473 0.70164\n- 286 2.85343 4.80036 3.02004 2.67476 4.15517 3.35174 3.69745 3.57712 1.24427 3.17536 4.14983 3.10329 3.86648 2.90100 2.42668 2.90776 3.12005 3.29453 5.27093 4.06576 297 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.68473 0.70164\n- 287 2.85343 4.80036 3.02004 2.67476 4.15517 3.35174 3.69745 3.57712 1.24427 3.17536 4.14983 3.10329 3.86648 2.90100 2.42668 2.90776 3.12005 3.29453 5.27093 4.06576 298 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.68473 0.70164\n- 288 3.05963 4.60413 3.63975 3.34864 2.32064 3.67326 3.57142 3.08866 3.21000 2.57682 3.77996 3.56201 4.15310 3.54932 3.41975 3.20833 3.34727 2.95356 3.95734 1.22833 299 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.68473 0.70164\n- 289 3.05963 4.60413 3.63975 3.34864 2.32064 3.67326 3.57142 3.08866 3.21000 2.57682 3.77996 3.56201 4.15310 3.54932 3.41975 3.20833 3.34727 2.95356 3.95734 1.22833 300 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.68473 0.70164\n- 290 2.78231 4.75307 2.82394 2.58283 3.90130 3.28050 3.73770 3.51647 2.41512 3.03204 4.07013 3.03889 3.83605 1.50060 2.69950 2.83888 3.08245 3.25670 5.20130 3.88745 301 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03608 3.73582 4.45817 0.61958 0.77255 0.37885 1.15406\n- 291 2.50065 4.58651 2.76750 2.55912 4.28950 3.12083 3.88811 3.80921 2.77000 3.42935 4.26853 1.84456 3.76737 3.09394 3.17754 1.70951 2.89180 3.35086 5.57968 4.22974 302 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 292 2.79207 5.06094 2.59362 2.35836 4.35531 3.32675 3.70024 3.89754 2.42645 3.43230 4.28392 1.90764 3.85666 1.91723 2.81049 2.77320 3.06247 3.52699 5.54401 4.16439 303 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02816 3.97985 4.70219 0.61958 0.77255 0.48576 0.95510\n- 293 2.83132 4.71029 3.37337 2.84475 3.78002 3.61089 3.77864 3.05821 1.70474 1.86878 3.72633 3.26524 4.01833 2.99770 2.62195 2.95573 3.05940 2.87715 5.17295 3.90704 304 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01904 3.97073 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2583135648.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2583135648.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,947 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2583135648\n-LENG 308\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:21 2021\n-NSEQ 1\n-EFFN 0.378906\n-CKSUM 401439245\n-GA 10 10;\n-STATS LOCAL MSV -11.0195 0.70100\n-STATS LOCAL VITERBI -12.0095 0.70100\n-STATS LOCAL FORWARD -5.4644 0.70100\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61873 3.81429 2.89055 2.68730 3.22275 3.03823 3.52456 2.67636 2.62995 2.38111 3.73772 2.99220 3.48221 3.22945 2.96594 2.64248 2.94161 2.68878 4.54819 3.42540\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.29527'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 301 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 301 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 302 2.89895 4.72874 3.04051 2.79363 3.22377 3.37182 1.36189 3.58658 2.63965 3.09158 4.12932 3.20571 3.92061 3.15945 2.90971 2.97135 3.20025 3.32383 4.68970 3.17794 302 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 303 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 303 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 304 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 304 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 305 2.89895 4.72874 3.04051 2.79363 3.22377 3.37182 1.36189 3.58658 2.63965 3.09158 4.12932 3.20571 3.92061 3.15945 2.90971 2.97135 3.20025 3.32383 4.68970 3.17794 305 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 306 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 306 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 307 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 307 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 308 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 308 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2596897843.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2596897843.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,776 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2596897843\n-LENG 251\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:21 2021\n-NSEQ 2\n-EFFN 0.675781\n-CKSUM 2219684384\n-GA 10 10;\n-STATS LOCAL MSV -10.8855 0.70291\n-STATS LOCAL VITERBI -11.6970 0.70291\n-STATS LOCAL FORWARD -4.8749 0.70291\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54931 4.21362 2.86113 2.59051 3.25370 3.09444 3.68319 2.74959 2.69464 2.36289 3.66601 2.98711 3.55724 3.16951 2.90493 2.70825 2.95111 2.59875 4.96885 3.25486\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02771 3.99548 4.71782 0.61958 0.77255 0.00000 *\n- 1 3.06940 4.59961 4.18307 3.78722 3.26657 3.92663 4.49395 2.45467 3.54812 1.84401 1.16057 4.04910 4.38916 3.92265 3.73872 3.43069 3.37778 2.47474 5.12297 3.89485 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28746 3.99548 1.46345 0.61958 0.77255 0.48576 0.95510\n- 2 2.26030 4.17616 3.10220 2.91693 3.94938 2.90876 4.02795 3.45674 2.98150 3.18905 4.12991 3.15952 3.63795 3.34242 3.26819 1.30376 2.73164 3.02070 5.33355 4.03330 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 3 3.01454 4.51790 3.97924 3.62395 3.09495 3.81267 4.32015 2.29895 3.39272 1.05266 3.16805 3.91109 4.27395 3.79231 3.58774 3.37604 3.31686 2.30175 4.92216 3.61418 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 4 2.70706 4.29050 3.94191 3.60627 3.46107 3.58440 4.43170 2.07555 3.47170 2.17482 3.45159 3.81512 4.15576 3.84319 3.69550 3.08396 3.07416 1.20624 5.22176 3.94288 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 5 2.93050 4.39195 4.14150 3.75676 3.29257 3.91761 4.51200 1.25430 3.58179 1.91175 3.25475 4.02019 4.36604 3.94665 3.79330 3.40482 3.23414 1.85891 5.15269 3.87606 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.37525 1.16193\n- 6 2.83260 5.08059 2.76183 2.44631 4.45243 3.39978 3.67672 3.90828 1.63144 3.43301 4.27718 1.92859 3.89134 2.82864 2.59249 2.81728 3.08089 3.54384 5.53983 4.22047 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02771 3.99548 4.71782 0.61958 0.77255 0.48576 0.95510\n- 7 2.70800 4.94792 2.52779 1.64533 4.39711 3.24997 3.76191 3.84201 2.61937 3.43538 4.2796'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 244 2.45517 1.24481 3.93764 3.65170 3.67719 3.10083 4.32771 2.80354 3.47895 2.72286 3.84215 3.67309 3.79763 3.83109 3.62461 2.72572 2.91186 2.55592 5.11589 3.96448 265 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 245 2.70706 4.29050 3.94191 3.60627 3.46107 3.58440 4.43170 2.07555 3.47170 2.17482 3.45159 3.81512 4.15576 3.84319 3.69550 3.08396 3.07416 1.20624 5.22176 3.94288 266 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 246 2.62387 4.60777 2.65266 2.52765 3.95160 3.10291 3.83056 3.63882 2.72605 3.30225 4.26223 1.40915 3.75087 3.10737 3.07257 2.69878 3.00410 3.27425 5.27335 3.91243 267 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 247 3.01454 4.51790 3.97924 3.62395 3.09495 3.81267 4.32015 2.29895 3.39272 1.05266 3.16805 3.91109 4.27395 3.79231 3.58774 3.37604 3.31686 2.30175 4.92216 3.61418 268 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 248 2.35230 4.19526 3.32156 3.07367 3.86232 3.03715 4.09976 2.97422 3.01399 2.84189 3.90529 3.30058 3.73261 3.41678 3.27588 2.55269 1.41142 2.68324 5.31206 4.08047 269 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 249 2.85848 4.95197 1.12249 2.27286 4.31381 3.11946 3.83032 3.87433 2.89225 3.50840 4.48873 2.82041 3.76392 3.07316 3.38641 2.83932 3.19625 3.52916 5.50729 4.21465 270 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 250 2.62387 4.60777 2.65266 2.52765 3.95160 3.10291 3.83056 3.63882 2.72605 3.30225 4.26223 1.40915 3.75087 3.10737 3.07257 2.69878 3.00410 3.27425 5.27335 3.91243 271 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 3.74381 4.46615 0.61958 0.77255 0.69259 0.69371\n- 251 2.93050 4.39195 4.14150 3.75676 3.29257 3.91761 4.51200 1.25430 3.58179 1.91175 3.25475 4.02019 4.36604 3.94665 3.79330 3.40482 3.23414 1.85891 5.15269 3.87606 272 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02423 3.73225 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2597471359.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2597471359.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,830 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2597471359\n-LENG 269\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:21 2021\n-NSEQ 12\n-EFFN 1.215820\n-CKSUM 3270567018\n-GA 10 10;\n-STATS LOCAL MSV -10.8262 0.70221\n-STATS LOCAL VITERBI -11.9577 0.70221\n-STATS LOCAL FORWARD -5.1418 0.70221\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67271 4.53918 2.88491 2.53046 3.20888 3.16440 3.54004 2.73889 2.56844 2.46218 3.80378 2.85991 3.77272 2.96502 2.98514 2.61354 2.82102 2.75048 4.44080 3.39844\n- 2.68632 4.42239 2.77533 2.73137 3.46367 2.40526 3.72508 3.29273 2.67703 2.69368 4.24348 2.90360 2.73753 3.18160 2.89814 2.37883 2.77533 2.98532 4.58490 3.61517\n- 0.31241 1.34042 5.02340 0.91523 0.51153 0.00000 *\n- 1 3.27479 4.60380 4.95278 4.39683 3.34349 4.55283 4.94127 1.71253 4.25876 1.77590 1.36182 4.60923 4.79821 4.40949 4.38643 3.90258 3.51143 1.91397 5.33319 4.23128 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 2 2.98301 5.57086 1.92098 1.32615 4.86979 3.38656 3.82798 4.38555 2.74499 3.85701 4.66250 2.83829 3.95074 2.11274 3.30094 2.88297 3.24909 3.94503 5.99984 4.51613 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 3 3.34813 4.59819 5.21838 4.70626 3.63087 4.80808 5.34060 0.93960 4.59886 1.80762 3.40574 4.90364 5.03251 4.79307 4.74490 4.20039 3.59745 1.53537 5.68990 4.53386 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 4 3.59842 4.88752 5.04209 4.59180 1.14824 4.67148 4.38008 2.60675 4.42827 1.27860 3.21315 4.61444 4.90106 4.44949 4.47253 4.05738 3.82512 2.74051 4.54314 2.98939 7 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 5 3.43427 4.69947 5.19755 4.68572 3.43411 4.81213 5.24602 0.99192 4.52775 1.39934 3.23339 4.89749 5.01477 4.69293 4.64447 4.21069 3.67677 1.95899 5.52842 4.39049 8 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 6 3.15446 5.12634 3.05216 2.99203 4.56658 3.53474 4.36903 4.39643 3.32469 3.99705 4.96655 0.57813 4.21623 3.66109 3.67853 3.21641 3.56134 3.97205 5.82055 4.49847 9 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05879 4.30106 3.13410 0.61958 0.77255 0.48576 0.95510\n- 7 3.35716 5.49284 2.73443 0.57458 4.89886 3.57694 4.22294 4.43676 3.15952 3.99731 4.974'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 262 2.76880 5.22796 2.36477 2.33171 4.56120 3.40498 3.71430 4.03858 2.33279 3.54458 4.31953 1.78601 3.00734 2.83714 3.02931 2.31042 3.01775 3.62248 5.70254 4.28620 298 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 263 2.72793 5.12556 2.39217 2.36486 4.42786 2.37696 3.69085 3.88652 2.29890 2.84449 4.20173 2.11694 3.86697 2.81625 2.97314 2.70242 2.96917 3.49810 5.59746 4.20494 299 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 264 3.34084 5.42835 3.85164 3.06538 4.97273 3.90962 3.75103 4.27574 1.23819 3.64993 4.53033 3.42563 4.24894 2.87881 1.21224 3.32043 3.47186 3.95969 5.63136 4.52028 300 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 265 2.67106 4.78192 3.13823 2.57493 4.02587 3.50596 3.71107 3.42392 2.23167 3.04551 3.19799 3.07251 3.90028 2.87923 2.53027 2.31598 2.01153 3.12037 5.30387 3.99912 301 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 266 3.43716 4.70212 5.20116 4.68799 3.42762 4.81441 5.24516 1.00591 4.53040 1.37522 3.22583 4.89984 5.01469 4.69148 4.64518 4.21227 3.67900 1.96699 5.52380 4.38924 302 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30106 5.02340 0.61958 0.77255 0.48576 0.95510\n- 267 2.72424 5.21331 2.13294 2.33029 4.53776 3.41617 3.23113 4.01796 2.26317 3.50833 4.26690 2.14445 3.85152 2.46168 2.92894 2.68027 2.61613 3.59452 5.65159 4.23816 303 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14459 4.30106 2.11142 0.61958 0.77255 0.48576 0.95510\n- 268 2.64623 4.28744 3.64609 3.07725 3.42235 3.66024 3.92582 2.10095 2.54813 2.07351 3.38713 3.01053 4.03567 3.29637 3.28409 2.92258 2.87908 2.11176 4.90667 3.68392 304 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22471 4.17947 1.68232 0.61958 0.77255 0.63459 0.75534\n- 269 2.56199 4.62534 2.92725 2.50880 3.88664 2.74126 3.70430 3.36748 2.56930 3.00223 3.84706 2.49590 3.80800 2.90642 3.00062 2.18577 2.83833 3.04958 5.22536 2.92396 305 s - - -\n- 2.68631 4.42238 2.77507 2.73136 3.46367 2.40526 3.72442 3.29297 2.67754 2.69344 4.24703 2.90341 2.73728 3.18159 2.89785 2.37900 2.77532 2.98531 4.58490 3.61458\n- 0.36295 1.18948 * 1.01810 0.44829 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2598643479.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2598643479.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,896 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2598643479\n-LENG 291\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:21 2021\n-NSEQ 3\n-EFFN 0.512695\n-CKSUM 3695669410\n-GA 10 10;\n-STATS LOCAL MSV -10.7601 0.70149\n-STATS LOCAL VITERBI -11.9437 0.70149\n-STATS LOCAL FORWARD -5.8337 0.70149\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66208 4.17675 2.85780 2.75124 3.19396 3.03836 3.65989 2.59256 2.72365 2.38367 3.67463 2.93893 3.44223 3.20171 3.04576 2.62422 2.83347 2.65512 4.69960 3.29547\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.00000 *\n- 1 2.97595 4.52329 4.05877 3.65279 3.21133 3.84060 4.38589 2.38780 3.42042 1.80459 1.36118 3.92923 4.30117 3.80167 3.62473 3.32603 3.28138 2.39496 5.05338 3.81599 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 2 3.03792 4.45403 4.34842 3.96444 3.37997 4.07621 4.69083 1.06708 3.79275 1.96405 3.31380 4.20853 4.50646 4.14005 3.98830 3.57225 3.33687 1.84586 5.27271 4.01186 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 3 3.25955 4.74499 3.85110 3.58201 2.29333 3.84029 3.62229 3.26752 3.43927 2.71921 3.94160 3.73411 4.31386 3.74321 3.62123 3.39542 3.54624 3.13847 3.93747 0.95129 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 4 3.19047 4.57624 4.49080 4.00106 1.95200 4.26370 4.23538 2.30518 3.85999 1.18177 2.98932 4.18998 4.53989 4.01427 4.01172 3.62513 3.42650 2.38334 4.53982 3.06609 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 5 2.73048 4.72757 2.71277 2.59906 4.09244 3.18968 3.92771 3.80457 2.83206 3.45040 4.40549 1.14258 3.84191 3.20037 3.18712 2.79726 3.11256 3.42589 5.39733 4.04006 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 6 2.29022 4.26644 3.09908 2.82665 4.16230 2.98366 3.99467 3.61108 2.90555 3.27961 4.13188 3.12742 2.21934 3.23910 3.25352 1.59567 2.73340 3.13551 5.49095 4.22183 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 7 3.16499 4.62457 4.20366 3.84341 3.13883 3.99340 4.49638 2.34320 3.61107 0.86444 3.1587'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 284 2.41720 4.26234 3.43564 3.18788 3.97639 3.10137 4.20457 3.10458 3.13104 2.96777 4.01761 3.39596 3.80576 3.52538 3.38939 2.61855 1.15709 2.79863 5.41341 4.19298 287 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 285 2.64442 4.65756 3.11443 2.70097 4.21468 2.13316 3.76463 3.66310 2.36149 3.24864 4.11717 3.11253 3.83385 2.95550 1.69571 2.72698 2.95997 3.29571 5.37244 4.14159 288 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 286 1.94787 4.55878 3.22068 2.74810 4.07231 3.29873 3.75946 3.40689 2.35860 3.06242 3.96325 3.13471 3.83074 2.95540 1.81110 2.68448 2.89339 3.08230 5.31703 4.06925 289 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 287 3.00411 4.82022 3.13394 2.89464 3.29061 3.45469 1.12409 3.70840 2.73744 3.20132 4.24485 3.30367 4.00763 3.26095 3.00269 3.07468 3.30772 3.44335 4.75557 3.24119 290 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 288 2.73048 4.72757 2.71277 2.59906 4.09244 3.18968 3.92771 3.80457 2.83206 3.45040 4.40549 1.14258 3.84191 3.20037 3.18712 2.79726 3.11256 3.42589 5.39733 4.04006 291 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 289 3.03792 4.45403 4.34842 3.96444 3.37997 4.07621 4.69083 1.06708 3.79275 1.96405 3.31380 4.20853 4.50646 4.14005 3.98830 3.57225 3.33687 1.84586 5.27271 4.01186 292 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 290 2.62045 4.60843 3.24156 2.73701 4.06833 3.34924 3.72534 3.40302 2.28860 3.04608 3.94760 3.13314 3.85173 2.91506 1.80068 2.72089 2.13969 3.09191 5.29635 4.05109 293 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03112 3.88126 4.60361 0.61958 0.77255 0.48576 0.95510\n- 291 3.14372 4.50940 4.58553 4.06569 3.15603 4.36101 4.71242 1.56784 3.88874 1.21994 3.00526 4.34339 4.62383 4.13426 4.07243 3.72828 3.38756 1.94881 5.16627 3.98420 294 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02105 3.87120 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2601090942.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2601090942.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,875 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2601090942\n-LENG 284\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:22 2021\n-NSEQ 19\n-EFFN 1.359131\n-CKSUM 57533031\n-GA 10 10;\n-STATS LOCAL MSV -10.9781 0.70173\n-STATS LOCAL VITERBI -11.7183 0.70173\n-STATS LOCAL FORWARD -5.2970 0.70173\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72091 4.34937 2.88112 2.55505 2.96946 3.20593 3.64557 2.83317 2.52002 2.43889 3.70651 2.94037 3.71697 3.00920 2.92500 2.60512 2.92739 2.82103 4.40594 3.24122\n- 2.68625 4.42232 2.77526 2.73130 3.46361 2.40520 3.72501 3.29361 2.67748 2.69362 4.24398 2.90321 2.73746 3.18153 2.89808 2.37884 2.77526 2.98525 4.58484 3.61510\n- 0.24055 1.57188 5.09094 0.52532 0.89494 0.00000 *\n- 1 2.69645 4.75247 2.65910 2.60613 3.97064 3.52123 3.76983 3.36159 2.60422 3.00736 1.82451 2.83703 3.93339 2.95956 2.78733 2.77169 2.72770 3.07397 5.29430 3.99175 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 2 2.85776 5.40565 2.22066 1.46117 4.72604 2.75792 3.75760 4.22506 2.30191 3.69937 4.46942 2.70630 3.91777 2.58170 3.11309 2.78782 3.10642 3.78612 5.83677 4.38972 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 3 2.45590 4.38157 4.82673 4.26653 2.99452 4.33604 4.74561 1.22103 4.14143 2.09207 3.39394 4.41332 4.64890 4.33234 4.26958 3.67008 3.28890 1.57860 5.25929 4.07740 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 4 3.03595 4.39882 4.75583 4.17421 3.23176 4.24448 4.54893 1.73736 4.02151 1.24649 3.16080 4.31051 4.54350 4.16628 4.11609 3.56403 3.26568 1.97609 5.00414 2.81726 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 5 3.42755 4.69956 5.27818 4.71070 2.76363 4.76514 5.10325 1.44488 4.58002 1.05262 3.08706 4.87261 4.94063 4.61421 4.62206 4.12370 3.65076 2.03753 5.33863 4.25930 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 6 3.23934 5.20079 3.12789 3.07774 4.65546 3.60482 4.46021 4.50934 3.42742 4.10204 5.07652 0.51347 4.29182 3.75844 3.77867 3.30218 3.65171 4.07653 5.89943 4.58712 9 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 7 3.49574 5.61991 2.83209 0.48341 5.04707 3.68119 4.35122 4.61199 3.30658 4.15775 5.14228'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 277 2.96361 5.44801 1.19909 2.12598 4.79189 3.41068 3.87238 4.27965 2.80083 3.79393 4.60568 2.89601 3.97540 3.02083 3.35440 2.47509 2.55805 3.85727 5.96488 4.50673 312 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 278 3.70760 5.38116 3.77427 3.60996 3.77382 3.98275 0.42781 4.49501 3.44726 3.90963 5.01421 3.98789 4.57392 3.99096 3.66816 3.78285 4.03972 4.22042 5.22145 3.71640 313 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 279 2.69203 5.08126 2.98641 2.01529 4.39281 3.47424 3.65210 3.84269 1.91192 3.16151 4.13591 2.96175 3.86567 2.76554 2.41182 2.39349 2.70756 3.15706 5.52946 4.15889 314 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 280 2.77028 4.20043 4.34412 3.75718 3.26483 3.91585 4.23144 1.83578 3.13152 1.64548 3.24251 3.93287 4.26849 3.82315 3.75960 3.21457 3.00294 1.81770 4.84866 3.23254 315 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 281 2.64108 4.55323 3.73402 3.60404 4.63008 3.27855 4.68150 4.23760 3.71502 3.92685 4.82620 3.72092 4.06334 4.02565 3.96183 0.53449 3.16308 3.65444 5.96405 4.72645 316 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01900 4.36860 5.09094 0.61958 0.77255 0.48576 0.95510\n- 282 3.25375 5.93923 0.83132 2.02478 5.20946 3.40185 4.01752 4.77568 3.12934 4.23846 5.11910 2.47097 4.06920 3.19485 3.79172 3.09776 3.56047 4.31553 6.38790 4.81133 317 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08004 4.36860 2.74495 0.61958 0.77255 0.48576 0.95510\n- 283 2.64576 4.83160 3.05087 2.49535 3.53560 3.12945 3.04692 3.48241 2.38994 3.08930 3.90519 2.21746 3.86776 2.83494 2.70029 2.68376 2.64308 2.73825 5.33620 4.00535 318 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02018 4.30874 5.03109 0.61958 0.77255 0.56931 0.83452\n- 284 2.89609 4.88474 3.14221 2.98512 4.70302 0.79068 4.26441 4.19116 2.49747 3.80252 4.68475 3.39295 4.09572 3.49618 3.37383 2.99290 3.30247 3.73693 5.87484 4.66167 319 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01363 4.30219 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2602479687.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2602479687.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,866 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2602479687\n-LENG 281\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:22 2021\n-NSEQ 1\n-EFFN 0.394531\n-CKSUM 969414444\n-GA 10 10;\n-STATS LOCAL MSV -10.7472 0.70186\n-STATS LOCAL VITERBI -11.9474 0.70186\n-STATS LOCAL FORWARD -5.2000 0.70186\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53832 4.35396 2.79317 2.56996 3.32870 2.93748 3.80281 2.74202 2.68588 2.36289 3.71362 3.03899 3.48312 3.23261 2.89636 2.67565 2.96830 2.56971 4.77536 3.52078\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.92522 2.99738 1.11342 3.00509 3.18856 3.35571 5.20785 4.03738 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 3.15591 4.58303 4.12399 3.82465 1.15817 3.86125 3.84610 2.69205 3.73420 2.08251 3.43608 3.92688 4.32333 3.92577 3.87440 3.42888 3.45785 2.67623 4.12355 2.50250 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 274 2.96657 4.41143 4.21298 3.82754 3.32069 3.97284 4.57258 1.18727 3.65384 1.92656 3.27184 4.08459 4.41414 4.01212 3.86003 3.46203 3.26815 1.85079 5.19261 3.92210 274 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 275 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 275 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 276 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 276 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 277 2.27811 4.19614 3.13798 2.95218 3.99460 2.92773 4.06323 3.50701 3.02019 3.23457 4.16932 3.18887 3.66017 3.37661 3.30725 1.22353 2.75243 3.06046 5.37431 4.07821 277 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 278 1.14050 4.15466 3.38133 3.17137 3.97240 2.98086 4.20281 3.08585 3.18551 2.97092 4.01400 3.34102 3.71247 3.53493 3.44037 2.50673 2.77844 2.75485 5.40802 4.19948 278 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 279 2.91563 4.75623 3.39820 2.92976 4.08980 3.41662 3.77100 3.62761 2.21408 3.15887 4.16342 3.29476 3.92522 2.99738 1.11342 3.00509 3.18856 3.35571 5.20785 4.03738 279 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 280 2.96657 4.41143 4.21298 3.82754 3.32069 3.97284 4.57258 1.18727 3.65384 1.92656 3.27184 4.08459 4.41414 4.01212 3.86003 3.46203 3.26815 1.85079 5.19261 3.92210 280 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 281 2.74304 4.31099 4.00832 3.67118 3.49189 3.63543 4.48797 2.06276 3.53756 2.19514 3.47211 3.87363 4.20220 3.90440 3.75760 3.13557 3.10768 1.13696 5.26148 3.98686 281 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2602512313.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2602512313.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,779 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2602512313\n-LENG 252\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:22 2021\n-NSEQ 1\n-EFFN 0.378906\n-CKSUM 3155369398\n-GA 10 10;\n-STATS LOCAL MSV -10.7133 0.70275\n-STATS LOCAL VITERBI -11.7331 0.70275\n-STATS LOCAL FORWARD -4.8245 0.70275\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52295 4.02821 2.81844 2.73558 3.04879 2.95963 3.72043 2.72473 2.71896 2.42594 3.72726 2.90148 3.68012 3.27579 3.03644 2.66086 2.92223 2.71234 4.52967 3.14294\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 3.11415 4.64195 3.69890 3.41295 2.30689 3.72010 3.58249 3.13717 3.27320 2.61522 3.82311 3.60928 4.19757 3.60236 3.47549 3.25950 3.40117 3.00361 3.94606 1.14147 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.2952'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 245 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 245 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 246 2.27294 4.19044 3.12785 2.94209 3.98201 2.92230 4.05319 3.49296 3.00917 3.22179 4.15813 3.18047 3.65381 3.36680 3.29620 1.24540 2.74641 3.04931 5.36292 4.06569 246 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 247 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 247 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 248 2.27294 4.19044 3.12785 2.94209 3.98201 2.92230 4.05319 3.49296 3.00917 3.22179 4.15813 3.18047 3.65381 3.36680 3.29620 1.24540 2.74641 3.04931 5.36292 4.06569 248 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 249 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.29527 1.33997 3.77165 3.12679 3.09818 2.72096 3.02872 3.31033 5.30336 3.94300 249 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 250 2.48643 1.15770 3.97923 3.69924 3.71532 3.12702 4.36773 2.84563 3.52631 2.76425 3.88366 3.71182 3.82638 3.87674 3.66674 2.75740 2.94556 2.59612 5.14886 4.00291 250 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 251 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 251 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 252 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.29527 1.33997 3.77165 3.12679 3.09818 2.72096 3.02872 3.31033 5.30336 3.94300 252 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2617187710.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2617187710.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,905 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2617187710\n-LENG 294\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:22 2021\n-NSEQ 17\n-EFFN 0.884033\n-CKSUM 2802968998\n-GA 10 10;\n-STATS LOCAL MSV -10.8495 0.70143\n-STATS LOCAL VITERBI -11.7974 0.70143\n-STATS LOCAL FORWARD -5.2822 0.70143\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57043 4.35477 2.79276 2.57524 3.11864 3.01060 3.72727 2.77883 2.68750 2.33970 3.68826 3.00006 3.56909 3.06556 3.02150 2.66160 2.93462 2.76802 4.47622 3.38961\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07247 4.12460 2.92368 0.61958 0.77255 0.00000 *\n- 1 3.03367 4.49154 4.44905 3.93242 3.27402 4.13893 4.60650 2.17502 3.76153 1.77841 1.51101 4.18228 4.50161 4.02650 3.95826 3.50318 3.30407 1.79873 5.18561 4.02207 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02550 4.07763 4.79997 0.61958 0.77255 0.53827 0.87648\n- 2 3.04500 5.62540 1.10132 1.76671 4.91060 3.25760 3.84386 4.44071 2.90571 3.94449 4.82003 2.72440 3.90275 3.01967 3.52266 2.91541 3.34407 4.01178 6.08949 4.57233 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02550 4.07763 4.79997 0.61958 0.77255 0.53827 0.87648\n- 3 2.73539 4.56401 3.37036 2.83218 3.14195 3.61420 2.31418 3.10199 2.68471 2.18930 3.65267 3.25222 3.99558 2.81741 3.02874 2.87245 2.96220 2.87146 4.65601 2.63470 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02550 4.07763 4.79997 0.61958 0.77255 0.53827 0.87648\n- 4 1.94585 4.25650 3.55399 3.04408 3.65903 3.35795 3.98145 2.26455 2.99259 2.69605 3.60561 3.36128 3.89215 3.30100 3.32767 2.29095 2.22493 2.58933 5.10833 3.88069 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02550 4.07763 4.79997 0.61958 0.77255 0.45427 1.00761\n- 5 3.18479 4.49396 4.92392 4.36182 2.58094 4.48266 4.81355 1.38948 4.23925 1.40884 3.05090 4.54379 4.71239 4.34887 4.33928 3.82619 3.41429 1.87765 5.16409 4.01869 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 6 2.77671 1.36146 4.35089 3.89615 2.38269 3.69223 4.25859 2.59011 3.74845 2.34213 3.49641 3.95353 4.23076 3.97154 3.90070 3.12109 3.11928 2.44151 4.77030 3.34399 6 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 7 3.22720 4.53974 4.91364 4.36076 2.24019 4.49240 4.72173 1.35732 4.22855 1.44754 3.030'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 287 2.64166 5.05663 2.41703 2.33711 4.37228 3.39461 3.59490 3.83039 2.08439 3.04736 4.11284 2.54604 3.80069 2.70814 2.38709 2.46984 2.87279 3.43319 5.50290 4.12111 301 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 288 2.92595 4.38519 4.20086 3.18413 3.34277 4.06009 4.38063 1.53822 3.51825 1.50095 3.23157 3.96572 4.39237 3.81609 3.74680 3.37557 3.16281 2.07309 5.08926 3.90209 302 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 289 3.61990 4.83368 4.81302 4.47978 1.21587 4.44044 3.53041 3.34125 4.30280 2.36371 3.92790 4.15539 4.73683 4.21889 4.28264 3.79084 3.83412 3.23595 2.88955 1.37241 303 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 290 2.59982 4.72205 3.05007 2.49422 3.95120 3.44198 3.65478 3.35425 2.46030 2.97913 3.39809 2.67224 3.83484 2.48306 2.71073 2.29992 2.65027 2.67844 5.24393 3.92938 304 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 291 2.69326 5.15022 2.62446 2.17661 4.48864 3.40110 3.60312 3.95315 2.08144 3.43743 4.20278 2.36812 3.81946 2.53123 2.20343 2.65446 2.92264 3.53948 5.56908 4.18455 305 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 292 2.89236 4.28133 4.51487 3.93303 3.16672 4.08267 4.39853 1.75080 3.79860 1.49630 2.80338 4.11272 4.39095 3.96840 3.93036 3.39328 3.12226 1.89061 4.91766 3.09976 306 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 293 2.58267 3.28214 3.57793 3.00648 3.06139 3.58994 3.85335 2.37890 2.45710 2.22436 3.34242 3.37724 3.96742 2.95723 3.25455 2.64673 2.81468 2.49625 4.82747 3.60473 307 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02432 4.12460 4.84694 0.61958 0.77255 0.48576 0.95510\n- 294 2.61140 4.81681 3.00183 2.44574 4.06547 3.43232 3.62960 3.48105 2.27847 2.81248 3.89058 2.64799 2.96127 2.62861 2.66869 2.64261 2.53175 2.91709 5.31369 3.98242 308 k - - -\n- 2.68640 4.42190 2.77542 2.73123 3.46330 2.40535 3.72517 3.29337 2.67700 2.69356 4.24712 2.90342 2.73717 3.18149 2.89797 2.37855 2.77542 2.98541 4.58499 3.61525\n- 0.20978 1.66474 * 1.73304 0.19449 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2619923329.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2619923329.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,866 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2619923329\n-LENG 281\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:22 2021\n-NSEQ 11\n-EFFN 1.200439\n-CKSUM 920028472\n-GA 10 10;\n-STATS LOCAL MSV -11.0556 0.70183\n-STATS LOCAL VITERBI -11.9564 0.70183\n-STATS LOCAL FORWARD -5.1952 0.70183\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67355 4.47691 2.95966 2.51326 3.23375 3.06613 3.60909 2.68633 2.58822 2.47321 3.68065 2.91778 3.56632 3.04702 3.00088 2.65296 2.78424 2.71576 4.54781 3.43044\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.00000 *\n- 1 3.36347 4.85515 4.53968 4.18659 3.47460 4.17286 4.82439 2.69691 3.92745 2.02185 0.75018 4.40563 4.65308 4.29004 4.07869 3.74673 3.68640 2.74878 5.35831 4.15006 1 m - - -\n- 2.68630 4.42237 2.77531 2.73135 3.46366 2.40506 3.72506 3.29366 2.67678 2.69367 4.24583 2.90327 2.73751 3.18158 2.89812 2.37898 2.77531 2.98496 4.58489 3.61515\n- 0.10941 2.33296 5.01588 1.51391 0.24852 0.48576 0.95510\n- 2 2.83095 5.30922 2.20845 1.40092 4.61322 3.39922 3.74811 4.08829 2.59771 3.60330 4.39197 2.46381 3.89863 2.87947 3.12039 2.77378 3.08303 2.95616 5.76836 4.33665 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 3 3.48422 4.79028 5.12992 4.56530 3.20779 4.76076 5.08343 2.26323 4.41374 0.75486 2.52422 4.81078 4.92121 4.49046 4.50521 4.12023 3.70598 2.07013 5.33075 4.29496 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 4 2.27228 4.24358 3.77085 3.20097 3.37640 3.68630 3.97899 2.09564 3.12239 2.24680 3.35716 3.53345 4.06634 2.93076 3.41035 2.58783 2.88533 1.99541 4.86756 3.65510 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 5 3.85051 5.13286 4.82476 4.63682 0.51322 4.40152 4.14079 3.34595 4.53958 2.62524 4.02263 4.52431 4.86367 4.59442 4.55375 4.08487 4.15842 3.36463 4.29848 2.62659 12 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 6 3.14529 5.11824 3.04407 2.98285 4.55692 3.52719 4.35920 4.38417 3.31362 3.98564 4.95463 0.58573 4.20806 3.65061 3.66773 3.20717 3.55157 3.96070 5.81195 4.48886 13 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 7 3.39552 5.52861 2.76104 0.54727 4.94043 3.60575 4.25835 4.48582 3.20012 4.04218 5.0211'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 274 3.00172 5.39544 2.74029 1.35833 4.76036 3.51653 3.78636 4.20015 1.61450 3.67864 4.50423 3.00072 4.00780 2.92255 2.77843 2.94342 3.23592 3.81237 5.78301 4.43692 293 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 275 2.97193 4.53494 4.09154 3.54177 3.59734 3.95137 4.26590 1.12960 3.07690 2.40573 3.54996 3.84163 4.35334 3.62692 2.45237 3.31565 3.22529 2.34109 5.20535 3.97584 294 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 276 3.46885 4.73414 5.22497 4.69949 3.35221 4.83100 5.22669 1.20621 4.54215 1.11521 3.14194 4.91537 5.00826 4.66413 4.63831 4.22300 3.70404 2.06447 5.46857 4.36622 295 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 277 2.69697 5.18192 2.53346 1.89298 4.51623 3.42415 3.63788 3.99318 2.19265 3.47822 4.23097 2.60546 3.83976 2.74374 2.24992 2.65752 2.66266 3.56788 5.61443 4.21041 296 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 278 2.79883 5.24392 2.75149 1.61110 4.57919 3.44546 3.69895 4.04134 1.88671 3.53579 4.31578 2.52636 3.89714 2.81927 2.87064 2.75514 2.68735 3.63415 5.67646 4.28698 297 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 279 2.78399 5.22710 2.94602 1.95455 4.59069 3.49507 3.65145 4.04346 1.94857 3.50872 4.27800 2.62170 3.89909 2.07741 2.38432 2.74500 3.00474 3.63105 5.61794 4.25935 298 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 280 4.10459 5.20515 5.03798 4.83243 1.18456 4.74075 3.60242 3.73183 4.64932 2.98162 4.29786 4.36059 5.02530 4.47557 4.57677 4.13242 4.31630 3.67299 3.70317 0.90779 299 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29353 5.01588 0.61958 0.77255 0.48576 0.95510\n- 281 2.79858 5.11644 1.66861 2.40879 4.71249 2.44732 3.90981 4.20270 2.83984 3.74048 4.54688 2.94401 3.91954 3.06778 3.36791 1.62774 3.12867 3.73579 5.91114 4.49318 300 s - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67698 2.69359 4.24694 2.90351 2.73744 3.18151 2.89782 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.27190 1.43521 * 0.19775 1.71798 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2623244837.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2623244837.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,980 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2623244837\n-LENG 319\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:23 2021\n-NSEQ 46\n-EFFN 1.799683\n-CKSUM 2130632884\n-GA 10 10;\n-STATS LOCAL MSV -11.1582 0.70080\n-STATS LOCAL VITERBI -11.9086 0.70080\n-STATS LOCAL FORWARD -5.3192 0.70080\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60470 4.35834 2.94065 2.59196 3.10137 3.08847 3.53707 2.89468 2.61042 2.48840 3.68086 2.96961 3.44558 3.00200 2.90223 2.62014 2.79531 2.75750 4.21454 3.54279\n- 2.68626 4.42233 2.77509 2.73123 3.46362 2.40501 3.72503 3.29362 2.67749 2.69346 4.24611 2.90345 2.73748 3.18140 2.89809 2.37888 2.77528 2.98514 4.58485 3.61511\n- 0.26126 2.49381 1.91512 1.18870 0.36329 0.00000 *\n- 1 2.88490 4.42582 3.48632 3.50606 3.39876 3.95124 4.26495 2.49298 3.41740 1.98634 1.42946 3.82813 4.31218 3.68792 3.68218 3.24332 3.12421 2.14584 5.05604 3.86033 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01866 4.38652 5.10887 0.61958 0.77255 0.61478 0.77818\n- 2 2.58086 5.10258 2.34600 2.08041 3.88050 3.46315 3.65426 3.87675 2.20872 3.19459 3.60945 2.94495 3.85606 2.76275 2.50909 2.46163 2.69900 3.47503 5.55581 4.16634 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42653 5.14888 0.61958 0.77255 0.66026 0.72715\n- 3 2.79025 3.14341 4.60662 4.01853 2.14735 3.93369 4.12290 2.45842 3.82838 1.65671 3.23655 4.03005 4.28789 3.95785 3.86861 3.24398 3.02099 2.40650 2.57638 2.95433 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42653 5.14888 0.61958 0.77255 0.66026 0.72715\n- 4 2.78806 4.18210 4.54069 3.94963 2.18554 3.93067 3.79591 2.09094 3.77510 1.67732 2.84948 4.01049 4.28210 3.92160 3.84329 3.23709 3.01842 2.40428 4.63766 2.45152 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42653 5.14888 0.61958 0.77255 0.66026 0.72715\n- 5 3.30566 4.60181 5.18332 4.60654 1.99956 4.59978 4.92893 1.76026 4.45736 1.27762 3.13637 4.71994 4.82768 4.51741 4.49238 3.94454 3.53161 1.77239 5.23315 4.11245 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42653 5.14888 0.61958 0.77255 0.66026 0.72715\n- 6 3.31579 5.26716 3.19738 3.15584 4.73471 3.66824 4.54251 4.61015 3.52034 4.19571 5.17490 0.46291 4.35992 3.84658 3.86893 3.37967 3.73303 4.16986 5.96945 4.66659 15 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42653 5.14888 0.61958 0.77255 0.66026 0.72715\n- 7 3.29328 5.97748 1.09097 1.29530 5.25327 3.44863 4.05662 4.81932 3.15784 4.27837 5.155'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47069 5.19303 0.61958 0.77255 0.61670 0.77593\n- 312 3.16529 4.47383 5.05629 4.48847 2.44226 4.47123 4.86211 1.23204 4.34305 1.80337 3.33193 4.58974 4.75550 4.48015 4.41465 3.81204 3.15996 1.66348 5.27909 4.12279 365 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47069 5.19303 0.61958 0.77255 0.61670 0.77593\n- 313 3.57220 5.24703 4.36182 4.35133 5.40538 0.20766 5.39028 5.19318 4.60940 4.75023 5.75893 4.52927 4.65003 4.88717 4.74023 3.76671 4.09629 4.60572 6.30150 5.54090 366 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47069 5.19303 0.61958 0.77255 0.61670 0.77593\n- 314 2.98353 5.26405 2.75074 2.15826 4.65717 3.51921 3.93112 4.09464 2.49735 3.64964 4.48518 3.06980 1.21522 3.09180 3.12985 2.80395 3.25898 3.71922 5.83391 4.47146 367 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47069 5.19303 0.61958 0.77255 0.61670 0.77593\n- 315 3.33703 5.47583 3.53416 2.99693 4.78037 3.88687 2.99762 4.32133 0.75579 3.73386 4.61222 3.41761 4.28785 3.02697 2.39794 3.31473 3.51195 3.99128 5.68624 4.45285 368 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47069 5.19303 0.61958 0.77255 0.61670 0.77593\n- 316 3.21424 4.57936 4.83266 4.26260 3.40084 4.42832 4.75982 1.15863 4.02053 1.36136 3.26566 4.45742 4.71570 4.27283 3.53904 3.76584 3.44795 2.23391 5.25514 4.10492 369 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06896 4.47069 2.89682 0.61958 0.77255 0.61670 0.77593\n- 317 2.82356 4.65872 4.04591 3.86798 4.58534 3.46966 4.82597 3.79128 3.82372 3.63178 4.66982 3.95205 4.22691 4.19418 4.02923 3.03393 0.50289 3.41630 5.96322 4.81161 370 T - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01804 4.41977 5.14212 0.61958 0.77255 0.68654 0.69980\n- 318 3.15173 5.27310 3.62520 2.94010 4.65817 3.82759 3.79323 4.00511 0.89669 3.48399 3.54934 3.35687 4.18916 2.92979 2.20011 3.15994 3.32846 3.69979 5.59380 4.39616 371 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08154 4.41977 2.71409 0.61958 0.77255 0.68654 0.69980\n- 319 2.67477 5.11806 2.80061 2.38885 4.44246 3.30109 2.79434 3.90779 2.04088 3.41033 4.16612 2.92985 3.84494 2.57122 2.26168 2.46092 2.68214 3.49800 5.55926 3.86407 372 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01298 4.35121 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2631934571.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2631934571.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,917 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2631934571\n-LENG 298\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:23 2021\n-NSEQ 5\n-EFFN 0.971680\n-CKSUM 1755985302\n-GA 10 10;\n-STATS LOCAL MSV -10.7525 0.70135\n-STATS LOCAL VITERBI -11.8540 0.70135\n-STATS LOCAL FORWARD -5.1304 0.70135\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64310 4.31313 2.91276 2.63725 3.02046 3.21102 3.73629 2.65592 2.60018 2.42893 3.70873 2.89472 3.51350 3.10721 3.00526 2.65239 2.85258 2.65540 5.05348 3.34330\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.00000 *\n- 1 3.23638 4.74273 4.39057 4.01776 3.37979 4.06961 4.68319 2.58756 3.76661 1.93757 0.89756 4.25467 4.54094 4.13342 3.93419 3.61204 3.55247 2.62688 5.25440 4.03846 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 2 2.65948 4.33298 3.59598 3.02633 2.58518 3.64102 2.80008 2.15584 2.90012 2.49159 3.42180 3.39879 4.01628 3.23956 2.57503 2.90017 2.88957 2.59396 4.77246 3.45050 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 3 2.63376 4.74418 3.01530 2.52487 3.98293 3.43499 2.82512 3.41565 2.51723 3.04209 3.87779 2.44741 2.60008 2.88206 2.94903 2.69256 2.88163 2.51105 5.28584 3.95960 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 4 3.67020 4.98610 4.65587 4.43714 0.62256 4.26879 4.04978 3.16830 4.33955 2.47250 3.85902 4.37407 4.72760 4.42607 4.38396 3.91759 3.97505 3.17963 4.22699 2.56344 4 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 5 3.02648 2.63042 4.45781 3.96131 1.73613 4.03781 3.77715 2.83537 3.80952 2.45615 3.51276 3.95711 4.39444 3.92481 3.90897 3.35930 3.26280 2.68011 4.06638 1.58146 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22231 4.17432 1.69311 0.61958 0.77255 0.48576 0.95510\n- 6 3.39764 4.76815 4.38631 4.12210 0.85072 4.06049 3.92849 2.90901 4.02663 2.25467 3.62382 4.14163 4.51732 4.16517 4.11973 3.66147 3.69916 2.90746 4.14725 2.50142 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02815 3.98016 4.70251 0.61958 0.77255 0.68291 0.70349\n- 7 2.81527 4.81377 2.77226 2.66908 4.19444 3.25822 4.01187 3.92897 2.92512 3.56389 4.5192'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 291 3.38520 4.67384 5.05917 4.53039 3.26518 4.70533 5.07734 1.38924 4.36745 1.05300 3.06546 4.76298 4.89794 4.51140 4.48195 4.08801 3.62004 2.05647 5.36116 4.24946 335 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 292 2.79150 5.19541 2.89970 2.03212 4.55529 3.47402 3.63481 3.99550 1.92462 3.46986 4.25549 2.18723 3.88849 2.75061 2.16669 2.75482 3.01098 3.59942 5.58341 4.24111 336 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 293 2.74678 5.04353 2.92466 1.79968 4.38364 3.45663 3.66562 3.80052 2.31844 3.34133 4.14898 2.97497 3.88382 2.79761 2.06508 2.74084 2.37074 3.43782 5.51065 4.17804 337 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 4.17432 4.89667 0.61958 0.77255 0.48576 0.95510\n- 294 3.36319 4.65881 5.06961 4.49881 3.16931 4.66566 4.98787 1.59219 4.36122 1.09361 2.16584 4.72177 4.83284 4.43071 4.44407 4.01704 3.58301 2.22658 5.25335 4.20770 338 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22231 4.17432 1.69311 0.61958 0.77255 0.48576 0.95510\n- 295 2.96035 4.39312 4.41624 3.89594 3.34144 4.11658 4.59379 1.99638 3.74776 1.89469 2.30779 4.14723 4.47764 4.02138 3.95870 3.47428 3.22804 1.29345 5.21158 4.02790 339 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02815 3.98016 4.70251 0.61958 0.77255 0.68291 0.70349\n- 296 2.13893 4.54420 3.24408 2.72880 3.77319 3.47833 3.76059 3.01337 2.07489 2.18271 3.67978 3.16739 3.90908 2.98463 2.83961 2.77521 2.89264 2.77567 5.14995 3.88890 340 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02815 3.98016 4.70251 0.61958 0.77255 0.68291 0.70349\n- 297 2.74432 4.30194 3.99735 3.47029 3.43837 3.79356 4.27665 2.17005 3.35236 1.77798 3.33288 3.76638 4.21863 3.66292 3.62304 3.12576 2.24482 1.69077 5.12360 3.91539 341 v - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67712 2.69359 4.24694 2.90351 2.73744 3.18151 2.89764 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.39585 1.76380 1.86112 0.66395 0.72322 0.37969 1.15225\n- 298 2.72812 5.05491 2.62477 1.78707 4.32630 3.34872 2.59497 3.81222 2.45776 3.36076 4.17534 2.85857 3.83235 2.81566 2.91059 2.19279 2.97888 3.44430 5.52761 4.14145 344 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01780 4.03729 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2632405575.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2632405575.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,812 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2632405575\n-LENG 263\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:23 2021\n-NSEQ 17\n-EFFN 0.718018\n-CKSUM 2225617429\n-GA 10 10;\n-STATS LOCAL MSV -10.7648 0.70239\n-STATS LOCAL VITERBI -11.8166 0.70239\n-STATS LOCAL FORWARD -5.1901 0.70239\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62852 4.35443 2.94222 2.63593 3.17200 3.02061 3.63398 2.75825 2.55656 2.43653 3.66844 2.95876 3.37944 3.03152 3.03888 2.64658 2.92257 2.67462 4.72156 3.35515\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.00000 *\n- 1 3.09340 4.61974 4.21391 3.82107 3.28186 3.94787 4.52144 2.47285 3.58018 1.85591 1.11632 4.07926 4.41136 3.95335 3.76735 3.45715 3.40275 2.49594 5.14139 3.91527 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 2 3.18002 4.85449 3.63410 3.23499 2.33982 3.89653 1.76060 3.47674 3.06934 2.92547 4.00817 3.51633 4.29111 3.43248 3.34278 3.24520 3.41282 3.28255 3.97248 1.57129 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 3 3.01291 4.43252 4.46436 3.97539 1.73438 4.10362 4.29761 2.22457 3.85542 1.92085 3.21596 4.13011 4.46851 4.03949 4.01718 3.46606 3.27791 1.57956 4.69683 3.24702 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 4 3.10847 4.49881 4.59903 4.09301 3.29223 4.29786 4.75220 1.99949 3.93148 1.23463 3.14260 4.34008 4.62019 4.18429 4.11836 3.67404 3.37111 1.45859 5.25702 4.07241 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 5 3.14950 4.52961 4.54463 4.16805 3.47946 4.22515 4.87030 0.90881 3.99907 2.03733 3.39408 4.39258 4.64408 4.33334 4.17872 3.73706 3.44690 1.86147 5.39974 4.14944 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 6 2.85467 4.85215 2.80200 2.70390 4.23998 3.29008 4.05214 3.98530 2.96986 3.61569 4.57183 0.91671 3.95038 3.32710 3.32797 2.91734 3.24270 3.59216 5.52876 4.17900 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 7 3.08888 5.22373 2.56084 0.82879 4.58993 3.37624 3.97921 4.07410 2.87924 3.66807 4.637'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 256 2.68980 5.00501 2.66945 1.95428 4.33381 3.34180 3.65224 3.77298 2.24336 3.32639 4.13458 2.86250 2.45936 2.79454 2.87540 2.37511 2.94105 3.40305 5.51751 4.15090 287 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 257 3.08187 4.41611 4.75021 4.26158 3.58218 4.39483 4.99059 1.49635 4.14389 2.09985 3.39779 4.48213 4.73084 4.42230 4.35040 3.78641 3.35488 1.03078 5.53550 4.31920 288 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 258 2.69123 4.37523 3.70877 3.30400 3.38505 3.55992 4.12757 2.64187 3.14687 1.27630 3.45690 3.58616 4.08445 3.52968 3.40064 2.45019 3.01741 2.50371 5.02105 3.71566 289 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 259 2.70510 4.78734 3.08166 2.57061 4.03931 3.47658 3.66648 2.67296 1.69223 3.03802 3.90151 2.62481 3.88862 2.83829 2.65438 2.76144 2.93530 3.09231 5.28384 3.99194 290 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 260 3.00521 5.19298 3.34283 2.70974 4.63163 3.64064 3.60090 3.98759 1.30255 3.42316 4.27226 3.14113 4.00705 2.34645 1.90033 2.98742 3.17489 3.65365 5.47440 4.27908 291 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 261 2.75747 4.29879 3.94253 3.36024 3.23151 3.82456 4.09017 2.07513 3.18979 1.81774 2.22638 3.68147 4.16685 3.50456 2.84045 3.10655 2.98664 2.33040 4.88747 3.70551 292 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 262 3.11491 5.07949 3.30057 2.89688 4.50045 3.58548 3.85065 3.93977 0.84933 3.47319 4.42881 3.31384 4.07707 3.03524 2.47102 3.14838 3.35812 3.63988 5.49495 4.33045 293 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02305 4.74539 0.61958 0.77255 0.48576 0.95510\n- 263 2.68030 4.48699 3.43331 2.83467 3.62451 3.58721 3.75745 2.56054 2.26208 2.02273 3.54491 3.25349 3.95973 3.01270 2.36660 2.85117 2.90130 2.71294 5.02354 3.78869 294 l - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72495 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37875 2.77521 2.98519 4.58478 3.61504\n- 0.09836 2.36794 * 0.39890 1.11188 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2635923458.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2635923458.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,920 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2635923458\n-LENG 299\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:23 2021\n-NSEQ 45\n-EFFN 3.381042\n-CKSUM 343715904\n-GA 10 10;\n-STATS LOCAL MSV -10.9268 0.70131\n-STATS LOCAL VITERBI -12.2775 0.70131\n-STATS LOCAL FORWARD -5.4427 0.70131\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71049 4.02459 2.88676 2.57329 3.12119 3.16254 3.44937 2.69565 2.54840 2.41024 3.72755 2.90054 3.64979 3.02659 3.01058 2.66673 2.86241 2.86049 4.93018 3.32320\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40518 3.72500 3.29359 2.67746 2.69360 4.24333 2.90352 2.73745 3.18151 2.89806 2.37892 2.77525 2.98523 4.58482 3.61508\n- 0.39820 1.89064 1.72881 0.18055 1.80068 0.00000 *\n- 1 2.83604 3.43669 4.32182 3.73352 3.31456 3.92854 4.21326 2.71659 3.54599 2.39143 1.28191 3.92245 4.29969 3.14053 3.71147 3.22568 3.07117 2.54705 3.09539 3.63098 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67617 5.39852 0.61958 0.77255 0.84271 0.56307\n- 2 2.76985 5.08961 3.10401 2.54453 4.36938 3.57242 3.76212 3.14760 1.84193 3.36408 4.15051 3.07488 2.71620 2.35997 2.77559 2.36299 2.99985 2.80999 5.56214 4.20272 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67617 5.39852 0.61958 0.77255 0.84271 0.56307\n- 3 1.94714 4.54423 3.53865 2.97380 3.29623 3.70875 3.95561 2.73640 2.93595 2.19632 3.64596 3.01220 4.09163 3.24992 2.80807 2.14526 2.77240 2.82468 5.11920 3.87240 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67617 5.39852 0.61958 0.77255 0.84271 0.56307\n- 4 2.76463 5.24895 2.71801 1.98729 4.58260 3.53465 2.86069 3.24230 2.46757 3.54890 4.29336 2.24890 3.93156 2.82838 2.31721 2.41465 2.99618 3.63361 5.68759 4.28310 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67617 5.39852 0.61958 0.77255 0.84271 0.56307\n- 5 2.91599 4.34576 4.49277 3.91670 1.89651 4.04490 4.31960 2.60082 3.77581 1.65776 3.37159 2.75483 4.40230 3.96879 3.91291 3.34772 3.15035 1.76048 4.88347 3.62802 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01393 4.67617 5.39852 0.61958 0.77255 0.65767 0.72993\n- 6 2.90964 3.42032 4.78171 4.18325 1.88315 4.06945 4.32314 2.27612 3.98653 2.16301 2.75638 4.19212 4.42120 4.11348 4.01539 3.38116 3.14053 2.49154 4.77586 1.73178 7 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01312 4.73568 5.45802 0.61958 0.77255 0.75113 0.63835\n- 7 2.87865 4.30569 4.50076 3.91060 2.91876 4.01408 2.64666 1.39126 3.75802 1.82634 3.3546'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 292 3.83209 5.01458 5.94354 5.46873 4.17610 5.46800 6.15564 0.84902 5.41126 1.72810 3.90058 5.63167 5.63308 5.58186 5.53180 4.90590 4.08392 1.32188 6.35302 5.20320 345 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 293 1.93190 4.44429 4.47342 3.90099 3.58971 1.77129 4.44839 2.39641 3.78298 1.81581 3.57582 4.09410 4.45906 4.00612 3.96471 3.37044 3.21500 2.02088 5.13146 3.94040 346 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 294 2.49413 5.31823 3.31132 2.76203 4.65799 3.76238 1.40434 4.09033 2.37379 3.61726 4.40896 3.27599 4.16366 3.05887 2.49686 2.08324 3.23185 3.71829 5.77675 4.44198 347 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 295 2.74792 2.61797 5.34437 4.80011 3.91021 4.68664 5.20118 0.78009 4.65081 2.16832 3.78904 4.86342 5.02612 4.83402 4.73428 4.04734 3.63314 2.11497 5.66874 4.48362 348 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 296 3.80586 5.87777 2.29493 3.38957 5.86726 0.34462 5.07826 5.55675 4.30335 5.06696 5.99415 3.90494 4.79644 4.33790 4.84668 3.82235 4.25390 4.95588 6.91858 5.71438 349 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 297 2.85923 4.03141 2.19721 1.78456 4.67931 2.85956 3.82420 4.15795 2.22834 2.92512 4.38856 3.10594 2.69891 2.92428 2.84701 2.82610 3.09055 3.72981 5.78371 4.37903 350 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 298 3.70802 5.37281 4.30801 3.98246 3.54393 4.38959 0.52961 2.55857 3.61830 3.35367 4.52513 4.26101 4.89117 4.16286 3.82807 3.87946 4.00498 3.62713 5.15484 3.56220 351 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01058 4.94985 5.67219 0.61958 0.77255 0.63656 0.75312\n- 299 3.48986 4.81885 5.26194 4.71049 3.12685 4.62935 4.58388 2.49240 4.51044 0.74208 3.53285 4.67949 4.92108 4.56384 4.51613 3.95658 3.71263 2.95311 2.61721 2.55489 352 l - - -\n- 2.68651 4.42258 2.77537 2.73117 3.46328 2.40545 3.72527 3.29387 2.67593 2.69388 4.24722 2.90315 2.73690 3.18156 2.89833 2.37891 2.77552 2.98551 4.58510 3.61437\n- 0.26690 1.45137 * 1.27702 0.32693 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2637376592.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2637376592.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,839 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2637376592\n-LENG 272\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:23 2021\n-NSEQ 1\n-EFFN 0.371094\n-CKSUM 366146092\n-GA 10 10;\n-STATS LOCAL MSV -11.0304 0.70220\n-STATS LOCAL VITERBI -11.9409 0.70220\n-STATS LOCAL FORWARD -5.1850 0.70220\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71165 4.14306 2.70663 2.70928 3.22096 3.01597 3.73310 2.78661 2.62805 2.39391 3.68812 2.97264 3.60537 3.15372 2.99491 2.64081 2.93224 2.60408 4.39281 3.23446\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 3.10546 4.63588 3.68956 3.40274 2.30871 3.71272 3.58056 3.12943 3.26317 2.60908 3.81617 3.60176 4.19052 3.59391 3.46665 3.25135 3.39256 2.99561 3.94751 1.15464 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 3.10546 4.63588 3.68956 3.40274 2.30871 3.71272 3.58056 3.12943 3.26317 2.60908 3.81617 3.60176 4.19052 3.59391 3.46665 3.25135 3.39256 2.99561 3.94751 1.15464 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 265 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 265 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 266 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 266 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 267 2.88474 4.98764 1.07680 2.28299 4.35233 3.13761 3.84940 3.91835 2.91560 3.54666 4.52580 2.83273 3.78365 3.09087 3.41504 2.86115 3.22238 3.56966 5.54066 4.24644 267 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 268 2.64364 4.63134 2.66197 2.53879 3.97922 3.11912 3.84748 3.67062 2.74432 3.33031 4.28873 1.35324 3.76754 3.12283 3.09307 2.71655 3.02383 3.30326 5.29751 3.93702 268 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 269 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 269 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 270 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.46317 3.84910 4.18279 3.87862 3.73157 3.11396 3.09353 1.16538 5.24474 3.96841 270 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 271 3.17579 4.58523 3.94114 3.62421 2.57587 3.62068 3.78523 3.19777 3.34958 2.60900 3.83607 3.79457 4.13078 3.74291 3.49502 3.38024 3.47176 3.08533 1.11978 2.58388 271 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 272 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 272 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2639140027.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2639140027.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,770 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2639140027\n-LENG 249\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:24 2021\n-NSEQ 1\n-EFFN 0.371094\n-CKSUM 3293634823\n-GA 10 10;\n-STATS LOCAL MSV -10.5926 0.70301\n-STATS LOCAL VITERBI -11.6314 0.70301\n-STATS LOCAL FORWARD -4.8000 0.70301\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62009 4.10849 2.80946 2.71658 3.05762 2.88576 3.63609 2.77099 2.59273 2.50413 3.69484 3.01528 3.53602 3.15172 2.92571 2.71172 2.88633 2.73048 4.65974 3.22322\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.81294 3.01475 3.05797 2.86534 3.17483 3.41477 5.47667 4.20272 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 3.13265 4.56593 4.09695 3.79484 1.19557 3.84077 3.84007 2.67221 3.70505 2.06775 3.41987 3.90558 4.30405 3.90230 3.85001 3.40607 3.43498 2.65475 4.12499 2.50708 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 2.64364 4.63134 2.66197 2.53879 3.97922 3.11912 3.84748 3.67062 2.74432 3.33031 4.28873 1.35324 3.76754 3.12283 3.09307 2.71655 3.02383 3.30326 5.29751 3.93702 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.88474 4.98764 1.07680 2.28299 4.35233 3.13761 3.84940 3.91835 2.91560 3.54666 4.5258'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 242 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 242 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 243 2.36359 4.20727 3.34269 3.09392 3.88359 3.04887 4.11833 2.99853 3.03481 2.86544 3.92547 3.31758 3.74578 3.43570 3.29644 2.56408 1.35825 2.70456 5.33074 4.10122 243 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 244 2.64364 4.63134 2.66197 2.53879 3.97922 3.11912 3.84748 3.67062 2.74432 3.33031 4.28873 1.35324 3.76754 3.12283 3.09307 2.71655 3.02383 3.30326 5.29751 3.93702 244 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 245 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 245 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 246 2.27038 4.18759 3.12277 2.93706 3.97564 2.91960 4.04817 3.48587 3.00366 3.21536 4.15254 3.17629 3.65065 3.36191 3.29065 1.25661 2.74343 3.04369 5.35717 4.05935 246 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 247 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 247 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 248 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 248 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 249 2.36359 4.20727 3.34269 3.09392 3.88359 3.04887 4.11833 2.99853 3.03481 2.86544 3.92547 3.31758 3.74578 3.43570 3.29644 2.56408 1.35825 2.70456 5.33074 4.10122 249 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2641324761.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2641324761.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,917 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2641324761\n-LENG 298\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:24 2021\n-NSEQ 1\n-EFFN 0.386719\n-CKSUM 589645762\n-GA 10 10;\n-STATS LOCAL MSV -10.8617 0.70131\n-STATS LOCAL VITERBI -11.9731 0.70131\n-STATS LOCAL FORWARD -5.6379 0.70131\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64746 4.44880 2.86707 2.66031 3.15635 2.94525 3.64229 2.68084 2.68215 2.33696 3.74833 2.93824 3.51104 3.16936 3.04269 2.66185 2.93470 2.65239 4.43019 3.37259\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.65336 4.64266 2.66692 2.54469 3.99250 3.12706 3.85602 3.68605 2.75358 3.34399 4.30178 1.32693 3.77577 3.13079 3.10330 2.72538 3.03360 3.31735 5.30916 3.94892 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.65336 4.64266 2.66692 2.54469 3.99250 3.12706 3.85602 3.68605 2.75358 3.34399 4.30178 1.32693 3.77577 3.13079 3.10330 2.72538 3.03360 3.31735 5.30916 3.94892 4 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 291 3.12282 4.64800 3.70817 3.42312 2.30521 3.72744 3.58448 3.14490 3.28320 2.62135 3.83004 3.61676 4.20459 3.61078 3.48429 3.26762 3.40977 3.01159 3.94473 1.12856 291 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 292 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 292 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 293 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 293 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 294 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 294 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 295 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 295 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 296 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 296 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 297 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 297 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 298 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 298 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2646843772.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2646843772.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,923 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2646843772\n-LENG 300\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:24 2021\n-NSEQ 1\n-EFFN 0.378906\n-CKSUM 732772080\n-GA 10 10;\n-STATS LOCAL MSV -10.7021 0.70136\n-STATS LOCAL VITERBI -12.1398 0.70136\n-STATS LOCAL FORWARD -5.6669 0.70136\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48628 4.26505 2.85124 2.71360 3.25394 2.79902 3.57643 2.77558 2.85046 2.40675 3.75720 3.16359 3.39566 3.19623 2.80919 2.61551 2.89933 2.67112 4.37282 3.48472\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.89119 4.99618 1.06597 2.28568 4.36159 3.14207 3.85418 3.92897 2.92145 3.55591 4.53483 2.83593 3.78851 3.09537 3.42210 2.86658 3.22882 3.57945 5.54867 4.25414 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.33193 3.70624 3.52388 3.42842 2.50191 2.77276 2.74326 5.39725 4.18738 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 293 3.11415 4.64195 3.69890 3.41295 2.30689 3.72010 3.58249 3.13717 3.27320 2.61522 3.82311 3.60928 4.19757 3.60236 3.47549 3.25950 3.40117 3.00361 3.94606 1.14147 293 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 294 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 294 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 295 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 295 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 296 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 296 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 297 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 297 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 298 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 298 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 299 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 299 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 300 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 300 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2656189766.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2656189766.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,959 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2656189766\n-LENG 312\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:24 2021\n-NSEQ 4\n-EFFN 0.730469\n-CKSUM 3701377199\n-GA 10 10;\n-STATS LOCAL MSV -11.0627 0.70099\n-STATS LOCAL VITERBI -12.2087 0.70099\n-STATS LOCAL FORWARD -5.2909 0.70099\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72410 3.87596 2.86418 2.63769 3.09469 3.27241 3.65771 2.65406 2.54830 2.41360 3.69197 2.82879 3.73294 3.12748 3.05038 2.68128 2.92734 2.71768 4.52710 3.21677\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.00000 *\n- 1 3.10047 4.62569 4.22291 3.83098 3.28643 3.95407 4.52951 2.47827 3.58957 1.85953 1.10377 4.08809 4.41787 3.96236 3.77574 3.46491 3.41011 2.50222 5.14684 3.92130 1 m - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67713 2.69357 4.24692 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.16823 1.92264 4.75338 0.31746 1.30194 0.48576 0.95510\n- 2 3.48336 4.90784 4.07569 3.83715 2.31579 4.01748 3.70356 3.47126 3.69025 2.88362 4.13028 3.92371 4.48874 3.95779 3.84040 3.60329 3.77143 3.34962 3.96481 0.73798 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 3 2.89161 2.76752 4.52129 3.96098 3.26902 4.08947 4.49383 1.70981 3.81729 1.47999 3.16290 4.14641 4.42670 4.02947 3.97378 3.42260 3.14045 1.92895 5.04323 3.86457 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 4 3.60785 4.85881 4.61447 4.29288 1.03966 4.37658 3.50413 3.27117 4.13997 2.60253 3.87310 4.07577 4.68869 4.12322 4.18097 3.74670 3.83216 3.20515 3.64964 1.48232 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 5 3.18083 4.49943 4.82100 4.27701 3.29431 4.49537 4.89695 1.64425 4.15457 1.23022 3.09325 4.52102 4.73278 4.33358 4.31468 3.85016 3.41988 1.59501 5.30925 4.18518 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 6 2.86219 4.85938 2.80780 2.71067 4.24857 3.29617 4.05989 3.99597 2.97848 3.62553 4.58186 0.90518 3.95700 3.33513 3.33664 2.92472 3.25065 3.60200 5.53645 4.18723 7 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 7 2.78410 4.81494 3.12153 2.63951 3.27449 3.55148 2.29219 3.44917 2.48302 3.01038 3.9117'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 305 3.09290 4.41938 4.77877 4.28879 3.58906 4.41959 5.01371 1.45733 4.17341 2.10213 3.40070 4.50734 4.74853 4.44792 4.37720 3.81108 3.36414 1.04224 5.54773 4.33405 315 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 306 2.71924 4.67362 3.20305 2.68264 2.59923 3.54212 2.35984 3.25862 2.09890 2.86792 3.76924 3.13739 3.93706 2.95322 2.86310 2.80839 2.94714 3.00062 4.83377 3.36939 316 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 307 3.64325 4.87949 4.63471 4.32174 1.18673 4.39553 3.48302 3.32316 4.16753 2.65271 3.92032 4.07945 4.70427 4.13530 4.20003 3.76497 3.86537 3.25046 3.62300 1.24963 317 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 308 2.53735 2.92497 3.14840 1.97176 3.85471 3.35672 3.79370 3.14336 2.65907 2.88497 3.76025 3.11792 3.84376 3.01430 3.05522 2.66430 2.29828 2.85513 5.21857 3.94233 318 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 309 2.81010 4.95235 3.02573 2.60686 4.39831 3.44215 3.72127 3.80795 1.35327 3.35457 4.21299 3.07368 2.57079 2.87770 2.56265 2.83448 3.06778 3.45781 5.48741 4.22438 319 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 310 3.12298 5.08716 3.30913 2.90433 4.50998 3.59231 3.85618 3.94989 0.84015 3.48172 4.43721 3.32083 4.08359 3.04053 2.47397 3.15610 3.36574 3.64966 5.50141 4.33822 320 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02673 4.03103 4.75338 0.61958 0.77255 0.48576 0.95510\n- 311 3.12013 4.44232 4.80659 4.31985 3.54628 4.44581 5.03160 1.08819 4.19662 2.03216 3.35536 4.53767 4.76534 4.46300 4.39085 3.84164 3.39023 1.41773 5.53239 4.32910 321 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13990 4.03103 2.18218 0.61958 0.77255 0.48576 0.95510\n- 312 2.51342 4.28449 3.46334 2.96951 3.59022 3.40785 3.93464 2.14036 2.89621 2.54422 3.52506 3.32524 2.69689 3.23811 3.23091 2.73800 2.29489 2.45165 5.07788 3.83995 322 i - - -\n- 2.68620 4.42227 2.77490 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.17553 1.82644 * 0.32157 1.29102 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2656976156.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2656976156.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,920 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2656976156\n-LENG 299\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:24 2021\n-NSEQ 3\n-EFFN 0.717773\n-CKSUM 69080496\n-GA 10 10;\n-STATS LOCAL MSV -10.9318 0.70130\n-STATS LOCAL VITERBI -11.8387 0.70130\n-STATS LOCAL FORWARD -5.3789 0.70130\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69251 4.31531 2.84221 2.54116 3.19830 2.93455 3.46472 2.80832 2.57279 2.52798 3.63728 2.91168 3.56284 3.12813 3.00709 2.65463 2.94467 2.77617 4.20122 3.27971\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.00000 *\n- 1 3.09327 4.61962 4.21373 3.82087 3.28177 3.94775 4.52129 2.47274 3.58000 1.85584 1.11656 4.07909 4.41123 3.95318 3.76719 3.45700 3.40260 2.49581 5.14128 3.91516 1 m - - -\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40518 3.72500 3.29359 2.67707 2.69360 4.24695 2.90303 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61508\n- 0.22197 1.65880 4.74524 0.66679 0.72021 0.48576 0.95510\n- 2 2.86220 4.62040 3.56659 3.48626 4.62141 0.53062 4.59525 4.25966 3.68785 3.89428 4.87285 3.73121 4.01624 4.00030 3.90535 3.03878 3.35516 3.75896 5.67468 4.72914 4 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 3 2.81747 4.78388 3.00171 2.68489 3.14839 3.49756 3.68471 3.45840 2.72994 3.04247 3.99071 1.70608 3.98345 3.09666 3.10310 2.87898 3.08731 3.18683 4.68305 2.20665 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 4 3.26633 4.59239 4.81947 4.29291 3.18901 4.53149 4.88588 1.53973 4.12239 1.08090 3.01033 4.54966 4.75585 4.31398 4.27096 3.90474 3.50419 2.01901 5.24755 4.10655 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 5 3.31957 4.67071 4.64618 4.18326 1.41645 4.36450 4.16738 2.45296 4.03214 1.37151 3.11767 4.28437 4.64047 4.14123 4.14450 3.73632 3.55491 2.53252 4.40298 2.85151 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 6 3.26633 4.59239 4.81947 4.29291 3.18901 4.53149 4.88588 1.53973 4.12239 1.08090 3.01033 4.54966 4.75585 4.31398 4.27096 3.90474 3.50419 2.01901 5.24755 4.10655 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 7 2.76395 4.60078 2.16015 2.76087 3.75287 3.55471 3.96754 1.68121 2.92570 2.65797 3.71075 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 292 2.76884 5.08345 1.39144 2.25619 4.57618 3.20294 3.82195 4.08253 2.80719 3.65540 4.50207 2.80336 3.82887 3.00038 3.34633 1.98973 3.10175 3.64847 5.81592 4.37673 299 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 293 3.17205 4.95884 3.28428 3.06160 3.39928 3.58261 0.86110 3.89824 2.90097 3.37229 4.42879 3.46394 4.14456 3.43045 3.15650 3.24204 3.48147 3.63062 4.86186 3.34638 300 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 294 2.39482 4.31597 3.34344 3.16856 4.22922 3.04337 4.27307 3.77333 3.25254 3.48275 4.39773 3.36751 3.79508 3.59046 3.53228 0.88489 2.88665 3.27523 5.59009 4.31419 301 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 295 3.32742 4.74642 4.43042 4.07326 3.19892 4.17182 4.68196 2.41360 3.83952 0.70995 3.17903 4.33408 4.58280 4.17171 3.99005 3.76369 3.61566 2.48955 5.13039 3.88767 302 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 296 2.86237 4.79243 3.36277 2.82097 3.89962 3.61697 3.75989 3.19253 1.52159 2.03479 3.82894 3.24722 4.02242 2.96030 2.55476 2.96138 3.08537 2.99332 5.23439 3.96870 303 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 297 2.24466 2.22817 3.80731 3.37328 3.90022 3.04562 4.21384 3.20345 3.28653 2.98422 3.86190 3.44586 3.75026 3.56911 3.54779 1.83639 1.92809 2.81929 5.33066 4.13795 304 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 298 3.06674 4.43772 4.61150 4.06093 2.22429 4.26261 4.49986 2.13910 3.93816 1.40276 3.03563 4.26374 4.53997 4.09273 4.08423 3.59366 3.30109 1.64198 4.91227 3.63734 305 l - - -\n- 2.68603 4.42249 2.77543 2.73106 3.46378 2.40537 3.72518 3.29378 2.67648 2.69379 4.24714 2.90322 2.73764 3.18170 2.89776 2.37911 2.77543 2.98542 4.58239 3.61427\n- 0.22197 1.65880 4.74524 1.85331 0.17045 0.48576 0.95510\n- 299 2.76063 4.44079 3.68345 3.09135 3.38387 3.72556 3.93268 2.67350 2.78514 1.82180 2.36140 3.47255 4.08549 3.24464 2.34089 3.00544 2.98757 2.56879 4.96813 3.75345 315 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01822 4.01416 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2660358384.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2660358384.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,974 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2660358384\n-LENG 317\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:25 2021\n-NSEQ 3\n-EFFN 0.383789\n-CKSUM 3958496132\n-GA 10 10;\n-STATS LOCAL MSV -11.0110 0.70085\n-STATS LOCAL VITERBI -12.0026 0.70085\n-STATS LOCAL FORWARD -5.6147 0.70085\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65491 4.11969 2.81262 2.63751 3.22987 2.87147 3.69483 2.72116 2.77189 2.32498 3.70588 2.94733 3.63470 3.16003 2.97416 2.63679 2.96252 2.64101 4.56301 3.41925\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.00000 *\n- 1 2.90041 4.46489 3.95195 3.54076 3.17326 3.76542 4.29729 2.33994 3.31293 1.78410 1.56620 3.82889 4.22760 3.70221 3.52858 3.23886 3.20501 2.33476 5.00043 3.75270 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 2 2.65154 4.64056 2.66598 2.54356 3.99003 3.12557 3.85441 3.68317 2.75184 3.34144 4.29934 1.33179 3.77423 3.12928 3.10138 2.72372 3.03177 3.31472 5.30699 3.94671 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 3 2.89174 4.84637 3.06139 2.70365 4.21170 3.38823 3.71528 3.63583 1.17179 3.22248 4.19151 3.13122 3.89727 2.91396 2.42425 2.94133 3.15329 3.34971 5.30632 4.10678 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 4 2.89520 5.00147 1.05930 2.28740 4.36733 3.14485 3.85718 3.93555 2.92511 3.56166 4.54044 2.83795 3.79154 3.09821 3.42651 2.86997 3.23284 3.58551 5.55363 4.25892 4 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 5 2.27454 4.19222 3.13102 2.94524 3.98596 2.92400 4.05633 3.49737 3.01261 3.22580 4.16163 3.18309 3.65580 3.36986 3.29965 1.23849 2.74828 3.05280 5.36650 4.06962 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 6 2.95969 4.40760 4.19951 3.81411 3.31522 3.96247 4.56106 1.19972 3.64019 1.92349 3.26834 4.07239 4.40505 3.99967 3.84740 3.45121 3.26163 1.85202 5.18497 3.91336 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 7 3.14529 4.57520 4.11169 3.81107 1.17504 3.85194 3.84329 2.68296 3.72091 2.07571 3.4286'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 310 2.90272 4.73213 3.04385 2.79716 3.22617 3.37486 1.35193 3.59101 2.64304 3.09557 4.13346 3.20917 3.92376 3.16297 2.91297 2.97501 3.20407 3.32816 4.69207 3.18018 310 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 311 3.05460 4.54564 4.04054 3.68284 3.10536 3.86275 4.36742 2.30798 3.45136 0.99738 3.16221 3.96682 4.31587 3.84183 3.64131 3.42694 3.35417 2.32091 4.94850 3.64976 311 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 312 2.90637 4.74676 3.38812 2.92215 4.07809 3.40849 3.76593 3.61565 2.21251 3.14856 4.15377 3.28761 3.91791 2.99314 1.12878 2.99651 3.18017 3.34424 5.19999 4.02801 312 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 313 2.36822 4.21214 3.35114 3.10215 3.89207 3.05358 4.12588 3.00823 3.04326 2.87481 3.93364 3.32448 3.75111 3.44345 3.30473 2.56876 1.33783 2.71310 5.33821 4.10952 313 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 314 2.73616 4.30699 3.99571 3.65875 3.48592 3.62579 4.47719 2.06487 3.52496 2.19107 3.46799 3.86246 4.19337 3.89265 3.74575 3.12574 3.10122 1.14979 5.25384 3.97846 314 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 315 2.90637 4.74676 3.38812 2.92215 4.07809 3.40849 3.76593 3.61565 2.21251 3.14856 4.15377 3.28761 3.91791 2.99314 1.12878 2.99651 3.18017 3.34424 5.19999 4.02801 315 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 316 3.14529 4.57520 4.11169 3.81107 1.17504 3.85194 3.84329 2.68296 3.72091 2.07571 3.42862 3.91717 4.31454 3.91506 3.86328 3.41847 3.44739 2.66640 4.12410 2.50447 316 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03447 3.78074 4.50309 0.61958 0.77255 0.48576 0.95510\n- 317 2.65154 4.64056 2.66598 2.54356 3.99003 3.12557 3.85441 3.68317 2.75184 3.34144 4.29934 1.33179 3.77423 3.12928 3.10138 2.72372 3.03177 3.31472 5.30699 3.94671 317 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 3.76960 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2661990395.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2661990395.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,446 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2661990395\n-LENG 141\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:25 2021\n-NSEQ 3\n-EFFN 0.372070\n-CKSUM 384356122\n-GA 10 10;\n-STATS LOCAL MSV -9.7681 0.71050\n-STATS LOCAL VITERBI -10.9585 0.71050\n-STATS LOCAL FORWARD -4.5275 0.71050\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63059 4.08035 2.95927 2.65827 3.13580 3.05805 3.75771 2.65175 2.58934 2.41508 3.67428 2.99421 3.18508 3.29847 3.07732 2.74775 2.93840 2.58897 4.49860 3.28842\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.00000 *\n- 1 2.89340 4.45967 3.94167 3.53022 3.17012 3.75807 4.28901 2.33589 3.30272 1.78293 1.58766 3.81939 4.22062 3.69293 3.51942 3.23062 3.19804 2.32945 4.99571 3.74682 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 2 2.54795 4.32968 3.20050 3.08894 4.22604 0.90440 4.21246 3.80365 3.25594 3.47006 4.44757 3.36564 3.71755 3.58876 3.50022 2.71755 3.02145 3.35196 5.34506 4.32562 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 3 3.13363 4.56664 4.09809 3.79609 1.19397 3.84163 3.84031 2.67304 3.70627 2.06836 3.42054 3.90648 4.30486 3.90329 3.85104 3.40703 3.43594 2.65565 4.12491 2.50687 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 4 2.27070 4.18794 3.12341 2.93769 3.97644 2.91993 4.04880 3.48676 3.00435 3.21617 4.15324 3.17681 3.65104 3.36252 3.29135 1.25520 2.74380 3.04439 5.35789 4.06015 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 5 2.89340 4.45967 3.94167 3.53022 3.17012 3.75807 4.28901 2.33589 3.30272 1.78293 1.58766 3.81939 4.22062 3.69293 3.51942 3.23062 3.19804 2.32945 4.99571 3.74682 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 6 2.48096 1.17213 3.97204 3.69100 3.70866 3.12245 4.36077 2.83826 3.51810 2.75702 3.87638 3.70508 3.82137 3.86881 3.65943 2.75187 2.93966 2.58908 5.14312 3.99621 6 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 7 2.48096 1.17213 3.97204 3.69100 3.70866 3.12245 4.36077 2.83826 3.51810 2.75702 3.87638'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 134 2.72857 4.30263 3.98175 3.64505 3.47937 3.61509 4.46530 2.06737 3.51107 2.18669 3.46354 3.85013 4.18361 3.87971 3.73266 3.11487 3.09412 1.16417 5.24545 3.96919 134 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 135 2.27070 4.18794 3.12341 2.93769 3.97644 2.91993 4.04880 3.48676 3.00435 3.21617 4.15324 3.17681 3.65104 3.36252 3.29135 1.25520 2.74380 3.04439 5.35789 4.06015 135 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 136 2.27070 4.18794 3.12341 2.93769 3.97644 2.91993 4.04880 3.48676 3.00435 3.21617 4.15324 3.17681 3.65104 3.36252 3.29135 1.25520 2.74380 3.04439 5.35789 4.06015 136 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 137 2.36394 4.20764 3.34334 3.09455 3.88425 3.04923 4.11891 2.99928 3.03545 2.86616 3.92610 3.31811 3.74619 3.43630 3.29708 2.56444 1.35666 2.70522 5.33131 4.10186 137 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 138 2.95210 4.40344 4.18454 3.79925 3.30924 3.95094 4.54833 1.21364 3.62507 1.92023 3.26460 4.05888 4.39496 3.98590 3.83341 3.43920 3.25444 1.85355 5.17655 3.90369 138 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 139 2.36394 4.20764 3.34334 3.09455 3.88425 3.04923 4.11891 2.99928 3.03545 2.86616 3.92610 3.31811 3.74619 3.43630 3.29708 2.56444 1.35666 2.70522 5.33131 4.10186 139 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 140 2.95210 4.40344 4.18454 3.79925 3.30924 3.95094 4.54833 1.21364 3.62507 1.92023 3.26460 4.05888 4.39496 3.98590 3.83341 3.43920 3.25444 1.85355 5.17655 3.90369 140 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77108 4.49343 0.61958 0.77255 0.48576 0.95510\n- 141 3.10655 4.63664 3.69073 3.40402 2.30847 3.71364 3.58080 3.13040 3.26443 2.60985 3.81704 3.60270 4.19141 3.59497 3.46776 3.25237 3.39364 2.99661 3.94732 1.15298 141 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02356 3.75984 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2670026569.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2670026569.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,917 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2670026569\n-LENG 298\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:25 2021\n-NSEQ 6\n-EFFN 1.040039\n-CKSUM 260310925\n-GA 10 10;\n-STATS LOCAL MSV -10.7411 0.70134\n-STATS LOCAL VITERBI -11.9056 0.70134\n-STATS LOCAL FORWARD -5.3139 0.70134\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61652 4.30773 2.82511 2.60195 3.20759 3.07056 3.50725 2.71103 2.67487 2.40383 3.60106 2.94613 3.69649 3.13159 2.95529 2.64688 2.91939 2.70731 4.42940 3.39238\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19590 4.21146 1.81353 0.61958 0.77255 0.00000 *\n- 1 3.11025 4.63397 4.23533 3.84467 3.29281 3.96263 4.54068 2.48582 3.60254 1.86462 1.08674 4.10030 4.42686 3.97482 3.78733 3.47563 3.42031 2.51097 5.15443 3.92965 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12055 4.04200 2.34339 0.61958 0.77255 0.66790 0.71905\n- 2 2.08843 5.01716 1.94956 2.23522 4.43831 3.21945 3.71529 3.89210 2.62738 3.46594 4.28910 2.15043 3.78470 2.87558 3.14428 2.67051 2.98894 3.49021 5.66148 4.25048 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02901 3.95046 4.67280 0.61958 0.77255 0.35277 1.21315\n- 3 2.86444 4.26246 4.49110 3.91282 2.36290 4.00434 4.19104 2.04247 3.76272 1.93951 1.98746 4.03322 4.32991 3.91046 3.86639 3.31129 3.09240 2.37833 4.64436 2.52060 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 4 2.66968 4.99950 2.91711 2.10522 4.28352 3.43752 3.00682 2.90662 2.09304 3.27204 4.06174 2.35466 3.84068 2.76200 2.81810 2.66461 2.89944 3.35889 5.45964 4.10024 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 5 2.90325 4.46615 3.91298 3.42305 1.56110 3.86559 3.88509 2.81146 3.33191 1.97076 3.49065 2.61483 4.25133 3.59453 3.58664 3.17354 3.14707 2.66493 4.43293 2.89883 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 6 2.96606 4.35444 4.50711 3.96163 1.78073 4.06681 4.03721 2.56026 3.81431 1.76947 3.25302 4.03916 4.39393 3.94724 3.91911 3.37799 3.19430 2.00692 4.39831 2.27372 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 7 3.21758 4.52996 4.95859 4.38985 3.26687 4.51556 4.87583 1.73420 4.26368 1.45904 1.86095'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 291 3.33523 4.62249 5.02528 4.53122 3.45212 4.68082 5.13989 0.92985 4.35980 1.66307 3.27845 4.75199 4.92894 4.59187 4.51010 4.08466 3.58739 1.85269 5.50308 4.31295 307 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 292 3.16846 4.47326 4.97783 4.41300 2.43730 4.47393 4.82655 1.44527 4.28234 1.51961 3.12184 4.56159 4.71964 4.39364 4.36570 3.81745 3.39990 1.68497 5.18965 4.04418 308 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 293 2.18315 2.74744 4.10124 3.58687 3.57967 3.48487 4.27068 2.56061 3.48710 2.58396 3.54250 3.72119 4.04847 3.73561 3.71045 2.85831 1.94608 1.72607 5.10628 3.91269 309 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 294 2.70761 5.18910 2.46415 1.95903 4.53168 3.41598 3.62336 4.00435 2.04369 3.48110 4.23905 2.88408 3.83517 2.33342 2.35365 2.66509 2.93838 3.58024 5.60804 4.21315 310 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 295 3.44322 5.17492 3.53044 3.33736 3.58355 3.78587 0.59302 4.20072 3.17414 3.64475 4.72513 3.72750 4.36315 3.71192 3.41242 3.51498 3.76382 3.92966 5.03998 3.52759 311 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 296 3.55973 4.92911 4.73360 4.38827 3.30250 4.40920 4.93970 2.53721 4.15372 0.54724 3.24271 4.63170 4.79458 4.43859 4.26876 4.04103 3.84301 2.66008 5.29031 4.08753 312 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21146 4.93380 0.61958 0.77255 0.48576 0.95510\n- 297 2.69726 4.96564 2.13597 2.41954 4.50426 3.30181 3.82852 3.97118 2.70869 3.53347 4.33908 2.94075 2.10362 2.98391 3.20559 1.82824 3.01265 3.54059 5.72095 4.33534 313 s - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29302 2.67743 2.69357 4.24692 2.90348 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.27300 2.11626 2.13345 0.31977 1.29579 0.48576 0.95510\n- 298 2.67649 4.69010 3.14180 2.73023 4.17036 3.38833 3.82965 3.47350 1.99686 3.15977 4.04660 3.15664 3.91200 3.02112 2.79466 2.77031 1.52250 3.15378 5.42343 4.15905 315 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01696 4.08541 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2676918070.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2676918070.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,845 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2676918070\n-LENG 274\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:25 2021\n-NSEQ 9\n-EFFN 1.788574\n-CKSUM 3775643721\n-GA 10 10;\n-STATS LOCAL MSV -11.1823 0.70206\n-STATS LOCAL VITERBI -12.0857 0.70206\n-STATS LOCAL FORWARD -5.1901 0.70206\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69000 4.36603 2.85742 2.54676 3.13697 3.26083 3.44980 2.74418 2.52447 2.51659 3.75241 2.77168 3.57046 3.01225 2.96094 2.65608 2.89613 2.86246 4.68135 3.26912\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54733 5.26968 0.61958 0.77255 0.00000 *\n- 1 3.70396 5.03386 5.24672 4.72411 3.32506 4.88331 5.20275 2.51938 4.46622 1.42751 0.86267 4.95897 5.08266 4.62658 4.55740 4.28877 3.93912 2.69251 5.44627 4.34089 1 m - - -\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24693 2.90350 2.73691 3.18149 2.89804 2.37890 2.77523 2.98521 4.58480 3.61506\n- 0.29750 1.98609 2.11946 0.24146 1.53936 0.48576 0.95510\n- 2 1.87627 4.89758 2.99264 1.75822 4.07993 3.52078 3.80326 3.54426 2.64420 3.17329 4.01792 3.08719 3.96328 2.98594 3.09080 2.80853 3.01105 3.23687 5.39792 2.59907 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42522 5.14757 0.61958 0.77255 0.67318 0.71352\n- 3 2.75622 5.12592 3.00584 2.47757 4.44828 2.78384 2.20091 3.89639 2.38331 3.41557 4.19506 3.00616 3.91437 2.22112 2.44735 2.41963 2.98507 3.51167 5.57243 4.21244 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42522 5.14757 0.61958 0.77255 0.67318 0.71352\n- 4 2.78176 5.14069 2.35469 2.44129 4.55777 3.43048 3.81227 4.02266 2.64249 3.55951 4.34589 1.90561 3.92883 2.94646 3.14286 2.29294 1.92154 3.60790 5.73757 4.34098 5 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01795 4.42522 5.14757 0.61958 0.77255 0.38422 1.14252\n- 5 2.72917 4.23779 4.07395 2.79530 2.40318 3.81327 4.10611 2.13650 3.38956 1.95131 2.53186 2.89426 4.18207 3.62802 3.60727 3.09267 2.96101 2.47250 4.84324 3.64547 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54733 5.26968 0.61958 0.77255 0.48576 0.95510\n- 6 2.72040 3.37263 3.33151 2.28015 3.82504 3.62046 2.44202 3.20314 2.41823 2.18258 3.74107 3.24178 4.00539 3.07156 3.13666 2.84533 2.95133 2.55962 5.19896 3.92460 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54733 5.26968 0.61958 0.77255 0.48576 0.95510\n- 7 2.96806 4.35607 4.68455 4.10862 1.56131 4.15457 4.50539 1.89080 3.96249 2.23262 3.3471'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54733 5.26968 0.61958 0.77255 0.48576 0.95510\n- 267 2.78965 4.36343 3.91543 2.50523 2.30484 3.81914 3.07610 1.94474 3.27248 2.54652 3.47220 3.65765 4.19100 3.53420 3.54440 3.08847 3.02089 2.62935 4.74679 2.38698 326 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54733 5.26968 0.61958 0.77255 0.48576 0.95510\n- 268 3.28345 4.61277 5.02389 4.47250 1.51842 4.43521 4.41345 2.16252 4.29687 1.30038 3.27090 4.47747 4.71560 4.34677 4.31755 3.76252 3.50581 2.67478 4.68881 2.59636 327 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54733 5.26968 0.61958 0.77255 0.48576 0.95510\n- 269 3.07073 5.66626 1.59374 1.51484 4.97504 2.26549 3.92947 4.49181 2.38543 3.95812 4.75151 2.95586 4.05665 3.06579 3.39745 2.97455 3.33423 4.04383 6.09773 4.61440 328 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01587 4.54733 5.26968 0.61958 0.77255 0.48576 0.95510\n- 270 2.73974 4.93506 3.14094 2.57955 3.24957 2.70007 3.75344 3.59304 2.04641 3.19106 4.00641 3.09436 3.95239 2.48933 2.57643 2.77313 2.96856 3.27103 5.41921 2.47766 329 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09149 4.54733 2.56606 0.61958 0.77255 0.48576 0.95510\n- 271 2.94785 5.17116 3.33067 2.33279 4.50268 3.69187 3.75765 3.89237 1.63714 2.03350 4.23620 3.19871 4.06410 2.88933 2.00496 2.95200 3.14941 3.55815 5.55875 4.28807 330 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08955 4.47294 2.60039 0.61958 0.77255 0.60670 0.78778\n- 272 2.69354 3.28570 3.15928 2.11771 2.81927 3.53922 3.73627 3.41179 2.20482 3.03931 3.87367 3.09733 3.92657 2.90896 2.27040 2.75551 2.92254 3.11509 5.30515 3.99799 331 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23317 4.40176 1.63103 0.61958 0.77255 0.70323 0.68317\n- 273 2.82560 4.93675 3.19778 2.71977 4.41152 3.50925 3.78023 3.74048 1.30360 3.34273 4.20760 3.16551 3.98100 2.93566 2.58681 2.87048 2.12633 3.40373 5.52518 4.26726 332 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02273 4.19132 4.91367 0.61958 0.77255 0.91567 0.51124\n- 274 2.81446 4.53964 3.63550 3.05554 3.61742 3.76355 3.96587 1.99344 1.83316 2.09317 3.52479 3.46358 4.13096 3.23863 3.04600 3.04126 3.04155 2.49817 5.13463 3.90129 333 k - - -\n- 2.68642 4.42249 2.77544 2.73097 3.46378 2.40537 3.72519 3.29289 2.67597 2.69379 4.24714 2.90316 2.73764 3.18171 2.89825 2.37875 2.77544 2.98543 4.58501 3.61527\n- 0.62740 0.76353 * 1.03118 0.44097 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2696122707.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2696122707.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,140 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2696122707\n-LENG 39\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:25 2021\n-NSEQ 1\n-EFFN 0.957031\n-CKSUM 3342662618\n-GA 10 10;\n-STATS LOCAL MSV -7.7316 0.71944\n-STATS LOCAL VITERBI -7.8628 0.71944\n-STATS LOCAL FORWARD -4.1585 0.71944\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.96598 4.78597 3.47144 3.75358 2.73179 2.90861 4.50635 2.36428 3.29314 1.62712 3.43563 3.20766 3.54003 4.03550 3.08642 2.95253 3.23642 2.30351 3.30281 3.37885\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.00000 *\n- 1 3.65823 4.97641 4.64443 4.42366 0.63080 4.25986 4.04401 3.15667 4.32609 2.46258 3.84836 4.36401 4.71849 4.41478 4.37256 3.90643 3.96289 3.16748 4.22270 2.55978 1 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 2 2.99909 4.98715 2.91836 2.83894 4.40059 3.40739 4.20326 4.18638 3.13857 3.80179 4.76324 0.72698 4.07807 3.48523 3.49589 3.06041 3.39591 3.77778 5.67245 4.33458 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 3 3.69933 5.06795 4.28604 4.07941 2.36902 4.18343 3.79747 3.67133 3.92947 3.04672 4.31693 4.10469 4.65443 4.16238 4.04856 3.80265 3.98971 3.55688 4.02087 0.58919 3 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 4 3.26733 4.61804 4.73382 4.36903 3.59007 4.36969 5.05240 0.77349 4.20333 2.12647 3.49054 4.57504 4.78198 4.52765 4.36790 3.90256 3.56499 1.90015 5.53461 4.29194 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 5 3.36893 5.16684 3.89253 3.35436 4.59793 3.78669 4.08203 4.16929 2.41567 3.63189 4.63303 3.68694 4.28284 3.29535 0.60974 3.44441 3.61983 3.88258 5.56616 4.47112 5 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 6 3.87092 5.13189 4.57012 4.35609 3.03125 4.08520 4.31167 3.91936 4.07895 3.25876 4.53745 4.44921 4.62917 4.45069 4.15186 4.07153 4.18850 3.81722 0.45604 3.01968 6 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 7 3.65823 4.97641 4.64443 4.42366 0.63080 4.25986 4.04401 3.15667 4.32609 2.46258 3.84836'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 32 3.50223 4.88317 4.66053 4.31174 3.27520 4.35194 4.87665 2.50474 4.07716 0.58256 3.22398 4.55913 4.74309 4.37370 4.20100 3.97296 3.78654 2.61647 5.25027 4.03808 32 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 33 3.50223 4.88317 4.66053 4.31174 3.27520 4.35194 4.87665 2.50474 4.07716 0.58256 3.22398 4.55913 4.74309 4.37370 4.20100 3.97296 3.78654 2.61647 5.25027 4.03808 33 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 34 3.50223 4.88317 4.66053 4.31174 3.27520 4.35194 4.87665 2.50474 4.07716 0.58256 3.22398 4.55913 4.74309 4.37370 4.20100 3.97296 3.78654 2.61647 5.25027 4.03808 34 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 35 0.66132 4.36643 3.78788 3.60525 4.37149 3.18089 4.58861 3.54308 3.62989 3.41010 4.41752 3.67192 3.94890 3.94527 3.85242 2.71833 3.01668 3.14494 5.76813 4.60540 35 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 36 3.50223 4.88317 4.66053 4.31174 3.27520 4.35194 4.87665 2.50474 4.07716 0.58256 3.22398 4.55913 4.74309 4.37370 4.20100 3.97296 3.78654 2.61647 5.25027 4.03808 36 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 37 3.33517 5.47661 0.57385 2.56925 4.90010 3.46049 4.22888 4.56161 3.37433 4.12068 5.11521 3.13678 4.13461 3.47536 3.92304 3.27101 3.68331 4.17246 6.00788 4.73727 37 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 38 3.50223 4.88317 4.66053 4.31174 3.27520 4.35194 4.87665 2.50474 4.07716 0.58256 3.22398 4.55913 4.74309 4.37370 4.20100 3.97296 3.78654 2.61647 5.25027 4.03808 38 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02331 4.16618 4.88853 0.61958 0.77255 0.48576 0.95510\n- 39 3.26733 4.61804 4.73382 4.36903 3.59007 4.36969 5.05240 0.77349 4.20333 2.12647 3.49054 4.57504 4.78198 4.52765 4.36790 3.90256 3.56499 1.90015 5.53461 4.29194 39 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01575 4.15862 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2701621510.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2701621510.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,758 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2701621510\n-LENG 245\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:25 2021\n-NSEQ 1\n-EFFN 0.386719\n-CKSUM 2432073036\n-GA 10 10;\n-STATS LOCAL MSV -10.8338 0.70304\n-STATS LOCAL VITERBI -11.7051 0.70304\n-STATS LOCAL FORWARD -5.4437 0.70304\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60830 4.25419 2.87707 2.65644 3.24692 2.81279 3.64452 2.69335 2.61250 2.39911 3.69639 3.05277 3.58381 3.15199 2.84952 2.77489 2.94856 2.66133 5.01433 3.29543\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.96158 4.40864 4.20320 3.81779 3.31671 3.96532 4.56422 1.19630 3.64393 1.92432 3.26929 4.07574 4.40754 4.00308 3.85087 3.45417 3.26341 1.85167 5.18706 3.91575 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.65336 4.64266 2.66692 2.54469 3.99250 3.12706 3.85602 3.68605 2.75358 3.34399 4.30178 1.32693 3.77577 3.13079 3.10330 2.72538 3.03360 3.31735 5.30916 3.94892 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 2.89761 5.00462 1.05533 2.28844 4.37075 3.14652 3.85898 3.93947 2.92732 3.56508 4.5437'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 238 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 238 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 239 2.81492 4.79295 2.84938 2.60564 3.94874 3.30964 3.76215 3.56834 2.43346 3.07937 4.11265 3.06347 3.86367 1.40234 2.71822 2.86783 3.11335 3.30450 5.23821 3.92680 239 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 240 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 240 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 241 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 241 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 242 2.90890 4.74936 3.39087 2.92422 4.08130 3.41071 3.76730 3.61893 2.21292 3.15138 4.15641 3.28956 3.91991 2.99429 1.12456 2.99885 3.18246 3.34737 5.20214 4.03057 242 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 243 2.88010 4.96556 2.45825 1.15999 4.30138 3.21969 3.80228 3.73756 2.67182 3.37042 4.35121 2.89011 3.82087 3.02166 3.06918 2.87345 3.18461 3.43173 5.49013 4.21538 243 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 244 3.14819 4.57734 4.11506 3.81478 1.17040 3.85449 3.84405 2.68544 3.72455 2.07756 3.43065 3.91983 4.31695 3.91799 3.86633 3.42132 3.45025 2.66908 4.12393 2.50391 244 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 245 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 245 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2705968471.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2705968471.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,971 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2705968471\n-LENG 316\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:25 2021\n-NSEQ 32\n-EFFN 4.386719\n-CKSUM 1065383913\n-GA 10 10;\n-STATS LOCAL MSV -11.1805 0.70087\n-STATS LOCAL VITERBI -11.9911 0.70087\n-STATS LOCAL FORWARD -5.0113 0.70087\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62630 4.35027 2.95486 2.56296 3.18366 3.04265 3.48458 2.78620 2.66959 2.41208 3.72802 2.91878 3.45324 3.05245 2.88099 2.62211 2.85270 2.80760 4.53352 3.48088\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13453 5.23558 2.11573 0.61958 0.77255 0.00000 *\n- 1 4.45440 5.66260 6.23685 5.71344 3.68449 5.75274 6.04623 2.93874 5.46473 1.42281 0.55720 5.94555 5.77034 5.38865 5.42005 5.22362 4.66710 3.24394 5.96931 4.97678 1 M - - -\n- 2.68612 4.42267 2.77495 2.73165 3.46396 2.40538 3.72536 3.29354 2.67725 2.69374 4.24577 2.90283 2.73747 3.18188 2.89760 2.37929 2.77536 2.98529 4.58519 3.61240\n- 0.79101 0.83581 2.17958 0.74996 0.63939 0.83711 0.56732\n- 2 2.19292 5.15228 3.23525 2.44885 4.41334 3.19718 3.89311 3.30450 2.67393 3.42155 2.85801 2.84497 1.99088 3.02776 2.58177 2.56648 3.10948 3.49726 5.64075 4.28834 7 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06608 4.99335 2.86180 0.61958 0.77255 0.74195 0.64662\n- 3 2.89000 3.78920 1.88979 1.84211 4.54603 3.68622 3.88175 3.37596 2.17433 3.53691 4.31217 3.17956 4.07921 2.99994 3.12431 2.88245 2.84236 2.49124 5.72416 4.34927 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00986 5.02000 5.74235 0.61958 0.77255 1.01173 0.45191\n- 4 3.33484 3.48024 5.32720 4.73692 1.82708 4.59681 4.96457 1.62170 4.55130 1.46906 3.54623 4.75993 4.90305 4.65910 4.56565 3.92949 3.56805 1.76082 5.37454 4.22338 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00986 5.02000 5.74235 0.61958 0.77255 1.01173 0.45191\n- 5 3.37698 4.68887 5.33225 4.75983 3.71079 4.66366 5.02343 1.32710 4.58955 1.97805 3.66466 4.80389 4.97142 4.72686 4.63367 4.00126 3.61401 1.48487 5.44245 1.87323 10 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00986 5.02000 5.74235 0.61958 0.77255 1.01173 0.45191\n- 6 4.50708 5.65537 6.10558 5.70885 0.81204 5.63546 5.11940 3.12473 5.53925 1.03953 3.60136 5.59891 5.70582 5.30596 5.41863 5.08469 4.70914 3.42282 5.13589 3.59336 11 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00986 5.02000 5.74235 0.61958 0.77255 1.01173 0.45191\n- 7 3.83893 6.31110 2.35388 2.90464 5.74675 3.94531 4.69860 5.47526 3.88674 4.94224 5.877'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00828 5.19408 5.91643 0.61958 0.77255 0.62125 0.77062\n- 309 4.23408 6.21220 4.13233 3.79917 5.16331 4.57207 0.40959 5.22027 2.13885 4.57253 5.52957 4.19769 5.05509 3.87782 3.17042 4.20714 4.43122 4.89959 6.24373 4.91702 409 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00828 5.19408 5.91643 0.61958 0.77255 0.62125 0.77062\n- 310 4.20813 5.81516 2.47700 4.16804 4.37251 4.76038 5.40671 3.71972 4.64736 0.31946 4.33982 4.63315 5.29984 4.79436 4.96118 4.44698 4.51549 3.80642 6.22390 5.00065 410 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00828 5.19408 5.91643 0.61958 0.77255 0.62125 0.77062\n- 311 2.97844 5.46111 2.84272 2.67128 4.79408 2.56963 3.94242 4.27209 2.46103 2.82975 4.50678 2.76841 1.79325 2.44763 3.17721 2.19937 3.21051 3.84561 5.90166 4.49679 411 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00828 5.19408 5.91643 0.61958 0.77255 0.62125 0.77062\n- 312 3.60076 4.90053 5.52028 4.97140 4.05754 4.94323 5.41111 1.64380 4.83574 1.96625 3.91342 5.07535 5.24574 5.01417 4.93225 4.29727 1.03358 1.84794 5.86374 4.69077 412 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07816 5.19408 2.66456 0.61958 0.77255 0.62125 0.77062\n- 313 1.57853 4.71956 3.81344 3.25217 3.90160 2.76345 4.20746 3.26572 3.20986 2.97348 3.22177 3.65973 2.89871 3.51817 3.09988 2.72982 3.20031 1.75260 5.33423 4.09464 413 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00887 5.12480 5.84715 0.61958 0.77255 0.80368 0.59363\n- 314 2.93137 5.36669 2.52738 2.65437 3.06394 2.54908 3.90769 4.14671 2.31550 2.83596 4.41559 2.52143 4.10982 3.01476 2.84631 2.06538 2.38310 3.74104 5.81803 4.42611 414 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13216 5.12480 2.13835 0.61958 0.77255 0.80368 0.59363\n- 315 2.89022 4.83102 3.49046 2.56071 2.50917 2.53317 4.01481 3.01927 2.90941 3.06067 3.92119 2.57714 4.17495 2.48167 3.33016 3.01126 3.12177 2.75686 5.37780 2.22806 415 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27046 5.00267 1.46857 0.61958 0.77255 0.82877 0.57374\n- 316 2.90904 5.40700 2.58062 2.52432 4.75037 3.60544 3.85128 4.23428 1.53189 3.71588 4.46909 2.38200 2.23270 2.95936 3.10485 2.46079 3.14774 3.80126 5.85102 4.43641 416 k - - -\n- 2.68594 4.42248 2.77542 2.73146 3.46377 2.40536 3.72387 3.29377 2.67743 2.69378 4.24713 2.90325 2.73762 3.18125 2.89755 2.37851 2.77515 2.98541 4.58500 3.61526\n- 0.88839 0.52987 * 0.19368 1.73682 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2710200711.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2710200711.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,674 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2710200711\n-LENG 217\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:26 2021\n-NSEQ 1\n-EFFN 0.371094\n-CKSUM 3450820231\n-GA 10 10;\n-STATS LOCAL MSV -10.2411 0.70449\n-STATS LOCAL VITERBI -11.6103 0.70449\n-STATS LOCAL FORWARD -4.9635 0.70449\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54684 4.21774 2.77023 2.63972 3.23437 2.75093 3.54400 2.86795 2.73350 2.43062 3.70998 3.05068 3.35628 3.21615 2.88496 2.70766 3.02103 2.67755 4.52892 3.40015\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.89294 4.72331 3.03518 2.78800 3.21994 3.36694 1.37807 3.57949 2.63425 3.08519 4.12271 3.20021 3.91558 3.15385 2.90453 2.96550 3.19417 3.31690 4.68592 3.17438 3 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 2.89538 4.73541 3.37614 2.91321 4.06407 3.39876 3.76002 3.60137 2.21088 3.13625 4.14232 3.27920 3.90921 2.98827 1.14741 2.98635 3.17025 3.33055 5.19059 4.01682 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.72793 4.30226 3.98057 3.64390 3.47883 3.61419 4.46431 2.06759 3.50990 2.18632 3.4631'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 210 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 210 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 211 2.88474 4.98764 1.07680 2.28299 4.35233 3.13761 3.84940 3.91835 2.91560 3.54666 4.52580 2.83273 3.78365 3.09087 3.41504 2.86115 3.22238 3.56966 5.54066 4.24644 211 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 212 1.17216 4.14682 3.36293 3.15321 3.95417 2.97327 4.18677 3.06495 3.16685 2.95070 3.99690 3.32739 3.70315 3.51837 3.42243 2.49955 2.76997 2.73744 5.39182 4.18130 212 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 213 3.10546 4.63588 3.68956 3.40274 2.30871 3.71272 3.58056 3.12943 3.26317 2.60908 3.81617 3.60176 4.19052 3.59391 3.46665 3.25135 3.39256 2.99561 3.94751 1.15464 213 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 214 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.33642 2.88492 3.81294 3.01475 3.05797 2.86534 3.17483 3.41477 5.47667 4.20272 214 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 215 2.54708 4.32883 3.19946 3.08782 4.22483 0.90597 4.21134 3.80228 3.25469 3.46879 4.44633 3.36461 3.71668 3.58760 3.49902 2.71666 3.02051 3.35076 5.34402 4.32439 215 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 216 2.62645 4.39716 3.22320 3.05019 4.04811 3.09061 4.13360 3.57002 3.09921 3.20699 4.25485 3.36557 1.04180 3.49131 3.35368 2.79153 3.06078 3.22685 5.26000 4.16851 216 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 217 2.36359 4.20727 3.34269 3.09392 3.88359 3.04887 4.11833 2.99853 3.03481 2.86544 3.92547 3.31758 3.74578 3.43570 3.29644 2.56408 1.35825 2.70456 5.33074 4.10122 217 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2723509649.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2723509649.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,965 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2723509649\n-LENG 314\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:26 2021\n-NSEQ 39\n-EFFN 2.661255\n-CKSUM 1990673470\n-GA 10 10;\n-STATS LOCAL MSV -11.0393 0.70092\n-STATS LOCAL VITERBI -11.9602 0.70092\n-STATS LOCAL FORWARD -5.4902 0.70092\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50221 4.17398 2.88458 2.59295 3.19138 3.04687 3.42090 2.90523 2.74478 2.43938 3.69994 3.13255 3.46190 3.09905 2.77358 2.66968 2.89934 2.63580 4.22073 3.62706\n- 2.68432 4.42343 2.77279 2.73173 3.46472 2.40425 3.72613 3.29472 2.67859 2.69424 4.24671 2.90398 2.73739 3.18192 2.89831 2.37921 2.77559 2.98371 4.58435 3.61621\n- 0.63369 0.93497 2.56693 2.10020 0.13060 0.00000 *\n- 1 2.79231 3.42181 4.42850 3.83344 3.31365 3.25092 3.83074 2.66748 3.68302 2.21316 1.86601 3.96766 3.47981 3.87405 3.80493 3.21637 3.02441 2.47717 3.06204 2.25579 29 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01298 4.74695 5.46929 0.61958 0.77255 0.64453 0.74425\n- 2 2.28933 5.00639 3.32040 2.75454 4.30130 3.67172 3.88341 3.10237 2.59171 3.30394 4.12945 3.24698 4.07715 2.85283 1.39353 2.29573 3.09922 3.38081 5.53720 4.23294 30 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01298 4.74695 5.46929 0.61958 0.77255 0.64453 0.74425\n- 3 2.91655 4.29013 4.80190 4.19747 1.56715 4.09296 4.41169 2.27809 4.00479 2.08532 3.01903 4.22626 4.44083 4.13872 4.03921 3.40528 2.99243 1.76102 4.89535 2.90077 31 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01298 4.74695 5.46929 0.61958 0.77255 0.58793 0.81076\n- 4 2.80002 4.68086 5.33486 4.79806 3.88125 4.80893 5.30214 1.91146 4.68149 1.98253 3.33472 4.92653 5.08807 4.87417 4.79759 4.17211 3.65245 0.75861 5.74233 4.56298 32 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01277 4.76318 5.48553 0.61958 0.77255 0.61348 0.77971\n- 5 3.61569 4.82503 5.67715 5.17851 4.00694 5.17513 5.78263 1.35407 5.09770 2.05615 3.25569 5.32301 5.38015 5.27576 5.21245 4.58366 3.86515 0.82688 6.07411 4.91247 33 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01277 4.76318 5.48553 0.61958 0.77255 0.61348 0.77971\n- 6 2.61193 5.81932 0.71343 2.57803 5.34131 2.70900 4.27631 4.87710 3.34517 4.36964 5.21646 2.78140 4.28359 3.44956 3.96631 3.24525 3.66783 4.38549 6.52924 5.01189 34 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01277 4.76318 5.48553 0.61958 0.77255 0.61348 0.77971\n- 7 2.90754 5.30180 2.95925 1.17967 4.61269 2.61409 3.49168 4.07603 2.65876 3.07034 4.388'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81603 5.53837 0.61958 0.77255 0.52850 0.89035\n- 307 3.17980 4.53550 4.97524 4.39135 2.89819 4.40592 4.75072 0.89589 4.22273 2.10417 3.45970 4.49787 4.72479 4.38879 3.26028 3.72783 3.41371 2.07256 5.23790 4.06312 392 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81603 5.53837 0.61958 0.77255 0.52850 0.89035\n- 308 3.86899 5.13058 5.59957 5.08103 0.69833 5.08726 5.00477 2.30671 4.91626 1.94606 2.77898 5.12576 5.25854 4.88042 4.91117 4.45564 4.08734 2.86807 5.14548 3.72914 393 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81603 5.53837 0.61958 0.77255 0.52850 0.89035\n- 309 2.34657 2.48255 2.98828 3.16518 3.68779 3.78713 2.72194 3.03548 3.12048 2.76147 3.65573 3.55840 4.18334 3.41959 3.46792 3.04436 2.74800 1.67035 5.13653 3.90472 394 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81603 5.53837 0.61958 0.77255 0.52850 0.89035\n- 310 2.57933 4.38875 2.21420 1.95354 4.64539 2.91885 3.46973 4.12851 2.27924 3.35114 4.34610 2.85350 3.56744 2.54321 2.72870 2.76749 3.03451 3.38366 5.73948 3.83031 395 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81603 5.53837 0.61958 0.77255 0.52850 0.89035\n- 311 4.57895 6.04249 4.60300 4.52443 4.46682 4.62668 0.16272 5.47199 4.38514 4.78584 5.96924 4.86382 5.25191 4.92989 4.54562 4.67518 4.94845 5.18086 5.86505 4.41041 396 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81603 5.53837 0.61958 0.77255 0.52850 0.89035\n- 312 4.26495 5.46606 6.01066 5.48685 3.46214 5.58391 5.85500 2.71112 5.25004 0.33574 2.90894 5.74805 5.57294 5.17061 5.21391 5.05128 4.47255 3.02310 5.76442 4.78330 397 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81603 5.53837 0.61958 0.77255 0.52850 0.89035\n- 313 2.37711 5.25440 2.51192 2.26363 4.57340 3.59037 3.78799 3.64411 2.53806 3.55015 4.30601 3.07059 2.30889 2.76568 3.02668 2.26357 2.25756 3.63177 5.70701 4.31264 398 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05925 4.81603 3.00710 0.61958 0.77255 0.52850 0.89035\n- 314 3.21453 4.57440 4.93865 4.37437 3.66732 4.46216 4.86703 1.84538 4.24338 1.69784 3.55478 4.53228 4.78790 4.43897 4.37936 3.79160 1.36933 1.82190 5.40434 4.23331 399 t - - -\n- 2.68634 4.42241 2.77489 2.73125 3.46370 2.40510 3.72464 3.29370 2.67724 2.69371 4.24705 2.90331 2.73673 3.18162 2.89816 2.37902 2.77535 2.98534 4.58493 3.61519\n- 0.30305 1.34157 * 0.67037 0.71646 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2726213746.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2726213746.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,926 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2726213746\n-LENG 301\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:26 2021\n-NSEQ 226\n-EFFN 2.051849\n-CKSUM 1463510420\n-GA 10 10;\n-STATS LOCAL MSV -10.9666 0.70125\n-STATS LOCAL VITERBI -12.0836 0.70125\n-STATS LOCAL FORWARD -4.9535 0.70125\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69724 4.13817 2.88454 2.61234 3.01984 3.08488 3.53876 2.77314 2.55659 2.48896 3.67023 2.85741 3.69650 3.04826 3.05192 2.62236 2.83792 2.83183 5.04289 3.17382\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01678 4.64295 4.96079 0.61958 0.77255 0.00000 *\n- 1 3.84300 5.13839 5.45969 4.92818 3.36604 5.06390 5.36918 2.57466 4.68148 1.34115 0.83346 5.15967 5.21339 4.77832 4.74039 4.47394 4.06934 2.78244 5.53206 4.46493 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01444 4.64062 5.36296 0.61958 0.77255 0.49035 0.94781\n- 2 3.09077 5.40580 3.38082 2.49920 4.81624 3.78362 3.83481 4.21272 1.04453 3.66605 4.47336 3.27154 4.16301 2.95169 2.28726 3.06489 2.43321 3.83983 5.74668 4.47670 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01444 4.64062 5.36296 0.61958 0.77255 0.48847 0.95079\n- 3 1.94346 4.74374 2.85055 2.82643 4.13200 3.54336 3.96368 3.51188 2.82837 3.17607 4.01524 3.28153 4.02035 3.15922 3.26054 2.19994 1.80313 2.44478 5.46332 4.17130 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01443 4.64121 5.36355 0.61958 0.77255 0.48920 0.94964\n- 4 2.30118 4.98847 2.85605 2.38866 4.23561 2.55959 3.78652 2.12307 2.58768 3.25260 4.06148 2.65944 3.96936 2.78932 3.05665 2.78627 2.75466 3.32588 5.48921 4.14621 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01443 4.64121 5.36355 0.61958 0.77255 0.48920 0.94964\n- 5 2.35495 4.64573 5.31410 4.81943 4.02799 4.79470 5.45569 1.08661 4.72920 2.60729 3.82434 4.95478 5.11363 4.97502 4.88956 4.18956 3.63790 1.10902 5.93585 4.72032 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01443 4.64121 5.36355 0.61958 0.77255 0.48920 0.94964\n- 6 2.44809 2.22586 3.55797 3.00205 2.87780 2.87858 3.98755 3.11832 2.36938 2.81889 3.69873 3.41607 4.07730 3.27771 3.33750 2.13362 2.98573 2.86907 5.16899 3.92294 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01443 4.64121 5.36355 0.61958 0.77255 0.48731 0.95263\n- 7 3.41853 4.70134 5.35763 4.78615 2.16873 4.74223 5.10124 1.97277 4.63531 1.33631 3.30'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64244 5.36478 0.61958 0.77255 0.48678 0.95348\n- 294 3.56505 4.77206 5.61473 5.12132 3.93706 5.13215 5.75267 1.13296 5.04281 1.76000 3.68641 5.27760 5.33138 5.22417 5.16523 4.54648 3.81570 1.09164 6.03144 4.87045 337 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64244 5.36478 0.61958 0.77255 0.48678 0.95348\n- 295 0.58605 4.54033 4.08597 3.80017 4.61274 2.72202 4.75369 3.91494 3.79226 3.17891 4.58021 3.84851 4.14685 4.07946 4.04832 2.85058 3.14373 3.44084 6.01366 4.81952 338 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64244 5.36478 0.61958 0.77255 0.48678 0.95348\n- 296 2.00269 4.81828 3.34790 2.96410 4.41345 3.49510 1.35711 3.90795 2.98734 3.53001 4.36031 3.37725 4.08178 3.34883 3.38339 1.91051 3.12705 3.49842 5.72034 4.39926 339 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64244 5.36478 0.61958 0.77255 0.48678 0.95348\n- 297 3.67560 4.90478 5.59452 5.06038 3.61718 5.12843 5.57041 0.71955 4.92823 1.73316 2.71505 5.24811 5.27611 5.00866 4.99679 4.52337 3.90922 2.15104 5.75897 4.68563 340 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64244 5.36478 0.61958 0.77255 0.48678 0.95348\n- 298 3.40916 5.34932 2.90373 3.43507 5.40856 0.35423 4.94165 5.06097 4.09874 4.64014 5.55255 3.86284 4.53270 4.23828 4.50548 3.50495 3.88407 4.47675 6.48650 5.38440 341 G - - -\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40518 3.72500 3.29341 2.67727 2.69350 4.24695 2.90340 2.73735 3.18151 2.89806 2.37892 2.77525 2.98523 4.58482 3.61460\n- 0.03814 3.43662 5.24907 1.30093 0.31784 0.48678 0.95348\n- 299 2.90936 5.44500 2.20611 1.92696 4.77346 3.04406 3.82939 4.26854 2.14546 3.74349 4.50238 2.71829 1.94223 2.94317 3.14881 2.84957 3.15292 3.82907 5.87841 4.44222 350 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64186 5.36421 0.61958 0.77255 0.48791 0.95168\n- 300 3.28617 5.23688 3.42913 3.27492 3.88770 3.80037 0.60448 4.38269 3.19398 3.88665 4.86642 3.66297 4.43303 3.71570 3.46322 2.95175 3.66068 4.00643 5.37692 3.81061 351 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03757 4.64186 3.60332 0.61958 0.77255 0.48791 0.95168\n- 301 3.88404 5.09839 5.73641 5.20128 3.43175 5.28802 5.63859 1.57637 5.04454 0.64465 3.18654 5.42403 5.34858 5.01334 5.05213 4.70688 4.10313 2.48124 5.66945 4.65977 352 L - - -\n- 2.68657 4.42286 2.77484 2.73161 3.46367 2.40524 3.72556 3.29415 2.67563 2.69416 4.24751 2.90216 2.73755 3.18172 2.89726 2.37932 2.77533 2.98580 4.58538 3.61453\n- 0.12430 2.14660 * 2.64911 0.07334 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2726216653.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2726216653.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,317 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2726216653\n-LENG 98\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:26 2021\n-NSEQ 1\n-EFFN 0.386719\n-CKSUM 2376336112\n-GA 10 10;\n-STATS LOCAL MSV -9.6881 0.71811\n-STATS LOCAL VITERBI -10.3588 0.71811\n-STATS LOCAL FORWARD -3.6464 0.71811\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65570 3.76604 2.80241 2.80542 3.14718 2.88252 4.03724 2.69854 2.68730 2.25254 3.46584 3.13065 3.57715 3.25138 3.19586 2.47418 2.92036 2.61987 5.05488 3.55891\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.00000 *\n- 1 2.90216 4.46620 3.95450 3.54339 3.17405 3.76724 4.29935 2.34096 3.31547 1.78441 1.56092 3.83125 4.22933 3.70453 3.53086 3.24091 3.20676 2.33610 5.00161 3.75416 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 2 2.89380 4.84877 3.06362 2.70525 4.21466 3.39016 3.71630 3.63892 1.16807 3.22496 4.19374 3.13276 3.89893 2.91475 2.42424 2.94315 3.15510 3.35262 5.30819 4.10896 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 3 1.15088 4.15203 3.37522 3.16532 3.96636 2.97832 4.19746 3.07892 3.17929 2.96422 4.00830 3.33647 3.70935 3.52940 3.43440 2.50430 2.77559 2.74907 5.40264 4.19344 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 4 2.56109 4.34240 3.21622 3.10580 4.24413 0.88140 4.22918 3.82416 3.27456 3.48912 4.46620 3.38119 3.73065 3.60628 3.51809 2.73092 3.03550 3.37004 5.36053 4.34389 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 5 2.73804 4.30808 3.99916 3.66215 3.48755 3.62843 4.48014 2.06428 3.52841 2.19218 3.46911 3.86552 4.19579 3.89586 3.74899 3.12843 3.10298 1.14626 5.25593 3.98076 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 6 2.49270 1.14155 3.98743 3.70865 3.72295 3.13223 4.37568 2.85408 3.53569 2.77254 3.89200 3.71951 3.83210 3.88580 3.67508 2.76374 2.95232 2.60419 5.15544 4.01058 6 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 7 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 91 2.65336 4.64266 2.66692 2.54469 3.99250 3.12706 3.85602 3.68605 2.75358 3.34399 4.30178 1.32693 3.77577 3.13079 3.10330 2.72538 3.03360 3.31735 5.30916 3.94892 91 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 92 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 92 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 93 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 93 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 94 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 94 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 95 2.64131 4.41065 3.23932 3.06758 4.06571 3.10334 4.15044 3.59037 3.11761 3.22613 4.27402 3.38201 1.01191 3.50927 3.37118 2.80662 3.07647 3.24575 5.27461 4.18604 95 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 96 3.05720 4.54746 4.04448 3.68667 3.10607 3.86595 4.37049 2.30865 3.45517 0.99392 3.16193 3.97044 4.31856 3.84505 3.64478 3.43024 3.35661 2.32223 4.95022 3.65207 96 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 97 2.27551 4.19329 3.13292 2.94713 3.98833 2.92501 4.05821 3.50001 3.01468 3.22820 4.16373 3.18467 3.65699 3.37170 3.30173 1.23438 2.74941 3.05490 5.36864 4.07197 97 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78314 4.50549 0.61958 0.77255 0.48576 0.95510\n- 98 2.36929 4.21326 3.35308 3.10406 3.89402 3.05467 4.12762 3.01046 3.04521 2.87697 3.93552 3.32607 3.75234 3.44525 3.30664 2.56985 1.33320 2.71507 5.33993 4.11143 98 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 3.77203 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2729199380.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2729199380.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,929 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2729199380\n-LENG 302\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:26 2021\n-NSEQ 2\n-EFFN 0.394531\n-CKSUM 3938895505\n-GA 10 10;\n-STATS LOCAL MSV -10.8351 0.70116\n-STATS LOCAL VITERBI -11.8408 0.70116\n-STATS LOCAL FORWARD -5.4600 0.70116\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66087 4.38149 2.79343 2.61667 3.13009 3.06244 3.53934 2.71102 2.69241 2.41771 3.69496 2.99240 3.57801 3.14648 2.89157 2.68398 2.90747 2.63657 4.43400 3.42029\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.00000 *\n- 1 2.90681 4.46969 3.96126 3.55037 3.17619 3.77206 4.30483 2.34370 3.32221 1.78530 1.54701 3.83752 4.23394 3.71068 3.53690 3.24635 3.21140 2.33966 5.00477 3.75806 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 2 2.88506 4.97273 2.45991 1.14983 4.30925 3.22345 3.80615 3.74671 2.67647 3.37837 4.35853 2.89277 3.82483 3.02517 3.07477 2.87753 3.18951 3.44008 5.49676 4.22164 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 3 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 4 2.91102 4.73956 3.05121 2.80498 3.23145 3.38155 1.33040 3.60076 2.65057 3.10436 4.14259 3.21680 3.93069 3.17078 2.92017 2.98311 3.21249 3.33769 4.69729 3.18512 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 5 2.96657 4.41143 4.21298 3.82754 3.32069 3.97284 4.57258 1.18727 3.65384 1.92656 3.27184 4.08459 4.41414 4.01212 3.86003 3.46203 3.26815 1.85079 5.19261 3.92210 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 6 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 7 2.90401 5.01295 1.04487 2.29127 4.37980 3.15095 3.86380 3.94988 2.93321 3.57417 4.5527'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 295 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 295 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 296 2.56812 4.34916 3.22461 3.11481 4.25372 0.86950 4.23808 3.83505 3.28449 3.49924 4.47611 3.38949 3.73762 3.61564 3.52760 2.73807 3.04301 3.37964 5.36871 4.35359 296 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 297 2.91102 4.73956 3.05121 2.80498 3.23145 3.38155 1.33040 3.60076 2.65057 3.10436 4.14259 3.21680 3.93069 3.17078 2.92017 2.98311 3.21249 3.33769 4.69729 3.18512 297 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 298 2.89927 4.85514 3.06953 2.70955 4.22251 3.39528 3.71905 3.64709 1.15825 3.23156 4.19968 3.13689 3.90333 2.91690 2.42427 2.94802 3.15992 3.36033 5.31314 4.11473 298 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 299 3.06413 4.55232 4.05495 3.69682 3.10798 3.87443 4.37864 2.31046 3.46527 0.98481 3.16122 3.98003 4.32571 3.85360 3.65397 3.43899 3.36311 2.32578 4.95478 3.65820 299 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 300 2.65820 4.64824 2.66947 2.54772 3.99905 3.13101 3.86032 3.69368 2.75826 3.35078 4.30829 1.31410 3.77988 3.13483 3.10843 2.72980 3.03849 3.32433 5.31491 3.95481 300 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 301 2.74304 4.31099 4.00832 3.67118 3.49189 3.63543 4.48797 2.06276 3.53756 2.19514 3.47211 3.87363 4.20220 3.90440 3.75760 3.13557 3.10768 1.13696 5.26148 3.98686 301 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03416 3.78952 4.51186 0.61958 0.77255 0.48576 0.95510\n- 302 2.27811 4.19614 3.13798 2.95218 3.99460 2.92773 4.06323 3.50701 3.02019 3.23457 4.16932 3.18887 3.66017 3.37661 3.30725 1.22353 2.75243 3.06046 5.37431 4.07821 302 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02312 3.77848 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2730555401.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2730555401.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,782 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2730555401\n-LENG 253\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:26 2021\n-NSEQ 1\n-EFFN 0.378906\n-CKSUM 2792706960\n-GA 10 10;\n-STATS LOCAL MSV -10.8578 0.70272\n-STATS LOCAL VITERBI -11.7529 0.70272\n-STATS LOCAL FORWARD -5.1320 0.70272\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63628 4.16692 2.92378 2.81609 3.03249 2.91366 3.69045 2.78170 2.72541 2.41289 3.69818 2.94208 3.30796 3.08140 2.97890 2.63674 2.95577 2.64072 4.43525 3.29125\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 3.14044 4.57164 4.10604 3.80485 1.18286 3.84766 3.84204 2.67882 3.71483 2.07264 3.42524 3.91273 4.31052 3.91016 3.85820 3.41372 3.44263 2.66192 4.12441 2.50543 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 2.48643 1.15770 3.97923 3.69924 3.71532 3.12702 4.36773 2.84563 3.52631 2.76425 3.88366 3.71182 3.82638 3.87674 3.66674 2.75740 2.94556 2.59612 5.14886 4.00291 5 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 7 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.2952'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 246 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.29527 1.33997 3.77165 3.12679 3.09818 2.72096 3.02872 3.31033 5.30336 3.94300 246 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 247 1.16144 4.14942 3.36909 3.15927 3.96028 2.97579 4.19211 3.07195 3.17307 2.95748 4.00260 3.33193 3.70624 3.52388 3.42842 2.50191 2.77276 2.74326 5.39725 4.18738 247 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 248 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.29527 1.33997 3.77165 3.12679 3.09818 2.72096 3.02872 3.31033 5.30336 3.94300 248 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 249 2.88830 4.84233 3.05768 2.70097 4.20673 3.38500 3.71358 3.63066 1.17805 3.21831 4.18778 3.12865 3.89451 2.91266 2.42429 2.93828 3.15027 3.34484 5.30319 4.10314 249 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 250 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 250 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 251 2.63387 4.40391 3.23126 3.05887 4.05692 3.09698 4.14202 3.58020 3.10839 3.21656 4.26443 3.37378 1.02669 3.50027 3.36243 2.79906 3.06862 3.23630 5.26731 4.17728 251 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 252 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 252 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 253 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 253 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2745856126.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Menshen__NsnC_2745856126.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,776 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Menshen__NsnC_2745856126\n-LENG 251\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 15:52:27 2021\n-NSEQ 1\n-EFFN 0.371094\n-CKSUM 2528616169\n-GA 10 10;\n-STATS LOCAL MSV -10.5067 0.70294\n-STATS LOCAL VITERBI -11.6798 0.70294\n-STATS LOCAL FORWARD -5.2110 0.70294\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71783 4.19176 2.76636 2.65184 3.01251 2.94814 3.70757 2.76609 2.61171 2.40473 3.59960 2.95366 3.46245 3.29113 3.06860 2.65997 2.95579 2.73534 4.92751 3.12211\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.00000 *\n- 1 2.89281 4.45924 3.94081 3.52934 3.16986 3.75745 4.28832 2.33556 3.30187 1.78283 1.58948 3.81860 4.22004 3.69215 3.51865 3.22993 3.19746 2.32901 4.99532 3.74633 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 2 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 3 2.89294 4.72331 3.03518 2.78800 3.21994 3.36694 1.37807 3.57949 2.63425 3.08519 4.12271 3.20021 3.91558 3.15385 2.90453 2.96550 3.19417 3.31690 4.68592 3.17438 3 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 4 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 5 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 6 2.54708 4.32883 3.19946 3.08782 4.22483 0.90597 4.21134 3.80228 3.25469 3.46879 4.44633 3.36461 3.71668 3.58760 3.49902 2.71666 3.02051 3.35076 5.34402 4.32439 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 7 2.87014 4.95096 2.45509 1.18081 4.28536 3.21214 3.79459 3.71897 2.66256 3.35430 4.3364'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 244 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 244 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 245 2.54708 4.32883 3.19946 3.08782 4.22483 0.90597 4.21134 3.80228 3.25469 3.46879 4.44633 3.36461 3.71668 3.58760 3.49902 2.71666 3.02051 3.35076 5.34402 4.32439 245 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 246 2.88278 4.83582 3.05171 2.69671 4.19872 3.37980 3.71090 3.62231 1.18820 3.21159 4.18178 3.12455 3.89007 2.91063 2.42442 2.93340 3.14544 3.33698 5.29815 4.09728 246 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 247 2.95146 4.40309 4.18328 3.79800 3.30874 3.94997 4.54726 1.21482 3.62379 1.91996 3.26429 4.05775 4.39411 3.98474 3.83223 3.43819 3.25384 1.85369 5.17584 3.90288 247 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 248 2.54708 4.32883 3.19946 3.08782 4.22483 0.90597 4.21134 3.80228 3.25469 3.46879 4.44633 3.36461 3.71668 3.58760 3.49902 2.71666 3.02051 3.35076 5.34402 4.32439 248 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 249 2.89294 4.72331 3.03518 2.78800 3.21994 3.36694 1.37807 3.57949 2.63425 3.08519 4.12271 3.20021 3.91558 3.15385 2.90453 2.96550 3.19417 3.31690 4.68592 3.17438 249 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 250 2.89294 4.72331 3.03518 2.78800 3.21994 3.36694 1.37807 3.57949 2.63425 3.08519 4.12271 3.20021 3.91558 3.15385 2.90453 2.96550 3.19417 3.31690 4.68592 3.17438 250 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03484 3.77027 4.49262 0.61958 0.77255 0.48576 0.95510\n- 251 3.04323 4.53772 4.02327 3.66616 3.10231 3.84871 4.35403 2.30518 3.43475 1.01265 3.16359 3.95106 4.30407 3.82779 3.62617 3.41255 3.34354 2.31526 4.94103 3.63968 251 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02358 3.75902 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mok_Hok_Sok__Hok.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mok_Hok_Sok__Hok.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,179 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Mok_Hok_Sok__Hok\n-LENG 52\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 10:08:40 2022\n-NSEQ 73\n-EFFN 0.886658\n-CKSUM 3492782142\n-GA 90 90;\n-STATS LOCAL MSV -8.0675 0.71903\n-STATS LOCAL VITERBI -8.6637 0.71903\n-STATS LOCAL FORWARD -4.2563 0.71903\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62488 3.33324 3.41982 3.00807 3.08900 3.11861 4.08974 2.65771 2.83444 2.09331 3.45466 3.64717 3.58713 3.62419 2.71068 2.64785 2.83904 2.48830 4.24097 3.08152\n- 2.68617 4.42227 2.77521 2.73122 3.46356 2.40513 3.72496 3.29356 2.67734 2.69357 4.24665 2.90349 2.73739 3.18148 2.89799 2.37889 2.77519 2.98520 4.58479 3.61505\n- 0.04735 3.25965 4.84847 0.95241 0.48745 0.00000 *\n- 1 2.94345 4.52019 4.08340 3.61677 3.33277 3.90146 4.36097 2.46068 3.25014 1.95875 1.28406 3.89666 4.33782 3.75062 3.56430 3.28606 3.23210 2.36753 5.12688 3.90062 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 2 3.04350 5.16142 3.21698 2.76130 4.58879 3.61378 3.72760 3.96663 1.00152 3.45689 4.35360 3.19215 4.05891 2.78858 2.31380 3.04759 3.16812 3.64576 5.54719 4.32740 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 3 3.38800 4.77723 4.71988 4.26900 3.13320 4.46563 4.82631 2.23586 4.01233 0.71919 3.03285 4.52122 4.76044 4.27723 4.15474 3.90484 3.64916 2.38825 5.18479 3.96711 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 4 3.12462 4.83142 3.76038 3.64144 4.60254 3.50496 4.69150 4.22166 3.72215 3.81734 4.88288 3.91912 0.46723 4.10289 3.93236 3.30168 3.58745 3.83652 5.71146 4.72899 11 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 5 3.14930 5.11289 3.61342 3.03301 4.47583 3.70487 3.80211 3.97496 2.09419 3.42960 4.37833 3.39201 4.14633 2.87397 0.90151 3.19098 3.36589 3.68270 5.46837 4.28050 12 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 6 2.36764 4.32834 3.29873 3.10477 4.36790 3.04582 4.25831 3.85704 3.20354 3.55966 4.41178 3.19884 3.79695 3.53358 3.51017 0.91981 2.77637 3.31481 5.72101 4.43845 13 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 7 2.45923 4.37892 3.44875 3.28439 4.34097 3.10517 4.38299 3.90206 3.37579 3.60513 4.51455 3.46212 3.8'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 45 3.59999 4.92939 4.58831 4.35764 0.67288 4.21617 4.01644 3.10037 4.26028 2.41473 3.79686 4.31490 4.67403 4.35966 4.31686 3.85205 3.90378 3.10861 4.20272 2.54304 52 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 46 3.21159 4.65238 4.54723 4.02412 3.17379 4.31217 4.65604 2.22827 3.78083 1.59367 1.24995 4.29894 4.61791 4.07013 3.96326 3.67830 3.46449 2.34297 5.15704 3.97197 53 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 47 0.84294 4.24777 3.74896 3.50154 4.18990 3.10893 4.46213 3.25903 3.47606 3.17108 4.18490 3.56284 3.86747 3.79580 3.71795 2.59222 2.87303 2.79378 5.67341 4.45053 54 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 48 3.63410 5.01937 4.22300 4.00658 2.35039 4.13370 3.76779 3.61056 3.85743 2.99703 4.26018 4.05019 4.60465 4.10083 3.98594 3.74255 3.92373 3.49396 4.00153 0.62966 55 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 49 2.90617 5.35646 2.31770 0.98017 4.70118 3.32613 3.86867 4.14489 2.80107 3.73281 4.62000 2.85250 3.93829 3.04664 3.30128 2.91563 3.28154 3.76635 5.89999 4.47165 56 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12612 4.84847 0.61958 0.77255 0.48576 0.95510\n- 50 2.45923 4.37892 3.44875 3.28439 4.34097 3.10517 4.38299 3.90206 3.37579 3.60513 4.51455 3.46212 3.86654 3.70610 3.64823 0.76404 2.95979 3.38011 5.69422 4.42820 57 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02860 4.12612 4.41870 0.61958 0.77255 0.48576 0.95510\n- 51 2.31519 3.91130 3.67672 3.45855 4.41621 0.88811 4.45362 3.85867 3.47135 3.59737 4.45284 3.50245 3.79426 3.77788 3.71592 2.42381 2.83359 3.28785 5.76204 4.56546 58 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03309 4.12190 4.11473 0.61958 0.77255 0.49071 0.94725\n- 52 3.03861 5.09568 3.21269 2.81803 4.61240 3.25743 3.83830 4.03145 0.90246 3.55406 4.44512 3.25102 4.06190 3.00510 2.50382 3.06279 3.29267 3.68445 5.58425 4.39330 59 k - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67737 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.03385 3.40269 * 0.54557 0.86634 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mok_Hok_Sok__Mok.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mok_Hok_Sok__Mok.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,257 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Mok_Hok_Sok__Mok\n-LENG 78\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 10:08:33 2022\n-NSEQ 100\n-EFFN 1.065063\n-CKSUM 93977908\n-GA 20 20;\n-STATS LOCAL MSV -9.1404 0.71854\n-STATS LOCAL VITERBI -9.6732 0.71854\n-STATS LOCAL FORWARD -4.0539 0.71854\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59449 4.01279 2.85998 2.72925 3.45143 2.80001 3.21913 2.90125 2.84258 2.45356 3.68786 3.34589 3.47537 2.92834 2.86258 2.54332 2.66744 2.57896 5.18490 3.83136\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24686 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05424 3.28117 4.18588 0.62222 0.76949 0.00000 *\n- 1 3.24755 4.75251 4.40394 4.03281 3.38787 4.07884 4.69569 2.59692 3.78090 1.94459 0.88311 4.26810 4.55090 4.14730 3.94701 3.62397 3.56421 2.63740 5.26342 4.04819 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18531 4.90765 0.61958 0.77255 0.48576 0.95510\n- 2 2.54072 4.42648 3.37474 2.91687 3.82064 3.36042 3.95395 3.18578 2.87235 2.07757 3.78924 3.28622 3.15110 3.22235 3.22962 1.59109 2.87437 2.89542 5.23559 3.96629 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18531 4.90765 0.61958 0.77255 0.48576 0.95510\n- 3 2.73773 4.97288 2.96876 2.31408 4.35885 3.37440 3.70127 3.78074 2.35207 3.33093 4.14502 3.01317 3.89471 2.84291 1.97216 1.78737 2.98659 3.41721 5.50417 4.18636 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18531 4.90765 0.61958 0.77255 0.48576 0.95510\n- 4 2.80865 4.95290 2.91678 2.60722 4.36914 3.41956 3.85325 3.85996 2.56314 3.40854 4.28224 3.09267 1.80995 1.72024 2.92353 2.84143 3.10439 3.49878 5.57642 4.25826 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18531 4.90765 0.61958 0.77255 0.48576 0.95510\n- 5 3.40245 5.14279 3.49316 3.29560 3.55512 3.75542 0.62532 4.15535 3.13256 3.60389 4.68059 3.68761 4.33044 3.66923 3.37348 3.47380 3.72130 3.88480 5.01266 3.49950 7 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18531 4.90765 0.61958 0.77255 0.48576 0.95510\n- 6 3.17536 5.14460 3.15481 2.92731 4.35372 3.60327 4.08381 4.04611 2.72869 3.51534 4.54658 3.38523 4.16894 0.76501 3.00123 3.21552 3.47784 3.75959 5.57404 4.29489 8 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02287 4.18531 4.90765 0.61958 0.77255 0.48576 0.95510\n- 7 2.77737 5.01645 1.31111 2.39620 4.33110 3.35869 3.81893 3.08149 2.72532 3.38014 4.24612 2.93317 3.90'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05570 3.59998 3.61721 0.61958 0.77255 0.52848 0.89038\n- 71 2.51882 4.40323 2.69335 2.59819 3.06381 3.26666 3.69282 2.80839 2.67931 2.53591 3.58389 3.03199 3.78608 2.97029 3.05220 2.65848 2.82200 2.53023 4.84597 3.40997 172 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04551 3.50837 4.23072 0.61958 0.77255 0.52225 0.89939\n- 72 2.31913 4.31335 3.03843 2.66837 3.62020 3.17588 3.74923 2.85216 2.51700 2.46487 3.66694 3.07534 3.74519 3.01839 2.72278 2.52671 2.78049 2.60604 5.06710 3.75165 173 a - - -\n- 2.68613 4.42232 2.77515 2.73128 3.46356 2.40513 3.72496 3.29357 2.67741 2.69351 4.24696 2.90348 2.73735 3.18151 2.89805 2.37888 2.77523 2.98513 4.58444 3.61505\n- 0.17123 1.94458 4.24550 1.32150 0.31025 0.52848 0.89038\n- 73 2.75256 4.37219 3.65090 3.29065 3.02665 3.57269 4.05146 2.19764 3.03516 1.59130 3.21074 3.58552 4.07371 3.49251 3.26455 3.05083 3.07585 2.16580 4.79649 3.39387 191 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04482 3.52316 4.24550 0.61958 0.77255 0.52848 0.89038\n- 74 2.17878 4.07776 3.03480 2.82087 3.79803 2.87095 3.91101 3.00752 2.79661 2.87261 3.86435 3.07139 3.57924 3.20669 3.07314 2.17877 2.23780 2.66485 5.23966 3.94287 192 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04482 3.52316 4.24550 0.61958 0.77255 0.45995 0.99782\n- 75 2.03234 2.73949 3.59441 3.21291 3.70143 2.87679 4.05826 2.81951 3.07589 2.74555 3.69231 3.28089 3.58918 3.41398 3.31687 2.15303 2.46967 2.48406 5.17333 3.95016 193 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04192 3.58873 4.31108 0.61958 0.77255 0.48576 0.95510\n- 76 2.60306 4.38438 3.19282 2.70705 2.64697 3.44518 3.67836 2.76564 2.66544 2.33688 3.43513 3.17242 3.88335 2.84586 2.98757 2.74646 2.86079 2.58858 4.66683 3.23334 194 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08423 3.58873 2.93467 0.61958 0.77255 0.48576 0.95510\n- 77 2.53324 4.54496 3.03344 2.62466 3.84336 3.27394 3.60967 3.21646 2.10360 2.81903 3.82490 3.02444 3.77954 2.82215 2.07506 2.69938 2.88345 2.94778 5.12226 3.84555 195 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04369 3.54819 4.27054 0.61958 0.77255 0.51271 0.91347\n- 78 2.49970 4.02935 3.05271 2.92273 3.15674 2.80609 3.78061 2.65172 2.85475 2.19229 3.59714 3.21476 3.44981 3.30681 3.01920 2.72397 2.90917 2.49146 4.52916 3.35222 196 l - - -\n- 2.68616 4.42226 2.77520 2.73123 3.46355 2.40513 3.72495 3.29355 2.67742 2.69353 4.24686 2.90348 2.73741 3.18146 2.89799 2.37887 2.77518 2.98518 4.58478 3.61504\n- 0.04279 3.17270 * 0.90073 0.52134 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_TypeII__MkoC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_TypeII__MkoC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3431 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Mokosh_TypeII__MkoC\n-LENG 1136\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 1 16:02:18 2021\n-NSEQ 1409\n-EFFN 3.023386\n-CKSUM 764646924\n-GA 350 350;\n-STATS LOCAL MSV -12.9889 0.69530\n-STATS LOCAL VITERBI -14.3537 0.69530\n-STATS LOCAL FORWARD -6.9359 0.69530\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50327 4.41241 2.97229 2.57172 3.37460 3.00488 3.64613 2.86616 2.59820 2.48469 3.72163 2.99534 3.37164 2.92863 2.92017 2.60993 2.81345 2.74314 4.54619 3.52443\n- 2.68628 4.42250 2.77532 2.73144 3.46355 2.40525 3.72507 3.29325 2.67720 2.69342 4.24608 2.90347 2.73756 3.18147 2.89813 2.37888 2.77501 2.98500 4.58502 3.61486\n- 0.34183 2.33516 1.64643 1.72088 0.19712 0.00000 *\n- 1 2.89024 4.40997 4.21079 3.63483 3.46035 3.95109 3.99772 2.72142 3.40713 2.34979 1.08934 3.84513 4.32886 3.68375 3.64412 3.24772 2.94932 2.46106 5.00975 3.80727 46 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02172 4.72322 4.37425 0.61958 0.77255 0.83807 0.56659\n- 2 2.75398 5.24454 2.22411 2.31710 4.57363 3.36837 3.42246 3.49742 2.37490 3.48232 3.95575 2.34626 3.92527 2.66719 2.93077 2.33252 2.55098 3.29700 5.68690 3.90983 47 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20081 4.73045 1.75384 0.61958 0.77255 0.82306 0.57819\n- 3 2.55248 5.19483 2.39201 2.31350 4.11324 3.36082 3.35823 3.88556 2.16963 3.49452 3.87883 2.65427 3.51468 2.63534 2.81784 2.22177 2.85786 3.27863 5.63560 4.13760 48 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03490 4.56555 3.73400 0.61958 0.77255 0.45583 1.00490\n- 4 2.67536 5.21210 2.76656 2.46348 4.06050 3.48579 3.25142 3.90116 2.33324 3.20001 2.91241 2.20378 3.88932 2.69500 2.74330 2.58300 2.73725 3.44790 5.66877 3.20762 49 n - - -\n- 2.68633 4.42247 2.77498 2.73127 3.46355 2.40525 3.72487 3.29349 2.67745 2.69342 4.24650 2.90346 2.73710 3.18134 2.89823 2.37882 2.77525 2.98530 4.58499 3.61525\n- 0.38933 1.32990 2.84754 0.88568 0.53177 0.53134 0.88629\n- 5 2.23033 5.04655 2.78268 2.52434 3.79772 3.54648 3.18152 2.82784 2.45738 2.81108 3.97465 3.05469 3.44205 2.76516 3.06288 2.29320 2.71364 3.04208 5.54120 3.91975 58 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09192 4.81999 2.52879 0.61958 0.77255 0.67992 0.70655\n- 6 2.52935 5.17707 3.05306 2.40826 3.94565 3.47911 3.40109 3.84393 1.91638 2.48136 3.87562 2.63966 3.96760 2.45095 2.80764 2.66428 2.75444 3.44130 5.63761 4.18072 59 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01713 4.75672 4.78039 0.61958 0.77255 0.50912 0.91885\n- 7 2.54390 5.32619 2.75791 2.22313 4.66952 2.84428 3.73836 4.15429 1.94506 3.63069 4.367'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01507 4.59814 5.32048 0.61958 0.77255 1.04564 0.43304\n- 1129 2.72815 4.47810 3.42721 2.83369 3.64188 3.68570 3.79949 2.56389 2.23313 2.18950 3.14338 3.16165 4.06660 3.21493 2.83117 2.87745 2.91688 2.73576 3.84319 2.75173 2380 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01507 4.59814 5.32048 0.61958 0.77255 1.02451 0.44468\n- 1130 2.44377 5.15501 2.42142 2.01590 4.57015 3.45923 3.53996 3.98558 2.22658 3.53321 3.98018 2.41942 3.79178 2.79217 2.65598 2.40820 2.77733 3.59872 5.66574 4.25775 2381 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01497 4.60508 5.32743 0.61958 0.77255 0.97746 0.47203\n- 1131 2.70327 4.76528 2.63193 2.06661 3.66755 3.28957 3.71029 3.97319 2.45563 3.39590 4.05129 2.85483 3.31666 2.66750 2.51553 2.08137 2.83963 3.53476 5.63308 3.76823 2382 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01467 4.62512 5.34747 0.61958 0.77255 1.01572 0.44964\n- 1132 2.59965 4.19407 4.52036 3.92081 2.67370 3.93085 4.24652 2.49545 3.75374 1.25408 3.05431 4.01418 4.29076 3.92213 3.84058 2.89798 3.01640 2.29636 4.80020 2.94523 2383 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01673 4.62512 4.99325 0.61958 0.77255 1.01572 0.44964\n- 1133 2.52032 5.16155 2.82495 2.02033 3.43730 3.45907 3.71357 3.49365 2.25454 3.13923 4.05820 2.37013 3.91525 2.67368 2.60962 2.56981 2.96301 3.33641 5.61331 4.22600 2384 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06740 4.62310 2.89390 0.61958 0.77255 1.01802 0.44833\n- 1134 2.50058 5.18275 2.83524 2.32602 4.51053 3.34757 3.51921 3.82801 2.24043 3.08189 3.61879 2.65144 3.89309 2.39481 2.30133 2.34003 2.93567 3.52403 5.62515 4.22872 2385 k - - -\n- 2.68602 4.42270 2.77523 2.73086 3.46331 2.40512 3.72495 3.29296 2.67740 2.69316 4.24660 2.90384 2.73781 3.18165 2.89810 2.37911 2.77527 2.98532 4.58376 3.61508\n- 0.56119 0.95199 3.13512 1.41567 0.27808 1.00359 0.45659\n- 1135 2.64478 5.16585 3.15020 2.51022 4.20450 3.59546 3.73413 3.92299 1.87524 3.39865 4.22505 3.08756 3.97892 2.67295 1.57353 2.67950 3.04301 3.30059 5.58956 4.25465 2411 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13426 4.55702 2.16160 0.61958 0.77255 1.03970 0.43628\n- 1136 2.52827 4.66884 2.98352 2.24877 4.03969 3.31370 3.42966 3.25758 2.29250 2.87829 3.91348 2.89741 3.88810 2.43432 2.84950 2.49246 2.55440 3.04207 5.44981 3.96652 2412 e - - -\n- 2.68727 4.41864 2.77534 2.73028 3.46267 2.40642 3.72622 3.29090 2.67691 2.69385 4.24735 2.90379 2.73746 3.17957 2.89907 2.37984 2.77464 2.98345 4.58498 3.61628\n- 0.99405 0.46215 * 2.85709 0.05915 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4943 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoA_A\n-LENG 1640\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 17:03:16 2023\n-NSEQ 95\n-EFFN 2.136688\n-CKSUM 1254464285\n-GA 50 50;\n-STATS LOCAL MSV -13.5067 0.69464\n-STATS LOCAL VITERBI -14.5768 0.69464\n-STATS LOCAL FORWARD -7.5136 0.69464\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52710 4.56836 2.90107 2.54260 3.35761 3.05552 3.63010 2.84446 2.61321 2.45605 3.73413 3.03873 3.50006 2.95059 2.85158 2.60996 2.86489 2.67295 4.48902 3.59036\n- 2.68618 4.42212 2.77533 2.73115 3.46360 2.40516 3.72513 3.29347 2.67742 2.69335 4.24589 2.90333 2.73762 3.18114 2.89797 2.37890 2.77539 2.98519 4.58503 3.61529\n- 0.17915 2.34027 2.69246 1.99533 0.14615 0.00000 *\n- 1 3.30990 4.67256 4.97341 4.40046 3.35907 4.51681 4.86223 2.42402 4.23558 1.38295 1.23991 4.58285 4.78675 4.37908 4.34096 3.67820 3.54250 2.12598 5.27563 4.16914 39 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01567 4.55978 5.28212 0.61958 0.77255 0.60086 0.79483\n- 2 2.73359 5.22689 2.24932 1.92928 4.56779 3.50066 3.60447 3.57164 1.94162 3.39005 4.27006 2.97021 3.89669 2.57406 2.51919 2.69768 2.96420 3.61560 5.65914 4.25520 40 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01567 4.55978 5.28212 0.61958 0.77255 0.60086 0.79483\n- 3 3.46942 4.70227 5.46249 4.99895 4.02655 4.99181 5.73053 0.75645 4.91595 2.46690 3.77507 5.15910 5.25977 5.17493 5.08540 4.42061 3.58120 1.33138 6.10526 4.89450 41 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01567 4.55978 5.28212 0.61958 0.77255 0.60086 0.79483\n- 4 2.71642 5.12294 2.85338 2.20956 4.15694 3.50700 3.61043 3.08448 1.89302 3.25575 4.17463 2.87491 3.89936 2.64775 2.59619 2.66761 2.47123 3.41180 5.58062 3.69479 42 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01567 4.55978 5.28212 0.61958 0.77255 0.58745 0.81135\n- 5 2.71502 3.25119 3.58604 3.16274 3.48161 3.72947 3.78256 2.34682 2.97080 2.29391 3.41236 2.40436 3.84798 3.38664 3.41778 2.87388 2.68003 2.49837 4.94882 2.60169 43 l - - -\n- 2.68618 4.42231 2.77526 2.73130 3.46360 2.40519 3.72501 3.29335 2.67747 2.69293 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98516 4.58483 3.61509\n- 0.29927 1.37207 5.28669 0.15318 1.95175 0.59343 0.80393\n- 6 2.67934 3.32245 2.70656 2.42800 4.31029 3.35072 3.48198 3.74875 2.23678 3.20877 4.09680 2.86996 3.55666 2.63688 2.92666 2.40834 2.94899 3.38826 2.63851 4.15125 45 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01560 4.56434 5.28669 0.61958 0.77255 0.59343 0.80393\n- 7 2.49617 5.21185 2.58693 2.02981 4.54112 2.28960 3.69884 3.89299 2.23603 3.35970 4.25866 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02516 4.61833 4.20108 0.61958 0.77255 0.49819 0.93556\n- 1633 2.50374 4.94354 2.64153 2.08630 4.36889 3.21264 3.69634 3.91234 2.11243 3.32353 4.10193 2.71594 3.54164 2.42915 2.82480 2.46801 2.77722 3.40685 5.65758 3.99985 2189 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01492 4.60809 5.33043 0.61958 0.77255 0.51737 0.90656\n- 1634 2.61809 4.23867 3.97291 3.50549 2.82209 3.30141 4.11020 2.32921 3.02470 1.66621 2.97916 3.42351 4.18636 3.54602 3.44775 2.84471 2.86123 2.28797 4.84655 3.43611 2190 l - - -\n- 2.68621 4.42235 2.77525 2.73129 3.46364 2.40509 3.72482 3.29364 2.67747 2.69353 4.24681 2.90350 2.73745 3.18137 2.89760 2.37894 2.77521 2.98516 4.58460 3.61513\n- 0.13358 2.57688 3.01521 1.32618 0.30855 0.51737 0.90656\n- 1635 2.57993 5.07740 2.91508 2.13112 3.92054 3.16399 3.70974 3.50200 2.10992 2.58969 4.13362 2.89918 3.75554 2.71971 2.56244 2.61116 2.90508 3.11780 5.54595 4.00421 2218 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09481 4.56289 2.52539 0.61958 0.77255 0.59580 0.80100\n- 1636 2.56652 5.17589 2.75853 2.13325 4.01397 2.53653 3.50152 3.98682 2.14415 3.47604 4.02066 2.80034 3.65545 2.62752 2.52873 2.53914 2.82554 3.56020 5.61557 4.21193 2219 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04414 4.48497 3.44521 0.61958 0.77255 0.68539 0.70096\n- 1637 2.51269 5.12352 2.81089 2.26752 4.14903 3.05750 3.66370 3.43055 2.05771 3.24534 4.17220 2.66658 3.72498 2.52515 2.63116 2.47429 2.81940 3.35859 4.98913 4.18254 2220 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06645 4.46794 2.94082 0.61958 0.77255 0.73363 0.65424\n- 1638 2.46425 4.99361 2.86581 2.44985 4.26813 2.83591 3.67585 3.60449 2.13445 2.81198 3.71653 2.93729 3.76805 2.55397 2.60040 2.51546 2.85712 2.99673 5.47096 4.10769 2221 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14198 4.41954 2.11760 0.61958 0.77255 0.79292 0.60243\n- 1639 2.35724 4.35556 2.83716 2.34341 4.27178 2.85434 3.45433 3.71638 2.24548 3.13121 4.04560 2.79660 3.83259 2.63517 2.59775 2.50393 2.76335 3.02209 5.45926 4.08915 2222 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10508 4.29797 2.45168 0.61958 0.77255 0.84881 0.55848\n- 1640 2.42011 5.05755 2.67102 2.19764 4.36978 3.16619 3.49522 3.68953 2.24254 3.19072 4.10720 2.57749 3.55685 2.64307 2.69930 2.49702 2.80610 3.10992 5.51027 4.12004 2223 e - - -\n- 2.68529 4.42319 2.77577 2.73131 3.46425 2.40518 3.72478 3.29383 2.67642 2.69422 4.24755 2.90354 2.73753 3.18162 2.89686 2.37877 2.77521 2.98543 4.58541 3.61572\n- 0.74955 0.63976 * 2.29491 0.10622 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3365 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoA_B\n-LENG 1114\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 17:03:07 2023\n-NSEQ 113\n-EFFN 2.707062\n-CKSUM 3832496600\n-GA 30 30;\n-STATS LOCAL MSV -13.0585 0.69534\n-STATS LOCAL VITERBI -13.9037 0.69534\n-STATS LOCAL FORWARD -6.8747 0.69534\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55145 4.49063 2.88395 2.53352 3.47076 3.04537 3.72051 2.78362 2.57135 2.45238 3.78597 3.00193 3.48942 2.93474 2.84631 2.62323 2.83153 2.70084 4.77117 3.60869\n- 2.68622 4.42266 2.77578 2.73115 3.46421 2.40566 3.72561 3.29317 2.67731 2.69315 4.23910 2.90306 2.73752 3.18177 2.89801 2.37944 2.77535 2.98438 4.58442 3.61562\n- 1.14119 0.74251 1.58650 1.83302 0.17427 0.00000 *\n- 1 2.35665 4.79228 3.22062 2.52407 3.82068 2.95173 3.80512 3.39247 2.64791 2.62546 3.05695 2.83269 2.74958 2.73562 2.96996 2.80245 2.68483 2.72036 5.32062 4.01609 47 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01512 4.59499 5.31733 0.61958 0.77255 0.74215 0.64643\n- 2 2.68945 5.20520 2.62971 2.20661 4.28964 3.17823 3.71197 4.00351 2.43313 2.94272 3.50842 2.77149 3.91582 2.37699 2.45556 2.34530 2.61064 3.58543 5.64959 4.25062 48 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01446 4.63956 5.36190 0.61958 0.77255 0.78895 0.60572\n- 3 2.67766 4.21655 4.23498 3.29318 2.87514 3.85316 4.15768 2.01639 2.91245 1.85081 2.76454 3.84414 4.22232 3.61693 3.40782 2.94437 2.82363 2.27413 4.82855 3.09893 49 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01435 4.64702 5.36936 0.61958 0.77255 0.53248 0.88467\n- 4 2.55036 4.19922 4.64193 4.03687 3.15781 3.82728 4.29660 1.45496 3.85135 2.00745 2.59384 4.08530 4.33016 4.00786 3.90697 3.02224 2.86435 2.08665 4.82948 3.44331 50 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01308 4.73871 5.46106 0.61958 0.77255 0.65263 0.73537\n- 5 2.34371 4.56635 2.65897 2.46289 3.57643 2.74118 3.79121 3.75230 2.52598 2.45608 4.12339 2.16246 3.98274 2.92472 3.04488 2.50781 3.00936 3.40440 5.54573 4.19148 51 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03645 4.73871 3.61025 0.61958 0.77255 0.65263 0.73537\n- 6 2.76789 5.25663 2.29738 2.23080 4.59255 2.31653 3.73289 4.07211 2.24085 3.55797 4.00796 2.39763 3.55852 2.78395 2.78473 2.73438 2.87717 3.49062 4.70686 4.04045 52 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01339 4.71565 5.43800 0.61958 0.77255 0.61629 0.77641\n- 7 2.80253 5.28796 2.97849 2.37962 4.63165 3.43455 3.27335 3.95013 2.12548 3.58694 4.33125 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01202 4.82319 5.54553 0.61958 0.77255 0.50466 0.92562\n- 1107 2.61901 0.78482 4.56978 4.14977 3.76552 3.72883 4.62073 3.33107 3.97357 3.11288 4.05463 4.12158 4.37329 4.23271 4.12235 2.98910 3.26434 3.05582 5.30780 2.64143 1785 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83311 5.55546 0.61958 0.77255 0.51972 0.90309\n- 1108 2.36485 4.93481 3.26666 1.96128 3.89980 3.29703 3.26869 3.19897 2.63915 2.42533 4.01192 3.21691 4.05238 2.84263 2.85085 2.50613 2.85549 2.87535 4.89586 3.52499 1786 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83311 5.55546 0.61958 0.77255 0.51972 0.90309\n- 1109 2.83356 3.70952 4.75257 4.14045 2.96012 3.99874 4.33000 1.54843 3.69757 1.70839 3.03839 4.14635 4.36210 3.83245 3.58079 3.30827 3.06568 1.96224 4.21072 3.65946 1787 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83311 5.55546 0.61958 0.77255 0.51972 0.90309\n- 1110 2.81330 5.16428 3.04613 1.87820 4.24406 2.93440 3.80759 2.66679 2.38535 3.33629 4.22147 3.10969 4.00528 2.73719 2.13791 2.80913 2.98642 2.83826 5.63442 4.26387 1788 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83311 5.55546 0.61958 0.77255 0.51972 0.90309\n- 1111 2.73245 5.30652 2.11827 1.68424 4.64438 3.41438 3.77607 3.91366 2.51446 3.60877 4.17859 2.74411 3.53293 2.67091 2.94998 2.50072 2.83109 3.14338 5.74351 4.33652 1789 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83311 5.55546 0.61958 0.77255 0.51972 0.90309\n- 1112 1.88850 3.34182 4.51778 3.36422 3.20941 3.79077 3.97598 2.47982 3.76021 1.95602 3.36604 4.03084 4.19777 3.94142 3.86378 2.86581 2.91648 1.83690 4.01500 3.18175 1790 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07117 4.83311 2.80127 0.61958 0.77255 0.51972 0.90309\n- 1113 2.70578 5.29485 2.83767 2.25526 4.63825 3.15690 3.51104 4.12299 1.98944 3.59938 4.10826 2.46207 3.81990 2.46721 2.55415 2.28887 2.75935 3.46753 5.72850 4.07539 1791 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20301 4.77457 1.74132 0.61958 0.77255 0.64298 0.74596\n- 1114 2.42627 5.15018 2.89826 2.22801 4.46589 3.38447 3.38733 3.72541 2.07684 3.08242 4.19869 2.78301 3.24439 2.74443 2.62356 2.49389 2.75473 3.05426 5.60081 3.97646 1792 k - - -\n- 2.68648 4.42243 2.77540 2.73109 3.46323 2.40504 3.72508 3.29331 2.67684 2.69385 4.24717 2.90296 2.73770 3.18106 2.89800 2.37892 2.77554 2.98523 4.58529 3.61507\n- 0.58247 0.81761 * 1.45689 0.26521 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_C.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_C.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3602 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoA_C\n-LENG 1193\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 17:02:44 2023\n-NSEQ 131\n-EFFN 3.618011\n-CKSUM 6706229\n-GA 40 40;\n-STATS LOCAL MSV -12.9187 0.69519\n-STATS LOCAL VITERBI -14.2124 0.69519\n-STATS LOCAL FORWARD -7.0746 0.69519\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49893 4.69365 2.87724 2.55488 3.44496 3.00706 3.63396 2.95453 2.67075 2.39212 3.78365 3.08854 3.35354 2.95524 2.72690 2.59720 2.83871 2.72965 4.49428 3.72826\n- 2.68602 4.42291 2.77577 2.73144 3.46439 2.40555 3.72536 3.29453 2.67740 2.69374 4.23305 2.90389 2.73756 3.18165 2.89791 2.37919 2.77471 2.98472 4.58453 3.61567\n- 1.48316 0.62221 1.44256 1.54054 0.24114 0.00000 *\n- 1 2.40134 5.22617 2.45895 2.40104 4.54375 3.36301 3.48755 3.63236 2.24713 2.82902 3.30416 2.90718 3.24930 2.74162 2.51285 2.53324 3.01470 3.60195 5.67566 3.65005 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14811 4.76089 2.04713 0.61958 0.77255 0.74413 0.64464\n- 2 2.48260 4.52955 2.67251 2.46481 4.40518 3.06926 3.76341 3.64659 2.30576 2.83654 3.22008 2.71770 3.66460 2.64195 2.81538 2.49816 2.65990 2.95661 5.59092 4.21957 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01338 4.71632 5.43867 0.61958 0.77255 0.48776 0.95192\n- 3 2.21814 5.29371 2.95097 2.29099 4.61455 3.47012 3.42189 3.57464 2.37985 3.42714 2.86902 2.90970 3.64062 2.60902 2.35529 2.55074 2.73752 3.19220 5.74117 4.34533 20 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01093 4.91728 5.63963 0.61958 0.77255 0.70440 0.68202\n- 4 2.40440 5.34252 2.71000 2.12699 4.03553 2.45501 3.65622 3.94787 2.40581 3.50252 4.10021 2.76989 4.01553 2.50873 2.71598 2.26918 2.91492 3.43977 5.77881 4.37151 21 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01082 4.92765 5.65000 0.61958 0.77255 0.72639 0.66097\n- 5 2.43884 4.39700 2.86080 2.23502 4.26869 3.64999 3.84505 3.08669 2.26031 2.63427 3.97611 2.65595 3.31724 2.87965 2.65043 2.65859 2.81128 3.11410 5.66636 3.77144 22 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04012 4.92765 3.43946 0.61958 0.77255 0.72639 0.66097\n- 6 2.63666 4.66876 2.36358 2.29321 4.30019 3.30421 3.33339 3.40636 2.31468 3.03020 4.37042 2.65248 3.33161 2.45203 2.82428 2.54500 2.59484 3.71450 5.76495 4.35848 23 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01114 4.89867 5.62102 0.61958 0.77255 0.71954 0.66743\n- 7 2.67541 5.31647 2.74149 2.24719 4.03020 3.24332 3.71825 3.86424 2.33707 2.71625 4.36100 2.79'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00980 5.02581 5.74815 0.61958 0.77255 0.62552 0.76568\n- 1186 2.06343 5.38749 2.05293 2.17225 3.92661 3.19572 3.84918 4.21162 2.36523 3.69104 4.42922 2.85385 3.60708 2.71368 2.86507 2.59399 2.78313 3.33433 5.82261 4.17492 1975 d - - -\n- 2.68643 4.42265 2.77537 2.73052 3.46307 2.40477 3.72507 3.29349 2.67745 2.69346 4.24730 2.90296 2.73780 3.18146 2.89814 2.37919 2.77510 2.98543 4.58517 3.61533\n- 0.36689 1.23479 4.12159 1.16014 0.37607 0.57745 0.82400\n- 1187 2.50568 5.39314 2.78509 1.83781 3.94578 3.51205 3.33742 4.22226 2.18596 3.61983 4.43410 2.87747 3.69322 2.71668 2.39666 2.42227 2.73372 3.33697 5.82649 4.41622 1983 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10783 5.02324 2.34723 0.61958 0.77255 0.63194 0.75834\n- 1188 2.59078 4.26179 4.80346 4.19176 2.94027 4.04871 4.38118 1.80344 3.98672 1.59546 3.37724 4.19704 4.07713 4.12605 4.01044 3.19066 2.91538 1.73106 3.84495 3.70972 1984 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02000 4.92625 4.37796 0.61958 0.77255 0.83936 0.56561\n- 1189 2.70154 4.28786 3.87858 3.13716 3.31256 2.86114 4.13607 2.38660 2.75397 2.24975 3.45721 3.66922 3.54596 3.36311 3.10670 2.65485 2.27431 2.20882 4.53194 3.67194 1985 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05018 4.90460 3.18143 0.61958 0.77255 0.85583 0.55326\n- 1190 2.58402 5.32187 2.51503 2.19160 4.66526 2.76759 3.77653 4.15007 2.38512 3.46434 4.36302 2.74448 3.70725 2.42177 2.37837 2.26081 2.96357 3.27759 5.75552 4.34553 1986 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13298 4.84589 2.14851 0.61958 0.77255 0.79524 0.60052\n- 1191 2.33429 4.54826 2.66104 2.51935 4.48241 2.67663 3.39494 3.71823 2.29782 3.13400 3.72289 2.97386 3.01125 2.73370 2.80994 2.32092 2.78847 3.54785 4.84451 4.25721 1987 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16779 4.75218 1.92525 0.61958 0.77255 0.99904 0.45924\n- 1192 2.24160 5.20568 2.85079 2.13731 4.53670 2.95698 3.69669 3.68595 2.02731 3.25720 4.25012 2.88386 3.46382 2.65280 2.65841 2.54791 2.80677 3.46766 5.64682 4.24462 1988 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04285 4.60090 3.44496 0.61958 0.77255 1.15479 0.37852\n- 1193 2.56093 5.19037 2.53569 2.42972 4.18361 3.50077 3.68977 3.83208 2.07299 3.48843 4.23560 2.47039 3.69796 2.59575 2.64212 2.22692 2.76241 3.15061 5.63326 4.23281 1989 k - - -\n- 2.68528 4.42278 2.77574 2.73116 3.46331 2.40470 3.72495 3.29397 2.67657 2.69333 4.24682 2.90374 2.73725 3.18208 2.89813 2.37934 2.77496 2.98539 4.58585 3.61648\n- 0.94640 0.49125 * 2.12625 0.12702 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_D.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_D.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2804 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoA_D\n-LENG 927\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 16:02:52 2023\n-NSEQ 69\n-EFFN 7.222595\n-CKSUM 2545717566\n-GA 200 200;\n-STATS LOCAL MSV -12.5229 0.69578\n-STATS LOCAL VITERBI -14.1267 0.69578\n-STATS LOCAL FORWARD -6.2094 0.69578\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43990 4.56698 2.84460 2.58038 3.54474 2.79283 3.72188 3.10054 2.71821 2.47138 3.93863 3.08787 3.12121 2.96572 2.70985 2.57976 2.84327 2.74487 4.73294 3.71291\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00525 5.64849 6.37084 0.61958 0.77255 0.00000 *\n- 1 5.52965 6.81147 6.56335 6.51784 5.59810 5.72019 6.94861 5.11720 6.38146 4.19849 0.05971 6.60875 6.34060 6.67664 6.32071 5.89349 5.96124 5.26210 7.23632 6.24044 1 M - - -\n- 2.68607 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18148 2.89803 2.37889 2.77499 2.98520 4.58479 3.61505\n- 0.16498 3.42930 2.12290 0.29823 1.35531 0.48576 0.95510\n- 2 1.93729 5.62761 3.06972 2.51260 3.50389 3.90157 3.74363 4.45193 1.94239 3.28584 4.66930 2.61311 4.29495 2.75146 2.58510 2.24341 2.88682 3.56537 6.06266 3.49253 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03071 5.52296 3.64026 0.61958 0.77255 0.97818 0.47160\n- 3 2.64524 5.39761 3.00254 2.30514 2.93849 3.93782 3.49261 2.56813 2.58197 2.07460 4.46180 3.45042 3.85674 2.89276 2.90238 2.29532 2.78312 3.13563 5.88495 4.53219 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01908 5.49835 4.21253 0.61958 0.77255 1.04645 0.43260\n- 4 2.93837 3.95322 3.15077 2.60620 4.78308 3.41702 3.74832 3.04355 2.05518 2.47565 3.79206 3.39741 3.25492 2.30591 2.92431 2.45836 2.45753 2.90836 5.95382 4.57605 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03308 5.48545 3.56174 0.61958 0.77255 0.58103 0.81944\n- 5 2.74858 5.65122 1.94880 2.33947 4.99755 2.86539 2.73368 4.48442 2.49155 3.95704 4.69155 2.72310 3.32892 2.50396 2.54670 2.59877 2.69884 4.04254 6.08314 3.93696 6 d - - -\n- 2.67824 4.42355 2.76698 2.73047 3.46181 2.41423 3.72175 3.28285 2.68745 2.67318 4.25199 2.91198 2.74349 3.17593 2.89428 2.38604 2.78274 2.98211 4.57456 3.62031\n- 2.19224 0.30681 1.88032 3.78454 0.02298 0.91385 0.51246\n- 6 2.18575 3.99159 3.02962 2.91040 3.34441 3.44808 4.21819 3.05869 2.87781 1.93274 4.07325 3.22850 3.61301 3.13372 2.93721 2.91884 2.43467 2.51226 3.92953 4.26595 149 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19581 5.38089 1.75312 0.61958 0.77255 1.30390 0.31673\n- 7 2.10152 5.23254 3.32910 2.32939 3.40233 3.42321 3.98381 3.63342 2.18928 2.99930 4.29758 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01012 4.99460 5.71695 0.61958 0.77255 1.44080 0.27015\n- 920 2.51344 5.26827 3.11891 2.10243 3.92093 2.86911 3.04850 4.04472 2.56414 3.55960 4.31772 3.10595 4.01770 2.65448 2.73022 1.70666 3.06980 3.64148 5.72069 3.45772 3426 s - - -\n- 2.68474 4.42303 2.77475 2.73136 3.46381 2.40573 3.72440 3.29387 2.67748 2.69374 4.24768 2.90334 2.73749 3.18108 2.89740 2.37913 2.77528 2.98566 4.58397 3.61581\n- 0.59296 0.88990 3.30737 1.58588 0.22912 0.94245 0.49376\n- 921 2.51801 5.36309 2.87276 2.67318 4.68941 3.72495 3.50059 3.63325 1.95409 3.29237 4.41368 3.20648 4.11394 2.99949 1.31826 2.92734 3.17527 3.74472 5.79606 4.42513 3434 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00988 5.01825 5.74059 0.61958 0.77255 1.31247 0.31355\n- 922 3.00010 5.51426 1.35564 1.97512 4.84288 3.68257 3.93865 4.33114 2.72011 3.81286 4.56589 2.83558 4.12260 2.82384 3.22778 2.38437 2.91989 3.89740 5.95061 3.15254 3435 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01020 4.98650 5.70885 0.61958 0.77255 0.98637 0.46669\n- 923 2.44735 5.04137 2.91834 2.45165 4.27689 3.28078 3.88749 3.06467 2.28795 2.43546 3.03885 3.21624 3.51596 3.03957 2.21978 2.88639 3.08086 2.74038 5.54579 4.21273 3436 r - - -\n- 2.68381 4.42942 2.77648 2.72323 3.46882 2.41052 3.72771 3.28401 2.68092 2.68710 4.23970 2.90842 2.74110 3.18414 2.89404 2.38126 2.77594 2.98186 4.56394 3.62132\n- 1.31902 0.31598 5.64685 3.65121 0.02630 0.68115 0.70529\n- 924 3.19179 5.15390 3.94565 3.75602 5.31312 2.24521 4.92604 4.81951 3.73007 4.41471 5.25238 4.02589 0.53338 4.17121 3.19524 3.33659 3.66508 4.23140 6.49161 5.32573 3621 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17248 4.95296 1.88810 0.61958 0.77255 0.97259 0.47498\n- 925 2.07008 4.88795 3.22031 2.46039 3.29343 3.12716 3.82693 3.50918 2.41420 2.88338 3.96511 2.73779 4.00589 2.99622 2.75775 2.82505 2.47507 2.85813 5.40606 3.16374 3622 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01347 4.70978 5.43213 0.61958 0.77255 0.94047 0.49502\n- 926 2.17084 4.75039 3.28886 2.72881 3.94057 3.62598 3.18774 2.98863 2.71126 2.68672 3.83672 2.59296 4.01280 2.60299 3.14485 2.59258 2.52258 2.38161 5.28972 3.99843 3623 a - - -\n- 2.68214 4.42702 2.77413 2.72728 3.46392 2.40874 3.72497 3.29031 2.67969 2.69020 4.24625 2.90656 2.73927 3.18170 2.89363 2.38144 2.77731 2.98522 4.57729 3.61688\n- 0.92987 0.50959 5.36948 3.44946 0.03228 0.23323 1.57009\n- 927 1.98729 4.77966 3.14959 2.38664 3.10002 3.38922 4.03801 2.89920 2.95784 2.48172 3.87303 3.44695 4.19083 2.96928 2.79603 2.82255 2.85583 2.27288 4.16721 4.07005 3760 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00676 5.00072 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_E.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoA_E.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3848 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoA_E\n-LENG 1275\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 22 20:36:01 2023\n-NSEQ 67\n-EFFN 3.496399\n-CKSUM 1204279832\n-GA 200 200;\n-STATS LOCAL MSV -13.3335 0.69506\n-STATS LOCAL VITERBI -14.0863 0.69506\n-STATS LOCAL FORWARD -7.1722 0.69506\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57607 4.55645 2.97607 2.47428 3.42476 3.07754 3.68584 2.85728 2.53214 2.46143 3.73752 2.94273 3.42709 2.80037 2.87196 2.64914 2.82370 2.79930 4.74581 3.64013\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01413 4.66256 5.38490 0.61958 0.77255 0.00000 *\n- 1 3.84041 5.28914 5.05478 4.78141 3.87375 4.53700 5.33606 3.15128 4.50704 2.40113 0.40861 4.94267 5.05561 4.85680 4.60352 4.23633 4.19123 3.24063 5.76384 4.58353 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13716 4.66256 2.13095 0.61958 0.77255 0.48576 0.95510\n- 2 2.10221 5.15783 2.97061 2.30221 4.47690 3.49734 3.69952 3.94204 2.27258 3.45457 4.21333 2.26658 3.24833 2.70151 2.93627 2.29004 2.60194 3.53610 5.61375 4.22152 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06166 4.54136 3.01318 0.61958 0.77255 0.69251 0.69379\n- 3 2.40599 5.14689 2.97333 2.03426 4.46615 3.48572 3.67517 3.28378 2.33339 3.43968 4.19552 2.25671 3.87977 2.47594 2.52944 2.58379 2.80933 3.52380 5.59404 4.20234 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01670 4.49641 5.21875 0.61958 0.77255 0.69536 0.69094\n- 4 2.63117 4.19212 4.10384 3.16658 2.84805 3.19197 4.09120 2.05641 3.40866 2.04764 2.87681 3.75007 4.16245 3.63806 3.60819 2.82519 2.20660 2.35437 4.80296 3.60836 4 l - - -\n- 2.68674 4.42148 2.77601 2.73048 3.46359 2.40688 3.72529 3.28437 2.67733 2.68797 4.24879 2.90602 2.73969 3.18046 2.90032 2.38161 2.77615 2.98223 4.58773 3.61242\n- 1.09960 0.83154 1.46267 4.25588 0.01428 0.72532 0.66198\n- 5 2.51859 4.05519 3.60948 2.90189 3.10817 3.22181 3.96698 2.95700 2.86269 2.34029 2.38709 3.14278 3.47512 3.29904 2.92832 2.66226 2.68491 2.42980 5.03991 3.80516 480 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15773 4.61970 1.99464 0.61958 0.77255 0.99548 0.46132\n- 6 2.69815 4.29329 3.02571 2.38590 4.30749 3.50041 3.69309 2.91716 2.26577 3.30319 4.08707 2.57902 3.89180 2.01204 2.73016 2.41877 2.80814 3.38286 5.50027 4.13662 481 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01700 4.47897 5.20132 0.61958 0.77255 1.07191 0.41909\n- 7 2.41167 5.09074 2.65201 2.45044 4.38718 3.49959 3.69286 3.84016 2.16464 3.37507 3.77681 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11602 4.93881 2.27910 0.61958 0.77255 0.48576 0.95510\n- 1268 2.60157 4.43854 3.03601 2.06700 4.60646 3.13878 3.19238 4.08640 1.96141 3.57119 3.99978 2.66298 3.94926 2.66963 2.36716 2.46916 2.88832 3.44483 5.70704 4.30150 2828 k - - -\n- 2.68576 4.42241 2.77535 2.73070 3.46370 2.40529 3.72510 3.29252 2.67757 2.69371 4.24706 2.90363 2.73742 3.18141 2.89817 2.37903 2.77521 2.98523 4.58493 3.61519\n- 0.32512 1.65842 2.44051 0.94075 0.49485 0.71871 0.66822\n- 1269 2.73846 3.87641 3.95370 3.46872 2.27513 3.86311 4.17578 1.97967 3.60744 2.04954 3.18012 3.89961 4.23073 3.50752 3.44716 2.75170 2.87416 2.06953 4.79442 3.26751 2832 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04772 4.62634 3.30210 0.61958 0.77255 0.73917 0.64915\n- 1270 2.73783 3.50806 4.50086 3.66655 2.42016 3.88464 4.20728 2.37570 3.41829 1.87290 2.61328 3.97831 4.24971 3.21666 3.80452 3.18694 2.96994 1.78736 4.76494 3.58424 2833 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03623 4.61039 3.66390 0.61958 0.77255 0.40767 1.09421\n- 1271 2.74244 4.22654 3.00797 2.37080 4.47117 2.12401 2.63524 3.93199 2.42445 3.45146 4.21378 2.62529 3.62421 2.42139 2.95291 2.49727 2.97436 3.53324 5.61646 4.22897 2834 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21767 4.60720 1.68401 0.61958 0.77255 0.61182 0.78167\n- 1272 2.11445 5.08226 2.82264 2.24514 4.38722 3.44979 3.65028 3.84368 1.93792 2.90803 4.13679 2.67263 3.85070 2.61438 2.87642 2.57797 2.91029 3.45173 5.53782 4.15489 2835 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01938 4.34895 5.07130 0.61958 0.77255 0.87681 0.53804\n- 1273 2.55561 2.87696 4.24618 3.65671 3.22423 3.79540 4.11726 1.90507 3.51709 2.01732 3.22965 3.82171 3.58940 3.72426 3.23341 3.09094 2.90324 1.92454 4.75140 3.56360 2836 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06023 4.34895 3.08926 0.61958 0.77255 0.87681 0.53804\n- 1274 2.64188 4.90841 2.98647 2.25937 4.18246 3.44231 3.63539 3.60769 2.37794 3.18045 3.98054 2.95870 3.28575 2.58683 2.14483 2.52500 2.71946 2.76207 5.39111 4.04827 2837 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02267 4.19384 4.91619 0.61958 0.77255 0.77836 0.61463\n- 1275 2.59356 4.50682 2.82973 2.56069 3.14976 3.24768 3.58841 3.16188 2.54306 2.81200 3.79385 2.47179 3.78251 2.96954 2.86889 2.68985 2.89570 2.90063 4.66056 2.77887 2838 n - - -\n- 2.68617 4.42237 2.77532 2.73135 3.46366 2.40515 3.72507 3.29353 2.67715 2.69354 4.24641 2.90311 2.73752 3.18158 2.89813 2.37884 2.77504 2.98530 4.58489 3.61515\n- 0.18558 1.77560 * 1.65248 0.21267 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1445 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoB_A\n-LENG 474\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 17:03:25 2023\n-NSEQ 78\n-EFFN 4.536987\n-CKSUM 894967116\n-GA 30 30;\n-STATS LOCAL MSV -11.4018 0.69829\n-STATS LOCAL VITERBI -12.2222 0.69829\n-STATS LOCAL FORWARD -6.1468 0.69829\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58498 4.59924 2.91553 2.53152 3.08872 3.02623 3.72696 2.89635 2.65933 2.40846 3.78598 3.07236 3.31572 3.04125 2.88702 2.58182 2.88405 2.68238 4.63470 3.53854\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.52314 5.25775 0.91096 0.61958 0.77255 0.00000 *\n- 1 3.57577 4.96486 5.27165 4.79176 3.62407 4.71612 5.31316 2.51462 4.57461 2.03041 0.74904 4.93418 5.07091 4.76662 4.67854 4.13694 3.86374 2.01425 5.66815 4.54408 1 m - - -\n- 2.68688 4.42477 2.77551 2.73136 3.46449 2.40625 3.72702 3.29346 2.67746 2.69097 4.24826 2.90318 2.73691 3.18200 2.89559 2.37874 2.77392 2.98573 4.58729 3.61735\n- 1.09998 0.53543 2.50468 2.54367 0.08184 0.84108 0.56431\n- 2 2.62494 5.13358 2.98220 2.17265 4.40299 2.71284 3.83470 3.36141 2.42286 2.97150 2.41873 3.01605 2.89949 2.96339 2.96394 2.65215 2.86375 3.48288 5.61441 3.72672 39 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13594 4.87502 2.12469 0.61958 0.77255 0.58093 0.81957\n- 3 2.66987 5.31465 2.57326 1.97868 4.63084 3.66019 3.85104 3.73036 2.35336 3.60757 2.20077 2.82433 4.05331 2.95759 3.08581 2.29039 2.57587 3.49800 5.76509 4.37219 40 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01011 4.99523 5.71757 0.61958 0.77255 1.10913 0.40025\n- 4 2.77553 5.37361 2.62563 1.47982 4.71353 3.11741 3.60176 3.81195 2.52218 3.30709 4.41568 2.68730 4.04342 2.66265 3.06694 2.40580 2.81468 3.76149 5.80932 3.76957 41 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01011 4.99523 5.71757 0.61958 0.77255 0.93552 0.49821\n- 5 2.89135 5.39823 1.85312 2.11594 4.74164 3.46148 2.99978 3.74425 2.42619 3.48880 4.43937 2.28291 4.05887 2.76023 2.94383 2.58735 2.80250 3.78798 5.83186 3.82647 42 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00970 5.03595 5.75829 0.61958 0.77255 0.33414 1.25862\n- 6 2.70803 5.43767 2.92710 2.24175 4.30565 2.90628 3.31001 3.20794 2.55451 3.30245 2.77902 2.57290 3.82798 2.82748 2.62286 2.46237 2.61653 3.37862 5.88353 3.79795 43 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00796 5.23300 5.95535 0.61958 0.77255 0.59183 0.80589\n- 7 2.56178 5.46856 3.10730 2.41344 4.80476 3.75627 3.94425 3.91427 1.92297 2.92829 3.75144 2.66'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00856 5.16067 5.88301 0.61958 0.77255 0.77663 0.61610\n- 467 2.60534 5.45661 2.80150 2.44679 4.79698 1.57760 3.91603 4.28035 2.55499 3.75986 4.49895 2.62287 2.65049 2.82922 2.82643 2.68621 3.18651 3.84481 5.89174 3.96969 656 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00856 5.16067 5.88301 0.61958 0.77255 0.77663 0.61610\n- 468 2.44257 4.17413 3.85925 3.64191 2.34865 3.73766 3.67426 2.33427 3.11172 1.84320 3.63890 3.93313 2.71570 3.80863 3.56266 2.43069 2.99020 2.53118 5.13057 3.92706 657 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00856 5.16067 5.88301 0.61958 0.77255 0.77663 0.61610\n- 469 2.98977 4.48312 5.00673 4.39805 2.82131 3.88084 4.61157 2.03026 4.20097 0.91276 3.15010 4.42184 3.46606 4.33255 4.22985 3.59254 3.33864 2.53608 5.10043 3.93519 658 l - - -\n- 2.68589 4.42251 2.77508 2.73150 3.46337 2.40539 3.72494 3.29380 2.67767 2.69340 4.24679 2.90330 2.73766 3.18094 2.89812 2.37894 2.77539 2.98545 4.58503 3.61290\n- 0.76321 0.97870 1.84496 0.41315 1.08341 0.77663 0.61610\n- 470 2.77323 3.78234 2.66073 2.19458 4.71083 3.24374 3.32829 4.19324 2.50536 3.67395 4.41283 2.89976 3.72621 2.22750 2.60326 1.89529 2.98100 3.44536 4.68789 4.39868 662 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07234 4.99196 2.76472 0.61958 0.77255 1.10184 0.40386\n- 471 2.78063 5.35691 2.27680 2.34915 4.70106 2.70594 3.80933 4.18636 1.96774 3.38270 4.39790 2.60473 4.01557 2.76632 2.48882 2.39323 2.78512 3.52559 5.79005 4.37965 663 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04028 4.93041 3.43411 0.61958 0.77255 1.08435 0.41267\n- 472 2.32306 3.87593 3.85077 3.41722 3.29239 3.49817 4.25528 2.23869 3.35890 1.63436 3.33453 3.63206 3.89213 3.55348 3.76988 2.94773 2.85390 2.05965 4.97326 3.49010 664 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14610 4.92725 2.05043 0.61958 0.77255 1.19228 0.36173\n- 473 2.18128 5.07016 3.02940 2.39411 3.95221 2.98600 3.44788 3.38842 2.44269 2.73996 4.13455 2.88518 4.00360 2.94694 2.85745 2.30873 2.54937 2.84488 5.55794 4.20567 665 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08538 4.79353 2.60974 0.61958 0.77255 0.79201 0.60319\n- 474 2.57490 5.30172 2.52263 2.23953 3.68198 3.00641 3.58981 3.40153 2.30216 3.24220 4.34779 2.75512 3.54093 2.91523 2.54260 2.52485 2.61620 3.00046 5.74682 4.34853 666 e - - -\n- 2.68588 4.42382 2.77501 2.72946 3.46479 2.40541 3.72573 3.29421 2.67677 2.69410 4.24733 2.90382 2.73651 3.18194 2.89809 2.37854 2.77548 2.98503 4.58582 3.61660\n- 1.29332 0.32070 * 1.71931 0.19746 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1412 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoB_B\n-LENG 463\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 17:03:35 2023\n-NSEQ 69\n-EFFN 6.919373\n-CKSUM 1168998914\n-GA 20 20;\n-STATS LOCAL MSV -11.2718 0.69842\n-STATS LOCAL VITERBI -12.2816 0.69842\n-STATS LOCAL FORWARD -6.0918 0.69842\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66547 4.65273 2.85858 2.50361 3.41049 3.03298 3.81253 2.69179 2.56183 2.35304 3.86405 3.03371 3.37103 3.04476 2.83904 2.66151 2.88318 2.72365 4.95331 3.49304\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.45506 5.42360 1.01838 0.61958 0.77255 0.00000 *\n- 1 3.80440 5.18014 5.58808 5.13211 3.79936 4.94500 5.61285 2.67913 4.90052 2.17363 0.59013 5.23396 5.30515 5.06395 4.97322 4.39155 4.10324 2.10683 5.89275 4.78038 1 M - - -\n- 2.68604 4.42335 2.77571 2.73045 3.46464 2.40623 3.72563 3.29384 2.67549 2.69404 4.24800 2.90179 2.73808 3.17989 2.89809 2.37845 2.77516 2.98629 4.58459 3.61613\n- 0.98515 0.71535 1.98343 1.68513 0.20508 1.04192 0.43506\n- 2 2.96766 4.95081 3.19546 2.58336 2.89710 3.85500 4.07642 3.35623 2.42717 2.67354 1.90694 3.24901 4.24101 3.06921 3.38149 2.41073 2.42584 3.02814 5.49334 3.62385 18 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00843 5.17590 5.89824 0.61958 0.77255 1.45424 0.26602\n- 3 2.49616 5.34550 2.70106 2.45611 2.94465 3.74864 3.55182 3.05409 2.13546 3.21232 4.39880 2.57325 4.14086 2.82585 3.18106 2.49941 2.33875 3.23055 5.80732 3.76991 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00843 5.17590 5.89824 0.61958 0.77255 0.18069 1.79995\n- 4 3.18159 5.57569 2.38398 2.75905 3.80490 3.17603 3.63908 2.84650 2.43962 3.61960 1.88880 3.06785 3.11735 3.02983 3.25003 2.32785 2.94500 3.08615 6.03669 4.65506 20 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00543 5.61397 6.33632 0.61958 0.77255 0.53516 0.88086\n- 5 2.44408 5.58315 2.32726 2.65792 3.49564 3.62855 4.16506 3.09971 2.74020 2.93662 4.63531 3.04813 3.41114 2.81184 2.69526 2.08689 2.65676 3.50804 4.25265 2.98585 21 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00543 5.61397 6.33632 0.61958 0.77255 0.53516 0.88086\n- 6 2.62414 4.93380 3.17584 3.07686 2.92160 4.21053 4.46587 1.71494 3.50846 1.82789 3.65797 3.51703 3.19148 3.35364 3.08932 3.06279 2.51743 2.95558 5.51735 3.86208 22 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00543 5.61397 6.33632 0.61958 0.77255 0.53516 0.88086\n- 7 2.94681 5.68194 2.43805 1.48898 5.02469 3.95141 4.13871 4.01326 2.42611 3.05871 4.72320 3.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04080 5.37917 3.34195 0.61958 0.77255 0.94400 0.49277\n- 456 2.84246 5.50248 3.01482 2.27216 4.82929 3.81848 4.00679 4.30185 2.30548 2.03675 4.54818 3.29350 3.75873 2.82446 1.61886 2.68829 3.26915 3.08114 5.94577 4.54719 888 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00711 5.34549 6.06783 0.61958 0.77255 1.02679 0.44341\n- 457 2.58540 4.48247 5.01210 4.40039 2.25317 4.26446 4.59531 1.58840 3.70604 1.48537 3.05533 4.40970 4.62793 3.66641 3.64363 3.57366 3.33230 2.30640 5.10349 3.92691 889 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01982 5.34549 4.20916 0.61958 0.77255 0.82642 0.57556\n- 458 2.69227 5.56018 1.72939 1.91602 4.90586 2.51825 4.00732 4.39249 2.39698 3.86571 4.60081 2.82181 4.21343 2.72025 2.81201 2.88475 2.69855 3.60648 5.99237 4.58066 890 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03895 5.36697 3.39509 0.61958 0.77255 0.97510 0.47345\n- 459 2.63330 5.52655 2.21271 2.43282 4.86999 3.07873 3.61411 3.52336 1.98293 3.17113 3.98680 2.85169 3.55398 2.76474 2.57626 2.53739 2.86957 3.11617 5.96021 4.55024 891 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03682 5.31802 3.46595 0.61958 0.77255 1.05023 0.43056\n- 460 2.37893 5.51463 2.63921 2.35402 4.86076 2.62480 3.27595 4.34754 1.88715 3.82035 4.55505 2.94979 3.17383 2.40045 2.90194 2.21320 3.23248 3.90585 5.94662 4.53493 892 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03578 5.27836 3.50509 0.61958 0.77255 1.03382 0.43951\n- 461 2.61227 5.23582 3.16253 2.23571 3.41448 3.24351 3.61852 2.68698 2.80548 3.25803 4.30287 3.06415 4.20542 2.75963 2.28113 2.62663 3.05646 2.66964 5.72992 2.60662 893 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14229 5.24627 2.06072 0.61958 0.77255 1.13969 0.38554\n- 462 2.53490 4.44793 2.88145 2.51441 3.86370 3.02106 3.41898 4.07701 1.84084 3.35858 3.90575 3.17092 3.63494 2.83473 2.79324 2.27405 2.91967 2.54816 5.76716 4.38069 894 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05207 5.04761 3.11655 0.61958 0.77255 0.81273 0.58635\n- 463 2.33591 5.33295 2.68227 2.28446 4.66487 2.98342 3.82122 3.15331 2.14918 3.36579 4.37708 2.85942 2.83718 2.92191 2.46551 2.52804 3.08518 3.35930 5.77357 3.82640 895 k - - -\n- 2.68776 4.42327 2.77610 2.73136 3.46186 2.40583 3.72706 3.29271 2.67569 2.68769 4.24626 2.90254 2.73857 3.17936 2.89773 2.38101 2.77838 2.98607 4.59000 3.61100\n- 0.97855 0.47138 * 3.02441 0.04981 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_C.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_C.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2207 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoB_C\n-LENG 728\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 17:03:49 2023\n-NSEQ 71\n-EFFN 6.357239\n-CKSUM 741752212\n-GA 20 20;\n-STATS LOCAL MSV -12.0049 0.69650\n-STATS LOCAL VITERBI -12.9399 0.69650\n-STATS LOCAL FORWARD -6.4923 0.69650\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41130 4.57026 2.89246 2.61729 3.53868 2.88123 3.64425 2.94469 2.76319 2.41433 3.84947 3.15192 3.22012 3.08432 2.74679 2.55635 2.83718 2.64614 4.40361 3.82264\n- 2.68619 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77508 2.98504 4.58478 3.61505\n- 0.10639 2.95768 3.01612 0.64564 0.74302 0.00000 *\n- 1 4.20882 5.54225 6.15644 5.73258 4.20195 5.40444 6.18901 2.91644 5.51938 2.53792 0.46694 5.78204 5.75660 5.62918 5.55323 4.88445 4.51558 1.88946 6.36228 5.26500 3 M - - -\n- 2.68623 4.42292 2.77556 2.73165 3.46421 2.40560 3.72562 3.29340 2.67657 2.69399 4.24757 2.90249 2.73789 3.18133 2.89779 2.37805 2.77462 2.98586 4.58544 3.61463\n- 1.33994 0.88676 1.12040 0.97584 0.47301 0.54550 0.86643\n- 2 2.55380 5.38261 2.77123 2.13611 4.72527 3.65233 3.50193 4.20954 2.26209 3.15958 4.42390 2.94580 3.14294 2.39203 2.72944 2.20907 2.54860 3.40440 5.81673 3.81894 15 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01001 5.00529 5.72763 0.61958 0.77255 0.68980 0.69650\n- 3 2.57062 5.26989 2.61216 2.75282 4.53834 3.77732 3.97485 3.52939 2.63048 2.91815 3.58749 2.88396 2.80878 3.10410 2.84069 2.01857 2.11991 2.84842 5.75140 4.39210 16 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00825 5.19692 5.91927 0.61958 0.77255 0.34344 1.23555\n- 4 2.86507 4.59400 4.99512 4.39033 3.33342 4.34363 3.91965 1.81665 2.81694 2.28974 2.48351 3.79602 4.70897 4.37089 4.27461 3.42403 2.34091 1.47788 5.21325 4.03325 17 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00601 5.51290 6.23524 0.61958 0.77255 0.52544 0.89476\n- 5 3.14239 5.31628 3.30219 2.54916 3.02951 3.98004 4.18579 2.74287 2.25541 2.28762 3.92935 3.11550 4.36941 2.54620 2.43008 3.03963 2.41818 3.04485 5.82429 2.92944 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00593 5.52588 6.24823 0.61958 0.77255 0.56552 0.83948\n- 6 3.59452 5.29136 6.19830 5.70798 4.64889 5.64527 6.29285 1.34824 5.62522 1.47255 4.41858 5.81470 5.88435 5.84286 5.74200 5.05397 3.49630 0.94612 6.63923 5.43302 19 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00593 5.52588 6.24823 0.61958 0.77255 0.56552 0.83948\n- 7 1.27999 4.72714 4.44697 3.86783 3.54150 4.25313 4.03969 2.81300 2.83880 1.98357 3.56286 4.15'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02053 4.29180 5.01415 0.61958 0.77255 0.48576 0.95510\n- 721 1.88587 4.58363 3.23548 2.76348 4.26243 3.28284 3.93445 3.68530 2.78543 3.30790 4.11847 2.74630 2.32500 3.11456 3.21386 2.11786 2.28599 3.26532 5.54647 4.25062 1393 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02053 4.29180 5.01415 0.61958 0.77255 0.48576 0.95510\n- 722 2.42981 5.03150 2.97407 2.25759 4.33421 3.45608 3.63761 3.77794 2.02657 3.31277 4.09065 2.72693 3.84855 2.75577 2.28748 2.66142 2.48123 3.09396 5.48798 4.12397 1394 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02053 4.29180 5.01415 0.61958 0.77255 0.48576 0.95510\n- 723 2.12453 4.21058 3.86395 3.29919 3.33149 3.65416 4.00602 2.47334 3.19830 2.42430 3.35335 3.58344 4.06400 3.47165 3.45592 2.65420 2.88191 2.29514 2.14179 3.60650 1395 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02053 4.29180 5.01415 0.61958 0.77255 0.48576 0.95510\n- 724 2.05670 4.90033 2.99640 2.30696 4.17655 2.50125 3.67830 3.59974 2.45124 3.18488 3.98977 2.98866 3.86237 2.53636 2.66348 2.67968 2.89485 2.92998 5.40846 4.06606 1396 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07332 4.29180 2.86443 0.61958 0.77255 0.48576 0.95510\n- 725 2.86975 5.15912 3.19554 2.29852 4.52925 3.59070 3.65731 3.92623 1.46323 3.41417 4.22415 3.08469 3.96797 2.77877 1.97458 2.85548 3.07146 3.08982 5.52653 4.24685 1397 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24012 4.96246 0.61958 0.77255 0.55338 0.85567\n- 726 2.35692 4.83195 2.90776 1.56896 4.19280 2.99801 3.76965 3.54438 2.59940 3.20582 4.03814 3.01396 3.87939 2.93313 3.05574 2.70954 2.93793 2.58832 5.46717 4.13158 1398 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24012 4.96246 0.61958 0.77255 0.55338 0.85567\n- 727 2.66117 5.11641 2.47081 2.20914 4.43418 3.40602 2.92463 3.90493 2.37693 3.01333 4.16725 2.68520 3.29913 2.16946 2.86617 2.62981 2.89481 3.49316 5.56194 4.16206 1399 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24012 4.96246 0.61958 0.77255 0.44569 1.02272\n- 728 2.14468 4.63357 3.18711 2.64425 3.94404 3.03099 3.23373 3.34138 2.63269 2.98853 3.82768 3.11647 3.29454 2.97055 3.06702 2.11367 2.61411 2.56007 5.27415 3.97915 1400 s - - -\n- 2.68564 4.42232 2.77510 2.73130 3.46361 2.40520 3.72458 3.29361 2.67748 2.69362 4.24697 2.90354 2.73731 3.18153 2.89808 2.37894 2.77527 2.98525 4.58484 3.61510\n- 0.12328 2.15430 * 1.03036 0.44142 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_D.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_D.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1409 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoB_D\n-LENG 462\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 16:03:05 2023\n-NSEQ 54\n-EFFN 8.717651\n-CKSUM 281911525\n-GA 100 100;\n-STATS LOCAL MSV -11.2368 0.69843\n-STATS LOCAL VITERBI -12.6553 0.69843\n-STATS LOCAL FORWARD -5.7345 0.69843\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47485 4.52566 2.86049 2.58058 3.44571 2.89092 3.70371 3.08772 2.73427 2.31299 3.92884 3.13657 3.13428 2.96535 2.70367 2.63420 2.88587 2.80940 4.39992 3.67922\n- 2.68617 4.42251 2.77545 2.73149 3.46322 2.40539 3.72520 3.29380 2.67714 2.69332 4.24362 2.90372 2.73715 3.18172 2.89761 2.37893 2.77545 2.98509 4.58503 3.61529\n- 0.12961 2.13233 5.81002 1.47332 0.26028 0.00000 *\n- 1 5.26961 6.43859 7.07587 6.62462 4.31888 6.48952 6.86722 3.62692 6.36361 2.06017 0.24415 6.84585 6.50251 6.18726 6.24642 6.09626 5.49533 3.99763 6.64839 5.65025 10 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09333 5.80550 2.45226 0.61958 0.77255 0.48576 0.95510\n- 2 1.71856 4.89801 3.61793 3.16320 3.08060 4.33807 4.61330 2.61109 3.77207 2.14627 4.00747 3.62414 4.71301 4.04344 4.06002 2.06146 1.97739 2.64942 5.49564 3.42082 11 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71706 6.43941 0.61958 0.77255 0.91368 0.51257\n- 3 1.74348 5.73526 3.49173 2.62074 5.07506 2.83248 4.20089 4.55709 1.94590 3.15872 4.77741 3.48308 4.40681 2.65702 2.66650 1.88518 2.70971 3.78219 6.17106 4.76364 12 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07118 5.71706 2.72697 0.61958 0.77255 0.91368 0.51257\n- 4 2.45163 5.68734 2.85646 2.23320 2.19330 2.55132 2.92822 4.50252 2.90274 2.74620 4.73047 2.62426 2.94892 3.26369 2.65464 2.66114 3.43018 4.07295 6.12564 4.72036 13 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00523 5.65112 6.37346 0.61958 0.77255 0.65955 0.72792\n- 5 1.80648 5.39974 3.13693 3.13508 3.72636 4.10086 4.30879 3.33264 2.71243 2.86711 4.47508 2.80937 3.20060 3.47231 2.34941 2.34909 2.42676 2.61109 3.68474 4.59155 14 a - - -\n- 2.68038 4.42838 2.77809 2.73140 3.46005 2.40831 3.72416 3.29046 2.67986 2.68978 4.24334 2.90774 2.73780 3.18235 2.89380 2.38173 2.77594 2.98563 4.58396 3.60892\n- 1.56908 0.27306 3.48292 2.24210 0.11231 0.91368 0.51257\n- 6 2.60435 5.71336 1.83188 2.91935 2.87822 2.75734 3.57886 4.53225 2.26938 4.01560 4.75591 3.46640 2.42427 3.06913 2.59367 3.01778 2.85308 4.10016 6.15034 2.91802 48 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00505 5.68751 6.40986 0.61958 0.77255 0.76665 0.62468\n- 7 2.29639 5.74484 2.17628 2.28964 5.08862 1.77199 4.19868 4.07326 2.37602 4.04958 4.78585 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09995 5.10103 2.41880 0.61958 0.77255 1.47141 0.26085\n- 455 2.53054 3.06426 3.36096 2.80186 3.61442 3.74503 3.95719 2.63684 2.79009 3.22839 4.06196 2.59215 2.88368 2.53049 2.62214 2.14676 2.76800 3.29859 5.50583 4.19497 770 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00995 5.01103 5.73337 0.61958 0.77255 1.56691 0.23406\n- 456 2.97922 4.43381 4.50274 3.91333 1.48612 4.08997 4.36963 2.26575 3.75322 1.74470 3.50779 3.04724 4.45320 3.97891 2.70211 3.38313 3.21055 2.66143 4.99684 3.77389 771 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00995 5.01103 5.73337 0.61958 0.77255 1.56691 0.23406\n- 457 2.89192 5.23697 2.75003 2.65303 4.52078 3.69047 3.88493 2.58979 1.50595 2.70053 4.29502 2.70546 4.08302 2.80701 3.12052 2.88869 2.48792 3.59379 5.70745 4.33893 772 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00995 5.01103 5.73337 0.61958 0.77255 1.00771 0.45422\n- 458 3.05768 5.56614 2.68050 1.49239 4.90335 2.58664 4.00506 4.39050 2.77692 3.87187 4.62138 2.71737 1.93252 3.11160 3.28112 2.68385 3.29604 3.25173 6.00822 4.58802 773 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00856 5.16090 5.88324 0.61958 0.77255 1.39687 0.28418\n- 459 3.03864 5.49232 1.86581 2.39456 4.81646 3.76035 3.96717 4.28819 2.68655 3.78102 4.54463 3.23356 4.17633 2.60692 2.08978 3.00309 3.26968 3.87642 1.80179 4.52783 774 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00926 5.08290 5.80524 0.61958 0.77255 0.48310 0.95938\n- 460 2.63806 4.36122 4.82611 4.21851 3.45618 2.72106 4.45760 2.02842 4.02725 2.24192 1.99895 4.25500 4.49317 4.17908 4.07407 3.43562 2.47746 1.87871 4.98437 2.82238 775 v - - -\n- 2.67370 4.42710 2.77189 2.73248 3.45867 2.41615 3.73415 3.28575 2.68279 2.67300 4.24399 2.91113 2.75161 3.17264 2.89243 2.38325 2.77826 2.97931 4.59377 3.62194\n- 1.33404 0.54080 1.86883 4.46142 0.01161 0.93563 0.49814\n- 461 2.97910 5.05067 3.47024 2.44499 4.26426 3.81247 3.97321 3.67060 2.67838 2.48545 4.13249 3.37457 4.19447 3.14923 1.29376 2.55813 3.20128 3.38016 3.13510 4.24372 954 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11374 4.94750 2.29851 0.61958 0.77255 0.54725 0.86403\n- 462 2.51362 4.84469 3.56476 3.03417 2.68932 1.37563 4.12715 3.60492 2.99201 3.26419 4.11346 3.47144 4.18365 3.34281 2.28316 2.46477 3.15771 3.29543 5.55273 4.27208 955 g - - -\n- 2.68510 4.42317 2.77696 2.72958 3.46222 2.40749 3.71988 3.28499 2.67497 2.69149 4.24437 2.90352 2.74057 3.18037 2.90031 2.38075 2.77704 2.98597 4.58965 3.61516\n- 0.75968 0.63076 * 3.11916 0.04520 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_E.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Mokosh_type_I__MkoB_E.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1655 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Mokosh_type_I__MkoB_E\n-LENG 544\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 22 20:35:51 2023\n-NSEQ 65\n-EFFN 5.827942\n-CKSUM 1360459449\n-GA 100 100;\n-STATS LOCAL MSV -11.7184 0.69763\n-STATS LOCAL VITERBI -12.7658 0.69763\n-STATS LOCAL FORWARD -6.0173 0.69763\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64384 4.59034 2.93837 2.47543 3.38447 3.17387 3.80211 2.73534 2.58350 2.34422 3.72196 3.02943 3.42416 2.86200 2.96983 2.61863 2.85490 2.73846 4.44924 3.61467\n- 2.68638 4.42245 2.77540 2.73137 3.46343 2.40522 3.72475 3.29322 2.67761 2.69305 4.24612 2.90349 2.73738 3.18097 2.89821 2.37892 2.77540 2.98492 4.58497 3.61523\n- 0.13076 3.01932 2.60724 2.06734 0.13527 0.00000 *\n- 1 4.51775 5.91190 5.70507 5.53996 4.52022 5.02177 6.01838 3.88425 5.28957 3.05383 0.18558 5.64701 5.59156 5.61896 5.31910 4.90734 4.90683 4.00939 6.35704 5.22975 20 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04292 5.08541 3.32919 0.61958 0.77255 0.63837 0.75109\n- 2 2.92277 3.32118 3.37123 2.91906 1.63937 3.17361 4.22945 2.63820 3.37936 2.39516 3.63550 3.46436 3.22349 3.65294 3.67205 3.21722 2.71138 2.78962 5.12312 2.96020 21 f - - -\n- 2.68642 4.42127 2.77544 2.73147 3.46316 2.40537 3.72519 3.29314 2.67587 2.69379 4.24714 2.90371 2.73734 3.18170 2.89825 2.37885 2.77513 2.98542 4.58501 3.61527\n- 0.35886 1.66939 2.17890 1.05325 0.42894 0.72136 0.66571\n- 3 2.87624 4.45536 4.03202 3.45584 3.15148 3.92011 3.13078 2.92196 2.42671 1.47887 3.56391 3.77480 2.63635 3.64220 3.64479 3.18637 3.10790 2.41633 3.37708 3.82803 27 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01073 4.93544 5.65779 0.61958 0.77255 0.86885 0.54375\n- 4 1.78163 5.30887 3.13275 2.38523 4.63100 3.64295 3.83401 4.09961 2.08326 3.60509 4.35806 2.71678 3.55951 2.93913 2.90710 2.36528 2.24222 3.37373 5.75806 4.36311 28 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01052 4.95520 5.67755 0.61958 0.77255 0.91743 0.51006\n- 5 2.23148 4.79103 3.49809 2.93739 2.57893 3.77473 4.00902 3.34870 2.90992 2.59788 3.88836 3.40686 3.16604 3.04293 2.81730 1.58609 3.10445 3.09001 5.34844 4.07510 29 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01052 4.95520 5.67755 0.61958 0.77255 0.91743 0.51006\n- 6 2.52551 5.18266 2.38778 2.63838 4.45793 3.66750 3.86650 3.89689 2.53056 3.12605 4.24449 2.50286 4.06043 2.99284 3.11495 1.55741 3.09473 3.12652 3.58284 4.29805 30 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01052 4.95520 5.67755 0.61958 0.77255 0.91743 0.51006\n- 7 1.90773 5.22913 2.71628 2.33421 4.52004 3.65647 3.85028 3.13723 2.61063 3.51101 3.55519 2'..b'.68639 4.42154 2.77561 2.73093 3.46395 2.40522 3.72455 3.29395 2.67729 2.69396 4.24569 2.90346 2.73781 3.18099 2.89790 2.37847 2.77561 2.98423 4.58518 3.61544\n- 0.39165 1.14220 5.30965 1.48747 0.25611 0.97201 0.47533\n- 537 2.75413 4.63198 3.47274 2.94583 3.86694 3.63188 3.98389 3.20120 2.87930 2.50192 3.80668 3.37574 4.07509 2.80809 3.25632 1.32642 3.02142 2.42500 5.27419 4.00760 777 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12674 4.58730 2.21771 0.61958 0.77255 0.97201 0.47533\n- 538 2.76962 5.17419 3.05428 2.48928 4.50788 3.53591 3.69118 3.95747 2.00002 3.45724 4.22670 3.01802 3.33798 1.76441 2.41575 2.45638 2.99307 3.56104 5.59774 3.77742 778 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01702 4.47758 5.19993 0.61958 0.77255 1.08468 0.41251\n- 539 2.74894 5.17544 3.01069 2.23908 4.50420 3.51484 3.11709 3.96315 2.08559 3.46196 4.22517 2.84718 3.90755 1.91110 2.68763 2.72320 2.97519 3.55943 5.60376 2.85927 779 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01702 4.47758 5.19993 0.61958 0.77255 1.08468 0.41251\n- 540 2.09487 4.64655 3.27102 2.71966 3.90198 2.85830 3.82733 3.11571 2.70249 2.59236 3.80197 2.90967 3.57323 3.03687 3.12905 2.53533 2.05284 3.00437 5.25534 3.97042 780 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07002 4.44912 2.88363 0.61958 0.77255 1.08468 0.41251\n- 541 2.39136 4.44489 3.47518 2.90981 3.36315 3.62938 3.87740 2.61887 2.12153 1.98889 3.54350 3.33512 4.01207 3.17734 3.22146 2.47118 2.90619 2.70141 5.02465 3.78077 781 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01845 4.39756 5.11991 0.61958 0.77255 1.12858 0.39081\n- 542 2.40958 4.62998 3.25128 2.69713 3.85731 3.52934 3.80004 3.07305 2.67566 2.90600 3.75986 3.17113 2.52945 2.63754 3.10015 2.48307 2.33710 2.46571 5.21521 3.93155 782 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01845 4.39756 5.11991 0.61958 0.77255 1.12858 0.39081\n- 543 2.74261 5.04127 3.05338 2.50632 4.33678 3.13171 3.69531 3.76513 1.87240 2.53959 4.11045 3.02675 3.30908 2.02196 2.80128 2.74439 2.96917 3.40837 5.49986 4.15931 783 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01845 4.39756 5.11991 0.61958 0.77255 1.05978 0.42546\n- 544 2.31550 5.10064 2.95503 2.33224 4.41672 3.45815 3.64401 3.54152 2.19721 3.39069 4.15094 2.72878 3.40750 2.34925 2.32929 2.40241 2.90584 3.47601 5.54882 4.16337 784 k - - -\n- 2.68753 4.42410 2.77603 2.73215 3.46496 2.40557 3.72511 3.29398 2.67187 2.69506 4.24875 2.90345 2.73710 3.17950 2.89536 2.37963 2.77528 2.98565 4.58662 3.61688\n- 0.90720 0.51693 * 2.56835 0.07976 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MqsRAC__mqsC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MqsRAC__mqsC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,518 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME MqsRAC__mqsC\n-LENG 165\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 12:27:14 2022\n-NSEQ 18\n-EFFN 1.454590\n-CKSUM 880788898\n-GA 20 20;\n-STATS LOCAL MSV -10.0688 0.70792\n-STATS LOCAL VITERBI -11.1490 0.70792\n-STATS LOCAL FORWARD -4.3692 0.70792\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58533 4.50502 2.93739 2.48257 3.14394 3.30766 3.68601 2.76203 2.59550 2.54796 3.61589 2.97687 3.47537 2.99221 2.95682 2.61033 2.93690 2.65808 4.18083 3.39978\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05348 4.41118 3.22055 0.61958 0.77255 0.00000 *\n- 1 3.45983 4.94165 4.64884 4.31140 3.55028 4.24894 4.92999 2.78357 4.04718 2.09132 0.65903 4.51757 4.73655 4.40700 4.18660 3.84742 3.78822 2.84408 5.43861 4.23588 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01885 4.37655 5.09890 0.61958 0.77255 0.45463 1.00700\n- 2 2.13741 4.43633 3.48922 2.93467 3.61049 3.61077 3.90230 2.49366 2.89233 2.67353 2.43017 2.38002 4.01272 3.20660 3.25974 2.55180 2.90827 2.71279 5.04385 3.80132 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01820 4.41118 5.13353 0.61958 0.77255 0.48576 0.95510\n- 3 2.69356 5.07978 2.98065 2.23993 4.38385 3.47765 3.66500 3.83509 2.17691 2.79554 4.13478 2.26345 3.87136 2.77974 2.52960 2.42659 2.50542 3.44884 5.53500 4.16049 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.40077 4.41118 1.14553 0.61958 0.77255 0.48576 0.95510\n- 4 2.87740 5.11307 2.85992 2.50841 4.50139 3.45095 3.68313 3.94638 1.37767 3.45625 4.30235 2.22875 3.92735 2.83126 2.51553 2.86250 3.11605 3.58453 5.54693 4.24893 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02657 4.03698 4.75933 0.61958 0.77255 0.88354 0.53327\n- 5 2.82256 5.21713 2.63669 1.93238 4.55926 3.38862 3.64960 4.00392 1.66052 3.49634 4.30751 2.38315 3.86567 2.78314 2.69716 2.77355 3.05685 3.61730 5.62450 4.26530 5 k - - -\n- 2.68630 4.42237 2.77497 2.73108 3.46365 2.40524 3.72506 3.29280 2.67752 2.69350 4.24701 2.90358 2.73751 3.18158 2.89792 2.37882 2.77515 2.98530 4.58489 3.61515\n- 0.68506 1.02463 1.98769 0.74918 0.64009 0.29907 1.35287\n- 6 2.38310 5.22398 2.44803 1.83177 4.54903 3.41726 3.67213 4.03072 2.17698 3.52133 4.27949 2.33674 3.85640 2.78338 2.95325 2.68569 2.69529 3.60555 5.66565 4.24863 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01998 4.31869 5.04103 0.61958 0.77255 0.61526 0.77762\n- 7 2.64744 3.34647 2.73583 2.68502 3.77605 3.53387 3.77771 3.15351 2.66781 1.98195 3.69086 3.15996 2.98508'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01820 4.41118 5.13353 0.61958 0.77255 0.48576 0.95510\n- 158 2.79554 5.19159 3.00781 2.16683 4.53880 2.97243 3.69550 3.98341 1.47040 3.47849 4.25547 3.01335 3.93131 2.80921 2.57037 2.76988 2.58211 3.58820 5.61314 4.25930 173 k - - -\n- 2.68646 4.42253 2.77548 2.73152 3.46382 2.40541 3.72523 3.29336 2.67664 2.69328 4.24718 2.90375 2.73710 3.18175 2.89798 2.37878 2.77492 2.98478 4.58505 3.61532\n- 0.28509 1.73566 2.63428 1.78091 0.18450 0.48576 0.95510\n- 159 2.71512 4.76584 3.21195 2.68738 4.06012 3.52429 3.79898 2.68788 1.92828 3.07593 3.93341 3.15992 3.95652 2.98172 2.91608 1.69071 2.96864 3.11091 5.35354 4.06129 187 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07003 4.34303 2.90705 0.61958 0.77255 0.58388 0.81584\n- 160 2.98486 5.50679 1.30099 2.27271 4.85968 3.36621 3.87299 4.38040 2.83692 3.87485 4.69506 1.99393 2.77009 3.02704 3.40935 2.89666 3.27200 3.93841 6.02688 4.54330 188 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29350 5.01585 0.61958 0.77255 0.64595 0.74268\n- 161 2.68366 4.50724 3.40996 2.84872 3.67690 3.60422 3.84332 2.15175 2.10810 2.41482 3.61041 3.28512 3.99436 3.10764 3.07467 2.23012 2.91830 2.72513 5.08835 3.83610 189 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29350 5.01585 0.61958 0.77255 0.64595 0.74268\n- 162 2.86499 5.34612 2.29052 2.00091 4.65123 3.40236 3.76542 4.13309 2.61484 3.63875 4.43342 2.87185 1.79057 2.33777 3.13007 2.80247 3.11879 3.72285 5.80055 4.36845 190 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29350 5.01585 0.61958 0.77255 0.64595 0.74268\n- 163 2.41858 5.00853 3.03032 2.49708 4.36199 3.47598 3.68363 3.79190 2.18442 3.33247 4.12656 2.78095 3.88999 2.81161 2.08421 1.92017 2.95337 3.42066 5.50596 4.16984 191 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11120 4.29350 2.39047 0.61958 0.77255 0.64595 0.74268\n- 164 2.76177 4.94563 3.11216 2.01913 4.21984 3.53166 3.66954 3.61504 2.11189 2.18799 4.01697 3.05541 3.92078 2.81619 2.23125 2.78535 2.97838 3.29737 5.39137 4.09616 192 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08457 4.20472 2.71555 0.61958 0.77255 0.74189 0.64667\n- 165 2.76296 5.20111 1.93988 1.86730 4.48479 3.35341 3.68779 3.95232 2.53225 2.63632 4.27838 2.43505 3.84337 2.82276 3.04580 2.71553 3.01185 3.56047 5.66003 4.24195 193 e - - -\n- 2.68626 4.42233 2.77527 2.73131 3.46361 2.40520 3.72502 3.29362 2.67737 2.69362 4.24697 2.90354 2.73747 3.18154 2.89808 2.37857 2.77499 2.98492 4.58484 3.61511\n- 0.17503 1.82902 * 0.95855 0.48361 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MqsRAC__mqsR.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/MqsRAC__mqsR.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,419 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME MqsRAC__mqsR\n-LENG 132\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 12:27:19 2022\n-NSEQ 19\n-EFFN 0.756104\n-CKSUM 439644224\n-GA 20 20;\n-STATS LOCAL MSV -9.6030 0.71156\n-STATS LOCAL VITERBI -10.7982 0.71156\n-STATS LOCAL FORWARD -4.0433 0.71156\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53704 3.72725 2.85901 2.73282 3.33445 2.94538 3.73663 2.76070 2.69706 2.49458 3.63097 3.09642 3.43049 3.16539 3.00292 2.62390 2.87128 2.58220 4.26288 3.36680\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02788 3.98953 4.71187 0.61958 0.77255 0.00000 *\n- 1 3.06430 4.59535 4.17646 3.77999 3.26337 3.92207 4.48809 2.45085 3.54127 1.84156 1.17032 4.04265 4.38442 3.91610 3.73260 3.42505 3.37248 2.47026 5.11908 3.89052 1 m - - -\n- 2.68627 4.42234 2.77508 2.73132 3.46363 2.40522 3.72503 3.29363 2.67712 2.69364 4.24608 2.90356 2.73748 3.18155 2.89810 2.37896 2.77528 2.98451 4.58486 3.61512\n- 0.22237 1.65868 4.71187 1.05934 0.42569 0.48576 0.95510\n- 2 3.09130 4.42921 4.73375 4.24862 3.50693 4.38793 4.96590 1.10852 4.11921 1.99808 3.32437 4.47332 4.71790 4.39217 4.31809 3.78265 3.36350 1.46602 5.48477 4.27856 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02788 3.98953 4.71187 0.61958 0.77255 0.48576 0.95510\n- 3 3.13534 4.55133 4.54327 4.04707 3.19591 4.27079 4.70439 2.08901 3.86367 1.02798 3.05502 4.30673 4.59514 4.12208 4.04813 3.65519 3.40048 1.80775 5.19098 4.00665 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02788 3.98953 4.71187 0.61958 0.77255 0.48576 0.95510\n- 4 2.37566 4.29698 3.31141 3.13379 4.19440 3.02485 4.23983 3.73341 3.21546 3.44502 4.36209 3.33899 3.77356 3.55584 3.49708 0.92733 2.86477 3.24279 5.55776 4.27886 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02788 3.98953 4.71187 0.61958 0.77255 0.48576 0.95510\n- 5 2.75015 4.96890 2.92727 2.17835 4.33349 3.42791 3.63319 3.74369 2.21418 3.28469 4.11371 2.97494 3.86815 2.77722 1.75929 2.37495 2.98430 3.39544 5.44123 4.14373 9 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02788 3.98953 4.71187 0.61958 0.77255 0.48576 0.95510\n- 6 3.50450 4.84044 4.37142 4.03133 1.83169 4.24817 3.49313 3.26670 3.89079 2.63848 3.89339 3.95198 4.59277 3.97640 4.00612 3.62594 3.74109 3.17912 3.67518 0.93448 10 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02788 3.98953 4.71187 0.61958 0.77255 0.48576 0.95510\n- 7 2.54145 4.32095 3.41219 2.96647 3.66299 3.40141 3.93607 2.78136 2.61816 2.68182 3.62041 3.31874 3.91741'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.04727 4.76962 0.61958 0.77255 0.48576 0.95510\n- 125 2.63407 4.53825 3.23977 2.75169 3.74923 3.46615 3.80190 3.05629 2.60425 2.37591 3.68164 3.18708 3.91728 2.58489 2.94988 2.77256 1.82650 2.82093 5.15663 3.88391 136 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.04727 4.76962 0.61958 0.77255 0.48576 0.95510\n- 126 3.06758 4.42762 4.69819 4.22297 3.59603 4.33290 4.96201 1.64187 4.09403 2.13070 3.42720 4.43889 4.70135 4.38908 4.30502 3.73275 3.35118 0.95332 5.53610 4.30523 137 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.04727 4.76962 0.61958 0.77255 0.48576 0.95510\n- 127 2.40933 4.33026 3.36745 3.19479 4.25504 3.05734 4.29807 3.80301 3.28048 3.51088 4.42443 3.38899 3.81129 3.61662 3.55871 0.85496 2.90318 3.29938 5.61411 4.34045 138 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.04727 4.76962 0.61958 0.77255 0.48576 0.95510\n- 128 2.24710 2.65819 4.10778 3.58221 3.38192 3.61461 4.23553 2.36542 3.44173 1.57194 3.33472 3.75937 4.10801 3.71235 3.65213 2.97327 2.92276 2.19721 4.99433 3.79471 139 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.04727 4.76962 0.61958 0.77255 0.48576 0.95510\n- 129 3.20406 4.98471 3.31313 3.09386 3.42044 3.60673 0.82157 3.93410 2.93275 3.40459 4.46380 3.49481 4.17051 3.46331 3.18630 3.27413 3.51473 3.66605 4.88245 3.36705 140 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.04727 4.76962 0.61958 0.77255 0.48576 0.95510\n- 130 2.62565 4.34042 3.61024 3.13380 3.49913 3.52994 4.03494 2.68604 3.01584 1.48778 3.44228 3.46746 3.00609 3.37297 3.31196 2.87502 2.58420 2.51858 5.06282 3.83714 141 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02630 4.04727 4.76962 0.61958 0.77255 0.48576 0.95510\n- 131 2.40933 4.33026 3.36745 3.19479 4.25504 3.05734 4.29807 3.80301 3.28048 3.51088 4.42443 3.38899 3.81129 3.61662 3.55871 0.85496 2.90318 3.29938 5.61411 4.34045 142 s - - -\n- 2.68622 4.42229 2.77523 2.73127 3.46316 2.40516 3.72498 3.29323 2.67744 2.69359 4.24693 2.90327 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58481 3.61507\n- 0.20849 2.31854 2.41047 0.86551 0.54617 0.48576 0.95510\n- 132 2.58431 4.67907 2.65028 2.50790 4.26203 3.13951 3.88322 3.84904 2.76813 3.47939 4.34838 1.37669 3.79547 3.10391 3.16386 2.38559 2.97255 3.40863 5.57110 4.18273 146 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01938 3.95321 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NLR_like_bNACHT01__NLR_like_bNACHT01.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NLR_like_bNACHT01__NLR_like_bNACHT01.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1766 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME NLR_like_bNACHT01__NLR_like_bNACHT01\n-LENG 581\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 31 16:31:33 2022\n-NSEQ 34\n-EFFN 3.208252\n-CKSUM 2048025720\n-GA 250 250;\n-STATS LOCAL MSV -12.1581 0.69735\n-STATS LOCAL VITERBI -13.0588 0.69735\n-STATS LOCAL FORWARD -6.0638 0.69735\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70441 4.39604 2.93432 2.56621 3.07761 3.17266 3.68335 2.70065 2.52133 2.38117 3.70529 2.97439 3.54017 3.06451 2.96968 2.58298 2.82488 2.82072 5.08158 3.36972\n- 2.68628 4.42095 2.77561 2.73119 3.46361 2.40519 3.72410 3.29337 2.67753 2.69350 4.24295 2.90351 2.73732 3.18162 2.89842 2.37928 2.77492 2.98500 4.58518 3.61544\n- 0.25606 1.77613 2.87153 1.74056 0.19288 0.00000 *\n- 1 3.22055 4.64073 4.75499 4.16579 3.55938 4.37691 4.68499 2.25311 3.02755 2.11492 0.96970 4.37336 4.69820 4.21349 4.12638 3.68395 3.45048 2.38706 5.27668 4.12455 23 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09326 4.90128 2.50590 0.61958 0.77255 0.61663 0.77601\n- 2 2.93055 5.46334 1.72400 1.69244 4.79816 3.19708 3.86404 4.29194 2.49898 3.76447 4.51375 2.64038 4.04740 2.75532 3.15593 2.48493 2.71774 3.84981 5.89533 4.46568 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04010 4.82008 3.46603 0.61958 0.77255 0.77773 0.61517\n- 3 2.62433 4.98814 2.97825 2.18345 3.60454 3.63092 3.83562 2.39450 2.63896 3.04135 4.05966 2.95593 2.62033 2.79074 3.10166 2.36479 2.81104 3.31828 5.49282 3.55440 25 e - - -\n- 2.68616 4.42205 2.77512 2.73168 3.46311 2.40580 3.72611 3.29321 2.67692 2.69312 4.24703 2.90371 2.73819 3.18103 2.89845 2.37922 2.77378 2.98428 4.58638 3.61463\n- 0.76341 1.02682 1.73853 2.51706 0.08414 0.61989 0.77219\n- 4 2.75745 4.28314 4.05852 3.11179 2.44035 3.83135 4.12189 2.25604 3.06185 2.22397 2.62163 3.31739 3.56242 3.62734 3.61444 2.84020 2.39748 2.41567 4.88899 3.24000 115 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19690 4.67503 1.77547 0.61958 0.77255 0.91239 0.51344\n- 5 2.49625 4.13719 4.43393 3.83596 2.53728 3.86614 4.18865 1.99666 3.67468 2.03681 2.69087 3.94104 4.23040 3.85277 3.77296 2.85206 2.21862 2.18414 4.76398 3.58192 116 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01624 4.52394 5.24628 0.61958 0.77255 0.57940 0.82152\n- 6 2.04061 5.19083 3.07506 1.91338 4.49568 3.23969 3.77149 3.95306 2.52589 2.94252 4.24510 2.55634 3.97062 2.61855 3.01042 2.35031 2.80547 3.24067 5.65152 4.26738 117 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01277 4.76306 5.48541 0.61958 0.77255 0.87076 0.54237\n- 7 2.47648 5.23174 2.67563 1.57852 3.77463 3.22072 3.76216 4.01671 2.38710 3.5253'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01078 4.93133 5.65367 0.61958 0.77255 0.48576 0.95510\n- 574 2.68758 5.19761 2.60240 2.01426 4.48091 3.65132 3.84624 3.06386 2.06114 2.64203 3.13405 3.14824 4.04304 2.77030 2.86784 2.84660 2.69816 3.01277 5.66914 4.29895 1052 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01078 4.93133 5.65367 0.61958 0.77255 0.48576 0.95510\n- 575 2.55401 5.30010 2.59531 2.43628 3.92663 3.30669 3.82116 3.26799 2.16605 2.85221 4.34712 2.26137 4.02433 2.74902 2.84336 2.20408 3.07946 3.67781 5.74738 3.71318 1053 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01078 4.93133 5.65367 0.61958 0.77255 0.48576 0.95510\n- 576 2.85070 5.35262 2.04583 1.70461 3.89417 3.30803 3.42753 4.17704 2.42321 3.32783 4.39449 2.70732 4.01817 2.91053 2.84935 2.38901 2.87090 3.74111 5.78757 4.37860 1054 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01078 4.93133 5.65367 0.61958 0.77255 0.48576 0.95510\n- 577 2.87886 4.26807 4.74688 4.13837 3.12689 4.03875 4.36777 1.55759 3.94445 1.74083 2.83988 3.58738 4.40290 4.09383 3.98685 2.81767 2.85259 2.04915 4.89040 3.26357 1055 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01078 4.93133 5.65367 0.61958 0.77255 0.48576 0.95510\n- 578 2.86674 4.44095 3.53936 3.14780 2.23313 3.39284 3.58767 2.71056 3.38205 1.75637 3.18486 3.40472 4.28856 3.64611 3.65435 2.70057 2.52858 2.27894 5.04121 3.83308 1056 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01078 4.93133 5.65367 0.61958 0.77255 0.48576 0.95510\n- 579 2.97651 5.51234 1.78444 2.07801 4.84911 2.45429 3.91025 4.34375 2.38188 3.81416 4.56173 2.39585 4.09490 2.60199 3.19861 2.26724 3.21551 3.89976 5.94313 4.51330 1057 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01078 4.93133 5.65367 0.61958 0.77255 0.48576 0.95510\n- 580 2.66128 4.28994 4.59282 3.50383 1.89141 4.01350 4.33313 2.32605 3.35449 1.63660 2.86747 4.09171 4.37966 4.00440 3.92183 2.79226 3.10526 2.53881 4.90717 2.98866 1058 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17079 4.93133 1.89855 0.61958 0.77255 0.48576 0.95510\n- 581 2.78261 4.42850 2.99252 2.56858 2.53151 3.79511 4.06089 1.80340 2.90398 2.32396 3.18690 3.58874 4.17190 3.44793 3.48046 3.05012 2.83020 2.69354 5.02010 3.34824 1059 i - - -\n- 2.68666 4.42223 2.77434 2.73159 3.46207 2.40556 3.72571 3.29251 2.67704 2.69286 4.24706 2.90298 2.73786 3.18132 2.89825 2.37901 2.77538 2.98575 4.58554 3.61580\n- 0.72959 0.65799 * 1.50735 0.25038 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NLR_like_bNACHT09__NLR_like_bNACHT09.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NLR_like_bNACHT09__NLR_like_bNACHT09.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2132 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME NLR_like_bNACHT09__NLR_like_bNACHT09\n-LENG 703\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Sep 5 11:02:32 2022\n-NSEQ 11\n-EFFN 2.086670\n-CKSUM 3562210922\n-GA 400 400;\n-STATS LOCAL MSV -12.2193 0.69662\n-STATS LOCAL VITERBI -13.2055 0.69662\n-STATS LOCAL FORWARD -6.5297 0.69662\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69831 4.35459 2.87019 2.54871 3.08074 3.10395 3.78217 2.71051 2.55693 2.43771 3.73079 2.90402 3.56846 3.06577 2.97128 2.60870 2.83543 2.76713 4.97638 3.40848\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.35908 4.65494 1.23042 0.61958 0.77255 0.00000 *\n- 1 3.38880 4.87779 4.56867 4.21964 3.49420 4.19301 4.85226 2.71939 3.95908 2.03968 0.72473 4.43525 4.67514 4.32092 4.10717 3.77330 3.71314 2.77360 5.37931 4.17252 1 m - - -\n- 2.69058 4.43298 2.77434 2.72565 3.45669 2.41047 3.72671 3.28219 2.67310 2.68923 4.25093 2.90361 2.74251 3.18511 2.90039 2.38117 2.77696 2.98502 4.57657 3.60703\n- 0.58007 1.02209 2.52203 4.81474 0.00814 0.93952 0.49564\n- 2 2.53751 4.63271 2.97769 2.72152 4.53181 2.23408 4.03877 4.00273 2.93579 3.59943 4.40365 2.21670 3.85234 3.22584 3.36876 1.40212 2.94512 3.48782 5.78677 4.46828 246 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02165 4.23922 4.96157 0.61958 0.77255 0.35012 1.21943\n- 3 2.33844 4.22853 4.51514 3.92181 2.67897 3.95820 4.24318 2.25674 3.76059 2.26969 1.94537 4.02489 4.31478 3.92988 3.85676 3.26056 3.04875 2.43001 4.78128 2.05851 247 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01508 4.59761 5.31996 0.61958 0.77255 0.59126 0.80660\n- 4 2.74280 4.67908 3.34938 2.78480 3.85354 3.64019 3.10853 2.79614 2.07073 2.13136 2.89076 2.46462 4.02422 3.08346 3.13746 2.86466 2.97301 2.97448 5.22380 3.94851 248 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01508 4.59761 5.31996 0.61958 0.77255 0.59126 0.80660\n- 5 2.77855 5.14980 1.90592 2.48219 4.43373 3.53297 3.75717 3.11339 2.53309 2.89234 4.21045 2.02671 3.94675 2.51394 3.01702 2.76488 3.01321 3.50607 5.61579 4.23457 249 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01508 4.59761 5.31996 0.61958 0.77255 0.59126 0.80660\n- 6 2.98818 5.37000 3.27948 2.33863 4.76939 3.70578 3.77662 4.18990 1.94628 3.63586 4.42185 3.18178 4.08253 2.17820 1.47317 2.95514 2.69108 3.79514 5.71741 4.41450 250 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01508 4.59761 5.31996 0.61958 0.77255 0.59126 0.80660\n- 7 2.74880 4.86880 3.18560 2.64564 4.11333 3.58085 3.81238 2.48416 2.26655 3.1404'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.65494 5.37729 0.61958 0.77255 0.48576 0.95510\n- 696 2.81288 5.16336 3.13388 2.56397 4.46802 3.59713 3.75901 2.95769 1.64412 3.43822 4.21980 2.42439 3.98417 2.52115 2.44542 2.80403 3.03749 3.53416 5.60597 3.12361 1155 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.65494 5.37729 0.61958 0.77255 0.48576 0.95510\n- 697 2.48448 5.15514 1.97741 2.48757 4.45991 3.54006 3.12611 3.91681 2.49090 2.99523 4.21043 3.02757 3.93571 2.84969 2.53889 2.46085 2.30761 3.52475 5.61617 4.23266 1156 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.65494 5.37729 0.61958 0.77255 0.48576 0.95510\n- 698 2.23584 4.21974 4.50766 3.90972 2.21999 3.94927 4.26810 2.04453 3.05096 1.83567 2.43547 4.02054 4.30834 3.92442 3.84780 3.25011 3.03652 2.42268 4.83682 3.65920 1157 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.65494 5.37729 0.61958 0.77255 0.48576 0.95510\n- 699 2.84070 4.29804 4.33782 3.74916 3.35724 3.95952 4.26081 1.92387 2.51622 1.46838 3.34678 3.94907 4.31803 3.83119 3.77077 3.25144 3.07219 2.17910 4.91562 3.03086 1158 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.65494 5.37729 0.61958 0.77255 0.48576 0.95510\n- 700 2.75568 5.14108 3.04317 2.18854 4.44297 2.23851 3.74194 3.89621 2.49746 3.42978 3.15231 2.31675 3.93959 2.85722 2.65657 2.46304 2.63157 3.50964 5.60702 4.22768 1159 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.65494 5.37729 0.61958 0.77255 0.48576 0.95510\n- 701 2.80542 5.30882 2.49567 2.45626 4.65023 2.58473 3.74817 4.13297 2.26199 3.60926 4.35502 1.93337 3.95094 2.41194 2.38517 2.76368 3.03828 3.69845 5.73854 4.32931 1160 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01424 4.65494 5.37729 0.61958 0.77255 0.48576 0.95510\n- 702 2.52223 5.28518 2.92795 2.03004 4.62418 2.37580 3.76996 4.10217 2.26033 3.59563 4.34975 2.28950 3.95857 2.87805 3.02615 2.05113 3.04878 3.67729 5.74012 4.33207 1161 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.44688 4.65494 1.04735 0.61958 0.77255 0.48576 0.95510\n- 703 2.22460 4.52678 2.73840 2.69274 3.70131 2.84057 3.77054 2.47518 2.68858 2.76407 3.63356 3.15964 3.91483 3.01258 3.10099 2.75715 2.85914 2.81827 5.09149 2.85081 1162 a - - -\n- 2.68663 4.42131 2.77338 2.73096 3.46393 2.40628 3.72609 3.29085 2.67684 2.69227 4.24641 2.90381 2.73816 3.18201 2.89873 2.37920 2.77594 2.98453 4.58406 3.61618\n- 0.68292 0.70348 * 2.40346 0.09476 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Nhi__Nhi.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Nhi__Nhi.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1496 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Nhi__Nhi\n-LENG 491\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Nov 6 15:37:40 2021\n-NSEQ 17\n-EFFN 1.572998\n-CKSUM 2746306032\n-GA 100 100;\n-STATS LOCAL MSV -11.9577 0.69812\n-STATS LOCAL VITERBI -12.6850 0.69812\n-STATS LOCAL FORWARD -6.2851 0.69812\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73512 4.55543 2.90100 2.57473 3.19225 3.14931 3.76002 2.66916 2.54163 2.38201 3.65992 2.85085 3.67676 2.96449 3.01136 2.67985 2.87255 2.69891 4.99552 3.29728\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01730 4.46160 5.18394 0.61958 0.77255 0.00000 *\n- 1 3.56526 5.03718 4.76502 4.44511 3.63626 4.33049 5.04420 2.88161 4.17644 2.17194 0.57468 4.63788 4.82653 4.53342 4.30342 3.95642 3.89978 2.95089 5.52760 4.33086 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25493 4.46160 1.54420 0.61958 0.77255 0.48576 0.95510\n- 2 2.64173 4.62631 3.20452 2.63639 3.81342 3.51935 3.72298 2.85378 2.06050 2.47726 3.71330 3.11651 3.90352 2.92957 2.67283 2.30677 2.87040 2.93028 5.15639 3.34752 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02189 4.22856 4.95091 0.61958 0.77255 0.53402 0.88248\n- 3 2.82704 5.15655 3.14500 2.56108 4.50892 3.57209 2.73361 3.93122 1.49213 3.42793 4.22154 3.06548 3.95547 2.79953 2.30011 2.54422 2.70472 3.55814 5.55531 4.24195 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01932 4.35221 5.07455 0.61958 0.77255 0.64323 0.74569\n- 4 2.69450 5.02336 2.66133 2.42542 4.32563 3.03385 3.69569 3.76972 2.47951 2.94655 4.11439 2.96085 2.14840 2.34944 2.95814 2.48091 2.93565 3.39910 5.52337 4.15292 4 p - - -\n- 2.68621 4.42229 2.77523 2.73107 3.46357 2.40516 3.72498 3.29358 2.67744 2.69358 4.24693 2.90326 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58372 3.61507\n- 0.20285 2.08317 2.82906 0.51021 0.91722 0.53468 0.88154\n- 5 2.32797 3.36144 4.46563 3.86928 2.84647 3.86149 4.19515 1.91297 3.70206 2.24711 3.20814 3.95490 4.22245 3.87407 3.78664 3.16787 2.93135 1.63809 4.74890 3.05449 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34720 5.06954 0.61958 0.77255 0.64951 0.73877\n- 6 2.86212 5.28798 1.98901 2.35584 4.69612 3.39243 3.83617 4.18131 2.72145 3.69948 4.49655 1.49746 3.93642 2.97801 3.25045 2.43385 2.71655 3.75074 5.86607 4.43307 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34720 5.06954 0.61958 0.77255 0.64951 0.73877\n- 7 3.59927 4.86062 5.32463 4.79135 3.28281 4.93510 5.28162 1.64667 4.62280 0.75940 3.06297 5.02189 5.06970'..b'.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90321 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.09075 2.51935 5.07640 0.36574 1.18314 0.48576 0.95510\n- 484 2.73236 4.21110 4.14123 3.56308 3.33050 3.84446 4.15998 1.73026 3.04348 1.82446 3.30942 3.80124 4.21022 3.68636 3.63896 2.72437 2.96776 1.95231 4.87590 3.68047 554 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01928 4.35405 5.07640 0.61958 0.77255 0.48576 0.95510\n- 485 3.63616 4.89157 5.39022 4.81856 3.21751 4.97732 5.27675 1.86877 4.67465 0.71238 2.54904 5.05688 5.06485 4.66703 4.71258 4.34977 3.84709 2.43980 5.40345 4.40851 555 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01928 4.35405 5.07640 0.61958 0.77255 0.48576 0.95510\n- 486 2.71373 4.98374 2.95617 2.50348 4.37504 3.44583 3.75162 3.81028 2.14668 3.37075 4.16846 2.12325 3.90189 2.88907 2.93977 2.40399 1.92037 3.43094 5.56308 4.21365 556 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06616 4.35405 2.97264 0.61958 0.77255 0.48576 0.95510\n- 487 2.65019 4.66613 3.18494 2.62152 3.86038 3.52344 3.73395 3.25138 2.38400 2.90324 3.34071 2.55991 2.99454 2.93196 2.68138 2.74188 2.88042 2.75150 2.87124 3.90643 557 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02020 4.30808 5.03043 0.61958 0.77255 0.55005 0.86019\n- 488 2.66054 4.93826 3.01351 2.45467 4.20608 3.46831 3.65811 3.20838 1.86852 3.20691 4.00354 2.77453 3.36132 2.79134 2.62329 2.28169 2.89010 3.28778 5.41734 3.43826 558 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08665 4.30808 2.66583 0.61958 0.77255 0.55005 0.86019\n- 489 2.66045 5.01982 2.96093 2.40681 4.32208 3.10542 3.62508 3.23617 1.95482 3.30012 4.07870 2.60750 3.83703 2.54458 2.52717 2.31731 2.88882 3.38868 5.47496 4.11194 559 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07761 4.24301 2.80827 0.61958 0.77255 0.63016 0.76037\n- 490 2.79568 5.30820 1.70235 2.08813 4.61840 3.35440 3.70285 4.10814 2.55095 3.60187 4.38311 2.49353 3.85508 2.49791 3.07829 2.45854 2.73547 3.68481 5.75538 4.31465 560 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02280 4.18820 4.91054 0.61958 0.77255 0.68943 0.69688\n- 491 2.75583 5.09929 2.95921 2.45241 4.42889 3.47728 3.16030 3.86813 1.80838 3.37706 4.17063 2.97073 3.88378 2.23568 2.64191 2.10238 2.97818 3.49283 5.51729 4.18032 561 k - - -\n- 2.68907 4.42464 2.77617 2.72885 3.46302 2.40769 3.72719 3.28483 2.67214 2.69156 4.24859 2.89943 2.74022 3.18375 2.90096 2.38015 2.77773 2.98525 4.58649 3.61065\n- 0.61353 0.77966 * 3.80257 0.02257 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NixI__NixI.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NixI__NixI.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,494 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME NixI__NixI\n-LENG 157\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 13 11:30:14 2021\n-NSEQ 14\n-EFFN 0.461426\n-CKSUM 3889428124\n-GA 20 20;\n-STATS LOCAL MSV -10.2629 0.70877\n-STATS LOCAL VITERBI -11.2638 0.70877\n-STATS LOCAL FORWARD -4.6830 0.70877\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56556 4.04361 2.97537 2.75277 3.13460 2.76497 3.60473 2.86070 2.61285 2.46919 3.82296 3.01389 3.65699 3.03446 2.82396 2.69896 2.88846 2.78609 4.53558 3.16181\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08123 3.84248 2.87215 0.61958 0.77255 0.00000 *\n- 1 2.91098 4.47284 3.96732 3.55663 3.17813 3.77636 4.30976 2.34619 3.32825 1.78614 1.53467 3.84314 4.23806 3.71621 3.54232 3.25124 3.21558 2.34288 5.00762 3.76156 1 m - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40511 3.72496 3.29356 2.67738 2.69357 4.24691 2.90337 2.73741 3.18148 2.89797 2.37888 2.77516 2.98520 4.58479 3.61505\n- 0.05954 3.06009 4.51757 0.92936 0.50221 0.52586 0.89416\n- 2 2.65548 4.42345 3.25469 3.08421 4.08238 3.11543 4.16651 3.60967 3.13520 3.24428 4.29225 3.39770 0.98469 3.52644 3.38786 2.82102 3.09144 3.26370 5.28842 4.20267 8 p - - -\n- 2.68621 4.42228 2.77510 2.73126 3.46357 2.40515 3.72497 3.29357 2.67743 2.69358 4.24692 2.90349 2.73742 3.18149 2.89803 2.37890 2.77510 2.98521 4.58480 3.61454\n- 0.23180 1.62976 4.51757 0.44851 1.01771 0.52586 0.89416\n- 3 2.53967 4.43568 3.07848 2.65152 3.48384 3.34858 3.69600 3.05986 2.61098 2.75211 3.65201 2.74639 3.82250 2.98746 2.97414 2.67459 2.25507 2.79349 4.92268 2.77860 11 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03396 3.79522 4.51757 0.61958 0.77255 0.52586 0.89416\n- 4 2.64670 4.77553 2.89735 2.47261 4.13031 3.33685 3.60891 3.56331 2.22487 3.13518 3.98383 2.94756 3.80297 2.20434 2.32619 2.26571 2.90212 3.22921 5.31499 4.01873 12 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03396 3.79522 4.51757 0.61958 0.77255 0.52586 0.89416\n- 5 2.90418 4.86081 3.07484 2.71343 4.22951 3.39985 3.72155 3.65439 1.14954 3.23746 4.20501 3.14061 3.90728 2.91887 2.42437 2.95240 3.16426 3.36721 5.31756 4.11988 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03396 3.79522 4.51757 0.61958 0.77255 0.49387 0.94227\n- 6 2.47679 4.46391 3.02740 2.61081 3.87147 3.24450 3.74686 3.18610 2.56695 2.91689 3.49906 2.26733 3.77158 2.96177 2.94108 2.59269 2.21133 2.88047 5.22527 3.92638 14 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03317 3.81860 4.54095 0.61958 0.77255 0.50646 0.92287\n- 7 2.15817 4.33076 3.72347 3.30521 3.39255 3.55974 4.18198 2.35545 3.15953 1.52154 3.34296 3.59781 4.07712 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 150 3.22082 4.63156 4.19749 3.90664 1.06210 3.91690 3.86498 2.74861 3.81451 2.12579 3.48347 3.98565 4.37645 3.99087 3.94163 3.49206 3.52209 2.73703 4.12362 2.49467 160 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 151 2.94535 4.90708 3.11929 2.74692 4.28665 3.43759 3.74369 3.71414 1.08008 3.28599 4.24945 3.17256 3.94038 2.93716 2.42747 2.98954 3.20106 3.42376 5.35395 4.16255 161 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 152 3.00781 4.43543 4.29225 3.90726 3.35444 4.03348 4.64124 1.11584 3.73478 1.94710 3.29496 4.15683 4.46795 4.08642 3.93481 3.52623 3.30768 1.84628 5.23876 3.97418 162 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 153 2.81341 5.23188 1.46992 2.09617 4.54970 3.14795 3.71857 4.10138 2.72562 3.65016 4.51298 2.12793 3.77227 2.89890 3.28617 2.73794 3.12039 3.68848 5.77996 4.30549 163 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 154 2.93967 5.03092 3.31034 2.70483 4.44201 3.56278 3.56763 3.80704 1.43662 3.28782 4.16529 3.11704 3.95198 2.71175 1.71872 2.94864 3.12335 3.49628 5.36157 4.17367 164 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 155 3.12204 4.59345 4.14116 3.78131 3.12502 3.94370 4.44647 2.32795 3.54934 0.91303 3.15813 4.05965 4.38451 3.92486 3.73014 3.51170 3.41783 2.35742 4.99299 3.70924 165 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 156 2.68335 4.90868 2.43610 1.58170 4.32376 3.19511 3.71114 3.75693 2.56814 3.36874 4.23153 2.80036 3.77527 2.89104 3.01078 2.19058 2.98958 3.38639 5.56481 4.18727 166 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56483 0.61958 0.77255 0.48576 0.95510\n- 157 3.00781 4.43543 4.29225 3.90726 3.35444 4.03348 4.64124 1.11584 3.73478 1.94710 3.29496 4.15683 4.46795 4.08642 3.93481 3.52623 3.30768 1.84628 5.23876 3.97418 167 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 3.83202 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NixI__Stix.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/NixI__Stix.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,245 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME NixI__Stix\n-LENG 74\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Aug 13 11:47:45 2021\n-NSEQ 16\n-EFFN 0.636719\n-CKSUM 2386170519\n-GA 20 20;\n-STATS LOCAL MSV -9.0511 0.71869\n-STATS LOCAL VITERBI -9.3732 0.71869\n-STATS LOCAL FORWARD -4.4005 0.71869\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63478 4.54600 3.27412 2.60938 3.32080 3.20150 3.63548 2.83850 2.62712 2.13783 3.47144 2.71399 3.71069 3.23363 3.04693 2.71527 2.67467 2.69515 4.41932 3.47687\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13398 3.96929 2.23953 0.61958 0.77255 0.00000 *\n- 1 2.96481 4.51445 4.04341 3.63645 3.20528 3.82990 4.37289 2.38032 3.40483 1.80080 1.38868 3.91463 4.29047 3.78708 3.61081 3.31333 3.27000 2.38579 5.04535 3.80663 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86688 4.58923 0.61958 0.77255 0.57918 0.82180\n- 2 3.02675 4.44703 4.32774 3.94333 3.37042 4.06050 4.67248 1.08485 3.77136 1.95759 3.30664 4.18945 4.49225 4.12022 3.96856 3.55526 3.32601 1.84575 5.26009 3.99791 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86688 4.58923 0.61958 0.77255 0.57918 0.82180\n- 3 2.40970 4.25476 3.42312 3.17486 3.96393 3.09423 4.19261 3.09038 3.11772 2.95407 4.00494 3.38514 3.79754 3.51282 3.37668 2.61090 1.18142 2.78596 5.40222 4.18056 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86688 4.58923 0.61958 0.77255 0.57918 0.82180\n- 4 3.02675 4.44703 4.32774 3.94333 3.37042 4.06050 4.67248 1.08485 3.77136 1.95759 3.30664 4.18945 4.49225 4.12022 3.96856 3.55526 3.32601 1.84575 5.26009 3.99791 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86688 4.58923 0.61958 0.77255 0.57918 0.82180\n- 5 2.94748 5.05739 2.48524 1.03335 4.40291 3.27046 3.85677 3.85570 2.73660 3.47371 4.44799 2.92973 3.87478 3.07255 3.14486 2.93045 3.25168 3.54011 5.57553 4.29777 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86688 4.58923 0.61958 0.77255 0.57918 0.82180\n- 6 3.14900 4.61292 4.18052 3.82034 3.13358 3.97504 4.47783 2.33732 3.58815 0.88210 3.15827 4.09636 4.41136 3.95781 3.76513 3.54525 3.44350 2.37320 5.01084 3.73286 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86688 4.58923 0.61958 0.77255 0.57918 0.82180\n- 7 3.14900 4.61292 4.18052 3.82034 3.13358 3.97504 4.47783 2.33732 3.58815 0.88210 3.15827 4.09636 4.41136 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 67 2.80554 4.80416 2.76510 2.66068 4.18304 3.25036 4.00203 3.91494 2.91420 3.55102 4.50620 0.99746 3.90726 3.27549 3.27167 2.86939 3.19094 3.52734 5.47792 4.12484 67 n - - -\n- 2.68619 4.42217 2.77521 2.73124 3.46341 2.40515 3.72492 3.29354 2.67737 2.69356 4.24684 2.90347 2.73741 3.18146 2.89802 2.37889 2.77521 2.98519 4.58467 3.61501\n- 0.05533 3.10885 4.69163 1.18214 0.36618 0.48576 0.95510\n- 68 3.06195 5.02811 3.24429 2.84852 4.43667 3.54025 3.81518 3.87217 0.91318 3.41649 4.37340 3.26848 4.03431 3.00166 2.45332 3.09798 3.30836 3.57473 5.45208 4.27906 77 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 69 3.38319 4.75680 4.37139 4.10488 0.86570 4.04908 3.92276 2.89563 4.00962 2.24369 3.61189 4.12908 4.50597 4.15109 4.10541 3.64775 3.68461 2.89332 4.14429 2.49964 78 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 70 3.06195 5.02811 3.24429 2.84852 4.43667 3.54025 3.81518 3.87217 0.91318 3.41649 4.37340 3.26848 4.03431 3.00166 2.45332 3.09798 3.30836 3.57473 5.45208 4.27906 79 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 71 3.03758 5.16639 2.53140 0.89523 4.52506 3.33792 3.93396 3.99826 2.82680 3.60013 4.57057 2.99077 3.94730 3.14803 3.24517 3.01055 3.34277 3.67237 5.67842 4.40149 80 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 72 2.46670 4.31172 3.51598 3.27334 4.05625 3.14758 4.28302 3.19525 3.21822 3.05529 4.10017 3.46663 3.85922 3.60836 3.47180 2.66913 1.01780 2.87981 5.48554 4.27310 81 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96929 4.69163 0.61958 0.77255 0.48576 0.95510\n- 73 3.06195 5.02811 3.24429 2.84852 4.43667 3.54025 3.81518 3.87217 0.91318 3.41649 4.37340 3.26848 4.03431 3.00166 2.45332 3.09798 3.30836 3.57473 5.45208 4.27906 82 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20590 3.96929 1.78858 0.61958 0.77255 0.48576 0.95510\n- 74 2.89115 4.98142 2.46204 1.13758 4.31881 3.22804 3.81094 3.75781 2.68220 3.38802 4.36745 2.89610 3.82968 3.02953 3.08162 2.88256 3.19552 3.45023 5.50479 4.22927 83 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02294 3.78633 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Old_exonuclease__Old_exonuclease.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Old_exonuclease__Old_exonuclease.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1781 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Old_exonuclease__Old_exonuclease\n-LENG 586\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 10 13:54:08 2021\n-NSEQ 100\n-EFFN 0.509644\n-CKSUM 3640866534\n-GA 200 200;\n-STATS LOCAL MSV -11.8393 0.69730\n-STATS LOCAL VITERBI -13.0064 0.69730\n-STATS LOCAL FORWARD -6.4446 0.69730\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58562 4.29066 2.86962 2.66898 3.30295 2.92519 3.71884 2.64919 2.61375 2.40504 3.71305 3.04041 3.51601 3.16878 3.04900 2.56742 2.84865 2.61802 4.71747 3.57368\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04387 3.87900 3.80528 0.61958 0.77255 0.00000 *\n- 1 2.96467 4.51435 4.04323 3.63626 3.20521 3.82977 4.37273 2.38023 3.40465 1.80075 1.38902 3.91446 4.29034 3.78690 3.61064 3.31318 3.26986 2.38568 5.04526 3.80652 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03158 3.86671 4.58905 0.61958 0.77255 0.49192 0.94534\n- 2 2.17581 4.17908 3.39665 3.11935 4.00212 3.03292 4.15584 3.05774 3.07775 2.96425 3.96053 3.31545 3.74391 3.44841 3.35611 2.50002 1.36803 2.72714 5.45524 4.22337 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87011 4.59245 0.61958 0.77255 0.49387 0.94228\n- 3 2.80620 4.34942 4.12208 3.78509 3.54831 3.72148 4.58721 2.05026 3.65284 2.23571 3.51377 3.97532 4.28208 4.01280 3.86558 3.22483 3.16779 1.02787 5.33236 4.06385 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87011 4.59245 0.61958 0.77255 0.49387 0.94228\n- 4 3.00272 4.84210 3.49312 3.00463 4.19608 3.49123 3.82244 3.73759 2.23626 3.25395 4.25415 3.36456 3.99389 3.04285 0.98200 3.08698 3.26881 3.46163 5.28006 4.12391 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87011 4.59245 0.61958 0.77255 0.49387 0.94228\n- 5 3.15258 4.61553 4.18571 3.82551 3.13474 3.97917 4.48199 2.33861 3.59329 0.87811 3.15836 4.10122 4.41491 3.96218 3.76976 3.54970 3.44692 2.37534 5.01321 3.73599 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87011 4.59245 0.61958 0.77255 0.49387 0.94228\n- 6 2.14533 4.57009 2.98954 2.44480 3.83096 3.36395 3.65830 3.00519 2.44536 2.86646 3.71898 2.73286 3.79765 2.80482 2.89867 2.63636 2.52044 2.91237 5.15929 3.86781 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03147 3.87011 4.59245 0.61958 0.77255 0.49387 0.94228\n- 7 2.60196 4.72434 2.86615 2.49087 4.20420 3.27913 3.67686 3.61193 1.85195 3.20814 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 579 2.93539 4.46141 4.11161 3.61741 3.11897 3.95233 4.35363 2.12888 3.39508 1.65991 1.75370 3.91840 4.33119 3.74103 3.62061 3.32526 3.20791 2.19957 5.01589 3.78830 588 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 580 2.81448 5.07017 2.38214 1.42493 4.37932 3.23931 3.67839 3.79004 2.33512 3.38713 4.28408 2.78224 3.80453 2.85678 2.85967 2.77923 3.08766 3.45491 5.56332 4.20639 589 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 581 2.90885 5.01918 1.03708 2.29345 4.38659 3.15430 3.86746 3.95768 2.93768 3.58100 4.55941 2.84499 3.80185 3.10800 3.44153 2.88156 3.24651 3.60595 5.57027 4.27506 590 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 582 3.16173 4.58734 4.13069 3.83208 1.14907 3.86633 3.84767 2.69706 3.74146 2.08627 3.44020 3.93219 4.32814 3.93163 3.88048 3.43457 3.46359 2.68163 4.12331 2.50151 591 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 583 2.94751 4.38348 4.33018 3.88431 3.32872 4.07144 4.63241 1.25946 3.71334 1.88229 3.22186 4.13644 4.47307 4.04498 3.93114 3.48095 3.23921 1.71356 5.25068 3.99482 592 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 584 2.61510 4.62765 3.07630 2.54989 3.82184 3.42465 3.61962 3.18815 2.05813 2.52117 3.49907 2.60654 3.82967 2.81384 2.66289 2.69821 2.84600 2.91963 5.12839 3.83686 593 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 585 3.21198 4.61345 3.97559 3.66377 2.59506 3.64577 3.81060 3.23400 3.38830 2.64156 3.87125 3.82903 4.15753 3.78020 3.52983 3.41629 3.50889 3.12219 1.05903 2.60159 594 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03400 3.79431 4.51666 0.61958 0.77255 0.55774 0.84980\n- 586 2.97643 4.41289 4.26949 3.85068 3.28970 4.05085 4.58270 1.23054 3.66182 1.85951 3.22770 4.11170 4.45859 4.01551 3.87270 3.49187 3.26690 1.81661 5.19070 3.91058 595 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02301 3.78333 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Olokun__OloA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Olokun__OloA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1811 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Olokun__OloA\n-LENG 596\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:53 2021\n-NSEQ 251\n-EFFN 21.091568\n-CKSUM 675604232\n-GA 10 10;\n-STATS LOCAL MSV -11.4695 0.69724\n-STATS LOCAL VITERBI -13.5202 0.69724\n-STATS LOCAL FORWARD -5.6680 0.69724\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45355 4.49691 2.84180 2.57415 3.27505 2.97515 3.66742 2.89405 2.77057 2.26525 3.93314 3.05923 3.24873 3.09015 2.85312 2.55764 2.95655 2.87642 4.70419 3.54796\n- 2.68680 4.42011 2.77722 2.73046 3.46141 2.40793 3.72919 3.29292 2.67379 2.68809 4.22025 2.90345 2.73813 3.18289 2.89645 2.38547 2.77524 2.98638 4.57449 3.61721\n- 1.27823 1.33838 0.77827 2.56594 0.07996 0.00000 *\n- 1 2.84919 4.93645 5.53381 4.91806 2.24624 4.73324 4.27376 2.24308 4.70133 2.62122 1.09434 4.89797 5.09650 4.83079 4.70681 4.04491 2.86646 2.86878 5.55751 2.23662 47 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04707 6.04487 3.13254 0.61958 0.77255 1.32108 0.31040\n- 2 2.47951 6.01616 2.77363 2.82686 3.37209 4.31260 4.10917 4.37242 2.56436 3.86463 2.19308 3.21630 3.47499 1.50062 3.73115 2.93068 2.43420 3.24783 6.45607 5.05244 48 q - - -\n- 2.68063 4.42576 2.77090 2.73145 3.46553 2.40705 3.72676 3.29165 2.68002 2.68770 4.24862 2.90360 2.74068 3.18285 2.89948 2.37923 2.77777 2.98285 4.58770 3.61908\n- 1.62129 0.22146 6.89833 1.65030 0.21318 2.17278 0.12088\n- 3 2.69828 6.05124 2.51844 1.95741 5.39506 3.71138 4.50498 3.45001 2.07826 2.60483 3.37645 3.55272 4.26929 3.24175 1.80263 2.68236 2.87907 3.70772 6.48468 5.07448 78 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18406 6.19160 1.79538 0.61958 0.77255 0.69043 0.69588\n- 4 2.25997 5.86006 2.58868 2.27106 3.58549 2.90722 4.43556 2.86973 3.10694 2.28489 1.85851 3.19172 4.24565 2.55886 3.94253 3.45760 3.78581 3.16401 5.55600 4.75637 79 m - - -\n- 2.68598 4.42305 2.77583 2.72987 3.46519 2.40660 3.72622 3.29325 2.67632 2.69401 4.24704 2.90455 2.73714 3.18164 2.89929 2.37713 2.77535 2.98278 4.58449 3.61668\n- 1.88913 0.50807 1.39780 0.59393 0.80330 1.53170 0.24356\n- 5 2.48802 5.18496 2.58279 1.87884 5.31255 3.64518 4.25725 3.43034 2.49462 2.78876 3.09029 2.65456 3.58580 3.38129 2.83682 2.41477 2.57960 3.14205 6.40870 4.18614 82 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06136 6.09109 2.86036 0.61958 0.77255 1.80404 0.17988\n- 6 3.48479 4.32314 2.29004 1.90095 4.51022 4.14321 4.44552 4.51230 2.50245 3.62586 2.90337 2.48305 1.88244 2.70545 3.12609 2.60223 2.97101 4.38675 6.42853 5.01744 83 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00331 6.10685 6.82920 0.61958 0.77255 0.76359 0.62734\n- 7 2.97491 5.20528 3.84108 5.11512 3.37562 4.38393 5.31474 1.83880 4.91287 1.68125 3.40103 3.3321'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00286 6.25329 6.97564 0.61958 0.77255 2.23729 0.11289\n- 589 2.91808 4.35234 4.58938 4.20773 1.23709 4.88932 5.22304 2.91383 4.85573 1.68557 3.10660 5.05314 4.41596 4.98610 4.86235 3.85874 3.95176 3.34056 2.29078 2.27494 1782 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07367 6.25349 2.67218 0.61958 0.77255 2.28977 0.10679\n- 590 3.57288 5.74499 3.99229 3.19648 3.19879 4.40949 4.61203 2.85917 2.31721 2.50124 3.78878 3.16807 4.79832 1.89804 1.19396 3.51326 3.80361 3.84007 6.25114 4.92403 1783 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00307 6.18289 6.90523 0.61958 0.77255 2.39489 0.09561\n- 591 2.37133 3.14153 4.51529 3.94717 4.45184 4.02780 4.17188 3.10374 3.30758 2.02981 3.75076 2.01813 4.97724 3.73905 2.78741 2.22089 2.40054 2.63111 5.90150 2.93995 1784 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02552 6.18289 3.76647 0.61958 0.77255 2.20361 0.11699\n- 592 1.97551 5.96899 2.98280 1.53209 4.53670 3.08724 4.51387 3.75832 2.96404 2.88087 3.59789 3.47425 4.71590 2.38904 3.55262 3.24000 2.80867 2.35555 6.42100 4.59483 1785 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00310 6.17482 6.89716 0.61958 0.77255 2.40580 0.09452\n- 593 3.31654 6.04511 2.81152 2.32549 4.49026 2.06573 3.41838 4.87832 1.70440 4.26380 4.71360 2.43606 4.16496 3.01004 1.92691 3.07982 3.58768 4.43643 3.73070 4.35079 1786 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03292 6.17482 3.49652 0.61958 0.77255 2.40580 0.09452\n- 594 3.43913 3.80337 3.53275 3.36104 4.93927 3.80625 4.33112 3.79701 1.93511 2.13986 3.18085 2.92451 4.12174 3.68161 1.60503 3.19653 3.45480 3.66581 2.19385 4.88812 1787 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01722 6.14509 4.20438 0.61958 0.77255 2.44425 0.09079\n- 595 2.94985 6.01496 1.74350 2.28040 5.36134 2.99268 3.75369 3.85676 2.42087 4.32080 5.05528 2.77964 2.72989 1.98347 3.05192 3.06204 2.93555 3.21877 6.44686 5.03512 1788 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04092 6.12911 3.27242 0.61958 0.77255 1.65222 0.21273\n- 596 3.15396 3.24834 1.89155 1.76601 5.39057 4.30823 4.49527 4.31492 1.93029 3.72059 4.62154 3.09496 4.33673 2.66018 3.14613 2.28356 3.09264 3.62593 3.75592 5.06698 1789 e - - -\n- 2.68801 4.42561 2.77334 2.72184 3.46263 2.40623 3.72858 3.28274 2.67855 2.69687 4.25181 2.89960 2.74252 3.17995 2.90289 2.38158 2.77054 2.98620 4.58020 3.62051\n- 1.38768 0.28722 * 1.74614 0.19170 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Olokun__OloB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Olokun__OloB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1691 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Olokun__OloB\n-LENG 556\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:54 2021\n-NSEQ 251\n-EFFN 7.257767\n-CKSUM 922290765\n-GA 10 10;\n-STATS LOCAL MSV -11.8158 0.69754\n-STATS LOCAL VITERBI -12.8258 0.69754\n-STATS LOCAL FORWARD -5.8476 0.69754\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51761 4.38866 2.91191 2.62516 3.28669 2.99905 3.67754 2.84667 2.71234 2.29781 3.80138 3.09448 3.29270 3.06544 2.87605 2.62529 2.89913 2.74673 4.37941 3.48040\n- 2.68601 4.41941 2.77581 2.73215 3.46610 2.40652 3.72084 3.29352 2.67740 2.69388 4.22357 2.90089 2.73903 3.18196 2.89584 2.38085 2.77688 2.98451 4.58316 3.61698\n- 0.67392 0.82194 2.98151 1.95479 0.15268 0.00000 *\n- 1 3.20992 5.19943 2.91731 3.08706 3.35540 3.61052 3.65110 2.75168 2.59357 3.00839 1.31724 2.56887 4.48154 3.52431 3.12171 3.17096 3.32498 2.87518 5.74088 4.45282 30 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00538 5.62359 6.34594 0.61958 0.77255 0.72510 0.66218\n- 2 2.69967 5.69301 3.10033 1.96165 4.57407 3.78065 3.92965 4.52431 1.35940 3.53571 4.73363 2.65231 3.39458 3.10641 2.63668 2.86076 3.00627 3.09806 6.12560 4.51427 31 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00538 5.62359 6.34594 0.61958 0.77255 0.72510 0.66218\n- 3 3.28590 4.66070 5.23829 4.01597 2.35263 4.45685 4.79094 1.77044 4.41303 1.03600 3.59829 4.61532 3.78573 4.54590 4.42574 3.58310 3.05581 2.31613 5.28581 4.11047 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00538 5.62359 6.34594 0.61958 0.77255 0.72510 0.66218\n- 4 3.18306 4.64789 5.22675 4.34048 2.72802 4.44207 4.77587 1.45990 4.39986 1.74394 3.67132 4.60125 4.80542 4.24600 3.86810 3.44862 2.97120 1.41903 5.27215 4.09593 33 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00538 5.62359 6.34594 0.61958 0.77255 0.72510 0.66218\n- 5 3.01302 4.98168 3.77803 2.90858 2.82644 4.19362 3.40397 1.75785 3.10087 2.07432 4.08304 3.90794 3.64642 2.65411 3.38307 2.64856 3.33611 2.07846 5.55904 4.31844 34 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00538 5.62359 6.34594 0.61958 0.77255 0.72510 0.66218\n- 6 2.83870 5.68245 3.14666 2.61247 3.76609 3.95838 4.14577 4.50561 1.74715 3.23654 3.92832 3.42763 4.35172 2.22666 1.74492 2.15343 3.05490 4.07064 6.11781 4.70979 35 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00538 5.62359 6.34594 0.61958 0.77255 0.72510 0.66218\n- 7 2.32926 5.68847 2.95848 1.50849 5.03129 3.27912 3.18107 4.02267 2.80274 3.99280 4.72975 3.34527'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00521 5.65604 6.37838 0.61958 0.77255 0.56228 0.84375\n- 549 2.91567 4.68371 4.58491 3.68384 1.94752 4.43575 4.53125 2.88435 3.28567 1.56054 3.09868 4.54640 4.80101 4.46660 3.32139 3.74014 3.32665 2.49535 4.29369 1.79954 844 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01986 5.65604 4.12467 0.61958 0.77255 0.56228 0.84375\n- 550 3.32918 4.75086 5.19882 4.60099 2.77227 4.51250 4.76777 2.74455 4.40906 2.43734 3.85887 4.62343 4.87414 4.55176 4.31638 1.73225 3.59547 2.88934 1.06472 3.61481 845 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06042 5.64146 2.89898 0.61958 0.77255 0.63260 0.75760\n- 551 3.19300 4.74272 3.81844 2.81059 3.43000 3.71753 3.98070 3.19889 2.74735 2.47147 3.37733 3.72739 4.48490 2.79336 1.22408 3.24521 3.22584 3.03801 5.66399 3.02433 846 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20004 5.58663 1.72847 0.61958 0.77255 0.85312 0.55527\n- 552 2.77118 3.62962 2.49892 2.19348 4.90027 2.52459 3.89374 3.96371 2.69915 3.51111 4.42710 2.81904 2.48633 2.49472 2.61477 2.76279 2.76501 3.59747 5.99417 3.62491 847 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01232 5.39336 4.86739 0.61958 0.77255 1.33371 0.30584\n- 553 2.48717 4.38406 4.39797 3.97085 2.62252 4.23533 3.82833 2.29307 3.75557 1.49112 3.16007 3.52581 3.39083 3.57457 3.73191 2.89331 2.54293 2.61236 4.16424 3.36738 848 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04153 5.38786 3.32122 0.61958 0.77255 1.26006 0.33357\n- 554 2.76658 4.60019 3.77663 3.57483 3.21835 2.50491 4.36426 1.86780 3.50960 1.70523 3.49237 3.88507 4.55245 3.34966 3.07953 3.24786 3.24974 2.30777 4.23723 3.18310 849 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10260 5.36663 2.37681 0.61958 0.77255 1.21514 0.35193\n- 555 2.81855 3.60662 1.94539 2.32710 4.25808 3.24550 3.79734 3.81849 2.02827 2.90029 3.89657 2.51981 4.18347 2.92191 2.86172 2.67211 3.05544 3.44407 5.93440 4.53059 850 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10152 5.30102 2.39088 0.61958 0.77255 1.04463 0.43359\n- 556 2.53144 5.51771 2.55776 2.42141 4.86115 3.78531 3.63373 3.31416 2.24708 3.37784 4.16093 2.88194 2.38477 2.45182 2.66443 2.47916 2.59241 3.73137 5.95138 4.39075 851 k - - -\n- 2.68204 4.42561 2.77403 2.72924 3.46717 2.40688 3.72656 3.29500 2.67902 2.69220 4.24413 2.90575 2.73669 3.18140 2.89502 2.37941 2.77601 2.98445 4.58525 3.61945\n- 1.50258 0.25174 * 2.92323 0.05526 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-1__PD-Lambda-1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-1__PD-Lambda-1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1487 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-1__PD-Lambda-1\n-LENG 488\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:38 2022\n-NSEQ 19\n-EFFN 1.368408\n-CKSUM 468673922\n-GA 200 200;\n-STATS LOCAL MSV -12.0659 0.69814\n-STATS LOCAL VITERBI -12.6623 0.69814\n-STATS LOCAL FORWARD -5.9893 0.69814\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46923 4.64657 2.93368 2.35827 3.35096 3.20699 3.69536 2.86772 2.47067 2.54927 3.65654 2.97296 3.68562 2.94299 2.78752 2.69042 2.88908 2.76127 5.03603 3.55503\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04074 4.37282 3.60051 0.61958 0.77255 0.00000 *\n- 1 3.42996 4.91474 4.61533 4.27298 3.52651 4.22553 4.89738 2.75639 4.01024 2.06933 0.68569 4.48308 4.71081 4.37089 4.15328 3.81632 3.75664 2.81429 5.41360 4.20917 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07561 4.35140 2.81457 0.61958 0.77255 0.51717 0.90685\n- 2 2.45435 5.25579 2.06228 1.91828 4.57912 3.40188 3.69603 4.06320 2.50403 3.55744 4.32383 2.26466 3.44465 2.81364 3.01768 2.71026 2.64356 3.63878 5.70711 4.28171 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21946 4.29624 1.69594 0.61958 0.77255 0.59104 0.80687\n- 3 2.34798 4.73834 2.98984 2.49926 4.01044 3.41440 3.68323 3.40356 2.47832 2.60622 3.86999 2.17920 3.84173 2.54987 2.90556 2.67326 2.66205 3.09291 5.29657 3.98133 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02489 4.10167 4.82401 0.61958 0.77255 0.57770 0.82369\n- 4 2.62698 4.93549 2.94521 2.08126 4.20846 2.93103 3.63001 3.32496 2.28850 2.85029 3.99956 2.56784 3.38850 2.75894 2.87589 2.51776 2.73423 3.28733 5.41666 4.05607 4 e - - -\n- 2.68582 4.42256 2.77538 2.73154 3.46337 2.40527 3.72526 3.29234 2.67760 2.69284 4.24665 2.90366 2.73730 3.18158 2.89832 2.37918 2.77524 2.98505 4.58508 3.61504\n- 0.48134 1.41449 1.97330 1.75881 0.18904 0.59559 0.80126\n- 5 3.25900 4.57913 4.90775 4.34395 2.81367 4.53441 4.84282 1.96761 4.22666 0.99450 2.98102 4.56712 4.74089 4.32595 4.34001 3.87641 3.48432 1.84795 5.17384 4.05730 27 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12595 4.84829 0.61958 0.77255 0.77053 0.62132\n- 6 2.26580 4.31759 4.38315 3.81323 3.29308 4.08096 4.42634 1.87995 3.70509 1.50001 2.82466 4.05741 4.40187 3.92006 3.89946 3.38841 3.13451 1.90567 5.04171 3.88210 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12595 4.84829 0.61958 0.77255 0.69593 0.69037\n- 7 2.77975 4.19745 4.35603 3.77286 3.20996 3.94301 4.26519 1.60474 3.64100 1.82604 2.72978 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19202 4.91436 0.61958 0.77255 0.70818 0.67834\n- 481 2.48894 4.88261 2.96764 2.22556 4.14176 2.98579 3.62972 3.24859 2.30891 2.96488 3.94890 2.70703 3.82105 2.52047 2.87891 2.38615 2.84697 2.99179 5.37155 4.02126 607 e - - -\n- 2.68622 4.42286 2.77570 2.73028 3.46394 2.40560 3.72472 3.29290 2.67736 2.69335 4.24751 2.90372 2.73782 3.18064 2.89807 2.37887 2.77497 2.98523 4.58342 3.61564\n- 0.73618 0.91951 2.10092 2.00351 0.14487 0.70818 0.67834\n- 482 2.73679 5.19308 2.31300 1.80594 4.49875 3.32246 3.66048 3.97343 2.49834 3.48846 4.27771 2.79773 2.51524 2.57317 3.01103 2.47531 2.98737 3.56916 5.65695 4.23571 623 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02570 4.06984 4.79219 0.61958 0.77255 0.81768 0.58242\n- 483 2.70285 5.01841 2.90024 1.76163 4.32741 3.43174 3.61098 3.75401 2.05746 2.99725 4.08868 2.92958 3.84154 2.73956 2.48109 2.54675 2.92764 3.39270 5.45564 4.11833 624 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02570 4.06984 4.79219 0.61958 0.77255 0.60665 0.78784\n- 484 2.65859 4.11393 4.16779 3.20565 2.13017 3.77554 4.06925 2.34018 3.45328 1.93671 2.86572 3.77204 4.13385 3.65935 3.61639 3.06660 2.88980 2.09653 4.70140 3.12580 625 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19202 4.91436 0.61958 0.77255 0.70818 0.67834\n- 485 1.92750 4.83665 2.83849 2.07697 4.30135 2.76836 3.77332 3.73127 2.60831 3.32221 4.13261 2.97821 2.45442 2.92992 3.07403 2.66647 2.92674 3.34615 5.54257 4.19521 626 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19202 4.91436 0.61958 0.77255 0.70818 0.67834\n- 486 2.60778 5.38546 1.75313 1.57454 4.70151 3.33926 3.75317 4.19557 2.65108 3.69278 4.49040 2.80611 2.97802 2.89171 3.19868 2.78448 3.12523 3.76906 5.85142 4.39230 627 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19202 4.91436 0.61958 0.77255 0.70818 0.67834\n- 487 1.69847 4.46807 3.30122 2.57117 3.74270 3.46224 3.83041 3.04423 2.74519 2.60564 3.66554 3.20821 3.90872 3.07876 3.13893 2.57605 2.63856 2.52273 5.13796 3.87619 628 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19202 4.91436 0.61958 0.77255 0.70818 0.67834\n- 488 2.71191 4.23757 3.94826 3.06122 3.31921 3.79484 4.08766 1.82838 3.26577 1.84689 3.27303 3.67927 4.15555 3.20192 3.51598 3.07613 2.94483 1.96303 4.88441 3.68661 629 i - - -\n- 2.68595 4.42232 2.77527 2.73110 3.46361 2.40520 3.72502 3.29361 2.67748 2.69340 4.24697 2.90354 2.73747 3.18122 2.89808 2.37894 2.77527 2.98499 4.58484 3.61510\n- 0.27827 1.41506 * 0.60620 0.78838 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-2__PD-Lambda-2_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-2__PD-Lambda-2_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,284 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-2__PD-Lambda-2_A\n-LENG 87\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:38 2022\n-NSEQ 21\n-EFFN 1.115112\n-CKSUM 494453444\n-GA 60 60;\n-STATS LOCAL MSV -9.1990 0.71845\n-STATS LOCAL VITERBI -9.9820 0.71845\n-STATS LOCAL FORWARD -4.1879 0.71845\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54483 4.42168 3.08071 2.62434 3.10539 3.14634 3.78017 2.75272 2.59438 2.39511 3.57661 3.14700 3.46884 3.02102 2.97230 2.70273 2.92977 2.56880 3.56432 3.75397\n- 2.68618 4.42241 2.77535 2.73128 3.46346 2.40524 3.72510 3.29341 2.67735 2.69360 4.24607 2.90343 2.73744 3.18145 2.89803 2.37895 2.77518 2.98513 4.58422 3.61465\n- 0.09809 2.44749 4.97305 1.84147 0.17267 0.00000 *\n- 1 3.31631 4.81317 4.48508 4.12452 3.43870 4.13497 4.77225 2.65563 3.86819 1.98950 0.80080 4.35008 4.61176 4.23225 4.02538 3.69701 3.63663 2.70300 5.31945 4.10842 21 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 2 3.15492 5.34300 3.58327 2.86482 4.81810 3.78876 3.19196 4.15746 1.57690 3.56066 4.40864 3.27806 4.13209 2.54052 1.26437 3.13021 3.30766 3.82113 5.58014 4.40869 22 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 3 3.61043 4.96994 4.79708 4.45502 3.32739 4.45901 4.99494 2.56669 4.22064 0.51832 3.26059 4.69516 4.83956 4.49522 4.32794 4.10079 3.89288 2.69915 5.32585 4.13117 23 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 4 3.37705 4.65687 5.13800 4.59073 3.33725 4.73338 5.13228 1.69866 4.46459 0.97271 3.11560 4.80646 4.92321 4.57359 4.56967 4.10160 3.61002 1.73690 5.42013 4.34028 24 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 5 3.20555 4.92596 3.95510 3.91017 5.01247 0.32824 4.98982 4.72141 4.14181 4.32072 5.31149 4.12135 4.32724 4.43673 4.31998 3.39084 3.71558 4.17620 5.99033 5.13294 25 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 6 3.29970 5.38113 3.79855 3.03131 4.91029 3.87219 3.72889 4.22097 1.39472 3.60764 4.48923 3.39455 4.21703 2.85881 1.12619 3.28361 3.43605 3.90686 5.59804 4.48113 26 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 7 2.76466 5.28570 2.03727 1.91372 4.60698 3.14787 3.68589 4.09794 2.34235 3.58189 4.34680 2.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 80 3.27391 4.53547 5.14678 4.66643 3.75768 4.72373 5.37023 1.01965 4.56750 2.22054 3.53433 4.85186 5.00366 4.81914 4.74305 4.13446 3.53947 1.20100 5.79072 4.58635 100 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 81 2.64793 4.44239 3.41918 2.86308 3.61596 3.58309 3.84684 2.60309 2.61793 2.65172 3.55524 3.29051 3.97781 2.87939 3.13532 2.83637 1.79623 2.33957 5.04168 3.79591 101 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 82 1.97593 5.10986 2.40287 2.22392 4.42206 3.01480 3.64834 3.88690 2.35467 3.40589 4.17518 2.72149 3.83259 2.76513 2.78375 2.41105 2.92082 3.48596 5.57277 4.17549 102 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 83 2.85792 4.25202 4.52372 3.93580 2.91355 4.03632 4.36106 2.03412 3.79486 1.49482 2.71020 4.08811 3.59828 3.95923 3.91025 3.34437 3.08837 1.75012 4.89124 3.73746 103 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02140 4.25071 4.97305 0.61958 0.77255 0.48576 0.95510\n- 84 2.65088 4.80079 3.07981 2.34144 4.03335 3.48471 3.67845 3.01766 1.85060 2.86503 3.87529 3.02728 3.87264 2.61301 2.88339 2.69771 2.69998 2.73296 5.30528 3.98808 104 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07711 4.25071 2.81419 0.61958 0.77255 0.48576 0.95510\n- 85 2.47185 4.90988 2.97380 2.42702 4.18585 2.96086 3.63454 3.61419 2.03138 3.18576 3.98335 2.78454 3.83158 2.53172 2.71890 2.51337 2.86678 2.67958 5.39618 4.04893 105 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02262 4.19622 4.91857 0.61958 0.77255 0.55406 0.85475\n- 86 2.33106 4.88506 2.84432 2.41758 4.14548 3.42943 3.63148 3.33037 2.14913 2.82200 3.95229 2.62071 3.82269 2.63299 2.87892 2.48922 2.59802 3.22964 5.37447 4.02425 106 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12099 4.19622 2.31362 0.61958 0.77255 0.55406 0.85475\n- 87 2.41910 4.96301 2.46259 1.92779 4.23735 3.37791 3.63675 3.66837 2.44142 2.63567 4.04109 2.74548 3.81105 2.77368 2.92464 2.64419 2.72565 3.31190 5.45291 4.08274 107 e - - -\n- 2.68637 4.42244 2.77503 2.73118 3.46373 2.40497 3.72314 3.29355 2.67759 2.69374 4.24708 2.90365 2.73748 3.18165 2.89795 2.37886 2.77506 2.98537 4.58496 3.61496\n- 0.39149 1.12716 * 1.18149 0.36647 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-2__PD-Lambda-2_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-2__PD-Lambda-2_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1229 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-2__PD-Lambda-2_B\n-LENG 402\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:39 2022\n-NSEQ 21\n-EFFN 0.617798\n-CKSUM 253984644\n-GA 100 100;\n-STATS LOCAL MSV -11.3883 0.69920\n-STATS LOCAL VITERBI -12.2246 0.69920\n-STATS LOCAL FORWARD -5.8567 0.69920\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54567 4.59372 2.90447 2.61728 3.35214 2.92400 3.74954 2.72808 2.66344 2.37355 3.66232 3.15780 3.40094 3.14366 2.82979 2.67629 2.87557 2.60838 4.33108 3.59235\n- 2.68619 4.42232 2.77527 2.73130 3.46361 2.40520 3.72501 3.29351 2.67748 2.69358 4.24531 2.90326 2.73747 3.18153 2.89801 2.37886 2.77514 2.98518 4.58484 3.61510\n- 0.29130 1.81364 2.41183 1.01374 0.45076 0.00000 *\n- 1 2.57814 4.31153 3.43821 2.91357 3.43576 3.50235 3.82817 2.72382 2.75067 2.33255 2.20578 3.29696 3.92536 2.95656 3.06015 2.67043 2.70477 2.53245 4.92540 3.68774 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87258 4.59492 0.61958 0.77255 0.56254 0.84341\n- 2 2.71922 5.17482 1.92078 2.08364 4.45952 3.24722 3.32424 3.93801 2.48386 3.45767 4.26152 2.53547 3.76403 2.49000 3.00097 2.42151 2.97356 3.54139 5.63077 4.20267 10 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87258 4.59492 0.61958 0.77255 0.56254 0.84341\n- 3 2.32591 4.28827 3.40441 2.88388 3.57319 3.40801 3.86476 2.33589 2.81753 2.47186 3.50171 3.26508 2.74394 3.15518 3.16938 2.71294 2.54002 2.46536 5.03887 3.79848 11 a - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69349 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.06391 2.96026 4.59492 0.51717 0.90685 0.56254 0.84341\n- 4 2.93433 5.07385 3.23253 2.65454 4.47535 3.56258 3.56398 3.84349 1.36021 3.31263 4.17601 3.08536 3.94823 2.55469 1.94304 2.93111 3.11499 3.52440 5.39099 4.18815 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87258 4.59492 0.61958 0.77255 0.56254 0.84341\n- 5 2.97697 4.36053 4.51572 4.02517 3.46968 4.21237 4.78011 1.53730 3.89880 2.00767 3.30649 4.27103 4.57445 4.19236 4.12349 3.59528 3.25441 1.18641 5.39055 4.16878 14 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87258 4.59492 0.61958 0.77255 0.56254 0.84341\n- 6 3.03117 4.44979 4.33595 3.95170 3.37419 4.06674 4.67975 1.07777 3.77984 1.96013 3.30945 4.19702 4.49788 4.12808 3.97639 3.56199 3.33031 1.84576 5.26509 4.00344 15 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03140 3.87258 4.59492 0.61958 0.77255 0.56254 0.84341\n- 7 2.96918 5.05403 3.36441 2.73736 4.47453 3.58978 3.57618 3.83445 1.53417 3.30769 4.18617 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02884 3.95635 4.67869 0.61958 0.77255 0.48576 0.95510\n- 395 2.57694 3.88742 3.61123 3.03684 3.28281 3.59248 3.56872 2.40042 2.93181 1.86832 3.10607 3.39470 3.96487 2.85328 3.23199 2.85445 2.80834 2.43266 4.78446 3.56148 411 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02884 3.95635 4.67869 0.61958 0.77255 0.48576 0.95510\n- 396 3.21405 4.57354 4.64059 4.11336 1.84636 4.35863 4.36678 2.18728 3.97636 1.20335 2.95676 4.30022 4.59866 4.09671 4.10891 3.69771 3.44007 2.35100 4.66285 3.24953 412 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02884 3.95635 4.67869 0.61958 0.77255 0.48576 0.95510\n- 397 2.45108 4.68765 2.97220 2.27169 3.92707 3.26395 3.62265 3.33089 2.38047 2.73841 3.78478 2.82009 3.18933 2.79136 2.88621 2.50673 2.71967 2.82982 5.22081 3.90336 413 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02884 3.95635 4.67869 0.61958 0.77255 0.48576 0.95510\n- 398 2.43067 4.78248 2.54865 2.36684 4.24984 3.24217 3.68985 3.68839 2.53459 3.27131 4.07858 2.25528 3.51278 2.84445 3.01038 2.08922 2.64478 3.29611 5.48593 4.12930 414 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02884 3.95635 4.67869 0.61958 0.77255 0.48576 0.95510\n- 399 2.46355 4.74728 2.96797 2.30510 3.98514 3.39586 3.33609 3.28387 2.32164 2.79232 3.82252 2.82120 3.61778 2.75359 2.69306 2.39491 2.67781 3.07977 5.25055 3.92435 415 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10593 3.95635 2.50861 0.61958 0.77255 0.48576 0.95510\n- 400 2.53394 4.44869 3.15767 2.51417 3.46101 3.43896 3.66642 2.91394 2.51290 2.48165 3.37444 2.83260 3.48223 2.90177 2.97598 2.48415 2.76554 2.74139 4.99997 3.49904 416 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03111 3.88153 4.60387 0.61958 0.77255 0.55491 0.85361\n- 401 2.53423 4.49138 2.92278 2.39269 3.66862 3.18660 3.65034 2.85945 2.53374 2.72253 3.45841 2.95658 3.81305 2.78248 2.95587 2.64860 2.76571 2.67148 3.96371 3.58169 417 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09466 3.88153 2.66356 0.61958 0.77255 0.55491 0.85361\n- 402 2.69692 5.07998 2.26869 2.02209 4.38082 2.57834 3.62338 3.84165 2.50010 3.38706 4.20543 2.38275 3.75282 2.56410 3.00721 2.54331 2.95910 3.46206 5.58217 4.17265 418 e - - -\n- 2.68613 4.42230 2.77525 2.73110 3.46359 2.40512 3.72500 3.29359 2.67746 2.69347 4.24672 2.90352 2.73745 3.18152 2.89806 2.37892 2.77525 2.98487 4.58482 3.61508\n- 0.30607 1.33308 * 0.60339 0.79176 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-2__PD-Lambda-2_C.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-2__PD-Lambda-2_C.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1151 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-2__PD-Lambda-2_C\n-LENG 376\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:39 2022\n-NSEQ 20\n-EFFN 1.069336\n-CKSUM 948795856\n-GA 20 20;\n-STATS LOCAL MSV -11.2481 0.69964\n-STATS LOCAL VITERBI -12.1834 0.69964\n-STATS LOCAL FORWARD -5.7207 0.69964\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53948 4.34467 2.86755 2.59969 3.28842 3.03910 3.69017 2.69900 2.67337 2.50891 3.59996 3.09256 3.49845 3.10673 2.96233 2.62876 2.85591 2.59596 4.35298 3.42161\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.00000 *\n- 1 3.29088 4.79066 4.45530 4.09079 3.41968 4.11434 4.74402 2.63371 3.83604 1.97257 0.82998 4.31991 4.58934 4.20093 3.99650 3.67009 3.60983 2.67858 5.29864 4.08608 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 2 2.62441 4.61121 3.16582 2.61923 3.79942 3.49940 3.72886 2.78462 2.48792 2.85241 3.70658 2.29223 3.89262 2.93875 3.01596 2.44203 2.58283 2.91796 5.15407 2.93574 2 n - - -\n- 2.68608 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.05904 2.99090 4.94930 0.46806 0.98408 0.48576 0.95510\n- 3 2.41019 4.91666 2.53772 2.41610 4.21663 3.41255 3.66370 3.64961 2.45632 2.80217 4.02098 2.55742 2.58176 2.79996 2.93197 2.54880 2.70291 3.29191 5.43899 4.08085 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 4 2.67828 4.95708 3.01430 2.45948 4.24472 3.46694 3.64344 3.66902 2.14517 3.22873 4.02777 2.79469 3.85971 2.10571 2.62001 2.68624 2.31563 2.93327 5.42398 4.08649 5 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 5 3.79996 5.14322 4.38264 4.19126 2.40147 4.25961 3.84523 3.76566 4.04033 3.12408 4.40504 4.18856 4.73086 4.25696 4.14486 3.89522 4.09157 3.65448 4.05422 0.53296 6 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 6 2.85365 4.23908 4.55376 3.96686 2.18618 4.03066 4.32138 2.18519 3.81661 1.85052 2.82775 4.09227 4.35451 3.96944 3.91475 3.34095 3.08366 1.56635 4.81434 3.27431 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22696 4.94930 0.61958 0.77255 0.48576 0.95510\n- 7 3.29425 4.97585 3.94163 3.84206 4.78290 3.64411 4.87669 4.43751 3.93335 4.01769 5.09214 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02332 4.16609 4.88844 0.61958 0.77255 0.55982 0.84703\n- 369 1.15800 4.22079 3.73740 3.31678 4.05940 3.14442 4.25647 3.25208 3.27167 3.10475 3.99167 3.46769 3.83778 3.56575 3.57222 2.30961 2.49521 2.43408 5.47978 4.27439 388 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02332 4.16609 4.88844 0.61958 0.77255 0.55982 0.84703\n- 370 2.49793 4.72988 3.11294 2.54613 3.96465 3.47580 3.67512 2.88850 1.90773 2.98431 3.82050 3.04224 3.86639 2.84680 2.54267 2.58862 2.59611 2.90624 5.25037 3.94892 389 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02332 4.16609 4.88844 0.61958 0.77255 0.55982 0.84703\n- 371 2.14721 4.71445 3.07230 2.51579 3.94352 3.13160 3.67097 3.34513 2.21003 2.97399 3.80512 3.01902 3.84724 2.84286 2.67598 2.53239 2.67630 2.78646 5.24309 3.58170 390 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02332 4.16609 4.88844 0.61958 0.77255 0.55982 0.84703\n- 372 1.87174 4.46383 3.28989 2.51680 3.70717 3.47744 3.80756 3.00486 2.72529 2.58101 3.63121 3.19578 3.90633 3.05726 3.12134 2.62666 2.51626 2.41875 5.10562 3.84332 391 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02332 4.16609 4.88844 0.61958 0.77255 0.55982 0.84703\n- 373 2.49924 4.71203 3.08853 2.35571 3.28255 3.46854 3.67338 3.32469 2.47432 2.95713 3.79399 3.03122 3.85792 2.68455 2.11989 2.68602 2.68277 2.80635 5.23088 3.92487 392 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02332 4.16609 4.88844 0.61958 0.77255 0.55982 0.84703\n- 374 2.28905 4.69867 3.07309 2.25769 3.91367 3.18097 3.67287 2.85728 2.49883 2.94732 3.78188 3.02232 3.84914 2.60368 2.76890 2.67246 2.62694 2.75756 5.22419 3.91463 393 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11377 4.16609 2.38566 0.61958 0.77255 0.55982 0.84703\n- 375 2.33673 4.51232 3.17020 2.28935 3.33452 3.23674 3.71690 2.62229 2.61326 2.75180 3.61733 3.10056 2.96980 2.94511 3.03040 2.70262 2.81540 2.80479 5.07855 3.80154 394 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13596 4.07781 2.20563 0.61958 0.77255 0.57887 0.82219\n- 376 2.57272 4.69012 3.01477 2.23099 3.91131 3.13374 3.62964 3.10638 2.31820 2.94159 3.30917 2.78618 3.80850 2.79976 2.89290 2.40597 2.80491 2.83345 5.21041 3.89540 395 e - - -\n- 2.68611 4.42245 2.77531 2.73130 3.46351 2.40519 3.72493 3.29355 2.67725 2.69346 4.24710 2.90354 2.73759 3.18154 2.89799 2.37871 2.77517 2.98493 4.58497 3.61523\n- 0.43349 1.04481 * 1.23906 0.34201 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-3__PD-Lambda-3_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-3__PD-Lambda-3_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,500 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-3__PD-Lambda-3_A\n-LENG 159\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:40 2022\n-NSEQ 21\n-EFFN 0.489624\n-CKSUM 303676908\n-GA 20 20;\n-STATS LOCAL MSV -10.1303 0.70850\n-STATS LOCAL VITERBI -11.0901 0.70850\n-STATS LOCAL FORWARD -4.7154 0.70850\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58951 4.35490 2.77555 2.63296 3.26677 2.96105 3.67205 2.82656 2.71666 2.33304 3.72480 3.12750 3.52123 3.08101 2.83453 2.73682 2.89303 2.61634 4.49936 3.38870\n- 2.68610 4.42227 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24618 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.15734 2.30271 3.08792 0.55956 0.84737 0.00000 *\n- 1 2.77377 4.42129 3.73192 3.25742 3.26950 3.65925 4.06192 2.52582 2.95701 1.99902 1.72579 3.58236 4.10561 3.41861 3.02637 3.04833 3.05524 2.46444 4.96393 3.70786 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03285 3.82795 4.55030 0.61958 0.77255 0.51732 0.90663\n- 2 1.70272 4.31476 3.12284 2.65294 3.86624 3.16761 3.84948 3.09674 2.73846 2.89809 3.78528 2.90367 3.75017 3.09382 3.10008 2.54762 2.64574 2.57497 5.24534 3.98566 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03285 3.82795 4.55030 0.61958 0.77255 0.51732 0.90663\n- 3 3.10608 4.58201 4.11762 3.75810 3.12014 3.92488 4.42783 2.32275 3.52625 0.93207 3.15850 4.03780 4.36846 3.90527 3.70927 3.49174 3.40268 2.34836 4.98244 3.69521 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03285 3.82795 4.55030 0.61958 0.77255 0.51732 0.90663\n- 4 2.21204 4.14394 3.25913 2.95942 4.06430 2.93843 4.03872 3.38359 2.96578 3.14634 4.02319 3.18479 3.64927 3.30817 3.27853 1.74119 1.82430 2.94647 5.43617 4.19233 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03285 3.82795 4.55030 0.61958 0.77255 0.51732 0.90663\n- 5 2.43332 4.75879 2.60126 2.06298 4.18134 3.21566 3.67623 3.59730 2.51606 3.20683 4.04301 2.73318 2.47028 2.85040 2.95730 2.53126 2.87799 3.23605 5.43703 4.09451 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03285 3.82795 4.55030 0.61958 0.77255 0.51732 0.90663\n- 6 2.67676 5.26449 1.72869 1.82756 4.57121 2.89278 3.65874 4.05919 2.61714 3.58118 4.41064 2.47597 3.75658 2.81710 3.17756 2.69806 3.05836 3.65096 5.76153 4.29770 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03285 3.82795 4.55030 0.61958 0.77255 0.51732 0.90663\n- 7 2.84710 4.82992 2.87527 2.63024 3.99232 3.33754 3.78783 3.61707 2.45434 3.12377 4.15379 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 152 2.82542 4.33076 4.13126 3.69330 3.46878 3.88186 4.50370 1.28571 3.53779 2.09364 3.34988 3.95009 4.33908 3.89122 3.77486 3.28144 2.77273 1.82261 5.27800 4.04673 154 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 153 2.99745 4.40858 4.44060 3.99205 3.37097 4.15533 4.72569 1.17164 3.82426 1.90694 3.24907 4.23358 4.54405 4.14469 4.03385 3.56638 3.28621 1.69674 5.31127 4.06470 155 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 154 2.15819 4.17366 3.39365 3.11420 4.00053 3.02816 4.15097 3.05458 3.07370 2.96268 3.95601 3.31033 3.73889 3.44274 3.35314 2.49387 1.38659 2.72287 5.45253 4.22146 156 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 155 1.91307 4.35296 3.25885 2.60087 3.64422 3.37890 3.79047 2.84223 2.69817 2.65531 3.26031 3.16848 3.84310 3.05047 3.06847 2.60176 2.78293 2.43074 5.06466 3.80937 157 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 156 3.14580 4.61060 4.17588 3.81573 3.13254 3.97136 4.47412 2.33617 3.58356 0.88569 3.15821 4.09202 4.40820 3.95392 3.76100 3.54129 3.44045 2.37130 5.00872 3.73007 158 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 157 2.75779 4.91800 2.53787 1.37818 4.19655 3.27581 3.75124 3.50757 2.57519 3.19866 4.15667 2.88248 3.83775 2.94173 2.98543 2.77104 3.05089 3.02763 5.49942 4.13432 159 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 158 3.32163 4.69931 4.07828 3.78230 2.65777 3.72072 3.88955 3.34489 3.50470 2.74123 3.97909 3.93307 4.23775 3.89276 3.63454 3.52540 3.62160 3.23499 0.90255 2.66032 160 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03167 3.86400 4.58635 0.61958 0.77255 0.48576 0.95510\n- 159 1.66547 4.15354 3.70182 3.29130 3.76349 3.23170 4.21495 2.50605 3.22022 2.62384 3.66960 3.48131 3.87378 3.54158 3.50486 2.64647 2.65735 1.81223 5.32059 4.10355 161 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02143 3.85376 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-3__PD-Lambda-3_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-3__PD-Lambda-3_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,833 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-3__PD-Lambda-3_B\n-LENG 270\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:40 2022\n-NSEQ 21\n-EFFN 0.453735\n-CKSUM 3307562244\n-GA 75 75;\n-STATS LOCAL MSV -11.0521 0.70221\n-STATS LOCAL VITERBI -11.7253 0.70221\n-STATS LOCAL FORWARD -5.4598 0.70221\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36541 4.30471 2.97151 2.74556 3.29111 2.77690 3.71174 2.84346 2.76402 2.33947 3.68759 3.06446 3.51144 3.17580 2.83735 2.69324 2.88289 2.61502 4.60536 3.61483\n- 2.68620 4.42227 2.77522 2.73122 3.46356 2.40513 3.72497 3.29351 2.67740 2.69354 4.24663 2.90349 2.73742 3.18148 2.89796 2.37889 2.77518 2.98516 4.58479 3.61505\n- 0.06575 2.93445 4.55888 0.95174 0.48787 0.00000 *\n- 1 2.94169 4.49635 4.01114 3.60235 3.19318 3.80731 4.34584 2.36523 3.37221 1.79370 1.44858 3.88414 4.26812 3.75671 3.58166 3.28683 3.24650 2.36706 5.02892 3.78727 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 2 2.56636 4.27495 3.65865 3.20938 3.56523 3.46463 4.13234 2.05037 3.08382 2.36837 3.49463 3.50602 4.00266 3.45506 3.37653 2.84638 1.83763 2.18420 5.18137 3.93377 12 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 3 2.73165 4.73036 3.20713 2.72429 4.17019 3.37773 3.69620 3.60759 2.19238 3.16746 4.06998 3.13098 3.10307 2.88074 1.45369 2.80393 3.00742 3.28508 5.30469 4.08221 13 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 4 3.00319 4.43266 4.28351 3.89840 3.35058 4.02681 4.63359 1.12357 3.72580 1.94463 3.29221 4.14882 4.46199 4.07814 3.92652 3.51911 3.30322 1.84655 5.23357 3.96838 14 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 5 2.24688 4.47440 2.88625 2.59580 4.04647 3.14519 3.80769 3.43883 2.62643 3.08475 3.97675 3.01371 2.00552 2.76160 2.98663 2.57040 2.82313 3.08009 5.36917 4.07744 15 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 6 2.44560 4.32931 3.21220 2.77761 3.68176 3.25338 3.82023 3.03146 2.71509 2.20030 3.67023 3.15526 2.67512 3.08927 3.06199 2.26929 2.77424 2.75385 5.10465 3.82243 16 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 7 3.21346 4.62600 4.18929 3.89743 1.07243 3.91069 3.86270 2.74211 3.80548 2.12074 3.47795 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 263 1.68374 4.11558 3.41823 3.09951 4.00794 2.97769 4.12377 3.08944 3.07556 2.99451 3.93659 3.28004 3.68969 3.41115 3.36922 2.42585 1.76704 2.72877 5.43692 4.21910 273 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 264 2.57198 4.54100 3.12837 2.57704 3.70969 3.43285 3.49138 3.00833 2.44357 2.72640 3.23871 3.04778 3.82819 2.26070 2.82102 2.67829 2.63687 2.76831 5.06983 3.78624 274 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 265 2.84127 4.92881 2.95049 2.58586 4.30516 3.40308 3.64743 3.74367 1.30027 3.30617 4.20045 2.88471 3.89316 2.81896 2.36326 2.86337 3.09089 3.41732 5.38473 4.12185 275 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 266 2.40440 4.45383 3.16910 2.61445 3.64798 3.43189 3.67015 2.79506 2.34277 2.53837 3.56024 3.07542 3.67459 2.77063 2.90677 2.67420 2.55948 2.66955 5.02264 3.75618 276 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03257 3.83654 4.55888 0.61958 0.77255 0.48576 0.95510\n- 267 2.34732 4.22039 3.58298 3.02881 3.42796 3.39058 3.92051 2.22684 2.95326 2.29020 3.24602 3.39232 3.96425 3.26634 3.28014 2.83217 2.39616 2.14161 4.94007 3.71409 277 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12498 3.83654 2.34427 0.61958 0.77255 0.48576 0.95510\n- 268 2.14111 4.15906 3.41337 2.93536 3.59658 2.95750 3.89200 2.30072 2.87468 2.61744 3.53980 3.24897 3.78195 3.20280 3.20310 2.43040 2.62307 2.40206 5.04815 3.81665 278 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03566 3.74722 4.46957 0.61958 0.77255 0.55833 0.84901\n- 269 2.07530 4.19112 3.40099 2.90836 3.61095 3.26284 3.87997 2.52937 2.83978 2.61973 3.54693 3.09476 3.79862 3.17718 3.17735 2.52107 2.56281 2.21653 5.06206 3.82396 279 a - - -\n- 2.68614 4.42227 2.77522 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18148 2.89803 2.37870 2.77522 2.98520 4.58479 3.61505\n- 0.24397 1.58456 4.46957 0.30800 1.32770 0.55833 0.84901\n- 270 2.24630 4.20907 3.02641 2.76178 4.05317 2.94425 3.92119 3.43489 2.81245 3.14074 4.01519 3.06703 2.05341 3.16975 3.14652 2.15206 2.55293 3.00061 5.40106 4.13263 281 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02415 3.73570 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-4__PD-Lambda-4_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-4__PD-Lambda-4_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3872 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-4__PD-Lambda-4_A\n-LENG 1283\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:41 2022\n-NSEQ 21\n-EFFN 0.474243\n-CKSUM 2452583837\n-GA 400 400;\n-STATS LOCAL MSV -13.4197 0.69506\n-STATS LOCAL VITERBI -14.1774 0.69506\n-STATS LOCAL FORWARD -7.4673 0.69506\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46227 4.32812 2.83922 2.68187 3.32999 2.86468 3.73175 2.74271 2.75567 2.37230 3.69836 3.15953 3.34926 3.14072 2.88089 2.65970 2.93015 2.63657 4.41135 3.57819\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09602 3.84112 2.65811 0.61958 0.77255 0.00000 *\n- 1 2.89958 4.46428 3.95074 3.53953 3.17288 3.76456 4.29632 2.33946 3.31173 1.78395 1.56870 3.82777 4.22678 3.70112 3.52750 3.23789 3.20419 2.33414 4.99988 3.75201 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03451 3.77961 4.50196 0.61958 0.77255 0.53721 0.87798\n- 2 1.15668 4.15059 3.37184 3.16198 3.96301 2.97692 4.19451 3.07508 3.17586 2.96050 4.00516 3.33396 3.70764 3.52636 3.43111 2.50298 2.77403 2.74587 5.39967 4.19011 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03451 3.77961 4.50196 0.61958 0.77255 0.53721 0.87798\n- 3 2.77344 4.32721 3.90889 3.50118 3.36543 3.72994 4.31886 1.37044 3.34598 2.06504 3.32097 3.78099 3.82182 3.71672 3.58631 3.15787 3.08249 1.98041 5.11921 3.86049 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03451 3.77961 4.50196 0.61958 0.77255 0.53721 0.87798\n- 4 3.14392 4.57419 4.11010 3.80931 1.17724 3.85073 3.84294 2.68179 3.71919 2.07484 3.42766 3.91592 4.31341 3.91368 3.86185 3.41713 3.44605 2.66513 4.12418 2.50474 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05107 3.77961 3.61346 0.61958 0.77255 0.53721 0.87798\n- 5 2.87810 4.97876 1.08809 2.28030 4.34273 3.13302 3.84451 3.90735 2.90963 3.53708 4.51648 2.82951 3.77865 3.08629 3.40778 2.85560 3.21576 3.55953 5.53235 4.23847 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03507 3.76361 4.48596 0.61958 0.77255 0.54968 0.86071\n- 6 2.94621 4.40025 4.17288 3.78769 3.30464 3.94193 4.53843 1.22457 3.61330 1.91780 3.26179 4.04837 4.38711 3.97520 3.82251 3.42986 3.24889 1.85486 5.17003 3.89617 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03507 3.76361 4.48596 0.61958 0.77255 0.54968 0.86071\n- 7 2.86502 4.94332 2.45357 1.19175 4.27701 3.20826 3.79069 3.70927 2.65784 3.34590 4.3287'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85232 4.57467 0.61958 0.77255 0.48576 0.95510\n- 1276 2.53801 4.06865 2.80655 1.86272 4.05910 3.26530 3.65978 3.46531 2.47282 3.09293 3.92441 2.75072 3.75725 2.83163 2.90401 2.31719 2.81981 3.12113 5.33181 4.00456 1280 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85232 4.57467 0.61958 0.77255 0.48576 0.95510\n- 1277 1.84502 4.61335 2.68386 2.05537 4.14382 2.91953 3.75060 3.52349 2.62331 3.17973 4.02714 2.90662 3.74552 2.94363 3.05202 2.50649 2.85017 3.15578 5.43453 4.11472 1281 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85232 4.57467 0.61958 0.77255 0.48576 0.95510\n- 1278 2.78933 4.53113 3.56442 3.02310 3.44138 3.62549 3.85245 2.78314 2.54361 1.60404 3.46472 3.39395 4.03905 3.14245 2.26308 2.98662 3.03508 2.66413 4.98302 3.70127 1282 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85232 4.57467 0.61958 0.77255 0.48576 0.95510\n- 1279 2.81799 5.12518 2.30824 1.33742 4.44015 3.21286 3.71339 3.92220 2.57958 3.50680 4.38686 2.54714 3.80601 2.89515 3.02791 2.77137 3.10954 3.55453 5.64997 4.24430 1283 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85232 4.57467 0.61958 0.77255 0.48576 0.95510\n- 1280 2.82798 4.96200 2.79920 2.48820 4.23632 3.38603 3.65143 3.71055 2.09161 3.24288 4.15216 2.96983 3.87884 1.61459 2.49509 2.83662 3.07449 3.39997 5.39107 4.08971 1284 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06557 3.85232 3.16449 0.61958 0.77255 0.48576 0.95510\n- 1281 2.94796 4.78875 3.43344 2.95692 4.13003 3.44470 3.78936 3.66896 2.22084 3.19456 4.19711 3.32017 3.95075 3.01318 1.06196 3.03527 3.21811 3.39544 5.23501 4.06983 1285 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81987 4.54222 0.61958 0.77255 0.51393 0.91165\n- 1282 3.19294 4.61058 4.16625 3.87163 1.10195 3.89325 3.85652 2.72412 3.78019 2.10685 3.46276 3.96052 4.35375 3.96297 3.91290 3.46500 3.49443 2.71077 4.12290 2.49720 1286 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81987 4.54222 0.61958 0.77255 0.46854 0.98327\n- 1283 2.80601 5.02231 2.38794 1.26304 4.44449 2.85004 3.76715 3.89640 2.65198 3.49631 4.38417 2.81788 3.80886 2.95794 3.09631 2.78430 3.11261 3.52721 5.62656 4.28681 1287 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02168 3.84196 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-4__PD-Lambda-4_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-4__PD-Lambda-4_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,932 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-4__PD-Lambda-4_B\n-LENG 303\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:42 2022\n-NSEQ 21\n-EFFN 0.510132\n-CKSUM 3315212444\n-GA 20 20;\n-STATS LOCAL MSV -10.8060 0.70117\n-STATS LOCAL VITERBI -12.0820 0.70117\n-STATS LOCAL FORWARD -5.5347 0.70117\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52576 4.11348 2.89685 2.64269 3.36458 2.86648 3.82621 2.82341 2.59385 2.57256 3.70359 3.09091 3.24364 3.13000 2.83733 2.60956 2.92801 2.67648 4.19717 3.46693\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03118 3.87936 4.60171 0.61958 0.77255 0.00000 *\n- 1 2.97447 4.52211 4.05673 3.65062 3.21052 3.83919 4.38416 2.38680 3.41835 1.80407 1.36479 3.92729 4.29975 3.79973 3.62288 3.32434 3.27987 2.39373 5.05231 3.81474 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03118 3.87936 4.60171 0.61958 0.77255 0.48576 0.95510\n- 2 2.95797 5.07077 2.49014 1.01562 4.41781 3.27833 3.86556 3.87307 2.74693 3.48902 4.46261 2.93646 3.88320 3.08098 3.15659 2.93958 3.26221 3.55614 5.58807 4.31016 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03118 3.87936 4.60171 0.61958 0.77255 0.48576 0.95510\n- 3 2.31819 4.23875 3.21219 3.02815 4.08306 2.96849 4.13788 3.60654 3.10238 3.32619 4.25161 3.25192 3.70783 3.45113 3.38830 1.08072 2.79881 3.14014 5.45497 4.16659 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03118 3.87936 4.60171 0.61958 0.77255 0.48576 0.95510\n- 4 1.00388 4.19528 3.46942 3.26088 4.05908 3.01967 4.28214 3.18560 3.27732 3.06691 4.09787 3.40881 3.75953 3.61782 3.52745 2.54546 2.82329 2.83881 5.48554 4.28652 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03118 3.87936 4.60171 0.61958 0.77255 0.48576 0.95510\n- 5 3.01300 4.85190 3.50433 3.01379 4.20823 3.49985 3.82890 3.75030 2.23964 3.26497 4.26485 3.37306 4.00198 3.04877 0.96792 3.09676 3.27841 3.47392 5.28840 4.13396 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03118 3.87936 4.60171 0.61958 0.77255 0.48576 0.95510\n- 6 2.82939 5.26454 1.52149 2.10692 4.58306 3.16661 3.72841 4.13307 2.73018 3.67320 4.53074 1.97006 3.78726 2.90524 3.29280 2.75074 3.13324 3.71646 5.80507 4.32830 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03118 3.87936 4.60171 0.61958 0.77255 0.48576 0.95510\n- 7 2.97821 4.94253 3.15468 2.77469 4.33053 3.46707 3.76270 3.76020 1.02889 3.32371 4.28467 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05644 3.75079 3.46154 0.61958 0.77255 0.57615 0.82567\n- 296 2.91994 4.38652 4.12023 3.73592 3.28462 3.90104 4.49420 1.27472 3.56053 1.90806 3.25039 4.00116 4.35177 3.92745 3.77356 3.38789 3.22431 1.86209 5.14110 3.86250 297 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03627 3.73062 4.45297 0.61958 0.77255 0.59079 0.80719\n- 297 2.82602 4.34266 4.09244 3.58241 3.23501 3.89111 4.36332 2.03487 3.42316 1.79824 2.40516 3.87715 4.28621 3.74045 3.66997 3.24757 3.10443 1.62270 5.08780 3.88091 298 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03627 3.73062 4.45297 0.61958 0.77255 0.59079 0.80719\n- 298 2.50545 4.28782 3.14919 3.03416 4.16566 0.98651 4.15759 3.73556 3.19506 3.40685 4.38639 3.31510 3.67441 3.53179 3.44132 2.67443 2.97594 3.29224 5.29296 4.26478 299 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03627 3.73062 4.45297 0.61958 0.77255 0.59079 0.80719\n- 299 2.89659 4.65593 3.31974 2.91648 2.44799 3.63055 2.34007 3.25697 2.75444 2.76151 3.79795 3.26459 4.04455 3.16073 3.04877 2.97980 3.13485 3.04693 4.05575 1.94305 300 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03627 3.73062 4.45297 0.61958 0.77255 0.59079 0.80719\n- 300 2.91994 4.38652 4.12023 3.73592 3.28462 3.90104 4.49420 1.27472 3.56053 1.90806 3.25039 4.00116 4.35177 3.92745 3.77356 3.38789 3.22431 1.86209 5.14110 3.86250 301 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03627 3.73062 4.45297 0.61958 0.77255 0.44777 1.01902\n- 301 2.09515 4.21651 3.59913 3.12346 3.62374 3.37588 4.06148 2.12671 3.04195 2.50715 3.53545 3.42104 3.92164 3.37788 3.35569 2.73889 2.13983 2.24384 5.16233 3.93490 302 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03234 3.84340 4.56574 0.61958 0.77255 0.50178 0.93001\n- 302 3.33180 4.68876 4.26712 3.88890 1.61008 4.13317 3.43667 3.08225 3.75876 2.47245 3.70782 3.84738 4.46931 3.85162 3.88832 3.48869 3.56352 2.99483 3.63513 1.25664 303 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03234 3.84340 4.56574 0.61958 0.77255 0.50178 0.93001\n- 303 2.68723 4.81524 2.57935 1.94421 4.23679 3.22654 3.74808 3.65316 2.58237 3.27322 4.15926 2.88994 1.95973 2.94086 2.99180 2.71518 2.99320 3.30844 5.47519 4.15993 304 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02188 3.83294 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-5__PD-Lambda-5_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-5__PD-Lambda-5_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1454 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-5__PD-Lambda-5_A\n-LENG 477\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:42 2022\n-NSEQ 21\n-EFFN 3.083862\n-CKSUM 1184800399\n-GA 20 20;\n-STATS LOCAL MSV -11.4616 0.69826\n-STATS LOCAL VITERBI -12.5729 0.69826\n-STATS LOCAL FORWARD -6.0792 0.69826\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60199 4.61958 2.89974 2.57603 3.53614 3.08534 3.64901 2.84482 2.50925 2.45337 3.76479 2.88996 3.36763 2.95218 2.77160 2.61599 2.83675 2.71877 4.66806 3.75058\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01059 4.94857 5.67092 0.61958 0.77255 0.00000 *\n- 1 4.28675 5.70022 5.49182 5.29172 4.29129 4.85904 5.79133 3.62445 5.02720 2.81902 0.24177 5.41331 5.41263 5.36407 5.07861 4.68053 4.66336 3.73937 6.15391 5.00595 1 M - - -\n- 2.68656 4.42388 2.77660 2.73139 3.46463 2.40587 3.72324 3.29378 2.67769 2.69349 4.24650 2.90316 2.73718 3.18199 2.89752 2.37952 2.77322 2.98377 4.57969 3.61495\n- 0.97846 0.94507 1.44622 2.31126 0.10440 0.48576 0.95510\n- 2 2.50593 5.11883 3.07030 2.10422 4.40664 3.55681 3.27109 3.85393 2.51291 3.39926 4.17529 2.47720 2.96264 2.87037 2.69895 2.75227 2.66327 2.98378 5.58735 2.70429 58 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01382 4.68459 5.40694 0.61958 0.77255 0.58197 0.81825\n- 3 2.80667 5.27398 2.82634 2.35995 4.60199 3.58641 3.77462 2.70122 1.99489 3.57146 4.31937 2.54685 3.97949 2.37205 2.48638 2.77728 2.48823 3.21511 5.71652 4.31719 59 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01210 4.81683 5.53918 0.61958 0.77255 0.47245 0.97676\n- 4 2.85398 4.46198 3.94392 3.37039 3.06357 3.88459 3.29454 2.14811 3.30072 2.25740 3.57077 3.71221 3.08173 2.75839 2.68422 3.14550 2.54650 2.00037 5.05815 3.84419 60 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01108 4.90420 5.62655 0.61958 0.77255 0.59573 0.80109\n- 5 2.56099 5.31271 2.76545 2.35497 4.64256 3.61895 3.80745 2.69929 1.68330 3.61109 4.35764 3.09261 4.01233 2.41471 2.80476 2.59016 2.53536 3.69520 5.75421 4.35345 61 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01108 4.90420 5.62655 0.61958 0.77255 0.59573 0.80109\n- 6 2.84218 5.01640 2.47467 2.70135 4.24823 3.67886 3.88612 3.66087 2.69430 2.49758 4.09053 2.55680 3.32714 3.04233 3.15485 2.37582 1.91497 3.00312 3.78958 4.19632 62 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01108 4.90420 5.62655 0.61958 0.77255 0.59573 0.80109\n- 7 2.85995 4.34002 3.36525 3.12148 2.65162 3.96057 4.26252 1.60477 3.60524 2.00066 2.87837 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01112 4.90080 5.62314 0.61958 0.77255 0.48576 0.95510\n- 470 2.83681 5.27854 2.82519 2.08038 4.59585 3.62145 3.81158 2.61060 2.34689 3.07656 4.32663 3.10048 3.33049 2.29331 2.72541 2.18609 3.06797 3.16564 5.72812 4.33470 762 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01112 4.90080 5.62314 0.61958 0.77255 0.48576 0.95510\n- 471 1.79429 5.04535 3.25110 2.69171 4.28547 3.67790 3.87914 3.70102 2.16018 2.34648 4.11721 3.20979 4.06753 2.49703 2.78849 2.59510 2.78953 2.93727 5.54703 4.21429 763 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01112 4.90080 5.62314 0.61958 0.77255 0.48576 0.95510\n- 472 3.40401 4.74827 5.21267 4.66644 3.67660 4.64189 5.06852 1.08763 4.49179 1.18297 3.55255 4.77589 4.96035 4.65931 4.57599 3.06232 3.65196 2.36603 5.50524 4.34901 764 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01112 4.90080 5.62314 0.61958 0.77255 0.48576 0.95510\n- 473 2.55541 4.57018 2.49671 3.17908 3.69042 3.83897 3.34018 2.69859 3.13137 2.55219 3.67280 3.58073 4.21869 3.43279 3.48092 3.08600 3.08992 2.54546 1.62802 3.90074 765 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01112 4.90080 5.62314 0.61958 0.77255 0.48576 0.95510\n- 474 2.59301 5.34711 2.75009 1.95745 4.69161 2.91200 3.79811 4.17721 2.21902 3.10783 4.38804 2.60806 4.00432 2.44176 2.47333 2.31356 3.06884 3.73747 5.77996 4.36927 766 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17099 4.90080 1.89892 0.61958 0.77255 0.48576 0.95510\n- 475 2.12110 5.07681 2.70567 2.56666 4.34398 3.06171 3.78842 3.77823 2.37524 2.61388 4.13965 2.19425 3.98124 2.91883 3.03975 2.57015 3.01096 3.02422 5.55994 3.42265 767 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07833 4.74284 2.70867 0.61958 0.77255 0.80284 0.59431\n- 476 2.76015 3.33636 3.24144 3.31573 3.46878 3.79968 4.07618 2.28821 2.78013 1.82600 3.46033 3.64443 4.17440 3.51155 2.98789 2.74569 2.99209 2.02302 4.94963 3.73873 768 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17983 4.67841 1.86245 0.61958 0.77255 0.89731 0.52368\n- 477 2.20732 5.27364 2.82341 1.82202 4.60597 2.55444 3.75248 4.08194 2.25164 3.58023 4.34425 2.19085 3.93352 2.86693 3.02237 2.76528 3.04657 3.66284 5.72977 4.32020 769 e - - -\n- 2.68588 4.42296 2.77513 2.73119 3.46425 2.40510 3.72434 3.29425 2.67672 2.69300 4.24654 2.90302 2.73810 3.18008 2.89840 2.37903 2.77566 2.98557 4.58548 3.61574\n- 0.73874 0.64954 * 1.62753 0.21867 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-5__PD-Lambda-5_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-5__PD-Lambda-5_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,890 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-5__PD-Lambda-5_B\n-LENG 289\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:42 2022\n-NSEQ 21\n-EFFN 1.048462\n-CKSUM 2659719325\n-GA 20 20;\n-STATS LOCAL MSV -10.8194 0.70160\n-STATS LOCAL VITERBI -11.8442 0.70160\n-STATS LOCAL FORWARD -5.4753 0.70160\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55646 4.44691 2.95243 2.69032 3.28203 2.91328 3.70623 2.72599 2.66160 2.43503 3.69791 3.01000 3.40837 3.09693 2.93109 2.70959 2.84702 2.68157 4.36479 3.22236\n- 2.68629 4.42206 2.77539 2.73111 3.46286 2.40531 3.72476 3.29323 2.67741 2.69297 4.24513 2.90339 2.73804 3.18166 2.89803 2.37912 2.77530 2.98558 4.58441 3.61432\n- 0.46510 1.85550 1.53455 2.93482 0.05460 0.00000 *\n- 1 2.31633 4.20114 3.49707 2.98035 3.50503 3.11005 3.88758 2.77006 2.90629 2.54587 2.28989 3.31059 3.85866 3.22573 3.22819 2.41414 2.75691 2.38065 4.96410 3.73749 127 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03018 3.91155 4.63390 0.61958 0.77255 0.49746 0.93669\n- 2 2.59928 4.68592 3.06171 2.51032 3.91155 3.00903 3.64912 3.30917 2.33669 2.93909 2.74038 3.00818 3.14409 2.68988 2.64054 2.56360 2.83098 3.01365 5.20857 3.90610 128 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02614 4.05308 4.77542 0.61958 0.77255 0.50579 0.92389\n- 3 2.51255 4.66089 3.12349 2.47790 3.86627 3.47572 3.67733 3.25727 2.22694 2.90033 3.10238 3.05079 3.86142 2.86455 2.34882 2.59120 2.84305 2.64617 5.18443 3.59210 129 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02397 4.13882 4.86116 0.61958 0.77255 0.53817 0.87663\n- 4 2.60019 4.26169 3.57287 3.01100 2.61321 3.59612 3.84212 2.62952 2.95215 2.46855 3.37389 2.94656 3.97846 3.24258 3.27524 2.60228 2.47412 2.53252 4.78179 2.59618 130 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02397 4.13882 4.86116 0.61958 0.77255 0.53817 0.87663\n- 5 2.58855 4.36062 3.18133 2.82165 3.27630 3.28768 3.78950 2.60188 2.78480 2.46764 3.46278 3.08902 3.49901 3.09577 3.15767 2.67865 2.82096 2.63950 4.92484 2.39755 131 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02397 4.13882 4.86116 0.61958 0.77255 0.53817 0.87663\n- 6 2.32827 4.27398 3.48881 3.17921 4.32576 3.05421 4.25095 3.69482 3.19646 3.41991 4.26733 3.36511 3.78609 3.51553 3.51203 1.21502 1.83466 3.19417 5.67704 4.44654 132 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02397 4.13882 4.86116 0.61958 0.77255 0.53817 0.87663\n- 7 3.14541 4.84917 3.78264 3.66608 4.62479 3.52204 4.71434 4.24819 3.74809 3.84202 4.90863 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05381 4.11264 3.32363 0.61958 0.77255 0.52273 0.89869\n- 282 2.51383 4.78496 2.88423 2.37609 4.02321 3.42054 3.62418 3.19855 2.34206 2.78044 3.85773 2.80706 3.81248 2.57917 2.75911 2.63084 2.27919 3.11679 5.28684 3.95619 433 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08416 4.80651 0.61958 0.77255 0.55366 0.85529\n- 283 2.39973 4.49657 3.20060 2.63965 3.39673 3.22665 3.71161 2.77629 2.33822 2.56921 3.59059 3.11006 3.52535 2.82023 3.02571 2.46456 2.80900 2.67795 5.05148 3.77843 434 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05271 4.08416 3.36661 0.61958 0.77255 0.55366 0.85529\n- 284 2.41865 4.75133 3.00317 2.37187 3.63388 3.18952 3.62493 3.39952 2.14647 3.01131 3.83133 2.96103 3.80993 2.78233 2.60421 2.51935 2.56927 2.94904 5.26257 3.93804 435 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05430 4.05748 3.33655 0.61958 0.77255 0.58105 0.81942\n- 285 2.39190 4.70162 3.01258 2.37208 3.92274 3.00330 3.62887 3.15302 2.32642 2.95254 3.78040 2.96984 3.49007 2.58672 2.89496 2.54203 2.80629 2.86516 5.21871 3.44933 436 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09078 4.02994 2.67353 0.61958 0.77255 0.60782 0.78645\n- 286 2.57411 4.78223 2.79641 2.40330 4.02195 3.39435 3.23510 3.44337 2.08129 2.92945 3.39690 2.92179 3.78558 2.61648 2.81788 2.49480 2.80410 3.11804 5.27410 3.58550 437 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02851 3.96767 4.69001 0.61958 0.77255 0.66336 0.72385\n- 287 2.57632 4.75500 2.96902 2.42172 3.99465 3.17460 3.60149 3.40746 2.11358 2.87715 3.83172 2.78830 3.46413 2.58233 2.82323 2.52558 2.80714 2.92631 5.25710 3.54808 438 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06905 3.96767 3.04062 0.61958 0.77255 0.66336 0.72385\n- 288 2.55327 4.64576 3.01869 2.47526 3.88999 3.39020 3.62584 3.28954 2.43120 2.75471 3.75497 2.75963 3.34366 2.66384 2.71545 2.41926 2.55348 2.82789 5.19016 3.88370 439 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06967 3.92828 3.04443 0.61958 0.77255 0.69532 0.69098\n- 289 2.45321 4.37722 3.24440 2.57945 3.50495 3.46513 3.70985 2.91148 2.62823 2.43808 3.48911 2.94243 3.54241 2.99164 2.99098 2.72352 2.79105 2.67049 2.95740 3.64724 440 l - - -\n- 2.68578 4.42248 2.77529 2.73104 3.46352 2.40523 3.72494 3.29362 2.67736 2.69346 4.24671 2.90359 2.73751 3.18151 2.89792 2.37898 2.77533 2.98501 4.58500 3.61526\n- 0.40967 1.09026 * 1.50821 0.25014 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-6__PD-Lambda-6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-Lambda-6__PD-Lambda-6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,419 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-Lambda-6__PD-Lambda-6\n-LENG 132\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:43 2022\n-NSEQ 21\n-EFFN 0.920288\n-CKSUM 3842249957\n-GA 20 20;\n-STATS LOCAL MSV -9.8472 0.71165\n-STATS LOCAL VITERBI -10.7331 0.71165\n-STATS LOCAL FORWARD -4.6798 0.71165\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39874 4.51562 3.08205 2.53749 3.48904 3.05970 3.69744 2.81326 2.67099 2.42366 3.47166 3.14343 3.55590 3.06826 2.81064 2.64729 2.86715 2.59501 4.39327 3.53496\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02381 4.14547 4.86781 0.61958 0.77255 0.00000 *\n- 1 3.20757 4.71760 4.35583 3.97876 3.35923 4.04564 4.65086 2.56367 3.72959 1.91984 0.93638 4.21985 4.51516 4.09750 3.90100 3.58115 3.52220 2.59992 5.23125 4.01343 1 m - - -\n- 2.68625 4.42233 2.77527 2.73131 3.46361 2.40520 3.72449 3.29361 2.67748 2.69343 4.24697 2.90343 2.73747 3.18123 2.89808 2.37860 2.77527 2.98526 4.58484 3.61511\n- 0.18315 1.83466 4.86781 0.94895 0.48963 0.48576 0.95510\n- 2 3.07444 5.69105 1.20236 1.52621 4.97327 3.29080 3.86717 4.51134 2.92407 3.99733 4.86299 2.74909 3.93232 3.03825 3.54668 2.93987 3.37028 4.07116 6.14118 4.61234 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02381 4.14547 4.86781 0.61958 0.77255 0.48576 0.95510\n- 3 3.70864 4.92356 4.82336 4.51020 1.13923 4.47610 3.59885 3.33648 4.31379 2.63059 3.91232 4.21395 4.78463 4.26582 4.30817 3.86744 3.93188 3.28786 1.67632 2.01105 8 f - - -\n- 2.68606 4.42231 2.77526 2.73129 3.46360 2.40519 3.72501 3.29360 2.67747 2.69361 4.24609 2.90330 2.73746 3.18152 2.89807 2.37893 2.77486 2.98524 4.58483 3.61509\n- 0.36610 2.44488 1.51490 1.18079 0.36678 0.48576 0.95510\n- 4 3.09903 4.43737 4.66924 4.13153 3.28826 4.39450 4.80290 1.45940 4.00560 1.44742 3.09896 4.39490 4.65413 4.22522 4.19528 3.74753 3.34288 1.62351 5.27908 4.12595 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03032 3.90703 4.62938 0.61958 0.77255 0.36631 1.18185\n- 5 1.50562 4.23476 3.59852 3.21360 4.25010 3.05830 4.23518 3.60503 3.20906 3.32914 4.16560 3.38274 3.77658 3.50417 3.53388 1.86178 1.77208 3.12434 5.60995 4.39749 15 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02381 4.14547 4.86781 0.61958 0.77255 0.48576 0.95510\n- 6 2.88617 4.31985 4.32873 3.77351 3.46161 4.07113 4.46880 1.67046 3.67197 1.96220 3.34545 4.03774 4.42045 3.93072 3.90313 3.38616 2.05631 1.66174 5.17028 3.97687 16 v - - -\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40502 3.72498 3.29323 2.67744 2.69359 4.24693 2.90350 2.73743 3.18150 2.89804 2.37877 2.77523 2.98522 4.58481 3.61507\n- 0.10143 2.42173 4.86781 0.86478 0.54670 0.48576 0.95510\n- 7 2.62676 4.39130 4.75045 4.24247 3.66973 4.35158 4.93963 1.22263 4.14300 2.26600 3.48922 4.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02576 4.06770 4.79005 0.61958 0.77255 0.57173 0.83138\n- 125 2.44915 5.06901 2.54445 1.85795 4.38421 3.36095 3.61899 3.83941 2.38311 3.36511 4.14792 2.85023 3.80329 2.74319 2.27491 2.50787 2.91019 3.44870 5.53479 4.14857 139 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02576 4.06770 4.79005 0.61958 0.77255 0.57173 0.83138\n- 126 2.31855 5.11247 2.50684 2.07840 4.42828 3.36345 3.64152 3.87514 1.72594 3.40336 4.19800 2.85104 3.82497 2.77186 2.85295 2.68729 2.96147 3.48990 5.57196 4.18897 140 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02576 4.06770 4.79005 0.61958 0.77255 0.57173 0.83138\n- 127 2.38488 4.86262 2.75602 2.39945 4.25307 2.98429 2.96528 3.70291 2.51901 3.28131 4.09409 1.92062 3.81387 2.85948 2.97559 2.49329 2.90971 3.32914 5.48633 4.12997 141 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06979 4.06770 2.98997 0.61958 0.77255 0.57173 0.83138\n- 128 2.69537 4.73161 2.89762 2.66752 4.38160 1.33184 3.91976 3.82760 2.14681 3.44088 4.31178 3.10841 3.88015 3.12547 2.99551 2.77126 3.05174 3.42715 5.57531 4.31943 142 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02690 4.02482 4.74716 0.61958 0.77255 0.61359 0.77958\n- 129 2.71536 4.68559 3.08734 2.07985 3.83008 3.50506 3.72947 3.17192 2.46806 1.91722 3.74220 3.10564 3.92265 2.93830 2.62956 2.81037 2.94772 2.93848 5.19083 3.90870 143 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02690 4.02482 4.74716 0.61958 0.77255 0.61359 0.77958\n- 130 2.50843 4.61904 2.62427 2.52262 4.21598 3.20507 3.80783 3.63473 2.68134 3.25895 4.08284 2.98621 2.00001 2.98864 3.12792 2.23297 2.49816 3.23368 5.49591 4.17334 144 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02690 4.02482 4.74716 0.61958 0.77255 0.61359 0.77958\n- 131 2.35144 4.68235 2.73800 2.48839 3.90120 3.42355 3.65067 3.29552 2.46446 2.92855 2.61182 2.99090 3.82575 2.53857 2.74109 2.65883 2.82815 3.00259 5.20961 3.90189 145 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09228 4.02482 2.65521 0.61958 0.77255 0.61359 0.77958\n- 132 2.15334 4.32612 3.22704 3.01018 4.19217 3.06535 4.15286 3.52350 3.07263 3.25103 4.19764 3.27869 1.29142 3.42951 3.37736 2.56789 2.86029 3.11387 5.54808 4.31802 146 p - - -\n- 2.68627 4.42234 2.77508 2.73132 3.46322 2.40507 3.72503 3.29347 2.67731 2.69363 4.24698 2.90333 2.73748 3.18155 2.89786 2.37889 2.77528 2.98527 4.58486 3.61512\n- 0.26611 1.45395 * 0.91751 0.51002 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-10__PD-T4-10_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-10__PD-T4-10_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,452 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-10__PD-T4-10_A\n-LENG 143\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:33 2022\n-NSEQ 21\n-EFFN 1.520142\n-CKSUM 3300640628\n-GA 20 20;\n-STATS LOCAL MSV -10.1464 0.71021\n-STATS LOCAL VITERBI -10.8266 0.71021\n-STATS LOCAL FORWARD -4.6013 0.71021\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57934 4.15931 2.96546 2.65584 3.07712 2.96515 3.49357 2.95819 2.56258 2.56453 3.63831 2.97618 3.23301 3.00664 2.97787 2.59769 2.86220 2.85735 4.76662 3.26564\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.33438 4.43940 1.30041 0.61958 0.77255 0.00000 *\n- 1 3.19168 4.70380 4.33649 3.95711 3.34805 4.03231 4.63298 2.55064 3.70906 1.91031 0.95881 4.20054 4.50087 4.07761 3.88262 3.56405 3.50552 2.58516 5.21855 3.99967 1 m - - -\n- 2.68537 4.42376 2.77543 2.73032 3.46404 2.40582 3.72458 3.29247 2.67771 2.69425 4.24605 2.90264 2.73711 3.17874 2.89884 2.37951 2.77590 2.98470 4.58628 3.61621\n- 0.62809 0.88014 2.96301 2.90703 0.05619 0.84294 0.56289\n- 2 2.32673 4.43990 3.29594 2.74505 3.65713 3.48528 3.77818 2.66974 2.29879 2.69772 3.58287 3.18639 3.89743 3.03185 3.06706 2.31974 2.82762 2.27682 5.05878 3.79991 39 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02533 4.08438 4.80673 0.61958 0.77255 0.73051 0.65713\n- 3 2.24974 4.93206 2.73760 2.25350 4.20700 3.41091 3.61739 3.64464 2.21747 3.20791 3.27928 2.62968 3.80926 2.74568 2.86694 2.51885 2.59676 3.28503 5.41259 4.04958 40 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02328 4.16776 4.89011 0.61958 0.77255 0.55999 0.84680\n- 4 2.21665 4.33693 3.52879 2.78467 3.02642 3.29191 3.87016 2.83000 2.58467 2.32632 2.66441 3.36052 3.99348 3.21207 3.25893 2.72869 2.86147 2.38612 4.92131 3.68951 41 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30090 5.02325 0.61958 0.77255 0.67489 0.71174\n- 5 2.24749 3.83946 3.17635 2.27660 3.84328 3.51504 3.73462 3.01055 2.31975 2.88747 3.73648 3.10594 3.90257 2.93492 2.82925 2.73188 2.51308 2.56249 5.18854 3.89631 42 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02034 4.30090 5.02325 0.61958 0.77255 0.45912 0.99923\n- 6 3.06193 4.46849 4.46987 3.94630 1.87420 4.09667 3.05064 2.91486 3.80542 2.22580 2.55206 4.00057 4.44277 3.94440 3.92905 3.40147 3.28954 2.75312 4.22849 1.54565 43 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01838 4.40139 5.12374 0.61958 0.77255 0.54407 0.86841\n- 7 2.68585 4.21629 3.10356 2.54013 3.72949 3.51727 3.71068 3.51014 1.65022 2.80076 3.93464 2.76345'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43940 5.16175 0.61958 0.77255 0.48576 0.95510\n- 136 3.51785 4.88877 4.94870 4.56995 0.78120 4.48292 4.31096 2.76146 4.42109 2.19592 3.56951 4.51869 4.86214 4.49085 4.48654 3.90028 3.80202 2.32232 4.51014 2.89287 184 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43940 5.16175 0.61958 0.77255 0.48576 0.95510\n- 137 2.48286 5.04379 3.00446 2.34611 4.33577 3.48938 3.68313 3.77812 1.93915 3.32512 4.10572 2.98769 3.88403 2.18308 2.89575 2.45050 2.67523 2.76569 5.51296 4.14683 185 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43940 5.16175 0.61958 0.77255 0.48576 0.95510\n- 138 3.07008 4.43781 4.65756 3.17942 3.61849 4.33214 4.72791 1.16282 3.99183 2.09152 3.49757 4.33160 4.65388 4.24045 4.18399 3.65744 3.31221 1.50507 5.34823 4.15348 186 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43940 5.16175 0.61958 0.77255 0.48576 0.95510\n- 139 2.68432 4.27036 3.81934 2.82711 3.38760 3.72672 3.31096 1.78401 3.16502 2.22080 3.12246 3.57274 4.10040 3.43905 3.44665 2.99203 2.38002 2.35439 4.87465 3.66422 187 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43940 5.16175 0.61958 0.77255 0.48576 0.95510\n- 140 2.37080 4.05110 2.99152 2.15218 4.34726 3.08545 3.67047 3.79650 2.06738 3.12952 4.10954 2.97103 3.87076 2.63796 2.39925 2.52862 2.91398 3.41671 5.51860 3.71866 188 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43940 5.16175 0.61958 0.77255 0.48576 0.95510\n- 141 2.39914 4.07405 2.69783 2.04829 4.36481 3.22701 3.66592 3.27428 2.18386 3.35203 4.12095 2.96202 3.86536 2.61373 2.65695 2.66677 2.67098 3.17650 5.52962 4.14957 189 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01769 4.43940 5.16175 0.61958 0.77255 0.48576 0.95510\n- 142 3.07558 4.54296 4.40716 3.82100 3.32836 4.18826 4.45673 2.33034 2.90078 0.93857 2.84876 4.10253 4.49522 3.89696 3.80042 3.48939 3.30092 2.49527 5.11047 3.96897 190 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05749 4.43940 3.12202 0.61958 0.77255 0.48576 0.95510\n- 143 2.66415 4.49501 3.38452 2.63578 3.65129 3.59854 3.83939 2.70840 2.78973 2.32906 3.59387 3.26993 2.46803 3.11148 3.18069 2.33496 2.69057 2.77829 5.06277 3.12697 191 l - - -\n- 2.68641 4.42248 2.77501 2.73093 3.46377 2.40501 3.72517 3.29334 2.67739 2.69359 4.24713 2.90315 2.73751 3.18150 2.89764 2.37910 2.77530 2.98528 4.58500 3.61526\n- 0.37355 1.16566 * 1.13707 0.38678 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-10__PD-T4-10_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-10__PD-T4-10_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,995 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-10__PD-T4-10_B\n-LENG 324\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:33 2022\n-NSEQ 21\n-EFFN 2.284058\n-CKSUM 1051152301\n-GA 20 20;\n-STATS LOCAL MSV -11.3660 0.70068\n-STATS LOCAL VITERBI -12.1084 0.70068\n-STATS LOCAL FORWARD -5.1340 0.70068\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72083 4.61045 2.81587 2.62181 3.19388 3.12302 3.74992 2.79171 2.59854 2.41028 3.67300 2.92739 3.41900 3.06357 2.95669 2.57739 2.92613 2.75498 4.41894 3.16920\n- 2.68621 4.42228 2.77523 2.73127 3.46357 2.40516 3.72498 3.29357 2.67744 2.69358 4.24440 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61507\n- 0.17756 1.84990 5.21470 0.22876 1.58729 0.00000 *\n- 1 3.92581 5.36777 5.14128 4.88232 3.95081 4.59964 5.42488 3.23861 4.60799 2.47704 0.36881 5.03485 5.12521 4.95544 4.69548 4.32212 4.28167 3.33348 5.83800 4.66323 2 M - - -\n- 2.68618 4.42248 2.77518 2.73122 3.46278 2.40519 3.72518 3.29377 2.67764 2.69332 4.24713 2.90314 2.73763 3.18132 2.89795 2.37893 2.77492 2.98542 4.58500 3.61526\n- 0.21358 2.22493 2.47414 1.73536 0.19399 0.48576 0.95510\n- 2 2.76286 5.07658 3.10032 2.16894 4.35546 3.56521 3.75112 3.18845 1.79118 2.62336 4.13703 2.70406 3.95501 2.87745 2.46689 2.76607 2.99196 2.97951 5.54706 4.19084 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01449 4.63703 5.35938 0.61958 0.77255 0.64306 0.74587\n- 3 2.75768 5.24877 2.68682 2.45029 4.58914 3.52619 3.71345 4.06834 1.94177 3.54966 4.29234 2.69078 3.25720 2.35858 2.51131 2.72236 2.13156 3.63724 5.68196 4.27857 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01449 4.63703 5.35938 0.61958 0.77255 0.64306 0.74587\n- 4 3.58906 4.80622 5.60570 5.09102 3.77477 5.10270 5.64081 1.18402 4.99428 1.32155 3.53110 5.24701 5.28398 5.11343 5.08004 4.50476 3.83210 1.40096 5.87713 4.76474 17 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01449 4.63703 5.35938 0.61958 0.77255 0.64306 0.74587\n- 5 2.77062 5.23487 2.99293 2.05787 4.56487 3.53293 3.72895 3.47185 1.73460 3.53188 4.28382 2.17769 3.26720 2.83356 2.94484 2.48492 3.00218 3.61823 5.67569 4.27828 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01449 4.63703 5.35938 0.61958 0.77255 0.64306 0.74587\n- 6 3.20436 5.55769 2.63484 2.14201 5.10841 0.88221 4.20230 4.61781 3.18275 4.14487 4.99715 2.43685 4.20907 3.38208 3.70891 3.15505 3.54193 4.15956 6.30163 4.85795 19 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01449 4.63703 5.35938 0.61958 0.77255 0.64306 0.74587\n- 7 2.74219 3.37990 3.67775 2.73894 2.52579 3.73639 3.99514 2.51721 3.05667 2.63715 3.53345 3.49792'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40427 5.12661 0.61958 0.77255 0.89300 0.52666\n- 317 2.68260 4.94544 2.65380 2.21151 4.20287 2.47947 3.69663 2.98218 2.20226 3.21233 4.01369 3.00184 3.88461 2.83508 2.95451 2.69865 2.91511 2.55419 5.43714 4.08645 458 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40427 5.12661 0.61958 0.77255 0.89300 0.52666\n- 318 2.68228 5.08757 2.27250 2.40484 4.39244 2.95892 3.66204 3.07904 2.21903 3.37646 4.14291 2.94611 3.85947 2.35720 2.90361 2.41319 2.60714 3.45709 5.54765 4.16227 459 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40427 5.12661 0.61958 0.77255 0.89300 0.52666\n- 319 2.67779 4.90884 3.03714 2.26937 4.16655 3.49066 3.70500 2.90069 2.49462 3.18064 3.98742 3.01923 3.19584 2.48495 2.95845 1.96166 2.54384 3.25334 5.41323 4.07113 460 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40427 5.12661 0.61958 0.77255 0.89300 0.52666\n- 320 2.69949 4.82535 3.14136 2.09791 3.24000 3.53687 3.72994 3.45220 2.27798 2.11388 3.90065 3.08569 3.92441 2.69900 2.58106 2.75289 2.92774 3.14996 5.32942 4.01783 461 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40427 5.12661 0.61958 0.77255 0.89300 0.52666\n- 321 2.98547 4.37990 4.53777 3.97083 3.53666 4.20494 4.56866 1.34895 2.93308 2.05595 3.44035 4.19336 4.53737 4.08526 4.00712 3.52038 3.22484 1.48385 5.21655 4.02354 462 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40427 5.12661 0.61958 0.77255 0.72185 0.66524\n- 322 2.69029 4.85024 2.75108 2.33565 4.07779 3.52957 3.73729 2.95501 2.32003 2.40927 3.92479 3.07145 3.91953 2.89687 3.00703 2.17092 2.61174 2.93819 5.36141 4.03564 463 s - - -\n- 2.68607 4.42118 2.77564 2.73017 3.46217 2.40518 3.72539 3.29294 2.67725 2.69372 4.24734 2.90391 2.73752 3.18190 2.89845 2.37909 2.77502 2.98522 4.58521 3.61547\n- 0.27940 1.43450 5.19791 1.89385 0.16310 0.81350 0.58574\n- 323 2.77409 5.26023 2.45984 2.40064 4.59487 3.48083 3.71229 4.07370 2.46158 3.55944 4.31534 1.86978 3.90775 2.34747 2.32964 2.43899 3.00973 3.64802 5.69683 4.28927 476 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01706 4.47556 5.19791 0.61958 0.77255 0.32469 1.28283\n- 324 2.75877 5.01468 3.12420 2.15541 3.18101 3.57740 3.77816 3.69512 2.56415 2.79091 4.08078 2.49362 3.96841 2.48516 3.03419 2.10068 2.62279 3.35546 5.50565 3.47870 477 s - - -\n- 2.68590 4.42262 2.77544 2.73070 3.46391 2.40550 3.72532 3.29347 2.67750 2.69325 4.24666 2.90384 2.73648 3.18080 2.89807 2.37902 2.77557 2.98539 4.58514 3.61540\n- 0.50012 0.93257 * 1.12153 0.39420 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-1__PD-T4-1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-1__PD-T4-1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1139 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-1__PD-T4-1\n-LENG 372\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:32 2022\n-NSEQ 21\n-EFFN 1.048462\n-CKSUM 1082414217\n-GA 120 120;\n-STATS LOCAL MSV -11.3136 0.69971\n-STATS LOCAL VITERBI -12.2962 0.69971\n-STATS LOCAL FORWARD -5.8500 0.69971\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65300 4.55245 2.89873 2.55839 3.10634 2.99221 3.75739 2.87162 2.48209 2.49082 3.69460 2.96383 3.52204 3.04771 2.93397 2.62783 2.91677 2.80259 4.67984 3.16426\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05759 4.21594 3.18925 0.61958 0.77255 0.00000 *\n- 1 3.24347 4.74894 4.39906 4.02732 3.38491 4.07547 4.69113 2.59350 3.77569 1.94202 0.88835 4.26320 4.54727 4.14223 3.94233 3.61962 3.55992 2.63355 5.26013 4.04463 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11595 4.18131 2.36235 0.61958 0.77255 0.52865 0.89014\n- 2 2.72067 4.74089 3.23837 2.65414 3.97403 3.53617 3.67752 3.34803 1.97665 2.08719 3.82998 3.11668 3.24106 2.85928 2.32352 2.79729 2.93903 3.07199 5.22724 3.96553 2 k - - -\n- 2.68632 4.42178 2.77601 2.73165 3.46277 2.40586 3.72334 3.29109 2.67803 2.69302 4.24555 2.90301 2.73705 3.18175 2.89775 2.37956 2.77483 2.98555 4.58504 3.61518\n- 0.73861 0.83653 2.41901 2.78141 0.06395 0.62703 0.76395\n- 3 2.65383 5.02965 2.39890 2.27874 4.34945 3.32255 3.62431 3.80428 2.27570 3.34417 4.13454 2.18784 3.13306 2.75614 2.91722 2.63078 2.52815 3.41768 5.52826 4.13821 70 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11881 4.00619 2.36636 0.61958 0.77255 0.70376 0.68264\n- 4 2.35984 4.99206 1.90213 2.24260 4.36150 3.24907 3.66130 3.80633 2.31604 3.37172 4.18529 2.78803 3.77227 2.81219 3.01845 2.32951 2.93812 3.42058 5.57147 4.17792 71 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03000 3.91738 4.63972 0.61958 0.77255 0.37203 1.16904\n- 5 2.63660 4.66695 3.14179 2.35682 3.86867 3.49772 3.70345 2.38792 2.15249 2.64058 3.62250 2.66338 3.88540 2.89518 2.92900 2.72201 2.86592 2.95963 5.19547 3.90295 72 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02269 4.19306 4.91540 0.61958 0.77255 0.51447 0.91085\n- 6 3.47809 4.80142 4.99180 4.48070 3.16783 4.69578 5.01872 2.03132 4.26921 0.71461 2.99319 4.73779 4.89435 4.43619 4.38683 4.09508 3.71462 2.32251 5.28705 4.15683 73 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02269 4.19306 4.91540 0.61958 0.77255 0.51447 0.91085\n- 7 2.99231 5.18677 3.37916 2.74665 4.63198 3.66189 3.67435 3.99989 1.56552 3.46015 4.29791 3.18616 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02390 4.14144 4.86378 0.61958 0.77255 0.57416 0.82823\n- 365 3.12091 4.49352 4.70357 4.23042 3.53920 4.34493 4.92074 1.90212 4.07059 1.82944 3.40407 4.44457 4.71300 4.36820 4.26687 3.74754 3.40240 0.94496 5.46949 4.23135 508 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02390 4.14144 4.86378 0.61958 0.77255 0.57416 0.82823\n- 366 2.70800 5.12544 2.33599 2.31765 4.46112 3.37131 3.65293 3.92888 2.42059 3.44226 4.22285 2.12111 3.82891 2.77695 2.17821 2.43249 2.95326 3.52495 5.59941 4.20443 509 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02390 4.14144 4.86378 0.61958 0.77255 0.57416 0.82823\n- 367 3.16302 4.51575 4.77631 4.20894 1.72247 4.35885 4.56162 1.99224 4.07104 1.60439 2.06299 4.38401 4.60455 4.17226 4.16980 3.68709 3.38655 2.35276 4.90974 3.67400 510 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02390 4.14144 4.86378 0.61958 0.77255 0.57416 0.82823\n- 368 2.73927 5.23346 1.89310 2.14540 4.55811 3.36767 3.64629 4.03789 2.13056 3.52323 4.29421 2.48596 3.82981 2.76436 2.52347 2.68539 2.97958 3.61611 5.66279 4.24754 511 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02390 4.14144 4.86378 0.61958 0.77255 0.57416 0.82823\n- 369 2.69431 4.13222 4.25016 3.66457 2.56521 3.81806 4.09094 2.43545 3.52563 1.59590 3.11482 3.83169 4.16973 3.71763 3.66893 3.11509 2.54430 2.07368 3.53993 3.43518 512 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02390 4.14144 4.86378 0.61958 0.77255 0.57416 0.82823\n- 370 2.83242 5.21603 2.70520 1.69322 4.56769 3.42376 3.68418 4.00873 1.67190 3.50936 4.31699 2.91251 3.89521 2.81631 2.74192 2.55020 3.06926 3.62136 5.64399 4.28539 513 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20845 4.14144 1.75874 0.61958 0.77255 0.57416 0.82823\n- 371 2.93979 5.49822 1.45308 1.52600 4.78357 3.20882 3.75759 4.29848 2.77802 3.80741 4.66613 2.67533 3.83266 2.92620 3.37215 2.82335 3.22956 3.87656 5.95980 4.45980 514 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08373 3.96166 2.79221 0.61958 0.77255 0.73966 0.64870\n- 372 1.98583 4.30644 3.35126 2.86021 3.66328 3.31241 3.87059 2.91334 2.79844 2.64353 2.80619 3.22809 2.63559 3.14409 3.15171 2.64407 2.77913 2.66062 5.10917 3.86399 515 a - - -\n- 2.68591 4.42228 2.77522 2.73110 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24693 2.90350 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.27931 1.41184 * 0.25343 1.49672 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-2__PD-T4-2_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-2__PD-T4-2_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1118 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-2__PD-T4-2_A\n-LENG 365\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:33 2022\n-NSEQ 21\n-EFFN 0.776733\n-CKSUM 3523063153\n-GA 150 150;\n-STATS LOCAL MSV -11.4125 0.69982\n-STATS LOCAL VITERBI -12.3087 0.69982\n-STATS LOCAL FORWARD -5.7702 0.69982\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69124 4.26856 2.86214 2.60267 3.18590 3.13574 3.77500 2.72956 2.60037 2.38805 3.61112 2.93413 3.50457 3.00650 2.85046 2.66293 2.90438 2.71872 4.73974 3.46852\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06163 4.06015 3.15760 0.61958 0.77255 0.00000 *\n- 1 3.09548 4.62149 4.21656 3.82399 3.28320 3.94970 4.52382 2.47444 3.58295 1.85697 1.11260 4.08186 4.41328 3.95601 3.76982 3.45943 3.40491 2.49779 5.14299 3.91705 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20455 4.02540 1.78897 0.61958 0.77255 0.52270 0.89874\n- 2 2.26694 4.50588 3.03345 2.55587 3.80428 3.33548 3.68433 2.78620 2.40566 2.84700 3.70531 2.64778 3.79105 2.89432 2.92276 2.35846 2.78523 2.87420 5.14584 3.86193 2 a - - -\n- 2.68620 4.42234 2.77529 2.73110 3.46347 2.40515 3.72504 3.29363 2.67750 2.69341 4.24699 2.90337 2.73749 3.18119 2.89810 2.37896 2.77512 2.98527 4.58486 3.61469\n- 0.37387 1.53114 2.34715 1.08150 0.41413 0.38418 1.14260\n- 3 2.47212 4.16721 3.70301 3.13415 3.31480 3.61711 3.92019 2.18324 3.05566 2.26259 3.05323 3.21236 3.99892 3.33798 3.34612 2.71824 2.68384 1.97503 4.81391 3.59984 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10415 3.98827 2.52105 0.61958 0.77255 0.55940 0.84759\n- 4 2.73560 5.18599 2.02574 1.96297 4.49620 3.24222 3.64958 3.97213 2.54004 3.49689 4.30431 2.15340 3.77611 2.79440 3.07066 2.48533 2.75398 3.57012 5.67546 4.24128 10 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03010 3.91422 4.63656 0.61958 0.77255 0.62517 0.76609\n- 5 2.56738 4.58230 3.01998 2.41032 3.77481 3.18837 3.64595 3.17296 2.49064 2.67488 3.67687 2.85620 3.81481 2.70074 2.91043 2.54027 2.68177 2.89531 5.11491 2.89136 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03010 3.91422 4.63656 0.61958 0.77255 0.62517 0.76609\n- 6 2.62159 4.29786 3.24184 2.78644 3.42662 3.61785 3.89436 2.08437 2.90820 2.02430 3.36511 3.36615 3.99709 3.22496 3.25049 2.88371 2.85768 2.19591 4.94214 3.70679 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03010 3.91422 4.63656 0.61958 0.77255 0.57065 0.83277\n- 7 2.54848 4.48838 3.15256 2.40084 3.71688 3.42415 3.70870 2.85322 2.58209 2.63130 3.62493 3.0833'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02596 4.06015 4.78250 0.61958 0.77255 0.48576 0.95510\n- 358 2.32123 4.66225 3.07778 2.51934 3.88529 3.43992 3.65491 3.07120 2.21872 2.91651 3.75501 3.01558 3.83294 2.68393 2.76606 2.55366 2.40601 2.83139 5.19370 3.89222 391 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02596 4.06015 4.78250 0.61958 0.77255 0.48576 0.95510\n- 359 1.40773 4.18753 3.49580 3.21246 4.31424 2.97358 4.27092 3.67635 3.25812 3.41447 4.25857 3.35034 3.72668 3.55005 3.56122 1.42004 2.74162 3.15170 5.67338 4.45672 392 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02596 4.06015 4.78250 0.61958 0.77255 0.48576 0.95510\n- 360 2.70479 4.38675 3.12774 2.78163 3.53283 3.66091 3.96930 1.57308 2.96623 2.36203 3.47766 3.39704 4.06362 3.29291 3.30902 2.96355 2.94693 2.30355 5.05254 3.80299 393 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02596 4.06015 4.78250 0.61958 0.77255 0.48576 0.95510\n- 361 2.77231 5.16962 2.82543 1.85703 4.52323 3.43423 3.60793 3.96161 1.83105 3.43971 4.23130 2.74210 3.85836 2.43806 2.45898 2.73397 2.99274 3.57027 5.55704 4.21511 394 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02596 4.06015 4.78250 0.61958 0.77255 0.48576 0.95510\n- 362 2.51973 3.63415 4.14868 3.59921 3.39175 3.76508 4.24520 1.42973 3.47676 2.20341 3.34082 3.81374 4.18937 3.74046 3.69208 2.82380 2.94801 1.99990 4.98435 3.78018 395 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02596 4.06015 4.78250 0.61958 0.77255 0.48576 0.95510\n- 363 3.50659 4.85450 4.49656 4.25018 0.74820 4.14516 3.97420 3.01118 4.15346 2.33955 3.71573 4.23549 4.60217 4.27049 4.22661 3.76443 3.80916 3.01507 4.17414 2.52031 396 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02596 4.06015 4.78250 0.61958 0.77255 0.48576 0.95510\n- 364 2.56016 4.67551 2.94466 2.55453 4.21187 2.42799 3.77383 3.64169 2.55322 3.24220 4.06601 3.01740 3.81124 2.75725 2.72443 1.70487 2.87690 3.25606 5.45948 4.14901 397 s - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69356 4.24690 2.90347 2.73740 3.18147 2.89801 2.37883 2.77514 2.98519 4.58478 3.61504\n- 0.27458 3.16909 1.61913 0.63510 0.75477 0.48576 0.95510\n- 365 2.55424 4.59779 3.02819 2.53327 3.87528 3.04926 3.64671 3.31584 2.40065 2.94537 3.79399 3.00051 3.79471 2.84007 2.33735 2.17024 2.81562 3.00774 5.17628 3.44899 400 s - - -\n- 2.68632 4.42239 2.77493 2.73137 3.46368 2.40498 3.72508 3.29368 2.67754 2.69360 4.24703 2.90313 2.73753 3.18160 2.89814 2.37888 2.77501 2.98521 4.58491 3.61442\n- 0.41859 1.07287 * 1.08037 0.41471 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-2__PD-T4-2_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-2__PD-T4-2_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,524 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-2__PD-T4-2_B\n-LENG 167\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:33 2022\n-NSEQ 20\n-EFFN 1.401367\n-CKSUM 3885818311\n-GA 20 20;\n-STATS LOCAL MSV -10.1993 0.70779\n-STATS LOCAL VITERBI -11.0494 0.70779\n-STATS LOCAL FORWARD -4.6228 0.70779\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59128 4.35412 3.01091 2.59285 3.32743 3.17725 3.60535 2.64219 2.56523 2.32887 3.56529 3.00977 3.71490 3.08353 2.98907 2.64428 2.82348 2.74305 4.55189 3.36864\n- 2.68603 4.42178 2.77531 2.73134 3.46365 2.40524 3.72506 3.29365 2.67752 2.69342 4.24511 2.90358 2.73751 3.18136 2.89795 2.37898 2.77516 2.98512 4.58488 3.61481\n- 0.18656 2.00973 3.31951 1.20596 0.35582 0.00000 *\n- 1 2.74203 4.38527 4.01989 3.54355 3.55708 2.98186 4.30153 2.71349 3.40068 2.41546 1.22837 3.77355 4.19148 3.72085 3.64017 3.04512 3.06497 2.36556 5.16097 3.94850 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07501 4.35706 2.82262 0.61958 0.77255 0.53080 0.88706\n- 2 3.24587 4.52219 5.10416 4.57499 2.89461 4.63604 5.08713 1.05239 4.46669 2.06894 3.37637 4.73335 4.89306 4.63571 4.59008 4.00493 3.49168 1.43296 5.47117 4.27416 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02031 4.30237 5.02471 0.61958 0.77255 0.60352 0.79161\n- 3 2.21993 4.81262 2.63257 2.50448 4.08185 3.45691 3.69795 3.13943 2.50636 3.10463 3.92024 2.69459 3.86399 2.85261 2.96757 2.34569 2.31597 2.95363 5.35347 4.02242 10 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02031 4.30237 5.02471 0.61958 0.77255 0.60352 0.79161\n- 4 2.72353 4.95601 3.04326 2.51531 4.22358 3.50054 3.69052 3.65862 1.56518 3.23108 4.04306 2.72906 3.90364 2.83385 2.79675 2.59929 2.71054 3.32065 5.42655 2.98499 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02031 4.30237 5.02471 0.61958 0.77255 0.53132 0.88632\n- 5 2.64568 4.75670 2.88105 2.55147 3.98099 3.21904 3.71453 3.09714 2.39460 3.01350 3.48772 3.05753 3.88786 2.88624 2.99128 1.87812 2.49286 2.91265 5.28553 3.97100 12 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01966 4.33466 5.05701 0.61958 0.77255 0.56171 0.84451\n- 6 2.71161 5.08122 2.37300 2.39345 4.34464 3.44702 3.36751 3.81691 2.28698 3.35929 4.14407 2.39993 3.86959 2.80873 2.94856 2.52825 2.94721 3.44113 5.53496 2.33493 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01966 4.33466 5.05701 0.61958 0.77255 0.44104 1.03105\n- 7 3.43463 4.67658 5.33105 4.81185 3.59921 4.89501 5.39967 0.95074 4.70102 1.56341 3.36807 5.00211 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01864 4.38766 5.11001 0.61958 0.77255 0.48576 0.95510\n- 160 2.74331 5.20248 2.06825 1.73079 4.51201 3.44708 3.69261 3.98789 2.46945 3.49363 4.25867 2.92056 3.87940 2.80716 2.67563 2.52080 2.98060 3.57739 5.64784 3.10714 179 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01864 4.38766 5.11001 0.61958 0.77255 0.48576 0.95510\n- 161 2.23597 5.14115 2.73041 2.38100 4.46619 3.45019 3.37721 3.93698 2.25845 3.43678 4.18956 2.35672 3.84954 2.61746 2.55592 2.19339 2.91434 3.52151 5.58496 4.18773 180 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01864 4.38766 5.11001 0.61958 0.77255 0.48576 0.95510\n- 162 2.50894 3.66039 3.23029 1.64064 3.28538 3.54789 3.78120 3.20779 2.66245 2.87603 3.73330 3.16004 3.94052 2.99750 3.08833 2.57741 2.89913 2.93914 5.18095 3.40843 181 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01864 4.38766 5.11001 0.61958 0.77255 0.48576 0.95510\n- 163 3.43319 4.70456 5.29260 4.72444 2.80542 4.77259 5.11625 1.53810 4.59335 1.00767 3.09827 4.88361 4.94902 4.62681 4.63329 4.13120 3.65654 1.96571 5.35234 4.27820 182 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01864 4.38766 5.11001 0.61958 0.77255 0.48576 0.95510\n- 164 2.68559 3.97142 3.22149 2.65320 3.90211 3.55578 3.75815 2.99500 2.27765 2.67280 3.78765 3.14057 3.94020 2.33923 2.22140 2.77569 2.91434 2.55788 5.23211 3.94358 183 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01864 4.38766 5.11001 0.61958 0.77255 0.48576 0.95510\n- 165 2.66713 4.86917 3.06722 2.50813 4.10904 3.23018 3.69780 3.13827 2.20165 2.88809 3.59084 2.58417 3.88631 2.84726 2.43255 2.26108 2.89793 3.20209 5.36957 3.49304 184 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10025 4.38766 2.48936 0.61958 0.77255 0.48576 0.95510\n- 166 2.64756 4.59490 3.24437 2.67953 3.77248 3.54170 2.99477 3.15675 2.46196 2.18013 3.68458 2.84120 3.92599 2.97992 2.67666 2.53417 2.87777 2.65272 3.97806 3.85969 185 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14019 4.30761 2.14269 0.61958 0.77255 0.59694 0.79961\n- 167 2.62421 4.78957 2.76219 2.48267 4.02297 3.45592 3.65751 2.55437 2.01493 3.04226 3.57609 2.99571 3.22439 2.81491 2.72517 2.66724 2.85465 3.11516 5.29532 3.97151 186 k - - -\n- 2.68553 4.42106 2.77567 2.73128 3.46321 2.40554 3.72496 3.29277 2.67785 2.69340 4.24637 2.90338 2.73721 3.18155 2.89799 2.37945 2.77521 2.98462 4.58508 3.61494\n- 0.41770 1.07458 * 2.39679 0.09542 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-3__PD-T4-3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-3__PD-T4-3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,791 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-3__PD-T4-3\n-LENG 256\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:33 2022\n-NSEQ 18\n-EFFN 1.366699\n-CKSUM 1133819830\n-GA 150 150;\n-STATS LOCAL MSV -10.9337 0.70269\n-STATS LOCAL VITERBI -11.8250 0.70269\n-STATS LOCAL FORWARD -5.1975 0.70269\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51184 4.57988 2.90361 2.60385 3.41967 2.82683 3.65269 2.76865 2.63863 2.54119 3.70450 3.05543 3.55229 3.09435 2.82438 2.74417 2.88289 2.61827 4.34818 3.27459\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10747 4.37204 2.41607 0.61958 0.77255 0.00000 *\n- 1 3.35421 4.84688 4.52902 4.17445 3.46749 4.16545 4.81417 2.68874 3.91584 2.01540 0.75979 4.39476 4.64499 4.27871 4.06824 3.73698 3.67662 2.73974 5.35065 4.14186 1 m - - -\n- 2.68480 4.42386 2.77456 2.73222 3.46272 2.40585 3.72589 3.29257 2.67855 2.69256 4.24850 2.90398 2.73802 3.18091 2.89748 2.37884 2.77527 2.98434 4.58326 3.61604\n- 0.53278 1.07696 2.62553 2.99938 0.05110 0.60365 0.79145\n- 2 2.68058 5.09283 2.09768 1.93770 4.40005 2.94069 3.64812 3.85934 2.43436 3.38754 4.16253 2.88137 3.82835 2.76852 2.82661 2.65461 2.66832 2.98566 5.56155 4.16663 92 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21727 4.93961 0.61958 0.77255 0.68115 0.70529\n- 3 3.18295 4.47672 4.95707 4.43037 3.60472 4.56636 5.07024 1.05892 4.31904 1.89134 3.40564 4.63374 4.84148 4.54587 4.48951 3.93385 3.18400 1.49976 5.54539 4.37188 93 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02214 4.21727 4.93961 0.61958 0.77255 0.68115 0.70529\n- 4 2.42060 4.90209 2.96291 2.42784 4.16215 3.43810 3.08458 3.59313 2.22310 3.17183 3.97254 2.29969 3.83609 2.78153 2.87647 2.43556 2.77275 3.24974 5.38856 3.21181 94 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09969 4.21727 2.52390 0.61958 0.77255 0.68115 0.70529\n- 5 2.74629 5.14735 2.79641 1.80893 4.47861 3.42431 3.63582 3.92489 1.97235 3.42672 4.21366 2.90470 3.85566 2.30558 2.72790 2.71303 2.61049 3.53415 5.56999 4.20577 95 e - - -\n- 2.68595 4.42243 2.77499 2.73117 3.46372 2.40531 3.72513 3.29372 2.67759 2.69355 4.24708 2.90365 2.73690 3.18165 2.89761 2.37905 2.77512 2.98513 4.58495 3.61521\n- 0.22945 1.73375 3.56108 1.58766 0.22866 0.49309 0.94349\n- 6 3.37714 4.69690 4.74046 4.29293 1.03608 4.36743 3.86774 2.34074 4.13401 2.31450 3.55871 4.21528 4.67172 4.18168 4.19600 3.70296 3.60180 2.83672 4.07166 2.08513 103 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08477 4.26716 2.69926 0.61958 0.77255 0.62538 0.76584\n- 7 2.60998 4.80336 2.47502 2.50276 4.35168 3.30074 3.81411 3.78907 2.66520 3.37921 4.18560 2.99663 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27884 5.00119 0.61958 0.77255 0.61143 0.78214\n- 249 2.65205 4.82097 2.95985 2.52726 4.15667 2.48338 3.76713 3.62116 2.59762 3.22329 4.04244 2.19555 3.87769 2.93350 3.05346 1.97234 2.92692 3.26908 5.43617 3.18406 402 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27884 5.00119 0.61958 0.77255 0.61143 0.78214\n- 250 2.30469 4.45596 3.53598 3.06188 3.64191 3.47190 3.99285 3.18086 2.96241 2.85430 3.77576 3.40704 1.49192 3.32771 3.28731 2.82277 2.95655 2.91127 3.14495 3.77308 403 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27884 5.00119 0.61958 0.77255 0.61143 0.78214\n- 251 2.80244 4.22681 4.38113 3.81530 2.87559 3.07904 4.33873 1.82733 3.69402 2.27730 3.32350 3.99836 4.33151 3.91258 3.86212 3.27885 3.04761 1.33724 4.96598 3.76075 404 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09022 4.27884 2.62536 0.61958 0.77255 0.61143 0.78214\n- 252 2.19027 4.75364 3.09170 2.53503 4.02286 3.45522 3.68837 3.42289 2.34920 3.04372 3.87041 3.03406 3.09469 2.85272 2.27999 2.68140 2.56253 2.79285 5.29942 3.98759 405 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02228 4.21090 4.93325 0.61958 0.77255 0.68785 0.69847\n- 253 2.74397 4.50727 3.48872 2.93789 3.21972 3.65884 2.93917 2.60139 2.49162 2.69357 3.60940 3.33871 4.03793 3.16644 3.10123 2.91941 2.97121 2.80068 4.72236 1.85973 406 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02228 4.21090 4.93325 0.61958 0.77255 0.68785 0.69847\n- 254 2.35247 4.29699 3.57217 3.00452 3.44385 3.60710 3.88654 2.47446 2.93525 2.23130 3.41157 3.38672 3.99361 3.24183 2.82529 2.32264 2.85236 2.14284 4.90648 3.67973 407 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02228 4.21090 4.93325 0.61958 0.77255 0.68785 0.69847\n- 255 2.32546 4.81463 3.00129 2.48681 4.21703 2.62182 3.70283 3.64810 2.48691 3.22944 4.02758 2.62567 2.73953 2.84535 2.61819 2.62793 2.48084 3.27515 5.44464 4.10370 408 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02228 4.21090 4.93325 0.61958 0.77255 0.68785 0.69847\n- 256 2.61480 3.10492 2.66261 2.46257 4.07856 3.03918 3.66550 3.49671 2.46954 3.09937 3.91162 2.62564 3.83692 2.49137 2.93298 2.42881 2.85429 2.84933 5.34162 4.00592 409 s - - -\n- 2.68568 4.42266 2.77526 2.73118 3.46278 2.40518 3.72490 3.29395 2.67764 2.69372 4.24705 2.90381 2.73713 3.18187 2.89735 2.37885 2.77543 2.98502 4.58518 3.61544\n- 0.45073 1.01380 * 1.69828 0.20211 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-4__PD-T4-4_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-4__PD-T4-4_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1400 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-4__PD-T4-4_A\n-LENG 459\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:34 2022\n-NSEQ 21\n-EFFN 0.889526\n-CKSUM 2126789821\n-GA 75 75;\n-STATS LOCAL MSV -11.6638 0.69847\n-STATS LOCAL VITERBI -12.5271 0.69847\n-STATS LOCAL FORWARD -5.7024 0.69847\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58202 4.42625 2.94055 2.63421 3.21381 3.04003 3.77879 2.67463 2.64505 2.34578 3.55940 3.01409 3.60791 3.10258 2.97426 2.69336 2.83223 2.60811 4.91719 3.41087\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24607 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.12732 2.41553 3.49913 0.39460 1.12070 0.00000 *\n- 1 3.18196 4.60674 4.56616 4.04354 3.19832 4.30733 4.68400 2.03364 3.83870 1.64928 1.31396 4.31240 4.61214 4.09849 4.01898 3.67315 3.43456 2.25727 5.18027 4.02204 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02477 4.10639 4.82873 0.61958 0.77255 0.51042 0.91691\n- 2 2.87337 5.13912 3.17534 2.58785 4.51385 3.57033 2.97903 3.91071 1.40105 3.38731 4.20644 3.06453 3.94869 2.45821 2.25838 2.85798 2.90229 3.55800 5.48507 4.22187 3 k - - -\n- 2.68610 4.42229 2.77524 2.73128 3.46358 2.40513 3.72499 3.29336 2.67739 2.69353 4.24694 2.90336 2.73744 3.18151 2.89805 2.37887 2.77517 2.98523 4.58481 3.61507\n- 0.07493 3.19611 3.46506 1.32971 0.30728 0.51042 0.91691\n- 3 3.22819 4.56591 4.76952 4.23568 1.53150 4.40895 4.44673 1.90556 4.09782 1.50613 3.03598 4.38720 4.65205 4.20099 4.20580 3.74840 3.45474 2.29887 4.73640 3.33491 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02537 4.08284 4.80518 0.61958 0.77255 0.53628 0.87929\n- 4 2.46152 4.03688 2.95294 2.19588 4.12483 3.40801 3.41984 3.55211 2.13491 3.12986 3.92863 2.92185 3.79885 2.51737 2.73262 2.52965 2.65278 3.20853 5.34742 3.72879 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02537 4.08284 4.80518 0.61958 0.77255 0.53628 0.87929\n- 5 2.81672 4.25609 4.27754 3.72337 1.86933 3.53673 4.15630 1.85184 3.59372 1.93697 3.18149 3.91389 4.28220 3.80165 3.76448 3.24291 3.05573 2.21265 4.69088 3.35618 17 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02537 4.08284 4.80518 0.61958 0.77255 0.53628 0.87929\n- 6 2.58298 5.17153 2.64826 1.56158 4.51281 3.38947 3.67892 3.93632 1.90205 3.46530 4.28279 2.88488 3.87290 2.81693 2.78284 2.77078 3.05079 3.56042 5.62308 4.26038 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02537 4.08284 4.80518 0.61958 0.77255 0.53628 0.87929\n- 7 2.85838 5.02954 2.61589 2.47383 4.41735 3.32629 3.86464 3.98098 2.48200 3.56925 4.45582 1.17413 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06120 4.78355 0.61958 0.77255 0.51359 0.91216\n- 452 2.61830 4.85281 2.81232 2.12437 4.15910 2.76959 3.65683 3.58798 2.46953 3.17673 3.98821 2.78734 3.80677 2.80737 2.93638 2.03285 2.70330 3.24025 5.40327 3.72105 489 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06120 4.78355 0.61958 0.77255 0.51359 0.91216\n- 453 2.23361 5.30535 1.95413 1.65826 4.61467 3.28821 3.70697 4.10016 2.60969 3.61157 4.41637 2.52184 3.83106 2.84985 3.15354 2.73854 3.07520 3.68568 5.78036 4.32914 490 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06120 4.78355 0.61958 0.77255 0.51359 0.91216\n- 454 3.27852 4.59038 4.88331 4.35820 3.23858 4.57127 4.94449 1.37664 4.19285 1.17829 3.05529 4.60367 4.79378 4.38002 4.33596 3.94770 3.51749 1.97254 5.29698 4.15593 491 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06120 4.78355 0.61958 0.77255 0.51359 0.91216\n- 455 2.81642 4.24139 4.30715 3.73816 2.52643 3.93739 4.09581 2.28866 3.61073 1.63436 3.11657 3.91039 4.26802 3.78835 3.76295 3.23805 3.04560 2.01149 4.58592 2.36516 492 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06120 4.78355 0.61958 0.77255 0.51359 0.91216\n- 456 3.06376 3.43806 4.36801 3.88865 1.72191 4.03463 3.67702 2.87571 3.74882 2.45632 3.54622 3.89813 4.38773 3.86789 3.87192 3.35674 3.29980 2.72989 3.94997 1.42237 493 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06120 4.78355 0.61958 0.77255 0.51359 0.91216\n- 457 2.42266 4.44676 2.91770 2.76050 4.44036 1.29347 4.08390 3.92779 3.03314 3.56116 4.38965 2.64373 3.76964 3.31451 3.41753 2.28029 2.87451 3.39052 5.73882 4.44334 494 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06120 4.78355 0.61958 0.77255 0.51359 0.91216\n- 458 2.38480 4.61653 3.06449 2.24761 3.85330 2.38427 3.69761 3.21258 2.54031 2.67237 3.31463 3.04073 3.84474 2.89311 2.96562 2.67687 2.83361 2.93022 5.19093 3.89494 495 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18847 4.06120 1.86726 0.61958 0.77255 0.51359 0.91216\n- 459 2.86342 5.42043 1.75700 1.53741 4.70440 3.19183 3.69776 4.21680 2.67892 3.71615 4.55208 2.35456 3.79284 2.85730 3.25652 2.75718 3.14352 3.79331 5.87757 4.38376 496 e - - -\n- 2.68614 4.42232 2.77516 2.73130 3.46318 2.40520 3.72501 3.29343 2.67748 2.69337 4.24697 2.90341 2.73747 3.18153 2.89808 2.37879 2.77526 2.98525 4.58484 3.61510\n- 0.28621 1.39074 * 0.76151 0.62916 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-4__PD-T4-4_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-4__PD-T4-4_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,596 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-4__PD-T4-4_B\n-LENG 191\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:34 2022\n-NSEQ 21\n-EFFN 1.094604\n-CKSUM 1587368890\n-GA 25 25;\n-STATS LOCAL MSV -10.1957 0.70592\n-STATS LOCAL VITERBI -11.2034 0.70592\n-STATS LOCAL FORWARD -4.9300 0.70592\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61275 3.96887 2.91922 2.65121 3.17481 3.04941 3.65747 2.81031 2.55898 2.37914 3.58370 3.08283 3.52778 3.02782 2.98990 2.61156 2.89636 2.69817 4.98114 3.39565\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11946 4.20047 2.32671 0.61958 0.77255 0.00000 *\n- 1 3.16916 4.68433 4.30888 3.92628 3.33242 4.01328 4.60756 2.53238 3.67983 1.89713 0.99192 4.17304 4.48054 4.04933 3.85645 3.53974 3.48191 2.56440 5.20065 3.98022 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14986 4.10578 2.09806 0.61958 0.77255 0.59418 0.80300\n- 2 1.56178 4.22251 3.32183 2.96994 4.19876 2.99711 4.07303 3.59567 3.01235 3.27867 4.10878 3.21807 2.70448 3.31738 3.36478 1.77775 2.70987 3.10938 5.53521 4.29814 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02804 3.98396 4.70631 0.61958 0.77255 0.39060 1.12903\n- 3 3.48355 4.81170 4.99563 4.44773 3.11157 4.69949 4.98264 2.29316 4.24585 0.75397 2.22958 4.71901 4.86470 4.37617 4.35465 4.07206 3.70539 2.47075 5.24287 4.17535 3 l - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29331 2.67741 2.69356 4.24690 2.90347 2.73740 3.18147 2.89801 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.07436 2.74456 4.90822 0.43420 1.04350 0.50396 0.92668\n- 4 2.59484 4.81114 2.71219 2.46240 4.16874 3.37868 3.69008 3.59502 2.49526 3.18673 3.99052 2.74290 3.13784 2.83675 2.96189 2.02600 2.34017 2.92754 5.41360 4.07087 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18587 4.90822 0.61958 0.77255 0.50396 0.92668\n- 5 2.15182 5.10678 2.49128 1.95696 4.42490 3.37460 3.66203 3.88786 2.46686 3.41552 4.19513 2.63055 2.75689 2.78689 2.96700 2.66565 2.79821 3.49048 5.59075 4.19068 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18587 4.90822 0.61958 0.77255 0.50396 0.92668\n- 6 2.52386 5.27966 2.27282 1.59485 4.59269 2.51198 3.70575 4.07534 2.35611 3.57847 4.36399 2.82614 3.85653 2.83575 3.07265 2.73204 3.04392 3.65922 5.73829 4.30520 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02285 4.18587 4.90822 0.61958 0.77255 0.50396 0.92668\n- 7 3.41363 4.71196 5.10545 4.52396 2.68210 4.68464 4.94846 2.06276 4.39613 0.87987 2.21874 4.74194 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24014 4.96248 0.61958 0.77255 0.48576 0.95510\n- 184 3.32035 4.61302 5.05795 4.51427 3.37063 4.66472 5.07755 1.84981 4.38742 1.06315 3.15995 4.73005 4.88135 4.52897 4.51178 4.02976 3.55784 1.48365 5.41714 4.31265 219 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24014 4.96248 0.61958 0.77255 0.48576 0.95510\n- 185 2.66933 4.54946 3.31299 2.75821 3.62155 3.56352 3.76678 2.84717 2.64117 2.77452 3.65242 2.92550 3.46436 3.03034 2.55342 2.80878 2.90070 2.85082 5.02599 2.01107 220 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24014 4.96248 0.61958 0.77255 0.48576 0.95510\n- 186 3.01425 3.40915 4.74233 4.16055 2.21812 4.20887 4.49288 2.14616 4.00773 1.14977 3.05616 4.28520 4.50207 4.12706 4.08768 3.53119 3.24369 2.28279 4.90972 3.71510 221 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24014 4.96248 0.61958 0.77255 0.48576 0.95510\n- 187 2.64709 4.91682 2.99921 2.44435 3.65758 3.04773 3.41088 3.61659 1.80256 3.18917 3.98779 2.96753 3.84484 2.77946 2.66162 2.36571 2.67411 3.27015 5.39976 4.05450 222 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24014 4.96248 0.61958 0.77255 0.48576 0.95510\n- 188 2.43624 5.26495 2.39776 1.50241 4.57884 3.38159 3.71012 4.05849 2.53982 3.56333 4.34471 2.85359 3.86824 2.47110 3.05421 2.44875 3.03617 3.64446 5.72300 4.29708 223 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24014 4.96248 0.61958 0.77255 0.48576 0.95510\n- 189 3.38035 4.67171 5.12743 4.56190 2.12820 4.65453 4.87251 1.67114 4.42304 1.06291 2.97635 4.72347 4.83282 4.45239 4.46996 4.00461 3.59876 2.34137 5.10349 3.92485 224 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02163 4.24014 4.96248 0.61958 0.77255 0.48576 0.95510\n- 190 3.26185 4.61086 4.64970 4.16040 2.00326 4.29524 3.94966 2.74467 4.00882 1.19774 3.34201 4.17365 4.58889 4.08972 4.09768 3.62116 3.48400 2.74155 4.19184 1.94366 225 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12526 4.20047 2.27553 0.61958 0.77255 0.48576 0.95510\n- 191 1.95419 4.64735 3.06080 2.44385 3.91283 3.18217 3.69051 3.30915 2.52453 2.94965 3.48895 3.02603 3.83371 2.66556 2.96031 2.47961 2.53487 3.00709 5.22855 3.92511 226 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.09205 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-5__PD-T4-5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-5__PD-T4-5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,932 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-5__PD-T4-5\n-LENG 303\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:34 2022\n-NSEQ 21\n-EFFN 1.889282\n-CKSUM 3617934796\n-GA 120 120;\n-STATS LOCAL MSV -11.1591 0.70120\n-STATS LOCAL VITERBI -11.9735 0.70120\n-STATS LOCAL FORWARD -5.1866 0.70120\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57188 4.44382 3.08123 2.62238 3.34410 3.25219 3.50950 2.75862 2.55895 2.48170 3.68018 2.92024 3.49096 3.01457 2.83001 2.61953 2.81757 2.73307 3.87931 3.53692\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01527 4.58500 5.30734 0.61958 0.77255 0.00000 *\n- 1 3.73003 5.18774 4.94068 4.64861 3.77640 4.45510 5.22003 3.04086 4.37546 2.30622 0.46744 4.82189 4.96464 4.72814 4.48388 4.12474 4.07430 3.12260 5.66851 4.48138 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15658 4.58500 2.00446 0.61958 0.77255 0.48576 0.95510\n- 2 2.53441 5.04979 2.80025 2.33596 4.33949 3.48426 3.68246 3.78526 2.29820 3.06248 4.10923 2.97990 2.27805 2.80290 2.66889 2.68745 2.32859 3.41091 5.51884 4.14765 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01757 4.44599 5.16834 0.61958 0.77255 0.70220 0.68417\n- 3 2.68738 5.11548 2.96931 2.41245 4.42992 3.14741 3.13552 3.89256 1.99823 3.40614 4.16496 2.56639 3.45267 2.47199 2.57513 2.66575 2.76286 3.06875 5.56554 3.50719 3 k - - -\n- 2.68605 4.42229 2.77524 2.73128 3.46321 2.40517 3.72499 3.29327 2.67745 2.69344 4.24694 2.90351 2.73744 3.18151 2.89805 2.37891 2.77524 2.98523 4.58481 3.61507\n- 0.26335 2.25368 2.06739 0.68210 0.70431 0.59333 0.80405\n- 4 2.62270 4.56202 3.30379 2.75861 3.32500 3.49736 3.83894 3.21217 2.73885 2.88834 3.74720 2.90206 3.41124 3.06805 3.15208 1.98611 1.98745 2.68395 5.20375 3.92972 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01906 4.36570 5.08805 0.61958 0.77255 0.79813 0.59814\n- 5 2.46587 4.24782 3.30172 3.18690 2.99931 3.68458 3.96177 2.39516 3.11636 2.07529 3.35821 3.52209 3.50657 3.38880 3.40628 2.68992 2.48277 2.11312 4.84877 3.63622 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01906 4.36570 5.08805 0.61958 0.77255 0.79813 0.59814\n- 6 2.66667 4.90434 3.03238 2.48796 4.17302 3.47776 3.69419 3.28221 2.47533 3.18377 3.98929 2.15446 3.40172 2.17342 2.93584 2.69063 2.50270 2.96317 5.41286 4.06990 9 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01906 4.36570 5.08805 0.61958 0.77255 0.63608 0.75366\n- 7 2.87477 4.52599 3.77644 3.23495 2.62115 3.83176 2.92174 3.03608 3.17258 2.70335 3.64217 3.14406 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34512 5.06746 0.61958 0.77255 0.82018 0.58045\n- 296 2.51332 3.89391 3.26393 2.70184 3.74759 3.25970 3.23979 2.87169 2.48723 2.38787 3.66518 3.17451 3.29077 3.00827 2.56502 2.58819 2.87857 2.64378 5.12552 3.85091 390 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34512 5.06746 0.61958 0.77255 0.82018 0.58045\n- 297 2.64985 4.36783 3.53051 2.96236 2.61584 3.62825 3.87525 2.86502 2.44957 2.37225 3.47091 3.36554 4.00736 3.21370 3.01041 2.32257 2.88135 2.44839 4.93492 2.85295 391 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34512 5.06746 0.61958 0.77255 0.82018 0.58045\n- 298 2.24794 4.79033 3.09291 2.53530 4.01570 3.11848 3.70562 3.10156 2.51921 3.04412 2.97382 2.73764 3.88608 2.55916 2.64775 2.37321 2.88408 3.11568 5.30695 3.98692 392 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34512 5.06746 0.61958 0.77255 0.82018 0.58045\n- 299 2.66966 4.24016 3.84052 3.26274 3.34691 3.71631 3.99151 2.25819 3.14293 1.65512 3.33404 3.24581 4.08856 3.08848 3.11199 2.98754 2.90124 2.13062 4.84272 3.63623 393 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34512 5.06746 0.61958 0.77255 0.82018 0.58045\n- 300 2.64835 4.43476 3.42596 2.86193 2.40900 3.59979 2.96263 2.72040 2.59877 2.65071 3.53464 2.98904 3.98131 3.13729 3.19823 2.61113 2.59040 2.71511 4.99557 3.11996 394 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34512 5.06746 0.61958 0.77255 0.82018 0.58045\n- 301 2.66086 4.64197 3.22683 2.66192 3.38938 3.54455 3.27492 3.21358 2.10661 2.39821 3.72890 3.14416 3.92940 2.96649 2.59747 2.76529 2.45767 2.65192 5.17924 3.89521 395 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34512 5.06746 0.61958 0.77255 0.82018 0.58045\n- 302 3.17273 4.48265 5.04898 4.46830 2.46082 4.45511 4.80909 1.66734 4.31686 1.49149 2.72798 4.57558 4.70989 4.40442 4.36281 3.79312 3.40115 1.56946 5.16793 4.05575 396 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13080 4.34512 2.21054 0.61958 0.77255 0.69754 0.68877\n- 303 2.64093 4.82195 2.73929 2.49359 4.05569 3.47440 3.36657 2.79746 2.47831 2.69664 3.89459 3.01024 3.86431 2.54759 2.55093 2.54559 2.44183 3.15135 5.32706 3.99738 397 t - - -\n- 2.68626 4.42281 2.77555 2.73109 3.46369 2.40532 3.72391 3.29341 2.67717 2.69392 4.24745 2.90262 2.73698 3.18202 2.89810 2.37891 2.77534 2.98498 4.58407 3.61559\n- 0.46448 0.99010 * 1.89730 0.16249 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-6__PD-T4-6.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-6__PD-T4-6.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1334 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-6__PD-T4-6\n-LENG 437\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:34 2022\n-NSEQ 19\n-EFFN 2.138428\n-CKSUM 4048275304\n-GA 350 350;\n-STATS LOCAL MSV -11.4340 0.69873\n-STATS LOCAL VITERBI -12.3282 0.69873\n-STATS LOCAL FORWARD -5.9470 0.69873\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52259 4.58197 2.87223 2.59179 3.37423 2.87315 3.60106 2.90711 2.65896 2.48257 3.65848 3.05823 3.30746 2.98516 2.81802 2.62917 2.82960 2.71288 4.73283 3.65414\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14844 4.67250 2.05103 0.61958 0.77255 0.00000 *\n- 1 3.66842 5.13131 4.87578 4.57327 3.72323 4.40887 5.15465 2.98050 4.30143 2.25492 0.50451 4.75363 4.91334 4.65572 4.41668 4.06207 4.00903 3.05775 5.61560 4.42482 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01598 4.54004 5.26239 0.61958 0.77255 0.71061 0.67598\n- 2 2.38570 4.86713 3.13659 2.58823 4.11717 2.97124 3.01419 2.69676 2.58380 3.14374 3.96389 2.26468 3.94203 2.93102 3.04116 2.27699 2.64175 3.21137 5.39918 4.07366 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15183 4.54004 2.03876 0.61958 0.77255 0.71061 0.67598\n- 3 2.68765 4.86976 3.08547 2.27751 4.10690 3.51399 3.71413 3.06175 2.30727 2.35883 3.94250 3.04855 3.90497 2.33940 2.94390 2.19334 2.91782 3.20021 5.37060 4.04327 3 s - - -\n- 2.68584 4.42366 2.77661 2.73082 3.46306 2.40551 3.72552 3.29495 2.67684 2.69117 4.24552 2.90343 2.73727 3.18097 2.89869 2.37928 2.77597 2.98463 4.58420 3.61569\n- 0.61263 1.14157 1.97500 2.82468 0.06116 0.62555 0.76564\n- 4 2.66531 4.65506 3.21082 2.40820 3.84442 2.88525 3.76964 2.52591 2.63711 2.89132 2.77728 3.14416 3.93440 2.54364 3.06461 2.29750 2.89764 2.95816 5.19821 3.91059 52 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16341 4.38493 1.97840 0.61958 0.77255 0.89649 0.52425\n- 5 2.24349 4.42331 3.39117 2.87806 3.78218 3.41877 3.91190 3.10008 2.85579 2.83788 3.71330 2.76918 2.83186 3.17629 3.23745 2.72256 2.45888 1.88441 5.18406 3.93254 53 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02157 4.24309 4.96544 0.61958 0.77255 0.66377 0.72341\n- 6 2.39455 4.21657 3.93844 3.36259 3.33525 3.02156 4.03939 2.29395 3.27039 1.97281 2.35819 3.64407 4.11382 3.52431 3.51550 2.41919 2.90930 2.45544 4.83356 3.63164 54 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42568 5.14803 0.61958 0.77255 0.85352 0.55497\n- 7 2.43375 5.08467 2.91149 1.99935 4.42824 2.62848 3.71236 3.88485 2.48605 3.41808 4.19173 2.96991 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01425 4.65402 5.37636 0.61958 0.77255 0.52231 0.89930\n- 430 2.58164 4.27553 4.65923 4.06621 2.66059 4.06655 4.40763 1.85563 3.90352 1.81453 3.34487 4.15915 4.41845 4.07327 3.99035 3.37605 1.91063 2.00631 4.95081 3.77321 546 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01425 4.65402 5.37636 0.61958 0.77255 0.52231 0.89930\n- 431 2.54019 5.13151 2.77055 1.73043 4.42749 3.54300 3.74002 3.12723 2.49909 3.41624 4.18790 3.03417 3.93767 2.85622 2.64082 2.07571 2.98369 3.08185 5.59722 4.21887 547 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05302 4.65402 3.16738 0.61958 0.77255 0.52231 0.89930\n- 432 2.42572 5.21421 2.42707 1.97480 4.54541 3.51294 3.70313 4.02191 2.23251 2.97805 4.25875 2.72654 3.33722 2.59975 2.93475 2.70477 2.68245 3.16173 5.65515 4.25232 548 e - - -\n- 2.68115 4.42588 2.77637 2.73255 3.46316 2.40654 3.73061 3.28596 2.67891 2.69382 4.24792 2.90731 2.74085 3.17861 2.90006 2.37981 2.77059 2.97845 4.59060 3.61828\n- 0.78849 0.91314 1.93651 4.29946 0.01367 0.59194 0.80576\n- 433 2.73960 4.18027 4.31879 3.72749 3.23310 3.86695 4.17591 2.23146 3.58843 1.86229 2.35954 3.89184 2.71941 3.78484 3.72945 3.16151 2.97111 2.17591 4.78977 2.60690 738 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13300 4.46568 2.18007 0.61958 0.77255 0.80763 0.59043\n- 434 2.38248 5.16796 2.78926 1.99196 4.49506 3.43530 3.69978 3.96155 2.47850 3.47678 4.24902 2.49666 3.87763 2.39840 2.96765 1.92857 2.98186 3.55636 5.63978 4.24099 739 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01932 4.35200 5.07435 0.61958 0.77255 0.92870 0.50264\n- 435 2.69726 5.12634 2.86286 2.17717 4.44951 3.43883 3.66603 3.91462 2.42605 3.42843 4.19292 2.53166 3.07509 2.26042 2.91173 2.06957 2.63655 3.50940 5.58917 4.19535 740 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01932 4.35200 5.07435 0.61958 0.77255 0.77817 0.61479\n- 436 1.94819 4.92997 3.02730 2.51286 4.30630 3.44782 3.74510 3.74371 2.52948 3.31419 4.10534 2.58719 2.72380 2.55312 2.99783 2.41320 2.48247 3.36744 5.52131 4.16813 741 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01808 4.41757 5.13991 0.61958 0.77255 0.60879 0.78528\n- 437 3.27536 5.27510 3.80704 3.25517 4.87177 3.85937 4.11480 4.31398 2.47069 3.79189 4.68349 3.62687 2.46488 3.28047 0.74255 3.32998 3.53962 3.95506 5.81594 4.66363 742 r - - -\n- 2.68368 4.42646 2.77515 2.73249 3.46600 2.40624 3.72809 3.29204 2.68034 2.69369 4.25020 2.90627 2.73868 3.18064 2.89880 2.37668 2.77258 2.98213 4.57737 3.61256\n- 0.71114 0.67547 * 3.39321 0.03418 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-7__PD-T4-7.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-7__PD-T4-7.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1010 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-7__PD-T4-7\n-LENG 329\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:35 2022\n-NSEQ 20\n-EFFN 1.889648\n-CKSUM 2422806772\n-GA 80 80;\n-STATS LOCAL MSV -11.2033 0.70057\n-STATS LOCAL VITERBI -12.0349 0.70057\n-STATS LOCAL FORWARD -5.7127 0.70057\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62193 4.60335 2.85396 2.65003 3.25029 3.00264 3.48531 2.76602 2.62501 2.40859 3.62898 2.99101 3.48893 3.08136 2.91036 2.63591 2.86519 2.70871 4.28691 3.57426\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24602 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.29494 2.86311 1.61781 0.38563 1.13950 0.00000 *\n- 1 3.40799 4.77720 4.93472 4.41113 3.31038 4.58686 4.97513 2.03000 4.20018 1.71294 1.02487 4.64632 4.85354 4.40537 4.33622 3.96742 3.65628 2.37217 5.35316 4.22815 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08767 4.37023 2.64097 0.61958 0.77255 0.79334 0.60209\n- 2 2.52847 4.87466 3.00935 2.49383 4.18777 3.44479 3.70560 3.61092 2.29260 2.89269 4.00713 2.70935 2.55187 2.85122 2.93730 1.98252 2.90200 3.26451 5.42559 4.08681 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14114 4.30286 2.13623 0.61958 0.77255 0.86282 0.54813\n- 3 2.64918 4.96643 2.50606 2.37477 4.23969 2.65144 3.64216 3.68112 2.26676 3.24476 4.03817 2.62885 3.82514 2.77499 2.91062 2.64772 2.62099 3.32155 5.44952 2.87556 4 k - - -\n- 2.68630 4.42252 2.77530 2.73116 3.46304 2.40539 3.72521 3.29351 2.67719 2.69349 4.24639 2.90310 2.73766 3.18173 2.89827 2.37887 2.77497 2.98523 4.58504 3.61440\n- 0.69569 0.70547 4.90695 1.06095 0.42484 0.73806 0.65016\n- 4 2.69172 5.19257 2.54503 1.92548 4.53029 3.42078 3.63525 4.01251 2.21215 3.49175 4.23926 2.63157 3.83565 2.30723 2.52893 2.43748 2.92519 3.58008 5.62393 4.21391 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02030 4.30286 5.02521 0.61958 0.77255 0.40628 1.09698\n- 5 2.44727 4.36122 3.70687 3.13494 3.48708 3.71756 3.58101 2.38233 2.30760 2.06404 2.55682 3.50517 4.09421 3.36022 3.38281 2.97247 2.48452 2.62245 4.95219 3.73098 21 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01617 4.52879 5.25114 0.61958 0.77255 0.58291 0.81706\n- 6 2.52682 5.01331 3.05360 2.50243 4.28398 3.52289 3.16568 3.71740 2.48706 2.62741 4.07819 1.96128 3.91618 2.60047 2.80629 2.54571 2.60494 3.36422 5.49476 4.13914 22 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01617 4.52879 5.25114 0.61958 0.77255 0.42948 1.05224\n- 7 2.72456 4.92010 2.84619 2.39899 4.15670 3.55651 3.14754 2.22468 2.41089 3.17769 3.30457 2.71019 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01902 4.36735 5.08970 0.61958 0.77255 0.79651 0.59948\n- 322 1.32215 4.51388 3.46184 2.94591 4.00446 3.40840 3.98956 3.35401 2.85299 3.05446 3.91590 3.32215 3.94672 3.22521 2.59027 2.42279 2.91703 2.58952 5.36517 4.11085 389 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01902 4.36735 5.08970 0.61958 0.77255 0.79651 0.59948\n- 323 2.33417 3.33755 3.87703 3.30500 3.35155 2.89911 4.01413 2.25879 3.22117 2.43342 2.92726 3.59408 4.07494 3.47950 3.48026 2.12736 2.88328 2.29360 4.84129 3.63653 390 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01902 4.36735 5.08970 0.61958 0.77255 0.79651 0.59948\n- 324 2.31203 5.04211 2.52840 2.03675 4.33122 3.45446 3.70075 3.21384 2.49272 3.33044 4.12102 2.95875 2.24918 2.83079 2.97725 2.70115 2.94603 3.40027 5.53258 4.15898 391 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14129 4.36735 2.12796 0.61958 0.77255 0.79651 0.59948\n- 325 2.74574 4.81590 3.24102 2.65720 4.07852 3.55783 3.71443 3.44711 2.00832 3.06883 3.91652 3.13079 3.29093 2.88421 2.07670 2.80890 2.96890 2.12124 5.31318 4.03947 392 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02147 4.24753 4.96988 0.61958 0.77255 0.91336 0.51278\n- 326 3.28193 4.54817 5.12689 4.59518 3.51849 4.69725 5.17234 1.48614 4.48566 1.43855 3.30483 4.78460 4.92538 4.65158 4.61507 4.07084 3.52488 1.26562 5.53405 4.39823 393 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08468 4.24753 2.70458 0.61958 0.77255 0.91336 0.51278\n- 327 2.86792 4.25168 4.55854 3.97233 3.13682 4.05053 4.35245 1.85757 3.81572 1.53464 3.09242 4.10894 4.36957 3.97787 3.91968 3.36307 3.09839 1.77735 3.10776 3.65990 394 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02286 4.18571 4.90805 0.61958 0.77255 0.96400 0.48024\n- 328 2.43523 4.93956 2.97593 2.43564 4.24602 3.43486 3.63745 3.67575 2.26239 3.23391 4.02898 2.95633 3.83839 2.19164 2.55985 2.23933 2.51801 3.31697 5.42873 4.08417 395 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02286 4.18571 4.90805 0.61958 0.77255 0.60875 0.78533\n- 329 2.66588 4.66161 2.74915 2.65259 3.17607 3.54577 2.56216 3.23826 2.63710 2.40274 3.74845 2.83855 3.93296 2.97299 3.06876 2.76459 2.62138 2.96584 5.16786 3.09316 396 l - - -\n- 2.68607 4.42223 2.77595 2.73017 3.46415 2.40584 3.72363 3.29212 2.67712 2.69359 4.24707 2.90300 2.73690 3.18235 2.89799 2.37909 2.77561 2.98581 4.58057 3.61619\n- 1.01836 0.44814 * 2.05291 0.13738 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-8__PD-T4-8.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-8__PD-T4-8.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1238 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-8__PD-T4-8\n-LENG 405\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:35 2022\n-NSEQ 21\n-EFFN 1.151001\n-CKSUM 256891683\n-GA 80 80;\n-STATS LOCAL MSV -11.3764 0.69918\n-STATS LOCAL VITERBI -12.2279 0.69918\n-STATS LOCAL FORWARD -5.8275 0.69918\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69885 4.69727 2.85996 2.57612 3.24456 3.15084 3.76783 2.62127 2.54380 2.39791 3.61800 2.98124 3.58196 3.02796 2.89763 2.74310 2.90579 2.68787 4.71324 3.26663\n- 2.68622 4.42243 2.77538 2.73141 3.46372 2.40531 3.72513 3.29341 2.67680 2.69356 4.24441 2.90344 2.73744 3.18164 2.89819 2.37905 2.77497 2.98514 4.58495 3.61521\n- 0.34532 1.57874 2.45605 1.36732 0.29409 0.00000 *\n- 1 2.40149 4.47402 2.83726 2.77992 3.73093 3.45714 3.86525 3.05059 2.81343 2.77433 1.80273 3.21391 3.92645 3.13100 3.20157 2.54207 2.88527 2.79482 5.14601 3.88282 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18667 4.90902 0.61958 0.77255 0.58760 0.81116\n- 2 2.75510 4.20636 4.22059 3.64242 2.84697 3.89072 4.20602 1.55190 3.52285 1.96473 3.19275 3.86677 4.23935 3.42787 3.71005 3.18625 2.62496 2.07585 4.85942 3.67292 11 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18667 4.90902 0.61958 0.77255 0.58760 0.81116\n- 3 2.64962 5.09436 2.65729 2.34825 4.42340 3.41193 3.35796 3.88778 2.05034 3.38557 4.14374 2.81771 3.80974 2.45085 2.31837 2.33646 2.73503 3.47736 5.52960 4.14356 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18667 4.90902 0.61958 0.77255 0.58760 0.81116\n- 4 3.32535 4.66473 4.79588 4.32534 1.18957 4.42635 4.32349 1.93123 4.18024 1.85544 3.22736 4.40170 4.71557 4.28037 4.27678 3.79651 3.56767 2.41538 4.56766 3.03807 13 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18667 4.90902 0.61958 0.77255 0.58760 0.81116\n- 5 2.61348 4.59674 3.16544 2.16437 3.00692 3.49490 3.71366 2.54245 2.41871 2.82980 3.68428 3.09382 3.88206 2.80633 2.85620 2.62159 2.73663 2.89815 5.13657 3.85111 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18667 4.90902 0.61958 0.77255 0.58760 0.81116\n- 6 2.61140 4.72618 3.06464 2.32850 3.65824 3.45985 3.67020 3.17608 2.08491 2.97523 3.80571 2.90537 3.38956 2.84071 2.93697 2.67085 2.48282 2.60212 5.24600 3.93132 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02284 4.18667 4.90902 0.61958 0.77255 0.58760 0.81116\n- 7 2.61910 4.98380 2.69704 2.27114 4.27470 3.24209 3.60667 3.33873 2.11471 3.26498 4.04080 2.68014 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02101 4.26894 4.99129 0.61958 0.77255 0.48576 0.95510\n- 398 2.29469 4.89752 2.86958 2.12143 3.61857 3.10436 3.65101 3.58269 2.31088 3.16518 3.96442 2.96291 3.84050 2.78831 2.90788 2.21709 2.86568 3.09835 5.38843 3.70789 451 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02101 4.26894 4.99129 0.61958 0.77255 0.48576 0.95510\n- 399 2.08784 4.87833 3.03036 2.47188 4.13975 3.46381 3.66179 3.55983 2.17955 3.14764 3.54402 2.99080 3.85640 2.63182 2.62344 2.28523 2.66305 3.22536 5.37393 4.03721 452 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02101 4.26894 4.99129 0.61958 0.77255 0.48576 0.95510\n- 400 3.46185 4.75128 5.19545 4.61491 2.07917 4.73019 4.95601 2.13771 4.47840 0.87481 2.61794 4.80181 4.87352 4.47108 4.51063 4.07798 3.67197 2.51727 5.15199 4.05406 453 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02101 4.26894 4.99129 0.61958 0.77255 0.48576 0.95510\n- 401 2.49578 5.02010 2.92784 2.15286 4.31893 3.25548 3.63780 3.76508 1.85136 2.98951 4.08371 2.73452 3.83732 2.75790 2.85072 2.56249 2.56761 3.38744 5.48718 4.11675 454 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02101 4.26894 4.99129 0.61958 0.77255 0.48576 0.95510\n- 402 2.49124 5.06819 2.93225 2.23556 4.38259 3.25901 3.38696 3.84059 1.93491 3.06149 4.11906 2.49030 3.82631 2.59262 2.64018 2.63255 2.88218 3.44271 5.51495 3.80741 455 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23848 4.26894 1.61859 0.61958 0.77255 0.48576 0.95510\n- 403 2.63942 5.08813 2.52028 2.16797 4.41120 3.36834 3.19060 3.87757 2.16806 3.37757 4.14087 2.64114 3.78374 2.69108 2.33147 2.43120 2.87160 3.46830 5.52520 4.13301 456 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07950 4.05651 2.82831 0.61958 0.77255 0.71671 0.67013\n- 404 2.17806 4.36933 3.29978 2.75892 3.62260 2.92635 3.78127 2.65446 2.71903 2.67477 3.55670 3.18095 3.85905 2.83825 3.10233 2.68919 2.37696 2.51692 5.03075 3.77749 457 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02746 4.00448 4.72682 0.61958 0.77255 0.75994 0.63054\n- 405 2.31062 4.55868 3.11897 2.56995 3.76166 3.07124 3.67371 2.86377 2.34402 2.54355 3.65974 3.05112 3.83804 2.65786 2.93192 2.52539 2.80656 2.86945 5.10893 3.82470 458 a - - -\n- 2.68569 4.42278 2.77507 2.73134 3.46407 2.40537 3.72501 3.29407 2.67729 2.69348 4.24701 2.90379 2.73711 3.18114 2.89749 2.37904 2.77517 2.98511 4.58530 3.61514\n- 0.43500 1.04204 * 2.14646 0.12431 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-9__PD-T4-9_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-9__PD-T4-9_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,584 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-9__PD-T4-9_A\n-LENG 187\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:35 2022\n-NSEQ 21\n-EFFN 1.504761\n-CKSUM 471858130\n-GA 20 20;\n-STATS LOCAL MSV -10.4825 0.70619\n-STATS LOCAL VITERBI -11.4160 0.70619\n-STATS LOCAL FORWARD -4.9611 0.70619\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61824 4.29069 2.92092 2.61248 3.09335 3.09861 3.60181 2.86149 2.61546 2.56844 3.73426 3.03104 3.45312 2.91775 2.94539 2.70217 2.85343 2.71737 3.99684 3.17342\n- 2.68613 4.42254 2.77527 2.73145 3.46355 2.40537 3.72523 3.29346 2.67763 2.69335 4.24200 2.90355 2.73755 3.18175 2.89829 2.37860 2.77521 2.98521 4.58505 3.61500\n- 0.62428 1.16795 1.87504 1.30647 0.31577 0.00000 *\n- 1 2.62776 4.61560 3.18857 2.63459 3.81745 2.97981 3.74292 3.20428 2.49728 2.86499 2.40261 3.11705 3.32227 2.75801 3.03386 2.38664 2.69791 2.80323 5.17043 3.88413 35 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05230 4.27318 3.29639 0.61958 0.77255 0.58336 0.81650\n- 2 2.64165 4.70294 3.13882 2.57829 3.90797 3.50432 3.71568 3.30301 2.54754 2.54699 3.00701 2.50115 3.89197 2.54179 2.65162 2.53408 2.69845 2.81622 5.23040 3.92845 36 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02042 4.29728 5.01963 0.61958 0.77255 0.56906 0.83484\n- 3 2.64595 4.48707 3.35652 2.79242 3.29138 3.57854 3.81413 3.01501 2.15414 2.56621 3.18661 3.24230 3.96118 2.71466 3.15158 2.60583 2.70027 2.42394 5.05095 3.03268 37 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01949 4.34319 5.06554 0.61958 0.77255 0.61429 0.77876\n- 4 2.65206 4.80862 3.07990 2.10407 4.03603 3.49233 3.69836 2.95344 2.38786 2.82047 3.88346 3.03521 3.34897 2.85849 2.71273 2.53729 2.40518 2.86677 5.31945 3.99517 38 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01949 4.34319 5.06554 0.61958 0.77255 0.52404 0.89679\n- 5 2.65069 3.14577 3.91990 3.34035 3.29800 3.71845 2.90486 2.23545 3.24785 2.22138 3.00341 3.26150 4.09083 3.49854 3.06158 2.99197 2.65436 2.18935 4.79192 3.26223 39 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01874 4.38216 5.10451 0.61958 0.77255 0.56184 0.84434\n- 6 2.65964 4.29015 3.69959 3.12708 3.41279 3.67862 3.94516 2.29545 2.46085 2.14169 3.39731 3.14359 4.05459 3.34286 3.35997 2.93692 2.66313 2.27218 4.88399 2.67022 40 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01874 4.38216 5.10451 0.61958 0.77255 0.56184 0.84434\n- 7 1.63576 2.36397 4.21585 3.87894 4.44431 1.17030 4.67706 3.79943 3.81232 3.55530 4.39610 3.74588 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12422 4.35763 2.26328 0.61958 0.77255 0.59541 0.80149\n- 180 2.67804 5.05055 2.74831 1.75016 4.31788 3.43142 2.65791 3.79239 2.40221 3.32860 4.10984 2.92037 3.84216 2.52231 2.87299 2.66289 2.91060 3.41407 3.89203 4.11222 282 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25473 4.97707 0.61958 0.77255 0.71761 0.66926\n- 181 2.93428 4.37619 4.28788 3.75523 1.92720 3.97678 3.89711 2.49067 3.62772 2.37546 3.42655 3.88278 4.33076 3.80561 3.78997 3.27913 2.69184 2.58671 4.29864 1.58592 283 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25473 4.97707 0.61958 0.77255 0.71761 0.66926\n- 182 2.29483 3.58180 3.18089 2.91147 3.49466 3.59275 3.84759 2.83759 2.50480 2.22809 3.16295 3.32252 3.97377 3.17190 3.22511 2.83679 2.55442 2.29089 4.93750 3.70065 284 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25473 4.97707 0.61958 0.77255 0.71761 0.66926\n- 183 2.79356 5.30899 1.86889 1.80336 4.62166 3.38628 3.70472 4.11131 2.52746 3.17203 4.37303 2.59496 3.86901 2.32254 3.04463 2.73244 3.04012 3.68531 5.74647 4.31143 285 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07269 4.25473 2.88398 0.61958 0.77255 0.71761 0.66926\n- 184 2.48957 4.15477 2.49798 2.24033 4.35798 2.85195 3.60049 3.81985 2.21819 3.33775 4.09902 2.88658 3.80074 2.48062 2.64992 2.42046 2.85627 3.41962 5.50152 4.11267 286 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07236 4.20447 2.90276 0.61958 0.77255 0.64746 0.74102\n- 185 2.61105 4.40098 3.17927 2.81958 2.48151 2.93227 3.80607 2.49529 2.47491 2.61872 3.50282 3.05812 3.94311 3.09949 3.16206 2.79888 2.84376 2.52143 4.97365 3.72439 287 k - - -\n- 2.68611 4.42241 2.77517 2.73122 3.46370 2.40507 3.72510 3.29349 2.67740 2.69371 4.24706 2.90314 2.73755 3.18117 2.89817 2.37894 2.77505 2.98534 4.58493 3.61478\n- 0.55264 1.36427 1.77782 1.13254 0.38893 0.66409 0.72308\n- 186 2.58836 4.57753 3.14446 2.37833 3.76584 3.47035 3.15827 3.15160 2.54302 2.50251 3.29444 3.06772 3.85645 2.89386 2.68972 2.51985 2.65542 2.62729 5.11655 3.83027 292 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02507 4.09458 4.81693 0.61958 0.77255 0.86349 0.54764\n- 187 2.45687 4.83936 2.64517 2.04792 3.41567 3.40478 3.62150 3.51043 2.30728 3.10439 3.91145 2.92633 3.80557 2.76561 2.88787 2.46426 2.83393 2.85264 5.33728 3.99145 293 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01694 4.08646 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-9__PD-T4-9_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-9__PD-T4-9_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,254 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-9__PD-T4-9_B\n-LENG 77\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:35 2022\n-NSEQ 9\n-EFFN 0.962402\n-CKSUM 563348799\n-GA 20 20;\n-STATS LOCAL MSV -8.9102 0.71853\n-STATS LOCAL VITERBI -9.4739 0.71853\n-STATS LOCAL FORWARD -3.7693 0.71853\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.33591 4.63079 2.97119 2.51904 3.18404 3.12928 3.85769 3.02073 2.84730 2.25072 3.48172 3.19191 3.29310 3.22414 3.03579 2.46583 2.93419 2.73945 5.12669 3.27254\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.00000 *\n- 1 3.23119 4.73819 4.38434 4.01075 3.37606 4.06530 4.67737 2.58323 3.75995 1.93433 0.90439 4.24841 4.53631 4.12696 3.92822 3.60648 3.54701 2.62200 5.25022 4.03394 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 2 3.50600 4.88617 4.66536 4.31678 3.27696 4.35572 4.88080 2.50684 4.08220 0.58016 3.22515 4.56390 4.74648 4.37797 4.20546 3.97743 3.79023 2.61931 5.25289 4.04132 2 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 3 2.48839 4.40711 3.49552 3.33636 4.38952 3.13303 4.43196 3.95820 3.43101 3.65877 4.56616 3.50440 3.89853 3.75806 3.69974 0.71799 2.99271 3.42595 5.73955 4.47800 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 4 3.66263 4.97996 4.64864 4.42861 0.62776 4.26314 4.04612 3.16094 4.33104 2.46622 3.85227 4.36770 4.72184 4.41893 4.37675 3.91053 3.96735 3.17194 4.22427 2.56111 4 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 5 3.24408 5.38414 2.65820 0.66636 4.77324 3.49221 4.11920 4.28894 3.04047 3.86246 4.83498 3.14709 4.11436 3.33594 3.47215 3.20246 3.55430 3.94615 5.88768 4.62463 5 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 6 2.85371 5.26194 2.78077 1.83293 4.61683 3.46340 3.66878 4.05856 1.86735 3.53105 4.33121 2.93669 3.91112 1.95414 2.65477 2.80609 3.07786 3.66558 5.64404 4.29652 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 7 3.37305 5.17031 3.89703 3.35847 4.60222 3.78994 4.08519 4.17400 2.41818 3.63604 4.63728 3.69072 4.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 70 2.83372 5.26243 1.68567 2.26361 4.67333 3.30195 3.79790 4.17539 2.72520 3.69441 4.50564 2.26630 3.87692 2.95003 3.26913 1.80842 3.12639 3.74035 5.85791 4.40890 74 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 71 2.20890 4.41344 3.33715 2.82707 3.74145 3.39284 3.86401 3.12274 2.80107 2.82089 3.69243 3.22907 3.88370 3.12770 3.18322 2.14838 2.01071 2.83798 5.14070 2.89361 75 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 72 2.91212 5.47727 1.97509 1.41689 4.77440 3.33054 3.76264 4.28288 2.66874 3.76268 4.56949 2.78519 3.88904 2.15029 3.21501 2.81777 3.17651 3.85069 5.90981 4.43616 76 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 73 3.04289 4.46625 4.45704 3.88919 3.00727 4.16609 4.34049 2.43347 3.73066 1.10471 2.39778 4.11490 4.45522 3.92557 3.89252 3.47511 3.26711 2.46739 4.81455 2.70625 77 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 74 2.97816 5.30861 1.15587 2.34206 4.85535 1.87462 3.98117 4.39721 3.02945 3.93303 4.79681 2.90241 3.95608 3.16949 3.60039 2.92642 3.32012 3.93750 6.03124 4.61623 78 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 75 2.74618 4.90821 2.92277 1.93600 4.10653 3.47919 3.70940 3.50514 2.44903 2.14143 3.96398 3.01226 3.90731 2.26980 2.84783 2.77568 2.97851 3.21737 5.38152 4.05821 79 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 76 0.65837 4.36855 3.79156 3.60933 4.37510 3.18288 4.59224 3.54719 3.63406 3.41406 4.42130 3.67504 3.95119 3.94918 3.85622 2.72050 3.01907 3.14848 5.77140 4.60911 80 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16917 4.89152 0.61958 0.77255 0.48576 0.95510\n- 77 0.65837 4.36855 3.79156 3.60933 4.37510 3.18288 4.59224 3.54719 3.63406 3.41406 4.42130 3.67504 3.95119 3.94918 3.85622 2.72050 3.01907 3.14848 5.77140 4.60911 81 A - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01570 4.16163 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-9__PD-T4-9_C.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T4-9__PD-T4-9_C.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,416 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T4-9__PD-T4-9_C\n-LENG 131\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:35 2022\n-NSEQ 21\n-EFFN 1.217651\n-CKSUM 453294041\n-GA 20 20;\n-STATS LOCAL MSV -9.8324 0.71176\n-STATS LOCAL VITERBI -10.7615 0.71176\n-STATS LOCAL FORWARD -4.2224 0.71176\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53770 4.62004 3.04622 2.63965 2.73860 3.26842 3.80491 2.77517 2.66319 2.43838 3.61447 2.90445 3.28727 3.07945 3.07047 2.59276 2.89339 2.71408 5.03482 3.39932\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04176 4.30195 3.59887 0.61958 0.77255 0.00000 *\n- 1 3.34659 4.78484 4.67529 4.19337 3.24585 4.39360 4.78214 2.42338 3.91280 1.63375 1.01369 4.44247 4.72631 4.21799 4.07223 3.80736 3.61277 2.51127 5.23995 4.03821 1 m - - -\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29334 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77508 2.98520 4.58478 3.61504\n- 0.08896 2.94820 3.42095 0.64472 0.74404 0.51450 0.91081\n- 2 2.76441 5.17331 2.91384 2.42436 4.51375 3.47537 3.05855 3.96495 1.72726 3.45397 4.23235 2.23655 3.88615 2.44179 2.69894 2.54899 2.98853 3.56769 5.58251 4.22408 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25464 4.97699 0.61958 0.77255 0.54857 0.86221\n- 3 3.41512 4.68931 5.17751 4.62607 2.95580 4.75362 5.06887 1.26855 4.49827 1.13927 3.05849 4.82431 4.92367 4.56394 4.57514 4.11857 3.64085 2.14178 5.30781 4.18342 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25464 4.97699 0.61958 0.77255 0.54857 0.86221\n- 4 2.74290 5.11416 3.03511 2.46573 4.45466 3.49828 3.63360 3.89107 1.94750 3.16187 4.17091 2.77694 3.88527 2.12228 2.25831 2.30805 2.96157 3.50595 5.52552 4.18607 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25464 4.97699 0.61958 0.77255 0.54857 0.86221\n- 5 3.59235 4.90100 5.06493 4.57665 2.69223 4.75135 4.87583 2.39389 4.41410 0.63392 3.00428 4.78351 4.93764 4.48650 4.49610 4.16124 3.82159 2.57728 5.06134 3.76294 7 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25464 4.97699 0.61958 0.77255 0.54857 0.86221\n- 6 2.63566 5.05028 2.62687 2.27084 4.35878 3.42075 3.39448 3.81822 2.02403 3.14610 4.10144 2.79454 3.81442 2.58544 2.67940 2.51036 2.71184 2.83795 5.50421 4.11875 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02132 4.25464 4.97699 0.61958 0.77255 0.54857 0.86221\n- 7 2.67935 5.17229 2.30704 2.08793 4.50257 3.20404 3.30246 3.98343 2.12801 3.47016 4.22114 2.72728 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02032 4.30195 5.02430 0.61958 0.77255 0.48576 0.95510\n- 124 2.53077 5.22037 2.84541 2.16152 4.56170 3.46589 3.67236 4.02098 1.65493 3.50601 4.27873 2.34529 3.89141 2.46664 2.78528 2.73749 3.00612 3.61249 5.63676 4.25939 140 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05159 4.30195 3.30384 0.61958 0.77255 0.48576 0.95510\n- 125 2.66723 5.15349 2.45097 2.11209 4.48705 3.41359 3.29737 3.96526 1.92892 3.45168 4.20017 2.75026 3.82117 2.72267 2.67540 2.36774 2.75899 3.53855 5.58927 4.18393 141 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02096 4.27132 4.99367 0.61958 0.77255 0.52722 0.89220\n- 126 2.53570 5.00551 2.82618 2.21787 4.29755 3.21530 3.62360 3.19572 2.19454 3.28737 3.66980 2.80325 3.82284 2.47230 2.48325 2.62580 2.72914 3.18084 5.47083 4.09559 142 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11457 4.27132 2.36138 0.61958 0.77255 0.52722 0.89220\n- 127 2.61411 4.96731 2.47556 2.36523 4.25495 2.96897 3.60147 3.22158 2.16925 3.01562 4.02558 2.90058 3.80034 2.47946 2.66279 2.50762 2.84521 3.32703 5.43497 4.06494 143 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 4.15059 4.87294 0.61958 0.77255 0.63538 0.75445\n- 128 2.73836 5.23669 2.48050 1.84154 4.56080 3.36788 3.64821 4.04212 1.91192 3.52714 4.29666 2.49893 3.83009 2.55898 2.91401 2.55734 2.97907 3.61879 5.66714 4.24934 144 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15164 4.15059 2.07989 0.61958 0.77255 0.63538 0.75445\n- 129 2.61810 4.86732 2.86993 2.25377 3.28576 3.39183 3.61126 3.54906 2.29027 3.13174 3.94077 2.57829 3.80233 2.24975 2.83502 2.48762 2.85083 3.21201 5.35094 4.00472 145 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06448 4.02583 3.11002 0.61958 0.77255 0.75031 0.63908\n- 130 2.57504 4.67355 2.96222 2.22968 3.92126 3.38904 3.65183 2.78801 2.48099 2.95358 3.78999 2.76677 2.94912 2.82953 2.92251 2.48219 2.66408 3.01251 5.22723 3.91497 146 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02789 3.98923 4.71158 0.61958 0.77255 0.71792 0.66898\n- 131 2.60597 4.83671 2.70075 2.38521 4.11570 3.37019 3.63178 3.53319 2.43158 3.13041 3.94326 2.39135 3.79891 2.43604 2.89324 2.62731 2.44148 2.76754 5.36164 4.01563 147 e - - -\n- 2.68627 4.42245 2.77530 2.73067 3.46374 2.40525 3.72515 3.29374 2.67750 2.69355 4.24710 2.90353 2.73748 3.18094 2.89808 2.37867 2.77505 2.98538 4.58497 3.61523\n- 0.27643 1.42084 * 1.53114 0.24372 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-1__PD-T7-1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-1__PD-T7-1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1385 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T7-1__PD-T7-1\n-LENG 454\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:36 2022\n-NSEQ 21\n-EFFN 1.484253\n-CKSUM 2356514911\n-GA 100 100;\n-STATS LOCAL MSV -11.7996 0.69852\n-STATS LOCAL VITERBI -12.4760 0.69852\n-STATS LOCAL FORWARD -6.1173 0.69852\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48753 4.54794 2.91200 2.59084 3.11090 3.01359 3.56687 2.91053 2.69271 2.51730 3.62797 3.04412 3.23813 3.06772 2.94406 2.64293 2.85686 2.72560 4.45974 3.38336\n- 2.68640 4.42287 2.77437 2.73145 3.46316 2.40550 3.72489 3.29310 2.67717 2.69318 4.24281 2.90381 2.73809 3.18069 2.89753 2.37877 2.77591 2.98602 4.58604 3.61556\n- 0.59909 1.17221 1.95892 2.73640 0.06700 0.00000 *\n- 1 2.76990 4.20088 4.34875 3.76600 2.44745 3.29320 4.21414 1.94874 3.62656 2.07194 1.91484 3.93340 4.25572 3.81832 3.76694 3.20741 3.00380 2.29313 4.79534 3.59888 52 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27880 5.00115 0.61958 0.77255 0.67993 0.70654\n- 2 2.65289 4.88669 3.03043 2.30559 3.70164 3.46981 3.66077 2.92321 1.82077 3.14810 3.95470 2.99092 3.85921 2.63153 2.70659 2.56092 2.72578 3.22746 5.37423 4.03686 53 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27880 5.00115 0.61958 0.77255 0.67993 0.70654\n- 3 2.71266 5.19692 2.60440 1.84863 4.52469 3.41441 3.65062 4.00238 2.23637 3.49178 4.24977 2.56137 2.56885 2.76045 2.62623 2.67047 2.94849 3.57977 5.63321 4.22456 54 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27880 5.00115 0.61958 0.77255 0.67993 0.70654\n- 4 3.38918 4.66964 5.16528 4.60310 3.28793 4.72887 5.08776 1.20025 4.46543 1.36233 2.27535 4.80532 4.90735 4.54872 4.54641 4.08835 3.61482 2.13232 5.35863 4.29391 55 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27880 5.00115 0.61958 0.77255 0.67993 0.70654\n- 5 2.48037 4.91250 2.74002 2.47074 4.32061 3.38779 3.75562 3.75670 2.40870 3.33348 4.13564 2.77158 3.86790 2.90177 3.03457 1.53424 2.67179 3.37718 5.54490 4.19034 56 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27880 5.00115 0.61958 0.77255 0.67993 0.70654\n- 6 2.33614 4.94264 3.05192 2.37847 4.21822 3.48790 3.65991 2.95576 1.89619 3.20709 4.01104 3.00296 3.48061 2.79554 2.27144 2.70242 2.91359 3.29536 5.41258 4.08048 57 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02080 4.27880 5.00115 0.61958 0.77255 0.67993 0.70654\n- 7 2.49430 4.89774 2.99779 2.01511 4.15750 3.45229 3.65428 3.58392 2.36562 2.95048 3.96653 2.96995 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01858 4.39088 5.11323 0.61958 0.77255 0.53619 0.87941\n- 447 2.54705 4.97037 2.58678 2.44940 3.79219 3.23696 3.29648 3.67551 1.94816 2.75794 4.03263 2.98051 3.86626 2.80173 2.92125 2.32899 2.89755 3.09109 5.45160 4.09195 536 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01858 4.39088 5.11323 0.61958 0.77255 0.53619 0.87941\n- 448 2.23331 4.61544 3.25371 2.69438 3.79974 3.28470 3.78478 2.81347 2.50388 2.46211 3.70978 3.17186 2.85249 2.82220 3.08902 2.77857 2.34795 2.91628 5.16731 3.88758 537 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01858 4.39088 5.11323 0.61958 0.77255 0.53619 0.87941\n- 449 2.66925 5.04404 2.64045 2.01556 4.33640 3.46153 3.65773 3.37511 2.32658 2.99703 4.09937 2.62997 3.85562 2.57466 2.89983 2.46650 2.90071 2.70845 5.50936 4.13228 538 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32030 4.39088 1.34065 0.61958 0.77255 0.53619 0.87941\n- 450 2.28577 5.16991 1.67826 2.24957 4.59081 2.72996 3.75314 4.07120 2.66473 3.60108 4.40808 2.26775 3.83586 2.90254 3.20072 2.72469 3.05716 3.64467 5.77828 4.34585 539 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02504 4.09562 4.81797 0.61958 0.77255 0.85302 0.55535\n- 451 2.61705 4.76133 3.04187 2.49040 4.01288 3.43939 3.64565 3.41504 2.16537 3.02825 3.85411 2.70239 3.22252 2.80638 2.56916 2.66490 2.64931 2.45309 5.27661 3.96359 540 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02504 4.09562 4.81797 0.61958 0.77255 0.85302 0.55535\n- 452 2.23279 4.65884 3.07157 2.24036 3.87459 3.44985 3.67417 3.24873 2.31655 2.62372 3.75064 3.02760 3.47143 2.85930 2.93125 2.67619 2.83343 2.58356 5.19619 3.89481 541 a - - -\n- 2.68634 4.42241 2.77476 2.73122 3.46333 2.40529 3.72465 3.29341 2.67757 2.69348 4.24706 2.90343 2.73714 3.18163 2.89817 2.37886 2.77517 2.98535 4.58493 3.61519\n- 0.36060 1.40408 2.86213 1.27711 0.32690 0.85302 0.55535\n- 453 2.37745 4.99953 2.82966 2.10703 4.30493 3.39340 3.60590 3.73952 2.04938 3.27999 4.07399 2.89192 3.81281 2.34822 2.74836 2.65297 2.58137 3.37146 5.45845 4.10293 547 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02635 4.04532 4.76766 0.61958 0.77255 0.59760 0.79879\n- 454 2.27232 4.39198 3.39542 2.82984 2.87349 3.56356 3.37138 2.74632 2.78811 2.33455 3.49132 3.26025 3.33512 2.79830 2.88845 2.80105 2.84112 2.54004 4.96421 3.71783 548 a - - -\n- 2.68496 4.42333 2.77516 2.73103 3.46421 2.40533 3.72521 3.29366 2.67732 2.69332 4.24570 2.90443 2.73670 3.18222 2.89748 2.37933 2.77540 2.98502 4.58328 3.61611\n- 0.62180 0.76998 * 2.41147 0.09396 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-2__PD-T7-2_A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-2__PD-T7-2_A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1127 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T7-2__PD-T7-2_A\n-LENG 368\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:36 2022\n-NSEQ 20\n-EFFN 2.485352\n-CKSUM 51932237\n-GA 50 50;\n-STATS LOCAL MSV -11.3217 0.69978\n-STATS LOCAL VITERBI -12.2112 0.69978\n-STATS LOCAL FORWARD -5.8111 0.69978\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58446 4.48346 2.93388 2.62255 3.22757 2.93975 3.61666 2.80059 2.64168 2.42511 3.59562 3.01115 3.43436 3.03567 2.97665 2.62010 2.79148 2.74143 4.49625 3.51034\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01349 4.70814 5.43048 0.61958 0.77255 0.00000 *\n- 1 3.90759 5.35098 5.12295 4.86092 3.93424 4.58632 5.40599 3.21984 4.58650 2.46067 0.37693 5.01527 5.11042 4.93446 4.67590 4.30385 4.26237 3.31356 5.82215 4.64617 1 M - - -\n- 2.68736 4.42419 2.77403 2.72878 3.46012 2.40646 3.72606 3.29183 2.67577 2.69345 4.24953 2.90196 2.73853 3.18296 2.89891 2.37886 2.77639 2.98511 4.58452 3.61735\n- 1.21936 0.83803 1.30189 2.90423 0.05635 0.48576 0.95510\n- 2 2.12183 4.70122 3.18158 2.41296 3.89943 3.53717 3.75613 3.29252 2.60569 2.64055 3.78756 3.12033 3.20287 2.63002 3.04087 2.48228 2.90032 3.01137 2.98750 3.93884 52 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01847 4.39666 5.11900 0.61958 0.77255 0.62371 0.76776\n- 3 2.71060 5.18102 2.50052 2.24041 4.50948 3.48783 3.20347 3.98385 1.81881 3.00541 4.22639 2.78550 3.48555 2.78047 2.90909 2.54331 2.68820 3.25642 5.62345 4.22270 53 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01612 4.53159 5.25394 0.61958 0.77255 0.77906 0.61404\n- 4 2.37968 4.95426 2.79812 1.95021 3.27271 3.52953 3.73502 3.62711 2.29507 2.34811 4.02238 3.04992 3.92299 2.87707 2.99506 2.51065 2.94464 3.29221 5.44894 4.10379 54 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01612 4.53159 5.25394 0.61958 0.77255 0.43143 1.04863\n- 5 2.54121 5.22193 2.50562 2.14532 4.54979 2.69331 3.72162 4.02390 2.28222 3.12042 4.26746 3.00558 3.92533 2.51983 2.95396 2.37622 2.47972 3.20359 5.66514 4.26454 55 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01407 4.66690 5.38925 0.61958 0.77255 0.56742 0.83699\n- 6 2.48762 5.19119 2.78285 2.15411 4.50765 3.53614 3.72665 3.27205 2.00643 2.81515 4.23953 2.65740 3.01122 2.59529 2.96068 2.72791 2.98271 3.56637 5.64129 3.54250 56 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01407 4.66690 5.38925 0.61958 0.77255 0.56742 0.83699\n- 7 2.54453 5.22027 2.11234 1.75204 3.67885 3.54302 3.75867 3.99247 2.52326 2.80517 4.27361 2.41223 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.21926 4.94161 0.61958 0.77255 0.92909 0.50238\n- 361 2.64734 4.92706 2.62507 2.43269 4.20550 3.44298 3.64188 3.62892 2.20986 3.20232 4.00023 2.95744 3.84040 2.77516 2.23539 2.65788 2.35788 2.74495 5.41126 4.06333 670 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.21926 4.94161 0.61958 0.77255 0.92909 0.50238\n- 362 2.61434 4.56515 3.18840 2.41538 3.78779 3.48439 3.76711 2.34582 2.65279 2.83550 3.69806 3.13467 2.77780 2.98976 3.06855 2.36437 2.51907 2.87873 5.15643 3.87785 671 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.21926 4.94161 0.61958 0.77255 0.92909 0.50238\n- 363 2.86646 5.39218 1.84777 1.46746 4.70366 3.36993 3.74324 4.19804 2.59109 3.68371 4.47608 2.83147 3.89159 2.87633 2.56064 2.79086 3.12121 3.77235 5.82767 4.38226 672 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.21926 4.94161 0.61958 0.77255 0.92909 0.50238\n- 364 2.39849 5.19309 2.15222 1.90907 4.51653 3.39223 3.64524 3.99429 2.41575 3.48708 4.24950 2.86146 3.83233 2.47784 2.46696 2.66600 2.94822 3.57396 5.63233 4.22065 673 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.21926 4.94161 0.61958 0.77255 0.92909 0.50238\n- 365 1.88589 5.05364 2.88703 2.19596 4.40439 3.45891 3.70707 3.81126 1.70487 3.36840 4.18312 2.98914 3.90700 2.84566 2.76990 2.77195 3.01649 3.45178 5.54769 4.21424 674 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.21926 4.94161 0.61958 0.77255 0.92909 0.50238\n- 366 3.24946 4.52096 5.07141 4.54422 3.55088 4.66437 5.15375 1.55044 4.43673 1.59677 3.34127 4.74209 4.90564 4.62806 4.58485 4.03816 3.49556 1.11683 5.55070 4.39622 675 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02209 4.21926 4.94161 0.61958 0.77255 0.77019 0.62162\n- 367 2.67557 4.58134 3.29766 2.23516 2.38074 3.57284 3.78355 3.10876 2.65151 2.76111 3.03269 3.20157 3.95705 3.02364 2.31820 2.80755 2.90524 2.86515 5.10082 3.81713 676 e - - -\n- 2.68618 4.42370 2.77466 2.72945 3.46374 2.40557 3.72639 3.29422 2.67508 2.69330 4.24621 2.90327 2.73797 3.18160 2.89915 2.37903 2.77575 2.98573 4.58622 3.61593\n- 0.94618 0.66281 2.33949 2.52796 0.08319 0.62068 0.77127\n- 368 2.37367 4.83439 3.04211 1.83631 3.36610 3.03832 3.69601 3.48169 2.29369 3.09542 3.91412 3.01958 3.87659 2.85171 2.95963 2.69472 2.88872 2.77217 5.34677 4.01618 697 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01339 4.31976 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-2__PD-T7-2_B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-2__PD-T7-2_B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1775 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T7-2__PD-T7-2_B\n-LENG 584\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:36 2022\n-NSEQ 18\n-EFFN 1.981934\n-CKSUM 3315956762\n-GA 100 100;\n-STATS LOCAL MSV -11.7231 0.69732\n-STATS LOCAL VITERBI -12.9146 0.69732\n-STATS LOCAL FORWARD -6.4836 0.69732\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59020 4.51672 2.91756 2.60888 3.35583 2.95500 3.70504 2.73461 2.64849 2.40001 3.67224 3.01868 3.38037 3.01717 2.94023 2.60084 2.84187 2.62016 4.90954 3.66409\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32577 4.61844 1.31618 0.61958 0.77255 0.00000 *\n- 1 3.38523 4.87460 4.56460 4.21500 3.49143 4.19018 4.84834 2.71622 3.95464 2.03715 0.72824 4.43109 4.67204 4.31658 4.10317 3.76956 3.70938 2.77009 5.37635 4.16935 1 m - - -\n- 2.68635 4.42242 2.77510 2.73078 3.46371 2.40517 3.72463 3.29327 2.67758 2.69372 4.24707 2.90334 2.73757 3.18163 2.89818 2.37879 2.77479 2.98535 4.58494 3.61520\n- 0.81751 0.87950 1.94155 0.70783 0.67868 0.38963 1.13105\n- 2 2.71098 5.06777 2.48723 2.17889 4.35308 3.48339 3.69760 3.79940 2.46993 3.34741 2.35352 2.97776 3.88927 2.29943 2.95129 2.51902 2.67496 3.42631 5.53864 4.16401 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18081 4.45162 1.87246 0.61958 0.77255 0.74490 0.64394\n- 3 2.37224 4.77706 3.07444 2.52100 4.01989 3.17065 3.69575 3.06741 2.14870 3.04760 3.87072 2.78459 3.46079 2.85868 2.96256 2.24471 2.86935 2.70242 5.30743 3.98576 8 k - - -\n- 2.68624 4.42231 2.77499 2.73104 3.46360 2.40519 3.72500 3.29360 2.67726 2.69361 4.24696 2.90353 2.73746 3.18152 2.89807 2.37893 2.77525 2.98524 4.58343 3.61509\n- 0.18772 1.80482 5.01370 0.66902 0.71787 0.65256 0.73546\n- 4 2.69227 4.16066 4.17014 3.58326 2.80023 3.80291 4.10824 1.77011 2.69123 2.09092 2.78652 3.78813 4.16870 3.67912 3.63614 2.80201 2.92445 2.20251 4.78097 3.59077 11 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01810 4.41657 5.13892 0.61958 0.77255 0.78731 0.60709\n- 5 2.72332 4.31436 3.83703 3.29581 2.10697 3.73464 3.99800 2.77747 3.21862 1.74188 3.42981 2.95593 4.13015 3.49042 3.49129 2.37446 2.96676 2.57731 4.79037 3.47831 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01810 4.41657 5.13892 0.61958 0.77255 0.78731 0.60709\n- 6 2.70774 5.17706 2.56612 2.13089 4.50405 3.45487 3.66723 3.97842 2.41910 3.47502 4.22813 2.56568 2.80905 2.77352 2.40537 2.67425 2.25306 3.55909 5.62152 4.21842 13 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01810 4.41657 5.13892 0.61958 0.77255 0.78731 0.60709\n- 7 2.80682 4.25223 4.29231 3.12076 1.77708 3.90432 4.06437 2.09572 3.58808 2.18681 3.31747 3.8800'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.28770 5.01004 0.61958 0.77255 0.91897 0.50905\n- 577 2.31879 3.51350 2.75942 2.54193 4.03389 3.44949 3.72071 3.43992 2.54421 2.75602 3.88906 2.25226 3.86840 2.88728 2.99764 2.24408 2.87166 3.12123 5.32612 4.00653 792 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.28770 5.01004 0.61958 0.77255 0.91897 0.50905\n- 578 2.63698 4.14098 3.99903 3.41671 3.20793 3.72034 4.00296 2.58442 3.30332 2.16530 2.14783 3.66024 3.35387 3.54304 3.51365 3.00135 2.58479 2.39257 3.07970 2.93948 793 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.28770 5.01004 0.61958 0.77255 0.91897 0.50905\n- 579 2.45698 4.68977 3.23504 2.39253 3.89245 3.55518 3.74964 2.62638 2.52460 2.62738 3.77370 3.14652 3.94062 2.94646 1.91539 2.78792 2.91976 2.96350 5.22113 3.94168 794 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.28770 5.01004 0.61958 0.77255 0.91897 0.50905\n- 580 2.67564 4.98407 3.01419 2.45313 4.28136 2.68303 3.65078 3.71415 1.99839 3.26566 3.46252 2.97663 3.28691 2.77697 2.22576 2.49441 2.90501 3.35249 5.45483 4.10638 795 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.28770 5.01004 0.61958 0.77255 0.91897 0.50905\n- 581 2.76692 5.10462 2.76685 2.42360 4.50416 2.88544 3.75587 3.96407 2.52350 3.49545 4.29179 2.52598 3.15726 1.53736 2.97388 2.75248 3.03162 3.56302 5.66241 4.28647 796 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.28770 5.01004 0.61958 0.77255 0.91897 0.50905\n- 582 2.61855 3.44322 3.20683 2.43548 3.85124 3.48355 3.77449 3.23423 2.64398 2.62346 3.75196 2.88901 3.90334 2.98451 3.06639 1.81058 2.63716 2.95146 5.20404 3.91923 797 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02062 4.28770 5.01004 0.61958 0.77255 0.91897 0.50905\n- 583 2.52646 5.00285 2.99462 2.44608 4.32400 3.45696 3.65501 3.76213 2.22076 3.30431 4.08912 2.76795 2.90115 2.77818 2.03150 2.52171 2.58439 3.38876 5.48445 4.13063 798 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07315 4.28770 2.86817 0.61958 0.77255 0.75405 0.63574\n- 584 2.64933 4.96927 2.98167 2.23251 4.24518 3.45401 3.31502 3.68336 2.14415 2.70758 3.40828 2.73984 3.15699 2.77378 2.71919 2.51695 2.70973 3.32230 5.44460 4.08272 799 k - - -\n- 2.68608 4.42266 2.77487 2.73078 3.46358 2.40531 3.72496 3.29321 2.67733 2.69385 4.24731 2.90304 2.73746 3.18165 2.89795 2.37886 2.77561 2.98514 4.58518 3.61545\n- 0.40696 1.09563 * 1.69207 0.20351 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-3__PD-T7-3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-3__PD-T7-3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1316 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T7-3__PD-T7-3\n-LENG 431\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:37 2022\n-NSEQ 21\n-EFFN 1.838013\n-CKSUM 4177339215\n-GA 100 100;\n-STATS LOCAL MSV -11.7946 0.69881\n-STATS LOCAL VITERBI -12.4947 0.69881\n-STATS LOCAL FORWARD -5.5844 0.69881\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61826 4.47761 2.89919 2.54759 3.18733 3.43762 3.64569 2.72668 2.53721 2.37108 3.65681 2.94316 3.60784 3.02088 2.94322 2.61879 2.90342 2.75748 4.67800 3.28634\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04976 4.56600 3.26647 0.61958 0.77255 0.00000 *\n- 1 3.65806 5.12183 4.86478 4.56051 3.71438 4.40105 5.14362 2.97044 4.28894 2.24641 0.51108 4.74209 4.90467 4.64349 4.40534 4.05150 3.99806 3.04691 5.60673 4.41534 1 M - - -\n- 2.68622 4.42239 2.77462 2.73137 3.46290 2.40526 3.72508 3.29367 2.67732 2.69356 4.24703 2.90360 2.73753 3.18160 2.89814 2.37900 2.77495 2.98520 4.58490 3.61484\n- 0.74166 1.17636 1.53581 0.58180 0.81847 0.54446 0.86787\n- 2 2.65373 5.08357 2.71810 2.36744 4.39741 2.70175 3.62430 3.86076 2.20357 3.37423 4.13421 2.70213 3.82656 2.43424 2.57237 2.38181 2.88511 3.45773 5.53388 3.23504 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02043 4.29656 5.01890 0.61958 0.77255 0.65072 0.73746\n- 3 2.66372 4.85576 2.85821 2.14773 3.24857 3.49517 3.70103 2.91618 2.50470 3.11287 3.92738 2.51462 3.88585 2.67284 2.96760 2.55550 2.70450 3.18602 5.35990 3.16946 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01866 4.38665 5.10899 0.61958 0.77255 0.55174 0.85790\n- 4 2.68925 4.17623 3.52663 3.13752 2.01775 3.78516 4.08095 2.30066 3.41227 2.35927 2.81106 3.74907 4.15445 3.63824 3.60589 3.06885 2.92125 2.17173 4.77844 2.68603 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01714 4.47045 5.19280 0.61958 0.77255 0.48076 0.96316\n- 5 2.80687 5.13913 2.47633 2.49615 4.50376 2.89730 3.82810 3.95923 2.64250 3.22244 4.30142 3.03275 3.96575 2.70586 3.13070 1.32188 3.06873 3.56856 5.69948 4.31706 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53235 5.25470 0.61958 0.77255 0.54446 0.86787\n- 6 3.02470 4.39331 4.79701 4.21148 2.46547 4.21649 4.52476 1.51753 4.04709 1.34472 3.23190 4.30918 4.53553 4.18555 4.12039 3.03511 3.25633 2.33285 4.98462 3.79275 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01611 4.53235 5.25470 0.61958 0.77255 0.54446 0.86787\n- 7 2.94703 5.41465 1.92151 1.17987 4.66262 3.51496 3.85588 4.19261 2.70474 3.70104 4.49546 2.98673 '..b'.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69356 4.24690 2.90347 2.73740 3.18147 2.89787 2.37887 2.77520 2.98519 4.58478 3.61504\n- 0.04943 3.14959 5.22946 0.44824 1.01819 0.58514 0.81425\n- 424 2.79332 4.22719 4.36600 3.78512 2.58152 3.90724 4.12193 2.42655 3.64252 1.99007 3.31283 3.92111 4.26865 3.82871 3.77492 2.68108 3.02506 2.29156 4.66191 1.69778 492 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01652 4.50711 5.22946 0.61958 0.77255 0.58514 0.81425\n- 425 2.70771 5.18431 2.21379 2.17819 4.51636 3.48185 3.67116 3.55985 2.29449 3.16520 4.22907 2.95455 2.95190 2.44561 2.37797 2.67588 2.93873 3.56807 5.62361 4.22225 493 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01652 4.50711 5.22946 0.61958 0.77255 0.58514 0.81425\n- 426 2.70835 4.91220 3.09417 2.54575 4.15757 2.76864 3.74076 3.21534 2.27222 3.17708 3.98946 1.82719 3.92579 2.89042 2.99275 2.59051 2.94126 3.00090 5.41721 3.55987 494 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08115 4.50711 2.70441 0.61958 0.77255 0.58514 0.81425\n- 427 2.87060 4.25612 4.62353 4.03529 1.64156 4.02002 4.23963 2.17298 3.86047 1.75930 3.20072 4.09852 4.35953 3.99760 3.92534 3.32969 2.76965 2.42791 3.21295 3.39929 495 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05336 4.44358 3.21375 0.61958 0.77255 0.67680 0.70976\n- 428 2.67268 5.04189 2.78047 2.42425 4.33370 3.46852 3.66220 3.78282 2.18777 3.32392 4.09781 2.77178 2.88754 2.77974 2.39584 2.50592 2.57095 2.90631 5.50802 3.56822 496 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10382 4.40847 2.44835 0.61958 0.77255 0.72184 0.66525\n- 429 2.63262 3.54144 3.41800 3.39243 2.70123 3.71431 4.00778 2.46865 2.97759 1.99643 3.25746 3.64681 4.08547 3.52989 3.51023 2.99264 2.63382 2.21292 4.75179 2.64391 497 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15708 4.32452 2.02399 0.61958 0.77255 0.81647 0.58338\n- 430 2.71203 5.18806 2.14823 2.28981 4.50469 2.99756 3.20165 3.98298 2.28196 3.48345 4.25122 2.38438 2.69865 2.76813 2.94889 2.66724 2.95354 3.56669 5.63675 4.22087 498 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02275 4.19019 4.91254 0.61958 0.77255 0.75244 0.63717\n- 431 2.66249 4.96431 2.99763 2.30138 4.24165 3.46221 3.64734 3.25186 1.91662 2.74494 4.02651 2.57078 3.10868 2.77591 2.69217 2.66771 2.89116 3.31828 5.43469 4.08301 499 k - - -\n- 2.68662 4.42301 2.77438 2.72879 3.46311 2.40573 3.72547 3.29195 2.67790 2.69360 4.24766 2.90361 2.73749 3.18145 2.89854 2.37924 2.77538 2.98537 4.58553 3.61579\n- 0.92703 0.50373 * 1.77882 0.18493 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-4__PD-T7-4.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-4__PD-T7-4.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,662 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PD-T7-4__PD-T7-4\n-LENG 213\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jun 9 11:41:37 2022\n-NSEQ 20\n-EFFN 1.118164\n-CKSUM 1505360458\n-GA 100 100;\n-STATS LOCAL MSV -10.6153 0.70459\n-STATS LOCAL VITERBI -11.2988 0.70459\n-STATS LOCAL FORWARD -5.1816 0.70459\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50551 3.78615 2.94308 2.62245 3.50025 3.05427 3.64685 2.76249 2.60933 2.46628 3.66382 2.95286 3.23861 3.04035 2.95978 2.64542 2.92196 2.69744 4.61908 3.62752\n- 2.68621 4.42193 2.77532 2.73126 3.46311 2.40519 3.72507 3.29338 2.67736 2.69342 4.24582 2.90347 2.73742 3.18133 2.89813 2.37899 2.77532 2.98531 4.58490 3.61496\n- 0.45983 2.28222 1.32218 1.57051 0.23312 0.00000 *\n- 1 2.71518 4.35399 3.62766 3.09801 2.98040 3.66765 3.34823 2.75860 2.91929 2.33997 1.91696 3.43700 4.04743 3.28469 3.19756 2.95752 2.94875 2.59583 4.55366 2.81951 16 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95165 4.67400 0.61958 0.77255 0.50203 0.92964\n- 2 2.60276 4.59270 3.15488 2.48313 3.42240 3.48173 3.69789 3.16848 2.25211 2.82763 2.67944 3.07934 3.86883 2.90437 2.81881 2.34403 2.70641 2.89696 5.13140 3.84575 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13583 4.85818 0.61958 0.77255 0.40878 1.09202\n- 3 2.32311 4.71734 3.09558 2.44751 3.93014 3.26040 3.69471 2.97247 2.32151 2.96520 2.95325 2.57380 3.87026 2.87174 2.97158 2.50317 2.72197 3.03492 5.24269 3.93284 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 4 2.67544 5.08772 2.90918 2.14631 4.40399 3.43677 3.39047 3.86036 1.75079 3.37264 4.14058 2.63661 3.83651 2.62424 2.79574 2.56458 2.77176 3.46414 5.52850 3.54031 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 5 2.79346 4.56587 3.46313 2.95693 3.11541 3.68182 3.39295 3.10637 2.86260 2.50818 3.68231 2.83385 4.07449 3.21790 3.20295 2.95505 2.83663 2.87679 4.64705 1.60746 20 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 6 2.61576 4.19724 3.76487 2.88822 2.83430 3.65934 3.93586 2.43202 3.11127 2.39320 3.30565 3.51206 4.03355 3.38045 3.16295 2.92519 2.36008 2.15123 4.79359 2.63135 21 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02137 4.25227 4.97462 0.61958 0.77255 0.48576 0.95510\n- 7 2.43815 4.93308 2.96693 2.28815 4.20365 3.19069 3.64091 3.35479 2.24858 3.03521 3.99837 2.94955 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22129 4.94363 0.61958 0.77255 0.52569 0.89441\n- 206 2.82089 4.47214 4.84039 4.35826 3.70384 4.41854 5.07132 0.93101 4.24266 2.23629 3.50997 4.54905 4.78259 4.51520 4.43758 3.81287 3.40726 1.57190 5.62998 4.42988 310 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22129 4.94363 0.61958 0.77255 0.52569 0.89441\n- 207 2.18585 5.14818 2.70930 1.70123 4.45982 2.92815 3.67450 3.92121 2.32948 3.44249 4.22495 2.75114 3.85209 2.59982 2.93995 2.69798 2.97311 3.52611 5.61137 4.21572 311 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22129 4.94363 0.61958 0.77255 0.52569 0.89441\n- 208 2.57737 5.18447 2.38789 1.94301 4.51543 3.39379 3.62764 3.99677 1.97324 3.48122 4.23488 2.69466 3.82120 2.61119 2.76026 2.48935 2.92390 3.56869 5.61889 4.20648 312 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22129 4.94363 0.61958 0.77255 0.52569 0.89441\n- 209 3.27714 5.33123 3.75969 3.02673 4.83904 3.84550 3.73193 4.16473 1.64011 3.57211 4.46142 3.38849 4.20384 2.86768 0.99266 3.27108 3.42303 3.85650 5.57389 4.45209 313 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22129 4.94363 0.61958 0.77255 0.52569 0.89441\n- 210 3.09781 5.61372 0.93829 2.24862 4.88147 3.34745 3.92238 4.45953 2.94907 3.95693 4.83877 2.83257 3.98499 2.52592 3.52823 2.98599 3.39876 4.03904 6.08329 4.58324 314 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08582 4.22129 2.69471 0.61958 0.77255 0.52569 0.89441\n- 211 2.43563 4.94998 2.98543 2.45307 4.29017 2.99922 3.64170 3.71727 1.74024 3.26620 4.06286 2.83041 3.84568 2.77205 2.54822 2.67462 2.54798 3.35226 5.44845 4.11261 315 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02348 4.15895 4.88130 0.61958 0.77255 0.59815 0.79812\n- 212 2.51765 4.90872 2.78200 2.39914 4.18185 3.41772 3.61812 3.37339 1.86573 3.18273 3.97607 2.92783 3.28204 2.59320 2.84806 2.62401 2.72983 2.96924 5.39241 4.03745 316 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12765 4.15895 2.26130 0.61958 0.77255 0.59815 0.79812\n- 213 2.15478 4.77439 2.96292 2.48786 4.18090 3.35323 3.68339 3.59111 1.87202 3.18485 4.00059 2.77027 3.81660 2.83669 2.83111 2.50853 2.52546 3.23333 5.40234 4.08316 317 k - - -\n- 2.68596 4.42225 2.77527 2.73105 3.46385 2.40527 3.72498 3.29370 2.67739 2.69368 4.24720 2.90334 2.73743 3.17999 2.89803 2.37897 2.77532 2.98549 4.58508 3.61534\n- 0.31758 1.30161 * 1.79287 0.18210 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-5__PD-T7-5.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PD-T7-5__PD-T7-5.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1163 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME PD-T7-5__PD-T7-5\n-LENG 380\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 20 10:21:53 2022\n-NSEQ 277\n-EFFN 3.402481\n-CKSUM 3478782503\n-GA 90 90;\n-STATS LOCAL MSV -11.4012 0.69957\n-STATS LOCAL VITERBI -12.1734 0.69957\n-STATS LOCAL FORWARD -6.0033 0.69957\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57890 4.51764 2.91134 2.55295 3.07134 3.11549 3.63151 2.84038 2.56504 2.55278 3.72719 2.92336 3.30354 3.04672 2.96264 2.60213 2.86954 2.78320 4.58373 3.38326\n- 2.68631 4.42238 2.77532 2.73124 3.46365 2.40526 3.72466 3.29323 2.67730 2.69346 4.24646 2.90345 2.73752 3.18124 2.89814 2.37899 2.77518 2.98515 4.58490 3.61458\n- 0.18466 2.31738 2.65810 1.90441 0.16124 0.00000 *\n- 1 3.62522 5.09182 4.82973 4.51990 3.68649 4.37620 5.10855 2.93874 4.24925 2.21971 0.53258 4.70538 4.87712 4.60466 4.36936 4.01793 3.96327 3.01272 5.57865 4.38535 17 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31927 4.50770 1.33828 0.61958 0.77255 0.52857 0.89026\n- 2 2.57282 4.92126 2.95122 2.37078 4.20195 3.33725 3.63371 3.63637 2.15024 3.20416 3.99586 2.78455 3.19337 2.66451 2.87256 2.27967 2.40771 3.01811 5.41240 4.05544 18 k - - -\n- 2.68630 4.42266 2.77515 2.73134 3.46321 2.40550 3.72513 3.29263 2.67681 2.69361 4.24677 2.90375 2.73797 3.18148 2.89813 2.37878 2.77556 2.98447 4.58489 3.61452\n- 0.50542 0.94278 4.93307 2.26223 0.10995 0.29953 1.35157\n- 3 2.91428 4.36070 4.49587 3.56248 3.39259 4.03553 4.34677 2.40477 3.41956 1.78885 1.45737 4.06247 4.02639 3.96388 3.90378 2.80617 2.92159 2.42814 4.97596 3.78904 144 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00992 5.01387 5.73622 0.61958 0.77255 0.48576 0.95510\n- 4 3.17547 5.72918 1.02595 2.52247 5.04974 3.57725 4.07588 4.55117 2.80163 4.02430 4.38159 2.07706 4.23337 2.71066 3.44375 2.73384 3.42513 4.10992 6.16150 4.71074 145 d - - -\n- 2.68621 4.42228 2.77510 2.73126 3.46357 2.40516 3.72498 3.29357 2.67719 2.69358 4.24693 2.90350 2.73730 3.18149 2.89804 2.37890 2.77523 2.98521 4.58480 3.61506\n- 0.12004 2.46506 3.57165 0.24343 1.53217 0.48576 0.95510\n- 5 4.35495 5.52569 6.26337 5.69073 2.39110 5.75952 5.90403 2.68179 5.56229 0.39978 3.30720 5.90688 5.68647 5.31592 5.45388 5.17547 4.54410 2.84881 5.78815 4.76148 147 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98867 5.71102 0.61958 0.77255 0.55449 0.85417\n- 6 4.79260 5.84271 5.78621 5.66246 0.30509 5.42270 4.28432 4.02432 5.43413 2.91412 4.58358 5.08793 5.68930 5.19334 5.28999 4.86404 5.01794 4.11237 4.36094 2.56817 148 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03029 4.98867 3.77121 0.61958 0.77255 0.55449 0.85417\n- 7 2.75645 5.34569 2.31018 2.20099 4.33470 3.40882 3.82993 3.32923 2.27907 3.25331 4.38951 2.76534'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87390 4.59624 0.61958 0.77255 0.69064 0.69566\n- 373 2.66681 4.26639 3.76092 3.25466 3.29527 3.40572 4.09120 1.89027 3.09458 1.90024 3.26066 3.58246 4.09670 3.45989 3.37495 3.00707 2.94469 1.96651 4.98177 3.70880 767 i - - -\n- 2.68613 4.42254 2.77523 2.73104 3.46309 2.40543 3.72532 3.29316 2.67673 2.69372 4.24643 2.90355 2.73767 3.18129 2.89814 2.37878 2.77539 2.98553 4.58483 3.61494\n- 0.28149 1.57488 3.26200 2.70431 0.06926 0.41210 1.08546\n- 374 2.61760 4.19248 3.74767 3.18274 3.11199 3.66416 3.93432 1.95784 3.08932 2.08731 3.15906 3.51095 4.03493 3.37416 3.37048 2.50963 2.85426 2.25205 4.76604 3.34614 804 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05103 3.88901 3.53079 0.61958 0.77255 0.54294 0.86998\n- 375 2.46501 4.95216 2.37997 2.22697 4.25027 3.19046 3.57811 3.69202 2.08852 3.24463 4.04555 2.70782 3.75126 2.71555 2.74958 2.55600 2.75623 3.32456 5.43932 4.06695 805 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03266 3.83365 4.55599 0.61958 0.77255 0.55976 0.84711\n- 376 2.60514 4.86272 2.39320 2.15020 4.12341 3.30018 3.59387 3.54820 2.42003 3.13873 3.95738 2.74842 3.61282 2.53069 2.89271 2.57089 2.84922 2.70801 5.36773 4.00903 806 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03312 3.81993 4.54228 0.61958 0.77255 0.55976 0.84711\n- 377 2.44239 4.26505 3.33658 2.78690 3.15134 3.46000 3.50955 2.55968 2.62242 2.38586 3.35973 3.19602 3.85613 3.04105 3.03575 2.72342 2.66648 2.38999 4.83134 3.56390 807 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03890 3.66199 4.38434 0.61958 0.77255 0.55976 0.84711\n- 378 2.54188 4.52091 2.94770 2.53940 3.80279 3.27773 3.48463 3.21772 2.08626 2.88109 3.76804 2.98068 3.76536 2.84182 2.64156 2.45678 2.81824 2.68690 5.11606 3.81793 808 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04021 3.62948 4.35183 0.61958 0.77255 0.55976 0.84711\n- 379 2.58329 4.74830 2.79750 2.35248 4.06963 3.32127 3.55477 3.43609 1.98485 3.03395 3.90440 2.89984 3.78185 2.64074 2.34130 2.70609 2.80454 3.13510 5.24813 3.98154 809 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04140 3.60088 4.32323 0.61958 0.77255 0.51909 0.90401\n- 380 2.50625 4.48175 2.69896 2.48500 3.76742 3.21496 3.67237 3.08844 2.48642 2.66729 3.74108 2.94124 3.74150 2.71345 2.84517 2.61030 2.47454 2.81771 5.14733 3.83252 810 t - - -\n- 2.68616 4.42228 2.77520 2.73126 3.46357 2.40514 3.72492 3.29357 2.67740 2.69358 4.24693 2.90346 2.73733 3.18149 2.89804 2.37887 2.77515 2.98510 4.58480 3.61506\n- 0.10029 2.34945 * 1.01923 0.44765 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Panchino_gp28__gp28.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Panchino_gp28__gp28.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2507 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Panchino_gp28__gp28\n-LENG 828\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 21 10:29:45 2023\n-NSEQ 100\n-EFFN 0.851440\n-CKSUM 1412920736\n-GA 300 300;\n-STATS LOCAL MSV -12.3462 0.69609\n-STATS LOCAL VITERBI -13.3189 0.69609\n-STATS LOCAL FORWARD -6.9397 0.69609\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55336 4.39541 2.87807 2.64828 3.28988 2.88433 3.78551 2.78218 2.60384 2.44712 3.66939 3.06906 3.46770 3.06012 2.93097 2.65958 2.82272 2.62172 4.86571 3.46190\n- 2.68619 4.42231 2.77524 2.73123 3.46360 2.40515 3.72496 3.29348 2.67746 2.69355 4.24597 2.90351 2.73739 3.18139 2.89799 2.37890 2.77521 2.98520 4.58483 3.61497\n- 0.38436 2.36412 1.49129 1.19999 0.35839 0.00000 *\n- 1 2.34562 4.21263 3.43718 2.96154 3.52599 3.21208 3.88206 2.78668 2.85656 2.57016 2.10638 3.20890 3.84693 3.21417 3.16393 2.53993 2.76538 2.50772 4.98438 3.74658 33 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.86074 4.58308 0.61958 0.77255 0.59759 0.79881\n- 2 2.43607 4.40235 3.21460 2.67192 3.66625 3.23576 3.72875 2.96992 2.63723 2.68977 3.05897 2.98086 3.59438 2.97180 3.03574 2.24646 2.42002 2.76353 5.05028 3.78598 34 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02938 3.93807 4.66042 0.61958 0.77255 0.62778 0.76309\n- 3 2.44628 4.68830 3.00578 2.45384 3.92660 3.27102 3.56558 3.33112 2.24986 2.90439 3.56914 2.88544 3.66985 2.75696 2.76003 2.26818 2.65722 2.97197 5.21345 3.89918 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02897 3.95170 4.67405 0.61958 0.77255 0.62526 0.76599\n- 4 2.54008 4.24353 3.44997 2.88383 3.32465 3.25495 3.68389 2.34117 2.72513 2.36560 3.30087 3.21165 3.90620 3.13063 3.16516 2.52271 2.72728 2.30487 4.83372 3.60249 36 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02874 3.95957 4.68192 0.61958 0.77255 0.60249 0.79286\n- 5 2.36587 4.57740 3.11725 2.55358 3.77415 3.44607 3.51478 2.75012 2.38299 2.76863 3.45277 2.68617 3.83245 2.85416 2.59325 2.66974 2.75848 2.88460 5.11001 3.82419 37 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02823 3.97736 4.69971 0.61958 0.77255 0.61555 0.77727\n- 6 2.38846 4.40266 3.05716 2.71741 4.15794 3.10886 3.90857 3.56708 2.78522 3.22728 4.06135 2.53977 3.74036 3.12124 3.17275 1.90382 1.86166 3.13996 5.46929 4.18784 38 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02823 3.97736 4.69971 0.61958 0.77255 0.61555 0.77727\n- 7 2.94004 5.15933 2.44542 1.01415 4.57263 3.08885 3.86508 4.04309 2.75945 3.63523 4.53987 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02542 4.08088 4.80323 0.61958 0.77255 0.51336 0.91250\n- 821 2.38023 5.01212 2.53785 2.15830 4.21594 3.17888 3.58158 3.66766 2.25788 3.29950 4.06737 2.69800 3.77697 2.55817 2.81054 2.51783 2.59905 3.38039 5.47134 4.08435 960 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02542 4.08088 4.80323 0.61958 0.77255 0.51336 0.91250\n- 822 2.43882 4.66543 3.06059 2.34601 3.87470 3.44145 3.65433 2.82848 2.40685 2.76905 3.69863 2.66833 3.83071 2.68182 2.92681 2.49097 2.75055 2.82274 5.19074 3.88384 961 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02542 4.08088 4.80323 0.61958 0.77255 0.51336 0.91250\n- 823 3.26043 4.59752 4.61677 4.14128 1.22078 4.26434 3.82367 2.76292 3.97489 1.78405 3.27035 4.11662 4.55724 4.04654 4.05552 3.59350 3.48203 2.76041 3.37104 2.41294 962 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06664 4.08088 3.04534 0.61958 0.77255 0.51336 0.91250\n- 824 2.40417 4.57869 2.93297 2.47711 3.39926 3.40778 3.55973 3.15923 2.44600 2.68712 3.50170 2.96144 3.83434 2.82424 2.76536 2.52810 2.79993 2.69111 4.79472 3.59300 963 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08879 4.04071 2.69745 0.61958 0.77255 0.55554 0.85276\n- 825 2.37751 4.91301 2.65625 2.23301 4.19188 2.97527 3.53086 3.63095 2.30237 3.14586 3.98671 2.82127 3.77231 2.67478 2.81002 2.32826 2.66554 3.27056 5.39883 4.03255 964 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02815 3.98007 4.70242 0.61958 0.77255 0.61314 0.78012\n- 826 2.34485 4.24555 3.45526 2.84425 2.91130 3.40341 3.79308 2.64697 2.68890 2.36796 3.35558 3.28446 3.74352 3.13834 3.17928 2.61739 2.75409 2.25715 4.83744 3.60664 965 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16161 3.98007 2.03608 0.61958 0.77255 0.61314 0.78012\n- 827 2.51574 4.71989 2.74054 2.35621 3.98720 3.24074 3.32837 3.39943 2.43305 3.01383 3.84271 2.83267 3.76920 2.66597 2.88000 2.45216 2.31398 3.02507 5.26671 3.94009 966 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05899 3.85057 3.32387 0.61958 0.77255 0.62487 0.76643\n- 828 2.41374 4.25707 3.34645 2.83322 3.41876 3.34097 3.76801 2.44753 2.77790 2.36279 3.30377 3.23736 3.83545 3.05433 3.08863 2.49218 2.70527 2.36462 4.86227 3.62629 967 l - - -\n- 2.68580 4.42253 2.77516 2.73095 3.46358 2.40520 3.72509 3.29359 2.67738 2.69336 4.24684 2.90370 2.73750 3.18148 2.89828 2.37892 2.77504 2.98524 4.58505 3.61531\n- 0.37728 1.15748 * 1.73502 0.19407 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II__AAA_21.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II__AAA_21.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,941 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AAA_21\n-ACC PF13304.7\n-DESC AAA domain, putative AbiEii toxin, Type IV TA system\n-LENG 304\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 6 09:35:10 2020\n-NSEQ 73\n-EFFN 37.252991\n-CKSUM 2669383154\n-GA 27.00 27.00;\n-TC 27.00 27.00;\n-NC 26.90 26.90;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.9907 0.70118\n-STATS LOCAL VITERBI -11.6778 0.70118\n-STATS LOCAL FORWARD -4.8712 0.70118\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68258 4.97636 2.83432 2.63788 3.08434 2.77510 3.67164 2.75118 2.77845 2.26401 4.07184 3.02517 3.13555 3.22968 2.87416 2.56580 2.91701 2.87409 4.57565 3.56984\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.00000 *\n- 1 3.94222 4.33129 6.51629 5.89983 1.73280 5.70807 6.04241 1.58946 3.83863 1.43606 3.06781 5.87555 6.07162 5.80940 4.43183 2.94015 4.00582 1.81311 6.53168 4.19168 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 2 2.17338 5.91592 6.45951 5.84687 3.22821 3.82551 3.94123 3.19501 5.64040 2.99718 3.27209 1.29036 6.06421 5.77903 5.66247 2.98776 1.40723 2.79326 6.53709 3.73506 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 3 1.98577 3.86130 6.51950 5.90321 2.86402 2.42301 6.04610 2.16971 5.68466 2.05105 3.50204 5.87897 6.07485 5.81298 5.68737 3.64794 3.57349 1.07486 6.53524 5.35959 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 4 6.57800 7.65050 8.63389 8.08334 2.89838 8.26239 8.55395 1.20238 8.03467 0.75608 3.51079 8.47783 7.94467 7.61399 7.85613 7.78883 6.75934 1.98116 8.10071 7.30443 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 5 3.38838 5.91754 6.52476 5.90888 3.28539 4.38332 6.05343 1.01257 3.93322 2.85379 5.03714 5.88544 6.08138 5.81962 5.69419 5.03042 2.49547 1.41154 6.54264 2.16698 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 6 4.16808 7.62980 7.86611 7.94710 8.45201 0.02567 8.50683 8.18205 8.03038 7.75306 8.57645 7.38278 7.23243 8.09649 7.90219 6.04738 6.41861 7.19891 9.37310 8.77533 6 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 297 4.96600 4.55709 7.66698 7.73353 7.89521 5.68320 8.03698 7.43768 7.53139 7.13199 7.83225 6.68313 6.57916 7.52518 7.39033 1.19920 0.40357 6.38167 9.22706 8.28238 471 T - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 298 5.95075 8.30232 5.03421 5.08296 7.56892 6.05536 0.11350 7.63419 5.47255 6.97505 7.95467 4.15017 4.38287 3.09575 5.81386 5.84254 6.30935 7.11056 8.73105 7.23294 472 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 299 4.01567 7.15112 2.05371 3.72093 6.48557 5.30195 4.33554 4.38376 4.33787 4.26229 6.20154 2.33518 5.74261 3.01953 4.84674 0.51672 4.86162 5.53740 7.58411 6.15630 473 S - - -\n- 2.68648 4.42256 2.77550 2.73154 3.46384 2.40543 3.72525 3.29268 2.67771 2.69385 4.24462 2.90307 2.73770 3.18177 2.89831 2.37917 2.77305 2.98549 4.58507 3.61400\n- 0.09716 2.50934 4.48586 0.04045 3.22794 0.48576 0.95510\n- 300 2.58436 6.44744 2.93388 3.85350 5.64571 5.27319 5.48905 3.41507 4.33983 2.40559 4.04550 2.96493 0.86677 3.93549 4.04278 3.00166 2.76705 3.29685 6.97948 3.78458 475 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00110 7.21165 7.93400 0.61958 0.77255 0.73580 0.65224\n- 301 2.62651 6.65672 4.01984 2.46622 3.02192 3.15035 3.47000 4.22151 3.70324 1.71367 5.72019 3.14116 5.57826 3.85926 3.98919 2.42550 2.87255 1.74266 7.14237 2.65050 476 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00110 7.21165 7.93400 0.61958 0.77255 0.73580 0.65224\n- 302 3.55776 3.84298 4.45600 3.47386 3.01926 5.69935 6.03374 1.77106 5.67154 0.82803 3.68526 5.86633 6.06286 5.80011 5.67478 4.08970 3.23445 1.94272 6.52341 5.34775 477 l - - -\n- 2.68580 4.42270 2.77391 2.73168 3.46213 2.40558 3.72540 3.29399 2.67725 2.69242 4.24735 2.90392 2.73785 3.18102 2.89846 2.37885 2.77565 2.98563 4.58522 3.61548\n- 0.12903 2.11449 7.93400 0.02808 3.58679 0.35618 1.20513\n- 303 3.50648 4.34948 4.18253 4.37369 3.66083 5.70644 6.04021 1.62158 4.40773 1.05429 2.46034 4.37849 6.07010 5.80330 4.40376 3.73764 3.33677 1.90223 4.53099 5.35682 479 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00108 7.22262 7.94497 0.61958 0.77255 0.48576 0.95510\n- 304 1.77101 6.87370 1.46586 2.16388 6.22017 3.80206 4.28786 5.70714 3.07955 5.17958 4.15774 2.01655 5.52648 3.26121 3.08218 2.09965 3.81524 5.26509 7.30554 5.89373 480 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00073 7.22227 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II__AriA_AAA21.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II__AriA_AAA21.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1214 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME All_AAA21_ali\n-LENG 397\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Jun 2 11:44:45 2023\n-NSEQ 266\n-EFFN 9.201385\n-GA 50 50;\n-CKSUM 1386080692\n-STATS LOCAL MSV -11.4926 0.69930\n-STATS LOCAL VITERBI -12.9297 0.69930\n-STATS LOCAL FORWARD -5.4002 0.69930\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72835 4.66772 2.84182 2.55000 3.34226 2.90759 3.71308 2.73100 2.60835 2.37104 3.78524 2.94145 3.38119 3.04941 2.93940 2.50497 2.86244 2.84475 4.69818 3.63186\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04130 3.60319 4.32554 0.61958 0.77255 0.00000 *\n- 1 2.77255 4.37689 3.75270 3.34738 3.13105 3.61448 4.14618 2.28417 3.12081 1.79481 2.03566 3.65125 4.09443 3.53495 3.35351 3.08314 3.08357 2.25087 4.92059 3.64263 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04130 3.60319 4.32554 0.61958 0.77255 0.48576 0.95510\n- 2 2.27375 4.39108 2.85132 2.55009 3.94265 3.10797 3.71463 3.21642 2.29739 2.96518 3.85710 2.83494 3.69271 2.93412 2.79247 2.53439 2.40643 2.88739 5.25549 3.98288 2 a - - -\n- 2.68623 4.42235 2.77524 2.73116 3.46364 2.40519 3.72489 3.29334 2.67740 2.69337 4.24674 2.90343 2.73750 3.18148 2.89811 2.37893 2.77524 2.98506 4.58450 3.61499\n- 0.13146 2.74153 2.83506 1.94636 0.15408 0.48576 0.95510\n- 3 2.70636 4.64989 2.46928 1.62242 3.96511 3.08252 3.69849 3.35407 2.54141 3.04327 4.07242 2.85153 3.68372 2.95009 2.88373 2.75297 3.02402 3.08602 5.20535 3.96595 31 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06517 3.55663 3.36518 0.61958 0.77255 0.51700 0.90710\n- 4 2.64261 4.71936 2.57522 2.34651 3.99566 3.19489 3.57364 3.48966 2.09594 3.09279 3.99424 2.61609 3.73503 2.56605 2.52834 2.67707 2.92240 3.17382 5.23941 3.90825 32 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04425 3.53572 4.25806 0.61958 0.77255 0.53027 0.88781\n- 5 2.55379 4.53249 2.84660 2.51655 3.64862 3.21262 3.18941 3.34162 2.26915 2.94605 3.85342 2.94318 3.73923 2.83361 2.38797 2.45463 2.84854 3.03335 4.99895 3.61692 33 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04425 3.53572 4.25806 0.61958 0.77255 0.53027 0.88781\n- 6 2.55415 4.31272 3.40457 2.95035 3.30823 3.40576 3.87152 2.49965 2.74428 2.03629 3.02466 3.30491 3.38405 3.18443 3.03386 2.77673 2.86055 2.36743 4.93365 3.62403 34 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04425 3.53572 4.25806 0.61958 0.77255 0.53027 0.88781\n- 7 2.16191 4.07495 3.00478 2.79834 3.83482 2.84799 3.90558 3.11371 2.80126 2.94175 3.90626 3.05067 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 390 2.23464 4.09656 2.92326 2.76951 3.58474 2.83857 3.84431 3.07544 2.78632 2.85692 3.90350 3.04304 3.54559 3.20208 3.04540 1.98317 2.68732 2.74284 5.01555 3.67742 1321 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 391 2.23464 4.09656 2.92326 2.76951 3.58474 2.83857 3.84431 3.07544 2.78632 2.85692 3.90350 3.04304 3.54559 3.20208 3.04540 1.98317 2.68732 2.74284 5.01555 3.67742 1322 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 392 2.23464 4.09656 2.92326 2.76951 3.58474 2.83857 3.84431 3.07544 2.78632 2.85692 3.90350 3.04304 3.54559 3.20208 3.04540 1.98317 2.68732 2.74284 5.01555 3.67742 1323 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 393 2.59678 4.40888 2.80413 2.59008 3.69495 3.05801 3.67180 3.12011 1.90731 2.81350 3.88492 2.99824 3.64952 2.95924 2.61717 2.71341 2.93233 2.87333 4.97511 3.74814 1324 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 394 2.32739 4.03138 2.88830 2.77436 3.71677 1.80479 3.83890 3.26496 2.86254 2.97489 4.02726 3.07404 3.40571 3.25023 3.08082 2.50384 2.77722 2.90911 4.86559 3.82646 1325 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 395 2.23464 4.09656 2.92326 2.76951 3.58474 2.83857 3.84431 3.07544 2.78632 2.85692 3.90350 3.04304 3.54559 3.20208 3.04540 1.98317 2.68732 2.74284 5.01555 3.67742 1326 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 396 2.67764 4.28531 3.41982 3.15440 3.06409 3.28952 3.94772 2.38494 2.94895 1.68619 3.35843 3.44816 3.85935 3.42033 3.15869 2.93700 3.03269 2.29402 4.70641 3.34735 1327 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04695 3.47795 4.20030 0.61958 0.77255 0.48576 0.95510\n- 397 2.73970 4.30142 3.55660 3.27069 2.10989 3.38789 3.81803 2.43561 3.19427 1.97745 3.30517 3.52040 3.92584 3.51915 3.40783 2.99747 3.07913 2.36644 4.33132 2.81740 1328 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03184 3.46285 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II__AriB_DUF4435_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II__AriB_DUF4435_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,983 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME AriB_DUF4435_II_ali\n-LENG 320\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Jun 2 12:05:34 2023\n-NSEQ 285\n-EFFN 18.008194\n-GA 70 70;\n-CKSUM 2531369595\n-STATS LOCAL MSV -11.1672 0.70077\n-STATS LOCAL VITERBI -12.9086 0.70077\n-STATS LOCAL FORWARD -4.8707 0.70077\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71566 4.22990 2.76678 2.56660 3.15621 3.03263 3.70730 2.79956 2.58742 2.43413 3.73522 2.90830 3.42476 3.14125 2.89219 2.60358 2.97077 2.83318 4.60615 3.30182\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01876 4.38135 5.10369 0.61958 0.77255 0.00000 *\n- 1 3.46560 4.94686 4.65528 4.31878 3.55490 4.25345 4.93627 2.78884 4.05429 2.09561 0.65403 4.52421 4.74151 4.41395 4.19303 3.85341 3.79432 2.84986 5.44345 4.24104 1 M - - -\n- 2.68634 4.42241 2.77535 2.73139 3.46323 2.40529 3.72510 3.29310 2.67749 2.69371 4.24706 2.90336 2.73744 3.18162 2.89766 2.37862 2.77488 2.98534 4.58493 3.61519\n- 0.81569 1.54316 1.06722 1.13972 0.38553 0.48576 0.95510\n- 2 2.65804 4.54451 3.33411 2.77838 3.73794 3.56246 3.82500 3.10912 2.72909 2.79464 2.08792 2.63361 3.96307 3.07177 2.87392 2.38228 2.66672 2.65767 5.12668 3.86300 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15386 4.37693 2.03991 0.61958 0.77255 0.90001 0.52183\n- 3 2.57446 4.69890 2.96749 2.69448 3.88709 3.58634 3.80655 2.86818 2.37351 2.74558 2.19357 3.18196 3.55511 3.01251 2.96064 2.29097 2.93503 3.00188 5.23945 3.95042 8 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01629 4.52113 5.24348 0.61958 0.77255 1.01678 0.44904\n- 4 2.81933 5.02208 3.21837 2.43571 4.26087 2.92598 3.85370 3.00815 2.38034 3.07819 2.06977 2.76643 3.55344 3.00331 2.95518 2.30132 2.88771 3.35427 5.52423 4.18874 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03370 4.84788 3.67734 0.61958 0.77255 1.01678 0.44904\n- 5 2.51838 5.31474 2.87963 2.36853 4.64342 2.79452 3.81288 4.11794 2.24217 3.61306 3.03293 2.44475 4.01701 2.91479 2.88304 1.84505 2.92862 3.44789 5.75749 4.35667 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15258 4.91945 2.00836 0.61958 0.77255 1.04691 0.43236\n- 6 2.54231 5.24696 2.78323 2.35306 4.54858 2.38007 3.83109 3.55333 2.44960 3.53352 2.68439 2.36495 4.03116 2.63949 3.06976 2.83179 2.70300 3.18309 5.70657 3.83183 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01084 4.92584 5.64819 0.61958 0.77255 0.78429 0.60962\n- 7 2.91570 5.09688 3.32866 2.57310 4.32954 3.75159 3.95662 2.81991 1.92388 2.37759 3.56123 3.02'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01067 4.94187 5.66421 0.61958 0.77255 0.98557 0.46717\n- 313 1.80422 4.79908 3.33026 2.52407 3.98948 3.37412 3.50502 3.01064 2.75345 2.52149 3.88457 3.16404 3.82363 3.09073 3.00636 2.35249 2.64148 2.90543 5.33730 3.51964 892 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01269 4.76922 5.49157 0.61958 0.77255 0.98557 0.46717\n- 314 2.17440 5.07837 3.08961 2.27942 4.35642 3.56312 3.76329 3.79539 2.48295 2.85017 4.14223 2.44556 3.17745 2.88941 3.01113 2.15971 2.55071 3.15479 5.55942 4.19580 893 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01382 4.68429 5.40663 0.61958 0.77255 0.98557 0.46717\n- 315 2.67774 5.04436 2.81594 2.43019 4.33484 3.47395 2.42946 3.78341 2.20949 3.20741 3.35209 2.87523 3.43828 2.57575 2.90556 2.28505 2.90885 3.19069 5.51081 4.13648 894 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01794 4.42537 5.14772 0.61958 0.77255 0.98557 0.46717\n- 316 2.27342 4.02029 2.63450 2.08441 4.25334 3.02972 3.64115 3.69487 2.41327 2.96228 4.03579 2.63629 3.83173 2.76616 2.89209 2.53266 2.77507 3.32816 5.45110 4.08407 895 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02087 4.27577 4.99811 0.61958 0.77255 0.66871 0.71820\n- 317 2.47007 4.21377 3.40276 3.08090 3.37174 3.26330 4.01734 2.16805 2.90445 2.19159 3.42576 3.35950 3.86111 3.35489 3.16117 2.72380 2.61801 2.16316 5.04552 3.71577 896 v - - -\n- 2.68627 4.42214 2.77522 2.73126 3.46362 2.40527 3.72513 3.29327 2.67744 2.69363 4.24659 2.90347 2.73726 3.18141 2.89813 2.37847 2.77527 2.98530 4.58495 3.61522\n- 0.12918 2.24208 4.20344 2.27033 0.10901 0.38475 1.14137\n- 318 2.71034 4.29060 3.76895 3.23002 3.35159 3.74637 4.06563 1.84745 2.87940 1.88522 3.26512 3.58122 4.12453 3.42155 3.31552 3.05284 2.80068 2.06553 4.99233 3.76993 925 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03438 3.78320 4.50554 0.61958 0.77255 0.44648 1.02130\n- 319 2.71643 4.29885 3.73102 3.21909 2.10856 3.67865 3.69774 2.73604 3.13341 2.36787 3.38427 3.49248 3.65938 3.39432 3.40067 2.97325 2.79635 2.55904 4.26827 2.10147 926 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86196 4.58431 0.61958 0.77255 0.48576 0.95510\n- 320 2.40203 4.49476 3.04876 2.58392 3.88998 3.28135 3.71562 3.23990 2.53043 2.91902 3.78084 3.02995 3.77587 2.30946 2.91833 2.26378 2.66208 2.60177 5.21766 3.93426 927 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02147 3.85170 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II_merge__AAA_21_DUF4435.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_II_merge__AAA_21_DUF4435.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1733 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AAA_21_DUF4435\n-LENG 570\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Jan 13 20:19:48 2021\n-NSEQ 10\n-EFFN 3.012695\n-CKSUM 3689005764\n-GA 50 50;\n-STATS LOCAL MSV -11.7749 0.69743\n-STATS LOCAL VITERBI -12.4028 0.69743\n-STATS LOCAL FORWARD -6.2932 0.69743\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61603 4.44942 2.85815 2.55472 3.31898 3.08536 3.73962 2.70529 2.63446 2.41136 3.78042 2.96554 3.50312 3.03163 2.93236 2.62964 2.85746 2.64161 4.70385 3.49389\n- 2.68806 4.42485 2.77727 2.72798 3.46408 2.40814 3.72878 3.28659 2.67622 2.69132 4.24154 2.89805 2.74064 3.18195 2.89811 2.38166 2.77727 2.98383 4.58046 3.61119\n- 1.19940 1.15625 0.95722 3.67822 0.02559 0.00000 *\n- 1 2.99970 4.59438 4.07379 3.46375 3.45254 4.00675 4.21011 2.75335 3.09520 1.40936 2.25115 3.80585 4.34406 3.55785 1.99776 3.29812 3.22166 2.70560 5.11503 3.93910 94 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45148 5.17383 0.61958 0.77255 1.17916 0.36750\n- 2 1.93699 4.93226 2.23697 2.53201 4.20926 3.50090 3.78731 2.52881 2.61736 3.22783 4.05221 2.34719 3.93872 2.94489 3.08785 2.76902 2.98521 3.26348 5.48253 4.13979 95 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45148 5.17383 0.61958 0.77255 1.17916 0.36750\n- 3 2.79347 5.16301 2.16069 2.42791 4.41279 3.47717 3.76336 3.91748 2.58311 3.46086 4.25335 2.28263 3.93165 2.89995 3.07974 1.92456 3.03909 3.53783 5.62355 2.61457 96 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45148 5.17383 0.61958 0.77255 1.17916 0.36750\n- 4 2.77753 5.06065 2.99149 2.04656 4.34325 2.22499 3.74201 3.76736 1.99565 2.39849 4.13811 3.03799 3.94297 2.87862 2.90499 2.78070 3.00978 3.41833 5.53489 4.18878 97 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45148 5.17383 0.61958 0.77255 1.17916 0.36750\n- 5 2.75314 2.45131 4.33053 3.78814 3.47060 3.78057 4.35532 2.56219 3.63995 1.50348 3.43766 3.93357 4.25502 3.88396 3.81832 3.13000 1.89227 2.38970 5.05664 3.86838 98 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45148 5.17383 0.61958 0.77255 1.17916 0.36750\n- 6 3.06844 4.67769 3.98243 3.46396 3.82808 4.01318 4.28531 1.09726 2.04223 2.63711 3.74480 3.81340 4.41254 3.58825 3.22517 3.37785 3.31238 2.41342 5.38197 4.15523 99 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01748 4.45148 5.17383 0.61958 0.77255 1.17916 0.36750\n- 7 2.88700 5.00531 3.28646 2.73693 4.24302 3.64944 3.80007 3.67167 2.39581 2.27045 4.10935 1.85225 4.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01079 4.93025 5.65259 0.61958 0.77255 0.48576 0.95510\n- 563 2.89589 4.55594 2.72247 3.29710 3.63617 3.89277 4.15187 3.02141 3.25081 1.79258 3.65562 3.67274 2.89173 3.53814 3.57615 3.15295 3.12925 2.33584 5.11416 1.81978 689 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01079 4.93025 5.65259 0.61958 0.77255 0.48576 0.95510\n- 564 3.09522 4.46230 4.97181 4.37059 2.42328 4.28376 4.61606 2.08852 4.18492 1.10829 3.40297 4.41564 4.61954 4.31371 4.22371 2.57908 3.32660 2.11055 5.08837 3.92453 690 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01079 4.93025 5.65259 0.61958 0.77255 0.48576 0.95510\n- 565 2.86184 4.88430 3.38041 2.14228 2.94648 2.39931 3.96035 3.47507 2.82062 2.49954 3.97631 3.32278 2.17808 3.15831 3.25733 2.95254 2.45137 3.19558 5.42688 4.13125 691 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11181 4.93025 2.31705 0.61958 0.77255 0.48576 0.95510\n- 566 2.53057 5.31350 3.07126 1.98148 4.65375 3.59502 3.78123 4.13266 1.89847 3.61476 4.35729 2.65397 3.21451 2.88069 2.50619 2.78914 2.15985 3.70195 5.74765 4.34461 692 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01193 4.83036 5.55271 0.61958 0.77255 0.70889 0.67765\n- 567 2.85355 4.30333 4.40523 2.70354 2.19291 2.80336 4.28799 2.25238 3.68380 2.10556 3.41282 3.99065 4.34222 3.89034 3.83663 3.26839 3.08615 1.65827 4.92833 3.73916 693 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01193 4.83036 5.55271 0.61958 0.77255 0.70889 0.67765\n- 568 1.93193 4.72834 2.72996 2.91188 3.92671 3.71708 3.98152 3.29122 2.89171 2.17138 3.84754 3.37444 4.11792 3.21862 3.30463 2.20024 2.42447 2.44276 5.31147 4.04059 694 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09688 4.83036 2.47279 0.61958 0.77255 0.70889 0.67765\n- 569 2.26711 4.97964 2.54257 2.66177 4.24158 3.61526 3.11984 3.65178 2.69482 3.26869 4.09019 3.17616 1.90432 3.03380 3.15623 2.85462 3.05526 2.28214 5.52182 4.19080 695 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10772 4.74647 2.37045 0.61958 0.77255 0.85144 0.55652\n- 570 2.25953 5.15823 2.19426 2.49003 4.46428 3.54033 3.74562 3.92051 2.50428 2.55638 4.21830 2.44577 3.94105 2.86009 2.57237 2.29836 2.99516 3.52949 5.62393 4.24045 696 d - - -\n- 2.68522 4.42266 2.77561 2.73112 3.46176 2.40554 3.72535 3.29395 2.67782 2.69396 4.24580 2.90292 2.73781 3.18105 2.89780 2.37891 2.77561 2.98484 4.58518 3.61544\n- 0.71935 0.66762 * 1.00177 0.45765 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I__AAA_15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I__AAA_15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1148 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME AAA_15\n-ACC PF13175.7\n-DESC AAA ATPase domain\n-LENG 373\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 6 08:26:31 2020\n-NSEQ 34\n-EFFN 6.752686\n-CKSUM 3995434411\n-GA 32.10 32.10;\n-TC 32.10 32.10;\n-NC 32.00 32.00;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -11.1872 0.69969\n-STATS LOCAL VITERBI -12.2899 0.69969\n-STATS LOCAL FORWARD -5.0819 0.69969\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.75364 4.63730 2.86447 2.49818 3.21561 3.02444 3.67495 2.67554 2.45031 2.47236 3.84728 2.79669 3.42116 3.01314 3.06753 2.56754 2.85348 2.95112 5.04316 3.50709\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04022 5.60927 3.33106 0.61958 0.77255 0.00000 *\n- 1 5.39419 6.69439 6.45436 6.39601 5.44827 5.62746 6.82974 4.94458 6.24118 4.03593 0.06937 6.48496 6.24302 6.54059 6.19221 5.76136 5.82140 5.08939 7.12060 6.10296 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19135 5.57471 1.76983 0.61958 0.77255 0.64805 0.74038\n- 2 3.09551 5.22383 3.54495 2.48897 3.51665 3.93952 4.13840 2.93115 1.14400 3.47158 4.29992 3.48907 4.32671 3.30490 2.60028 3.14972 3.32512 3.12132 5.73163 2.59020 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11503 5.39016 2.26240 0.61958 0.77255 0.21127 1.65841\n- 3 4.61725 5.76790 6.69338 6.16464 4.19704 6.20809 6.65527 0.66708 6.08635 1.20993 2.98700 6.39471 6.17418 5.94150 6.04220 5.65671 4.83472 2.57995 6.52681 5.59068 3 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00595 5.52389 6.24624 0.61958 0.77255 0.83951 0.56550\n- 4 3.12646 3.91201 2.81778 2.33244 4.98370 3.24780 3.67937 3.93984 1.74070 3.94365 4.67871 2.29387 4.29356 2.52559 2.78482 2.19276 2.71585 3.24310 6.07058 4.65936 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00595 5.52389 6.24624 0.61958 0.77255 0.49946 0.93358\n- 5 2.97142 5.66489 3.40580 2.21146 3.71500 3.93042 4.11727 4.49441 1.64624 3.96964 4.70585 2.50984 4.32392 2.65301 2.90493 1.66953 2.60923 4.05520 6.09775 4.68773 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00565 5.57490 6.29725 0.61958 0.77255 0.39661 1.11656\n- 6 3.24653 5.22554 6.00540 5.44874 2.97666 5.33143 5.77754 0.93033 5.29644 1.91744 3.36737 5.50014 5.60273 5.42167 5.33295 4.68983 4.19496 1.35111 6.14564 4.99434 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 366 3.28497 2.77199 4.17467 2.29658 4.80193 4.10201 4.74387 4.18359 3.64800 3.86125 4.70503 4.04070 4.65916 3.96945 4.04802 1.57944 1.01908 3.24000 6.15626 4.89294 659 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 367 3.45251 5.36844 5.48980 5.49171 6.15987 4.15235 6.23567 5.67095 5.51828 5.38722 6.15280 4.99561 5.02805 5.66101 5.55195 2.47277 0.21591 4.76928 7.49802 6.44544 660 T - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 368 6.12752 7.17938 6.14977 6.17233 5.93667 5.76243 0.03311 7.17492 6.15975 6.32515 7.61630 6.46802 6.40597 6.62330 6.18373 6.30241 6.53742 6.84348 7.14635 5.90357 661 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 369 3.69510 5.88903 3.01885 3.54149 5.92140 4.19738 5.10299 5.44080 4.12873 4.98267 5.78790 2.68119 4.90290 4.28848 4.65411 0.40873 2.73732 4.82960 7.13603 5.73582 662 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 370 3.19495 5.62585 2.50471 2.49537 4.93861 3.97279 4.17070 4.40292 2.92333 3.00003 4.67694 3.00509 1.33885 3.27955 3.41129 1.91991 3.02294 3.99942 3.93187 4.68748 663 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 371 2.69410 5.09083 3.24858 2.79528 2.70552 3.38021 1.65557 3.14333 3.28395 2.96150 4.18467 3.26435 4.51186 3.60903 3.69091 3.14587 3.07362 3.38041 3.54140 2.01475 664 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 372 3.74182 3.55592 5.74802 5.15390 2.24264 5.00067 5.36551 1.11269 4.96336 1.91274 2.07489 5.16999 5.30291 5.06028 4.96772 4.33321 3.97372 1.94193 5.76428 4.62370 665 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00546 5.60927 6.33162 0.61958 0.77255 0.48576 0.95510\n- 373 1.88884 5.16737 5.94848 5.40976 4.46593 5.30090 5.80522 1.15158 5.27228 1.91296 4.32941 5.46605 5.60183 5.45978 5.34675 4.66496 3.17859 1.35482 6.24232 5.04369 666 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00368 5.60749 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I__AriA_AAA15.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I__AriA_AAA15.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1259 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME AriA_AAA15_ali\n-LENG 412\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Jun 2 11:55:07 2023\n-NSEQ 219\n-EFFN 6.245590\n-GA 100 100;\n-CKSUM 2398198172\n-STATS LOCAL MSV -11.5653 0.69907\n-STATS LOCAL VITERBI -12.8433 0.69907\n-STATS LOCAL FORWARD -5.1996 0.69907\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.76109 4.70688 2.89286 2.52860 3.24878 3.02869 3.71380 2.66577 2.52127 2.39120 3.81251 2.88162 3.45841 3.04517 2.97461 2.49957 2.85045 2.87797 4.86699 3.59751\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03992 3.63658 4.35893 0.61958 0.77255 0.00000 *\n- 1 2.79724 4.39261 3.79322 3.38436 3.13636 3.64717 4.17518 2.29102 3.15860 1.78609 1.93197 3.68613 4.12135 3.56634 3.38862 3.11421 3.10576 2.26415 4.93500 3.66473 1 l - - -\n- 2.68626 4.42237 2.77528 2.73115 3.46334 2.40525 3.72496 3.29342 2.67734 2.69352 4.24674 2.90342 2.73748 3.18149 2.89774 2.37894 2.77525 2.98509 4.58489 3.61515\n- 0.20664 2.42710 2.31879 1.92366 0.15791 0.48576 0.95510\n- 2 2.38150 4.31678 3.71434 3.20678 3.28437 3.64534 4.08081 2.24654 3.03753 1.81585 2.67405 3.54997 4.07627 3.41028 3.32305 2.98354 2.95764 2.14852 5.01060 3.77752 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08334 3.65710 2.91597 0.61958 0.77255 0.54567 0.86620\n- 3 2.39349 3.74056 3.59900 3.09707 3.51225 3.27844 3.98909 2.47675 2.95150 2.38970 3.07671 3.36654 3.83716 3.31206 3.24703 2.64665 2.13215 2.26861 5.06475 3.83032 26 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03907 3.65761 4.37996 0.61958 0.77255 0.54020 0.87379\n- 4 2.35260 4.22549 3.36638 2.81423 3.22372 3.32187 3.75020 2.67652 2.75154 2.39631 3.24962 3.21101 3.84552 3.07235 3.10209 2.59512 2.61800 2.37279 4.84579 3.43300 27 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70510 4.42745 0.61958 0.77255 0.55450 0.85416\n- 5 2.57176 4.19025 3.63161 3.05631 3.27348 3.59102 3.58366 2.47088 2.93758 2.13443 2.34115 3.40466 3.96417 3.16985 3.15011 2.79745 2.80306 2.36657 4.76978 3.54952 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02875 3.95913 4.68148 0.61958 0.77255 0.55450 0.85416\n- 6 2.51442 4.93542 2.60883 2.13956 4.22105 3.16201 3.57456 3.45586 2.35323 3.21754 4.00270 2.61426 3.76157 2.64357 2.73555 2.42258 2.65460 3.29571 5.41202 4.03852 29 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02875 3.95913 4.68148 0.61958 0.77255 0.55450 0.85416\n- 7 2.51109 4.87710 2.48806 2.23097 3.78583 3.34992 3.59693 3.57544 2.39952 3.04777 3.95766 2.35430'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03594 3.73972 4.46207 0.61958 0.77255 0.52204 0.89970\n- 405 2.54256 4.64990 2.84928 2.42800 3.69614 3.37279 3.57787 3.27257 2.33029 2.89892 3.56781 2.74912 3.76773 2.75112 2.43660 2.60073 2.72365 2.97395 5.15500 3.68807 1359 k - - -\n- 2.68609 4.42231 2.77508 2.73121 3.46324 2.40519 3.72500 3.29360 2.67747 2.69351 4.24696 2.90344 2.73746 3.18146 2.89789 2.37893 2.77526 2.98524 4.58483 3.61509\n- 0.19337 1.80464 4.48378 1.02455 0.44466 0.53358 0.88310\n- 406 2.23726 4.51187 2.40491 2.35254 4.13131 2.87446 3.72065 3.55721 2.64350 3.19199 4.03283 2.60502 3.65373 2.92062 3.08960 2.15068 2.77544 3.15234 5.42772 4.09765 1367 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03844 3.67366 4.39601 0.61958 0.77255 0.49186 0.94543\n- 407 2.67213 4.94406 2.14449 2.14289 4.22823 3.13705 3.62229 3.74849 2.51223 3.32810 4.19011 2.09731 3.71547 2.61390 2.97515 2.64681 2.96303 3.38400 5.48820 4.07658 1368 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03895 3.66065 4.38300 0.61958 0.77255 0.50827 0.92013\n- 408 2.65269 4.87257 2.26292 2.13308 4.16117 3.22210 3.57568 3.58926 2.33596 3.17996 4.03552 2.76493 3.73199 2.74581 2.35446 2.64820 2.90982 3.25584 5.37391 4.02885 1369 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04041 3.62453 4.34688 0.61958 0.77255 0.50827 0.92013\n- 409 2.15094 4.35841 2.95742 2.44420 3.75985 3.03440 3.74518 2.73615 2.59721 2.76415 3.68891 3.02575 3.74591 2.98525 2.95353 2.58769 2.76179 2.65837 5.15319 3.87795 1370 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04041 3.62453 4.34688 0.61958 0.77255 0.50827 0.92013\n- 410 2.43555 4.23176 3.17808 2.91242 3.26873 3.14058 3.83983 2.63306 2.75125 2.20052 3.59661 3.20691 3.76132 3.22581 3.00478 2.46456 2.82285 2.43681 4.85136 3.42687 1371 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04674 3.48219 4.20454 0.61958 0.77255 0.47194 0.97761\n- 411 2.48467 4.42396 2.62974 2.24138 3.88593 3.02547 3.70559 3.26188 2.53758 2.95470 3.92680 2.89198 2.69314 2.95636 2.86718 2.58364 2.83845 2.95476 5.18007 3.92759 1372 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04504 3.51836 4.24071 0.61958 0.77255 0.48576 0.95510\n- 412 2.63425 4.37467 3.14512 2.59773 2.54474 3.37695 3.74500 2.62272 2.79297 2.29585 3.45227 3.21394 3.87681 3.17159 3.10039 2.82299 2.92797 2.47382 4.64864 3.19410 1373 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03054 3.50386 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I__AriB_DUF4435_I.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I__AriB_DUF4435_I.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,923 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME AriB_DUF4435_I_ali\n-LENG 300\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Jun 2 13:35:09 2023\n-NSEQ 236\n-EFFN 17.137512\n-GA 50 50;\n-CKSUM 1595697149\n-STATS LOCAL MSV -10.6959 0.70128\n-STATS LOCAL VITERBI -12.7988 0.70128\n-STATS LOCAL FORWARD -4.8460 0.70128\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.81436 4.17033 2.77957 2.58704 3.07014 3.02483 3.69891 2.64897 2.52880 2.40876 3.77933 2.84625 3.54528 3.25739 3.00802 2.58404 2.98448 2.85629 4.72062 3.29409\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03117 3.87968 4.60202 0.61958 0.77255 0.00000 *\n- 1 2.97472 4.52231 4.05707 3.65098 3.21065 3.83942 4.38445 2.38696 3.41870 1.80416 1.36419 3.92761 4.29998 3.80005 3.62319 3.32462 3.28012 2.39393 5.05249 3.81495 1 m - - -\n- 2.68623 4.42230 2.77508 2.73128 3.46325 2.40518 3.72500 3.29359 2.67730 2.69344 4.24695 2.90352 2.73745 3.18126 2.89806 2.37892 2.77525 2.98524 4.58482 3.61508\n- 0.52775 2.30083 1.17152 1.14450 0.38329 0.48576 0.95510\n- 2 2.76259 4.51972 3.33718 2.51467 3.54675 3.60447 3.94298 2.76046 2.81093 2.37921 1.70856 3.35189 4.04464 3.23255 3.12084 2.96353 3.01932 2.61783 5.09736 3.84790 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02741 4.00620 4.72854 0.61958 0.77255 0.42773 1.05552\n- 3 2.61984 4.56795 3.21667 2.65375 3.74818 3.51548 3.73806 2.91220 2.32339 2.67962 3.33953 3.13020 3.16000 2.95964 2.75557 2.30905 2.85120 2.44548 5.11606 3.83799 8 s - - -\n- 2.68631 4.42238 2.77520 2.73071 3.46367 2.40525 3.72507 3.29367 2.67753 2.69314 4.24702 2.90346 2.73752 3.18142 2.89801 2.37892 2.77510 2.98531 4.58490 3.61516\n- 0.29897 2.41621 1.77692 1.66220 0.21038 0.45140 1.01263\n- 4 2.59413 4.57401 2.95000 2.60083 3.39523 3.07081 3.70748 2.75863 2.58437 2.81179 3.29585 2.52689 3.86874 2.91903 3.01320 2.52245 2.52639 2.87662 5.12144 3.83527 19 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02365 4.15209 4.87444 0.61958 0.77255 0.38204 1.14718\n- 5 2.79999 5.12160 2.41004 2.26943 4.39605 3.59599 3.80076 3.83506 2.57589 3.17886 1.87856 2.64185 3.54738 2.92787 3.05407 2.51781 3.03227 3.26817 5.60019 4.23529 20 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01270 4.76832 5.49067 0.61958 0.77255 0.48576 0.95510\n- 6 2.75175 4.96713 3.04480 2.54307 4.17417 3.41090 3.59694 2.60816 2.65119 3.21133 2.04024 2.94470 4.13359 3.13831 3.06237 2.37069 2.75693 2.73734 5.49251 3.57171 21 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01002 5.00446 5.72681 0.61958 0.77255 0.48576 0.95510\n- 7 2.89257 5.05642 3.01571 2.80592 3.66230 3.14911 4.10511 3.11223 2.95785 2.53922 1.97691 2.826'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01734 4.45906 5.18141 0.61958 0.77255 0.57996 0.82080\n- 293 2.16959 4.61532 3.25390 2.57522 3.79566 3.08025 3.78385 2.94931 2.67072 2.54432 3.70628 3.17153 3.94422 2.81511 2.87543 2.57889 2.41825 2.57074 5.16428 3.88419 1013 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01847 4.39657 5.11892 0.61958 0.77255 0.57996 0.82080\n- 294 2.71832 5.16596 2.31506 1.96197 4.48225 3.29682 3.65154 3.95735 2.50122 3.47579 4.26701 2.19601 3.11423 2.78554 3.01918 2.25861 2.97333 3.55190 5.64738 4.22493 1014 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02711 4.01707 4.73942 0.61958 0.77255 0.57996 0.82080\n- 295 2.29515 3.70701 3.46895 2.91562 3.49198 3.44251 3.84166 2.81443 2.86357 2.26469 3.45250 2.94051 3.88728 3.16884 3.21131 2.39136 2.55709 2.33946 4.93453 3.70242 1015 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02711 4.01707 4.73942 0.61958 0.77255 0.57996 0.82080\n- 296 2.30214 4.33262 3.28735 2.87963 3.53263 3.37448 3.87093 2.73534 2.77748 1.85442 3.55658 2.88102 3.88674 3.17846 3.09080 2.74213 2.84786 2.52076 5.03075 3.73700 1016 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03349 3.80915 4.53150 0.61958 0.77255 0.51466 0.91057\n- 297 2.38039 4.75139 2.70376 2.16631 4.10160 3.26868 3.62572 3.51173 2.27488 3.11598 3.94670 2.86037 3.27533 2.79199 2.84861 2.27700 2.84380 3.17053 5.35014 4.02005 1017 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08597 3.79679 2.81446 0.61958 0.77255 0.54144 0.87205\n- 298 2.57877 4.49827 2.99597 2.64825 3.61547 3.28761 3.72071 2.98336 2.45555 2.60232 3.67663 3.06715 3.81154 2.29225 2.75510 2.70275 2.88327 2.50534 5.07647 3.73986 1018 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04082 3.61466 4.33701 0.61958 0.77255 0.51466 0.91057\n- 299 1.91136 4.17104 3.19562 2.85182 3.76130 2.60478 3.90329 2.95214 2.81484 2.47564 3.74191 3.15039 3.69047 3.18533 3.13125 2.47709 2.69072 2.64642 5.19563 3.93183 1019 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03851 3.67183 4.39418 0.61958 0.77255 0.45245 1.01078\n- 300 2.59821 4.84873 2.34108 2.24278 4.20277 2.79233 3.61432 3.63450 2.26426 3.21897 4.04451 2.57324 3.72944 2.77570 2.92035 2.60084 2.59830 3.27325 5.43698 4.07342 1020 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02418 3.73414 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I_merge__AAA_15_DUF4435.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris_I_merge__AAA_15_DUF4435.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2105 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME AAA_15_DUF4435\n-LENG 694\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Jan 13 16:51:16 2021\n-NSEQ 9\n-EFFN 2.368652\n-CKSUM 2850266289\n-GA 80 80;\n-STATS LOCAL MSV -12.0150 0.69666\n-STATS LOCAL VITERBI -13.1343 0.69666\n-STATS LOCAL FORWARD -6.2892 0.69666\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65857 4.63568 2.90280 2.49459 3.29939 3.06975 3.69959 2.71710 2.60451 2.36738 3.70415 2.93228 3.48424 2.95171 2.91612 2.59916 2.90505 2.77058 4.88287 3.61938\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11127 4.74707 2.33692 0.61958 0.77255 0.00000 *\n- 1 3.82236 5.27254 5.03630 4.75988 3.85765 4.52368 5.31717 3.13302 4.48560 2.38535 0.41762 4.92304 5.04081 4.83585 4.58402 4.21814 4.17210 3.22117 5.74821 4.56675 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.65011 5.37246 0.61958 0.77255 0.67004 0.71680\n- 2 2.85284 5.13012 3.20101 2.63048 4.38666 3.63730 1.91633 3.84500 2.12802 3.39330 4.19515 3.14374 4.02331 2.91950 2.40400 2.30099 3.07458 3.49563 5.55723 2.76919 2 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.65011 5.37246 0.61958 0.77255 0.67004 0.71680\n- 3 3.75199 4.96837 5.66645 5.16083 3.63185 5.21469 5.68018 0.81441 5.01931 1.32455 3.39797 5.35418 5.35167 5.10014 5.08320 4.63908 3.99019 2.16782 5.81546 4.72708 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.65011 5.37246 0.61958 0.77255 0.67004 0.71680\n- 4 2.77450 3.38042 2.45356 2.47930 4.57546 3.54686 2.70712 4.04559 1.96179 3.53447 4.28479 3.02064 3.93904 2.41747 2.19257 2.74366 3.00316 3.62575 5.67114 4.27983 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.65011 5.37246 0.61958 0.77255 0.67004 0.71680\n- 5 2.24296 4.80378 3.43461 2.92265 4.47155 3.48373 4.06745 3.89133 2.84753 3.49944 4.30653 3.34101 4.03469 3.23498 2.27782 1.23745 2.44329 3.47132 5.71999 4.42519 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.65011 5.37246 0.61958 0.77255 0.67004 0.71680\n- 6 3.80903 5.04170 5.70818 5.13564 2.25182 5.15621 5.38912 1.53468 4.99323 0.82039 3.14060 5.28811 5.24041 4.90248 4.95781 4.53283 4.01764 2.65143 5.46595 4.38411 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01431 4.65011 5.37246 0.61958 0.77255 0.67004 0.71680\n- 7 2.76807 5.03322 3.12470 2.24551 4.28834 3.57851 2.52973 2.69670 2.52950 3.29859 4.09840 2.61310 3.96'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01297 4.74707 5.46942 0.61958 0.77255 0.48576 0.95510\n- 687 3.23968 4.60506 4.86903 4.36115 3.88761 4.49794 4.99170 1.05822 4.25181 2.64865 3.77396 2.70301 4.85753 4.51475 4.43938 3.85119 3.49953 1.30201 5.61519 4.39632 746 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01297 4.74707 5.46942 0.61958 0.77255 0.48576 0.95510\n- 688 2.88706 5.39021 1.83754 1.92994 2.88551 3.57544 3.82748 4.20062 2.15751 3.68699 4.44220 2.24256 4.01288 2.93724 3.11058 2.84046 3.12532 3.77166 5.82745 4.40734 747 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01297 4.74707 5.46942 0.61958 0.77255 0.48576 0.95510\n- 689 2.41687 5.21316 3.06558 2.16553 4.52789 2.93523 3.75925 3.99084 1.89715 2.72224 4.26341 3.05136 3.96273 2.86727 2.55702 2.43049 2.59271 3.58770 5.66462 4.27582 748 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01297 4.74707 5.46942 0.61958 0.77255 0.48576 0.95510\n- 690 3.22408 4.65337 4.64217 4.06111 3.66526 4.37699 4.67291 1.02303 2.45709 1.76800 3.55721 4.31237 4.70313 4.12429 3.90890 3.70116 3.45688 2.32914 5.37889 4.19947 749 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01297 4.74707 5.46942 0.61958 0.77255 0.48576 0.95510\n- 691 2.88151 4.46981 3.99874 3.41881 3.56022 3.90815 4.16520 1.95416 3.21598 1.42445 3.53748 2.68468 4.27976 3.57817 2.62078 3.18610 3.11201 2.66345 5.06283 3.85351 750 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11829 4.74707 2.27419 0.61958 0.77255 0.48576 0.95510\n- 692 1.78213 5.19580 2.92538 2.08187 4.61923 3.52468 3.88175 4.08144 2.68846 3.61600 4.39672 2.28898 4.00717 3.01132 3.17877 1.78345 3.11289 3.66599 5.79140 4.40257 751 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01441 4.64319 5.36554 0.61958 0.77255 0.68137 0.70507\n- 693 2.79753 5.18271 2.18661 1.67723 4.47495 3.54582 3.77476 2.84289 2.55425 3.46415 4.24329 2.53783 3.96228 2.89568 3.04365 2.78057 3.03283 2.80233 5.65065 4.26530 752 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19572 4.64319 1.78301 0.61958 0.77255 0.68137 0.70507\n- 694 2.70790 4.58346 3.35442 2.85263 3.77684 2.47401 2.84305 3.18855 2.81606 1.74813 3.74649 3.29292 4.01459 3.16314 3.19782 2.33280 2.96533 2.92798 5.17735 3.89888 753 l - - -\n- 2.68614 4.42286 2.77533 2.73105 3.46415 2.40574 3.72329 3.29335 2.67694 2.69350 4.24751 2.90287 2.73755 3.18136 2.89862 2.37860 2.77458 2.98579 4.58538 3.61564\n- 0.54899 0.86164 * 1.72298 0.19666 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris__DUF4435.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Paris__DUF4435.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,737 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Rst_PARIS__DUF4435\n-ACC PF14491.7\n-DESC Protein of unknown function (Rst_PARIS__DUF4435)\n-LENG 236\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sun Apr 19 09:45:34 2020\n-NSEQ 15\n-EFFN 4.317627\n-CKSUM 481253691\n-GA 27.00 27.00;\n-TC 27.00 27.10;\n-NC 26.90 26.80;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.5474 0.70349\n-STATS LOCAL VITERBI -11.7577 0.70349\n-STATS LOCAL FORWARD -4.6582 0.70349\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.74113 4.19299 2.82291 2.50171 3.15454 3.19932 3.61272 2.69911 2.57433 2.43659 3.74799 2.93078 3.63730 3.04860 2.95410 2.67504 2.93012 2.73060 4.61695 3.28298\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07255 5.22226 2.73976 0.61958 0.77255 0.00000 *\n- 1 2.55506 5.44641 2.82069 2.41439 4.78492 3.72641 3.91488 4.26531 2.64989 3.08432 4.48941 2.66369 4.12104 2.32969 1.46987 2.91884 2.63174 3.83365 5.88221 4.47653 1 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00858 5.15830 5.88064 0.61958 0.77255 0.37958 1.15249\n- 2 2.40381 5.49434 2.18720 2.68816 4.84025 2.53046 3.95495 4.32179 1.61970 3.80012 4.54089 3.23466 4.16136 3.05388 2.14591 2.96147 2.66678 3.88675 5.93009 4.52436 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22226 5.94461 0.61958 0.77255 0.48576 0.95510\n- 3 3.02220 4.64429 4.08298 3.50696 3.76916 4.04369 4.30932 1.31656 2.71420 2.49908 3.75315 3.85706 3.08935 3.71217 2.56378 2.69310 3.25358 2.27022 5.23947 4.02402 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22226 5.94461 0.61958 0.77255 0.48576 0.95510\n- 4 3.26074 4.61871 3.16938 4.55311 1.57766 4.47479 4.82725 1.83975 4.37613 2.63015 2.85833 4.60282 4.81687 4.52710 4.42914 3.79345 3.49552 1.35471 5.32271 4.14249 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22226 5.94461 0.61958 0.77255 0.48576 0.95510\n- 5 1.66835 2.33579 5.09358 4.48678 2.84997 4.33634 4.68046 2.32251 4.28459 1.41785 3.57953 4.49170 4.68893 4.41728 4.30453 3.65194 3.38101 2.25270 5.16531 3.99390 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22226 5.94461 0.61958 0.77255 0.48576 0.95510\n- 6 3.35353 4.70879 5.21443 4.63663 1.56650 4.50432 4.62310 2.44222 4.43581 1.71577 3.67623 4.60609 4.84118 4.52971 4.44589 3.82226 2.79557 2.89548 4.98746 1.50585 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22226 5.94461 0.61958 0.77255 0.48576 0.95510\n- 229 2.98320 3.44065 2.21861 1.78234 4.83793 3.75130 3.94265 4.32395 2.32056 3.79870 4.53519 2.12101 4.14772 2.62245 3.17351 2.30854 2.79449 3.88403 5.92675 4.51513 359 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22226 5.94461 0.61958 0.77255 0.48576 0.95510\n- 230 2.31809 5.38518 2.46693 2.08772 4.68998 3.76678 3.95868 3.20556 2.39970 2.55014 4.43667 2.68086 4.15927 3.06980 3.19645 2.32648 2.66182 2.77842 5.84277 4.45749 360 e - - -\n- 2.68587 4.42238 2.77484 2.73136 3.46366 2.40525 3.72383 3.29367 2.67753 2.69312 4.24702 2.90359 2.73752 3.18159 2.89813 2.37899 2.77532 2.98531 4.58489 3.61516\n- 0.14957 1.99290 5.94461 0.63246 0.75775 0.48576 0.95510\n- 231 3.08359 5.20844 3.53919 2.96155 4.44383 3.91263 3.04685 2.94870 2.36380 1.66933 4.28420 1.81529 4.29523 3.24264 2.30489 3.13413 3.30711 3.54056 5.69760 4.39656 364 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22226 5.94461 0.61958 0.77255 0.48576 0.95510\n- 232 2.98521 5.44906 3.25327 2.32879 4.77803 3.76451 3.94965 3.25293 1.91255 2.93557 4.49469 3.23934 4.15691 2.50248 2.07566 2.08933 2.45324 3.83117 5.88977 4.49316 365 k - - -\n- 2.68629 4.42236 2.77530 2.73046 3.46365 2.40524 3.72380 3.29365 2.67718 2.69366 4.24701 2.90358 2.73750 3.18157 2.89812 2.37898 2.77530 2.98529 4.58488 3.61514\n- 0.33598 1.51060 2.73976 0.10005 2.35172 0.48576 0.95510\n- 233 3.01723 5.51618 2.08319 2.68619 4.86630 3.76372 3.95312 4.34581 1.87678 3.81668 4.56126 2.31935 4.16627 3.05342 1.80683 2.97712 2.34054 3.91077 5.93918 4.53828 367 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12066 5.15830 2.22640 0.61958 0.77255 0.68316 0.70324\n- 234 2.44474 5.43855 2.31784 1.77315 4.77422 3.68597 3.19264 4.25722 2.64442 3.73979 4.48391 3.15440 4.09397 1.70383 3.13990 2.90001 3.17231 2.99739 5.87508 4.46361 368 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15728 5.04723 1.97248 0.61958 0.77255 0.93396 0.49922\n- 235 2.84221 3.26264 3.17089 2.61405 4.45634 2.84166 3.84160 3.89747 2.60524 2.71383 4.23592 2.48491 3.24458 2.56788 1.94584 2.43940 3.07391 3.53129 5.65038 4.28498 369 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01111 4.90105 5.62340 0.61958 0.77255 1.16252 0.37498\n- 236 2.86308 4.86555 3.37573 1.58445 2.56126 3.73362 3.95912 2.32923 2.82660 3.09640 3.95171 3.32575 4.12561 2.67289 3.25801 2.44602 3.09558 3.16508 5.39966 4.10422 370 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00749 4.89744 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PfiAT__PfiA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PfiAT__PfiA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,269 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PfiAT__PfiA\n-LENG 82\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 11:50:38 2022\n-NSEQ 100\n-EFFN 0.625610\n-CKSUM 1214185412\n-GA 20 20;\n-STATS LOCAL MSV -9.0736 0.71859\n-STATS LOCAL VITERBI -9.6241 0.71859\n-STATS LOCAL FORWARD -4.1745 0.71859\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41541 4.47906 2.90986 2.64516 3.53108 3.09133 3.73103 2.86365 2.62268 2.36938 3.64770 3.21060 3.42398 3.18516 2.70104 2.62203 2.91736 2.54177 5.16008 3.40264\n- 2.68623 4.42208 2.77526 2.73125 3.46339 2.40518 3.72498 3.29353 2.67749 2.69352 4.24667 2.90352 2.73744 3.18139 2.89786 2.37884 2.77525 2.98517 4.58463 3.61495\n- 0.06013 3.01361 4.68406 1.97327 0.14966 0.00000 *\n- 1 3.04080 4.57587 4.14579 3.74654 3.24890 3.90091 4.46106 2.43349 3.50955 1.83068 1.21685 4.01285 4.36252 3.88587 3.70429 3.39896 3.34812 2.44982 5.10128 3.87061 37 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 2 3.10750 4.93954 3.60739 3.10045 4.31678 3.57781 3.89116 3.86503 2.27652 3.36477 4.36301 3.45318 4.07640 3.10740 0.85038 3.18760 3.36760 3.58522 5.36387 4.22516 38 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 3 2.87872 4.39716 4.24829 3.91465 3.61620 3.81556 4.70123 2.04882 3.78378 2.28807 3.56829 4.09001 4.37144 4.13737 3.98760 3.32508 3.23831 0.91952 5.41556 4.15250 39 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 4 3.03058 5.15834 2.52753 0.90491 4.51599 3.33269 3.92785 3.98766 2.81970 3.59067 4.56127 2.98580 3.94165 3.14196 3.23741 3.00422 3.33566 3.66248 5.67077 4.39363 40 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 5 2.46220 4.30726 3.50880 3.26559 4.04912 3.14343 4.27591 3.18717 3.21032 3.04749 4.09272 3.46024 3.85440 3.60080 3.46438 2.66452 1.02919 2.87256 5.47908 4.26591 41 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 6 3.07065 4.43056 4.65524 4.18062 3.46372 4.32304 4.90109 1.09663 4.03678 1.96168 3.29711 4.40946 4.67151 4.32311 4.23800 3.72288 3.34828 1.56996 5.43601 4.22020 42 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 7 2.36031 4.28164 3.28543 3.10579 4.16581 3.00993 4.21296 3.70070 3.18557 3.41422 4.33316 3.31598 3.75620'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 75 3.21829 4.64667 4.47574 4.01781 3.08206 4.27474 4.62995 2.14664 3.76758 0.88065 3.00978 4.28837 4.59934 4.07465 3.94170 3.69503 3.48299 2.26299 5.08154 3.83212 111 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 76 2.17732 4.41699 3.15717 2.69699 3.85828 3.25757 3.80178 3.23756 2.67891 2.78587 3.78928 2.93110 3.78878 3.02983 3.06747 1.76525 2.75413 2.87089 5.21830 3.77962 112 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 77 2.82496 4.97734 3.24012 2.56931 4.33007 3.43574 3.58952 3.70345 1.80889 3.22643 4.06696 3.07400 3.92114 2.72965 1.63075 2.84058 2.84227 3.38337 5.13232 4.12468 113 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 78 3.03626 5.08177 3.45421 2.82666 4.50880 3.63764 3.63090 3.87562 1.74339 3.34951 4.24177 3.21560 4.02953 2.77929 1.23213 3.05225 3.21736 3.57200 5.40705 4.23921 114 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 79 2.95587 4.51077 3.93029 3.47833 1.34589 3.83493 3.79930 2.80603 3.26198 2.24988 3.46585 3.69696 4.24684 3.59800 2.98403 3.20283 3.21795 2.71068 4.26772 2.68087 115 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 3.96171 4.68406 0.61958 0.77255 0.48576 0.95510\n- 80 1.55089 4.33580 2.97464 2.76542 3.99768 3.03701 3.89677 3.31162 2.81353 3.05526 3.90202 3.12924 3.74291 3.12573 3.20656 2.32884 2.47147 2.89795 5.34795 4.08465 116 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03469 3.96171 4.19524 0.61958 0.77255 0.48576 0.95510\n- 81 2.70061 5.04760 2.74522 2.23923 4.35685 3.33997 2.68949 3.79440 2.15497 3.31459 4.11446 2.80318 3.81305 2.15144 2.60184 2.67791 2.92685 3.42484 5.47088 4.12332 117 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05347 3.95587 3.41356 0.61958 0.77255 0.49156 0.94590\n- 82 2.64570 5.02890 2.61499 2.21442 4.33500 3.34645 3.54283 3.78350 1.91531 3.30772 4.09446 2.76533 3.17188 2.51160 2.72848 2.62084 2.78974 3.40145 5.47483 4.10224 118 k - - -\n- 2.68619 4.42228 2.77516 2.73104 3.46357 2.40514 3.72497 3.29357 2.67744 2.69358 4.24693 2.90341 2.73742 3.18149 2.89804 2.37890 2.77522 2.98513 4.58480 3.61506\n- 0.17868 1.81018 * 0.50173 0.93009 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PfiAT__PfiT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PfiAT__PfiT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,368 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PfiAT__PfiT\n-LENG 115\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 11:50:33 2022\n-NSEQ 75\n-EFFN 0.654602\n-CKSUM 917038414\n-GA 20 20;\n-STATS LOCAL MSV -9.6685 0.71443\n-STATS LOCAL VITERBI -10.4178 0.71443\n-STATS LOCAL FORWARD -4.3337 0.71443\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51673 4.27064 3.05172 2.64821 3.38421 3.07150 3.72986 2.69632 2.80427 2.33584 3.66648 3.23781 3.44680 2.90709 2.92855 2.65959 2.92008 2.47703 5.09406 3.23251\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08113 3.98136 2.82576 0.61958 0.77255 0.00000 *\n- 1 3.01459 4.55440 4.11106 3.70891 3.23326 3.87690 4.43078 2.41461 3.47383 1.81938 1.27218 3.97930 4.33789 3.85198 3.67240 3.36966 3.32105 2.42736 5.08170 3.84848 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06501 3.92986 3.13967 0.61958 0.77255 0.53099 0.88679\n- 2 2.20612 4.21698 3.30915 2.90395 3.98037 2.92020 3.96586 3.05218 2.88477 3.04192 3.90334 3.18945 3.70642 3.21947 3.23183 1.55081 2.42982 2.90762 5.34869 4.10602 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89857 4.62091 0.61958 0.77255 0.56356 0.84206\n- 3 2.62065 4.80071 2.81007 2.36206 4.12962 3.33637 3.63107 3.53911 2.15510 3.13260 3.96076 2.76289 2.56908 2.76606 2.77415 2.64974 2.52443 3.20291 5.35523 4.03418 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03058 3.89857 4.62091 0.61958 0.77255 0.53364 0.88302\n- 4 2.60672 4.18700 3.73080 3.16141 3.13093 3.65372 3.92581 2.40844 3.07912 2.11096 3.14138 3.49475 3.31068 3.35643 3.36461 2.92416 2.84106 1.84761 4.77391 3.20209 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02997 3.91831 4.64066 0.61958 0.77255 0.48494 0.95642\n- 5 2.48967 4.44867 2.91354 2.64004 3.64796 3.44089 3.71313 2.93151 2.62133 2.69803 3.46353 3.02468 3.84736 2.83918 3.02655 2.59745 2.68351 2.09298 5.03720 3.76781 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02878 3.95811 4.68046 0.61958 0.77255 0.50890 0.91919\n- 6 2.81490 4.37938 4.53910 4.03326 3.48646 4.23862 4.77333 1.17540 3.90144 1.97993 3.31280 4.28086 4.58830 4.18934 4.12099 3.60814 3.26694 1.59979 5.38895 4.18985 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02878 3.95811 4.68046 0.61958 0.77255 0.50890 0.91919\n- 7 2.83940 4.75685 3.42375 2.87372 3.29106 3.55551 3.74381 3.34116 2.32739 2.89072 3.90517 3.27077 3.99622 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02886 3.95546 4.67780 0.61958 0.77255 0.51147 0.91533\n- 108 3.36820 4.82354 3.96123 3.70650 2.29906 3.92717 3.65928 3.36595 3.56164 2.79840 4.03245 3.82648 4.39925 3.84772 3.72821 3.49652 3.65537 3.24047 3.94589 0.83823 108 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02886 3.95546 4.67780 0.61958 0.77255 0.51147 0.91533\n- 109 2.68291 0.78662 4.22093 3.97970 3.95232 3.28807 4.60856 3.11023 3.80717 3.02186 4.14597 3.94458 4.00155 4.14990 3.91675 2.95468 3.15668 2.84915 5.35064 4.23934 109 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02886 3.95546 4.67780 0.61958 0.77255 0.51147 0.91533\n- 110 3.24888 4.68676 4.32254 3.96314 3.16841 4.08720 4.59285 2.37740 3.73006 0.77943 3.16611 4.23054 4.50853 4.07853 3.89241 3.66826 3.53949 2.43620 5.07744 3.81980 110 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03202 3.95546 4.39328 0.61958 0.77255 0.51147 0.91533\n- 111 3.06288 4.39694 4.68119 4.16384 3.48088 4.38362 4.88241 1.52490 4.04464 1.90840 3.29874 4.41193 4.68492 4.31047 4.25576 3.75104 3.32116 1.14796 5.42741 4.22570 111 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95239 4.67474 0.61958 0.77255 0.51442 0.91092\n- 112 2.54176 4.59405 2.92149 2.51784 3.81649 2.15083 3.70975 3.27800 2.57474 2.92811 3.78871 2.92629 3.82650 2.81051 2.98002 2.61441 2.85581 2.98341 5.17182 2.98707 112 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02895 3.95239 4.67474 0.61958 0.77255 0.51442 0.91092\n- 113 2.30233 4.49746 3.04061 2.65093 4.06398 3.21806 3.82560 3.43817 2.60436 3.06822 3.96968 3.08372 1.81684 3.03555 2.76522 2.58807 2.84299 3.08211 5.36935 4.09252 113 p - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40512 3.72495 3.29354 2.67741 2.69355 4.24690 2.90346 2.73740 3.18145 2.89801 2.37887 2.77520 2.98517 4.58477 3.61503\n- 0.03339 3.75032 4.67474 0.66311 0.72412 0.51442 0.91092\n- 114 2.89430 4.29154 4.44098 3.86600 2.62916 4.05371 4.27030 1.69785 3.73216 1.48737 2.97253 4.05092 4.35027 3.88935 3.86796 3.36301 3.12082 2.18693 4.07773 3.47401 118 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08238 3.95239 2.81561 0.61958 0.77255 0.51442 0.91092\n- 115 2.50603 4.98111 2.42182 1.74263 4.31756 2.97806 3.63644 3.76241 2.48818 3.32481 4.13378 2.78712 3.22772 2.78357 2.98540 2.62999 2.84748 3.34382 5.52843 4.13923 119 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02064 3.89066 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Phrann_gp29_gp30__gp29.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Phrann_gp29_gp30__gp29.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,818 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Phrann_gp29_gp30__gp29\n-LENG 265\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 10:30:08 2022\n-NSEQ 71\n-EFFN 0.706360\n-CKSUM 1535169726\n-GA 90 90;\n-STATS LOCAL MSV -10.8776 0.70232\n-STATS LOCAL VITERBI -11.5980 0.70232\n-STATS LOCAL FORWARD -5.2217 0.70232\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39043 4.53311 2.84445 2.61326 3.64826 2.88533 3.62795 2.87415 2.74299 2.44253 3.70980 3.12254 3.40147 3.00712 2.77701 2.69772 2.88178 2.63768 4.20025 3.62864\n- 2.68571 4.42247 2.77546 2.73137 3.46377 2.40510 3.72522 3.29381 2.67768 2.69345 4.24502 2.90363 2.73752 3.18172 2.89812 2.37883 2.77543 2.98401 4.58504 3.61530\n- 0.58740 1.52515 1.48439 1.87138 0.16713 0.00000 *\n- 1 2.66858 4.24276 3.82986 3.30322 3.31131 3.69964 4.10470 1.72888 3.16001 2.11034 2.89851 3.61858 4.11122 3.49571 3.43198 2.74388 2.93613 2.04288 4.96618 3.72866 41 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03485 3.76976 4.49211 0.61958 0.77255 0.40704 1.09547\n- 2 2.61015 4.21947 3.81859 3.28560 3.37682 3.60902 4.06956 2.42284 3.17455 2.28119 2.26803 3.57707 4.05412 3.47813 3.44595 2.50973 2.88968 1.82022 4.94981 3.73356 42 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02786 3.99017 4.71252 0.61958 0.77255 0.51179 0.91485\n- 3 2.65847 4.89386 1.80308 2.32915 4.17885 3.31490 3.68174 2.91701 2.54689 3.21815 4.05095 2.66639 3.80740 2.84579 3.03047 2.50611 2.92193 3.24817 5.44973 4.07757 43 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02786 3.99017 4.71252 0.61958 0.77255 0.49933 0.93379\n- 4 3.27833 4.62263 4.76872 4.22432 3.12218 4.51795 4.82878 1.82444 4.04369 0.94354 2.87555 4.50326 4.72714 4.23445 4.19959 3.87639 3.50987 2.12654 5.19492 4.06980 44 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02765 3.99765 4.72000 0.61958 0.77255 0.50425 0.92624\n- 5 2.62845 5.05260 2.59358 2.07482 4.30614 3.34402 2.12590 3.78781 2.43787 3.34138 4.16689 2.45376 3.83348 2.81580 2.87164 2.72515 2.99483 3.43161 5.50932 4.13092 45 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02765 3.99765 4.72000 0.61958 0.77255 0.50425 0.92624\n- 6 2.43568 4.73793 2.61571 2.28790 4.11044 3.30294 3.70050 3.50748 2.55004 3.13842 3.96726 2.92834 3.79437 2.86999 3.01033 1.80116 2.86029 2.90627 5.38998 4.05492 46 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02765 3.99765 4.72000 0.61958 0.77255 0.50425 0.92624\n- 7 2.51235 4.76432 3.14099 2.56971 4.06685 3.45926 3.63773 3.44603 2.15621 2.84125 3.89138 3.042'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02746 4.00455 4.72689 0.61958 0.77255 0.49719 0.93710\n- 258 1.69020 4.30826 3.82778 3.33487 3.52829 3.58365 4.20667 2.39049 3.23058 1.86794 3.44241 3.62201 4.09095 3.55571 3.52115 2.94136 2.96111 2.08804 5.16889 3.94475 311 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02746 4.00455 4.72689 0.61958 0.77255 0.49719 0.93710\n- 259 2.78792 5.07557 2.43378 1.29560 4.48557 3.25792 3.77419 3.93807 2.64562 3.52540 4.38317 2.83318 3.84442 2.94759 3.10811 2.32940 3.09113 3.55202 5.70333 4.30401 312 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02746 4.00455 4.72689 0.61958 0.77255 0.49719 0.93710\n- 260 2.65169 4.80057 2.63571 2.02455 4.32267 3.23044 3.81345 3.75755 2.66938 3.38006 4.23445 2.93089 3.82216 3.00095 3.09608 1.47818 2.98435 3.36995 5.58323 4.23340 313 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06937 4.00455 3.02037 0.61958 0.77255 0.49719 0.93710\n- 261 1.87482 4.38562 3.21138 2.62931 3.72469 3.04182 3.80677 3.01602 2.71552 2.35567 3.65066 3.15519 3.83654 3.06098 3.09134 2.66071 2.60472 2.74264 5.12041 3.86334 314 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02862 3.96380 4.68614 0.61958 0.77255 0.53750 0.87756\n- 262 2.59561 4.72472 2.88895 2.26441 4.05132 2.17773 3.66658 3.25357 2.44655 3.07348 3.90712 2.95479 3.80576 2.83737 2.66930 2.49397 2.85669 3.12952 5.31800 4.00304 315 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 3.96380 4.11497 0.61958 0.77255 0.47206 0.97741\n- 263 2.69911 5.07625 2.39512 2.18164 4.38448 2.25193 3.64959 3.84102 2.48563 3.38404 4.18682 2.61736 3.79773 2.36633 2.98166 2.66736 2.73379 3.45908 5.57434 4.17686 316 e - - -\n- 2.68595 4.42307 2.77478 2.73069 3.46380 2.40562 3.72528 3.29405 2.67806 2.69259 4.24479 2.90407 2.73822 3.18065 2.89621 2.37944 2.77516 2.98560 4.58559 3.61507\n- 0.27692 1.45686 4.72005 2.87585 0.05802 0.50419 0.92632\n- 264 2.60052 4.62416 2.96208 2.28453 3.82961 2.18075 3.69974 3.24752 2.55798 2.90940 3.77089 3.01581 3.83882 2.90849 2.97693 2.68571 2.85415 2.75830 5.17985 3.26216 356 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09080 3.99770 2.68174 0.61958 0.77255 0.50419 0.92632\n- 265 2.47603 4.51437 2.83751 2.61042 4.26063 1.59370 3.88290 3.69318 2.45593 3.32900 4.17617 3.02323 3.75824 3.09359 3.07712 2.34226 2.86552 3.26030 5.53441 4.24244 357 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01990 3.92680 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Phrann_gp29_gp30__gp30.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Phrann_gp29_gp30__gp30.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,245 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Phrann_gp29_gp30__gp30\n-LENG 74\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 10:30:17 2022\n-NSEQ 34\n-EFFN 0.908936\n-CKSUM 533708197\n-GA 20 20;\n-STATS LOCAL MSV -8.7117 0.71866\n-STATS LOCAL VITERBI -9.3663 0.71866\n-STATS LOCAL FORWARD -4.1875 0.71866\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53101 4.69862 2.99881 2.48604 3.21170 3.07136 3.57306 2.89864 2.75665 2.47668 3.59705 3.09719 3.83567 3.15588 2.51871 2.65808 2.71746 2.67541 5.20575 3.40919\n- 2.68620 4.42201 2.77522 2.73118 3.46361 2.40502 3.72490 3.29369 2.67749 2.69359 4.24577 2.90357 2.73732 3.18149 2.89794 2.37889 2.77531 2.98522 4.58469 3.61518\n- 0.15770 2.11257 3.69021 1.67022 0.20851 0.00000 *\n- 1 2.73475 4.32934 4.00081 3.49947 3.39737 3.41408 4.24558 2.45409 3.34213 2.17445 1.50472 3.75490 4.18150 3.66395 3.58140 3.07064 3.03176 2.11012 5.05975 3.84841 27 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02439 4.12160 4.84395 0.61958 0.77255 0.50609 0.92344\n- 2 2.04380 4.59658 3.13153 2.61017 3.53339 3.42425 3.73076 3.25680 2.56764 2.90752 3.76227 3.08187 2.37496 2.78987 2.80535 2.68405 2.84389 2.96588 5.20078 3.90890 28 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02439 4.12160 4.84395 0.61958 0.77255 0.50609 0.92344\n- 3 2.18962 4.36167 3.14299 2.93791 4.47010 1.26375 4.18279 3.91937 3.14810 3.56705 4.38254 2.89845 3.77202 3.42041 3.51590 2.13444 2.83555 3.35707 5.77652 4.52148 29 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02439 4.12160 4.84395 0.61958 0.77255 0.50609 0.92344\n- 4 3.80632 4.99382 4.77723 4.50120 1.23223 4.51678 3.51394 3.47199 4.33716 2.77419 4.05793 4.17611 4.81668 4.25469 4.33279 3.89413 4.02478 3.40249 3.63717 1.05932 30 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02439 4.12160 4.84395 0.61958 0.77255 0.50609 0.92344\n- 5 3.05744 4.47520 4.59425 4.16894 3.60273 4.20011 4.89384 1.91966 4.00235 2.09328 3.49852 4.36198 4.64128 4.33643 4.20531 3.63334 3.36711 0.87251 5.50242 4.23064 31 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02439 4.12160 4.84395 0.61958 0.77255 0.47326 0.97543\n- 6 3.18519 4.46465 4.98471 4.46723 3.60339 4.59983 5.13304 1.20070 4.36249 2.08605 3.17824 4.67421 4.86525 4.59274 4.53754 3.97794 3.43840 1.19934 5.58550 4.40644 32 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02396 4.13898 4.86132 0.61958 0.77255 0.48576 0.95510\n- 7 2.97122 5.46877 2.23073 1.08289 4.75402 3.32414 3.80191 4.25444 2.71989 3.76223 4.60774 2.79404'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02396 4.13898 4.86132 0.61958 0.77255 0.48576 0.95510\n- 67 2.83775 5.25854 2.20502 1.26084 4.55552 3.33662 3.75247 3.98493 2.64184 3.55806 4.38682 2.82504 3.87573 2.90250 3.16256 2.78302 3.10363 3.17276 5.75433 4.32373 97 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02396 4.13898 4.86132 0.61958 0.77255 0.48576 0.95510\n- 68 3.41778 4.76920 4.85659 4.36027 3.14063 4.58742 4.91486 2.09495 4.13182 0.73777 2.99195 4.62058 4.82137 4.34197 4.26631 3.99248 3.66179 2.31964 5.23080 4.06523 98 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02396 4.13898 4.86132 0.61958 0.77255 0.48576 0.95510\n- 69 2.04746 4.80318 2.63940 2.44114 4.09679 3.39440 3.66378 3.07523 2.47461 3.11706 3.92923 2.48163 3.48340 2.81543 2.94041 2.53590 2.75734 3.17625 5.35698 4.01820 99 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02396 4.13898 4.86132 0.61958 0.77255 0.48576 0.95510\n- 70 1.72377 4.38998 3.09089 2.84644 3.58660 3.40725 3.88354 2.98946 2.84092 2.77109 3.65876 3.24701 3.89497 3.15352 3.22480 2.46774 2.83154 2.15955 5.13755 3.88239 100 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02396 4.13898 4.86132 0.61958 0.77255 0.48576 0.95510\n- 71 2.54671 4.82232 2.79724 2.35436 4.06929 2.54696 3.35406 2.90741 2.43886 3.08770 3.89905 2.94962 3.32731 2.78697 2.82733 2.44789 2.84217 3.16079 5.32740 3.98818 101 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19654 4.13898 1.81712 0.61958 0.77255 0.48576 0.95510\n- 72 2.58641 4.85498 2.56246 2.36048 4.13030 3.36501 3.59461 3.29996 2.37163 3.13913 3.94158 2.31443 3.77777 2.73355 2.55430 2.53126 2.82363 3.03702 5.35440 4.00169 102 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09169 3.97085 2.67727 0.61958 0.77255 0.65506 0.73275\n- 73 2.22375 3.45481 3.43293 3.00856 4.02219 1.85133 4.02368 3.42554 2.96294 3.11278 3.95264 3.23007 3.67397 3.28843 3.13845 1.88783 2.66157 2.98163 5.38191 4.15407 103 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03024 3.90941 4.63176 0.61958 0.77255 0.70450 0.68192\n- 74 1.64170 4.22246 3.43258 2.95660 3.73748 3.21143 3.94015 2.94999 2.89135 2.75876 3.07152 3.26343 3.79220 3.22748 3.22757 2.37355 2.55474 2.65911 5.16712 3.93321 104 a - - -\n- 2.68624 4.42231 2.77525 2.73129 3.46359 2.40512 3.72500 3.29339 2.67746 2.69354 4.24695 2.90352 2.73745 3.18152 2.89744 2.37892 2.77518 2.98524 4.58483 3.61509\n- 0.42995 1.05137 * 0.35240 1.21401 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Pif__PifA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Pif__PifA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2228 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Pif__PifA\n-LENG 735\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 19 10:26:31 2021\n-NSEQ 33\n-EFFN 1.196411\n-CKSUM 1413298561\n-GA 20 20;\n-STATS LOCAL MSV -12.1410 0.69647\n-STATS LOCAL VITERBI -13.1500 0.69647\n-STATS LOCAL FORWARD -6.5528 0.69647\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57539 4.52057 2.90521 2.62382 3.21560 3.00163 3.76336 2.76101 2.68765 2.35227 3.67395 3.08989 3.42068 3.08191 2.90628 2.62902 2.88585 2.64165 4.43358 3.47151\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03004 4.26947 4.16020 0.61958 0.77255 0.00000 *\n- 1 3.32707 4.82273 4.49762 4.13875 3.44682 4.14366 4.78418 2.66498 3.88176 1.99678 0.78885 4.36281 4.62122 4.24547 4.03759 3.70839 3.64799 2.71340 5.32829 4.11791 1 m - - -\n- 2.68953 4.42001 2.77725 2.73221 3.45726 2.40838 3.72711 3.28064 2.67787 2.69145 4.24567 2.90347 2.74031 3.18382 2.89849 2.37780 2.77562 2.98375 4.57894 3.61347\n- 0.29814 1.38252 4.98297 4.19720 0.01515 0.49766 0.93637\n- 2 2.24131 4.99196 3.22662 2.77984 4.52866 3.53512 3.84136 3.85467 1.09698 3.44891 4.31856 3.21728 4.02868 2.99669 2.61487 2.92626 3.15811 3.50431 5.61132 4.36150 155 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02119 4.26062 4.98297 0.61958 0.77255 0.49766 0.93637\n- 3 3.05489 4.43617 4.62879 4.08937 3.49587 4.28669 4.72310 1.19714 3.95081 1.76523 3.35126 4.31404 4.61693 4.20284 4.13935 3.62886 2.48680 1.90210 5.31253 4.13423 156 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02119 4.26062 4.98297 0.61958 0.77255 0.49766 0.93637\n- 4 2.20379 4.37162 3.63902 2.53238 3.49199 3.71174 3.99589 2.20503 3.03041 1.78120 3.43151 3.48393 4.09255 3.34255 3.36004 2.97972 2.94775 2.42438 5.00855 3.78488 157 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02119 4.26062 4.98297 0.61958 0.77255 0.49766 0.93637\n- 5 2.86567 5.24712 3.04162 2.11510 4.63234 3.55154 3.66155 4.05717 1.83207 3.51380 4.30537 2.45420 3.94969 2.77567 1.77781 2.82995 3.07478 3.66570 5.60609 4.29305 158 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02119 4.26062 4.98297 0.61958 0.77255 0.49766 0.93637\n- 6 1.82354 4.74000 3.04491 2.63184 4.30095 3.34030 3.85220 3.72366 2.64447 3.32866 4.14766 3.09353 3.87620 1.89977 3.06067 2.09396 2.93285 3.32891 5.54948 4.23218 159 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02119 4.26062 4.98297 0.61958 0.77255 0.49766 0.93637\n- 7 3.62336 4.98039 4.81312 4.47193 3.33385 4.47162 5.00897 2.57433 4.23762 0.51125 3.26534 4.71127 4.85097 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98738 4.70973 0.61958 0.77255 0.74656 0.64244\n- 728 2.87832 5.18698 2.70666 1.83385 4.54466 3.41832 3.65547 3.95538 1.52332 3.46264 4.30532 2.91953 3.89604 2.79794 2.56676 2.83916 3.10693 3.59647 5.58170 4.26847 1014 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98738 4.70973 0.61958 0.77255 0.74656 0.64244\n- 729 2.51003 4.23726 3.60780 3.12044 3.58565 3.41724 4.02425 1.99201 3.03734 2.56652 3.53671 3.42524 3.94025 3.36650 3.34502 2.43899 1.99563 2.38564 5.08447 3.85415 1015 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98738 4.70973 0.61958 0.77255 0.74656 0.64244\n- 730 1.67314 4.64797 3.05553 2.66175 4.16582 3.31642 3.79012 3.47115 1.85491 3.15581 4.03575 3.09236 3.85249 2.97736 2.78294 2.70311 2.92863 3.13757 5.41250 4.14126 1016 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98738 4.70973 0.61958 0.77255 0.74656 0.64244\n- 731 2.79349 4.67263 3.07913 2.01740 3.68891 3.54990 3.86735 2.91720 2.69791 1.67760 3.64841 3.20196 4.00223 3.11152 3.04832 2.92569 3.04421 2.75609 5.19366 3.90027 1017 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98738 4.70973 0.61958 0.77255 0.53502 0.88106\n- 732 2.73502 4.82959 2.81870 1.90157 3.86284 2.93369 3.73045 3.47224 2.60918 3.09548 3.96017 2.99995 3.90075 2.94961 3.03995 2.77906 2.98529 3.17569 5.23023 2.11196 1018 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02444 4.11972 4.84207 0.61958 0.77255 0.62816 0.76266\n- 733 2.67619 4.78593 2.71575 2.58356 4.53244 2.16306 4.00734 4.07501 2.92903 3.66963 4.51626 1.26942 3.87570 3.21470 3.35733 2.73582 3.07192 3.59232 5.77532 4.43432 1019 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02444 4.11972 4.84207 0.61958 0.77255 0.62816 0.76266\n- 734 3.27557 5.41937 0.61928 2.52478 4.83437 3.41641 4.17580 4.48319 3.31075 4.04984 5.04036 3.09100 4.08717 3.42020 3.85532 3.21473 3.62178 4.09819 5.95255 4.67542 1020 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02444 4.11972 4.84207 0.61958 0.77255 0.62816 0.76266\n- 735 2.78747 4.76919 1.74782 2.58860 2.20979 3.45082 3.75495 3.26853 2.82716 2.88644 3.89153 3.07974 3.94704 3.09403 3.26882 2.85537 3.05740 3.03874 4.90137 3.38572 1021 d - - -\n- 2.68646 4.42253 2.77507 2.73073 3.46300 2.40541 3.72522 3.29313 2.67732 2.69307 4.24718 2.90374 2.73767 3.18052 2.89782 2.37915 2.77547 2.98546 4.58505 3.61531\n- 0.21329 1.64984 * 2.01992 0.14233 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Pif__PifC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Pif__PifC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1109 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Pif__PifC\n-LENG 362\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 19 10:26:31 2021\n-NSEQ 125\n-EFFN 0.957489\n-CKSUM 76937911\n-GA 20 20;\n-STATS LOCAL MSV -11.3413 0.69988\n-STATS LOCAL VITERBI -12.2435 0.69988\n-STATS LOCAL FORWARD -5.7467 0.69988\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51110 4.37387 2.93328 2.69292 3.20703 2.78781 3.72759 2.81851 2.82495 2.23111 3.62871 3.23554 3.30603 3.16388 2.82578 2.81178 2.84663 2.62736 4.61636 3.55977\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40512 3.72488 3.29355 2.67742 2.69356 4.24662 2.90348 2.73741 3.18147 2.89802 2.37888 2.77515 2.98519 4.58478 3.61504\n- 0.13488 3.10473 2.50904 0.71443 0.67231 0.00000 *\n- 1 3.09395 4.62019 4.21460 3.82183 3.28220 3.94835 4.52206 2.47326 3.58090 1.85619 1.11535 4.07994 4.41186 3.95404 3.76800 3.45774 3.40331 2.49642 5.14180 3.91574 6 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02693 4.02366 4.74601 0.61958 0.77255 0.55823 0.84914\n- 2 3.26321 4.63397 4.71771 4.15979 3.08680 4.46294 4.76722 2.18403 3.99215 0.94777 2.26114 4.44405 4.67729 4.16333 4.14713 3.80757 3.49089 2.19976 5.15039 4.06361 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04846 4.02366 3.52621 0.61958 0.77255 0.55823 0.84914\n- 3 2.65803 4.81746 2.62231 1.98649 4.32942 3.23343 3.80526 3.76513 2.66088 3.38403 4.23691 2.92159 3.82172 2.99049 3.09130 1.50732 2.98693 3.37812 5.58634 4.23338 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02751 4.00271 4.72506 0.61958 0.77255 0.57851 0.82265\n- 4 2.98953 4.97583 2.99437 2.75275 4.16130 3.45535 3.91165 3.81357 2.56490 3.30282 4.32859 3.21304 4.01168 1.01914 2.84585 3.03250 3.28714 3.53562 5.41096 4.11394 9 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02751 4.00271 4.72506 0.61958 0.77255 0.57851 0.82265\n- 5 3.26770 4.61041 4.76095 4.23708 3.14781 4.49951 4.83701 1.72076 4.05571 0.98674 2.97788 4.50481 4.72888 4.25818 4.21031 3.87329 3.50587 2.08265 5.20769 4.05992 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02751 4.00271 4.72506 0.61958 0.77255 0.57851 0.82265\n- 6 2.74352 5.10609 2.01096 2.23204 4.49790 3.24667 3.72788 3.96405 2.63608 3.52428 4.34714 1.75029 3.81099 2.88561 3.15516 2.70772 2.59321 3.55986 5.70824 4.28520 11 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02751 4.00271 4.72506 0.61958 0.77255 0.57851 0.82265\n- 7 2.84899 4.59382 3.52225 3.02608 3.55939 3.68444 3.91154 2.80644 2.13007 1.45288 3.53198 3.41753 4.09515 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07644 4.79878 0.61958 0.77255 0.50109 0.93108\n- 355 3.11770 4.57375 4.25458 3.76984 2.72842 4.11323 4.05784 2.57733 3.56751 1.09308 3.23962 3.97954 4.44525 3.83718 3.75342 3.46033 3.35321 2.57905 4.46781 2.28760 396 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07644 4.79878 0.61958 0.77255 0.50109 0.93108\n- 356 3.24923 5.06481 3.76202 3.23625 4.47182 3.69190 3.99201 4.03175 2.34668 3.51074 4.50963 3.57825 4.18821 3.20573 0.70722 3.32607 3.50362 3.74787 5.47430 4.35925 397 r - - -\n- 2.68581 4.42236 2.77531 2.73109 3.46260 2.40524 3.72506 3.29321 2.67752 2.69366 4.24701 2.90358 2.73751 3.18158 2.89812 2.37898 2.77505 2.98530 4.58488 3.61514\n- 0.13407 2.14363 4.79878 1.50471 0.25113 0.50109 0.93108\n- 357 2.35419 1.73988 3.79748 3.40944 3.86683 1.78703 4.24570 3.22364 3.32291 3.00073 3.90472 3.50968 3.83063 3.62701 3.57160 2.58048 2.79712 2.86493 5.30532 3.88461 405 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07644 4.79878 0.61958 0.77255 0.50109 0.93108\n- 358 2.84382 4.42453 3.92531 3.34136 3.31003 3.86633 4.10271 2.18458 3.04480 1.39858 3.22889 3.68282 4.21405 3.46717 2.59848 3.16252 3.07416 2.40623 4.98022 3.77538 406 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07644 4.79878 0.61958 0.77255 0.50109 0.93108\n- 359 3.27295 4.71977 4.21232 3.79278 2.33277 4.12661 3.71433 2.97321 3.58262 1.92613 3.65650 3.89937 4.48756 3.83563 3.75969 3.49035 3.51320 2.89528 4.00811 1.14662 407 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07644 4.79878 0.61958 0.77255 0.50109 0.93108\n- 360 2.61266 4.45863 3.42523 3.11477 3.88387 1.26307 4.14320 3.24987 3.08465 2.16813 3.98762 3.42395 3.95089 3.46221 3.38594 2.79403 3.00591 2.96818 5.32663 4.04494 408 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07644 4.79878 0.61958 0.77255 0.50109 0.93108\n- 361 2.79851 5.07734 1.25695 2.31504 4.55214 3.25355 3.85692 3.94359 2.82609 3.59050 4.46260 2.85904 3.86859 3.03605 3.35081 2.78219 2.36107 3.55427 5.80604 4.39002 409 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02553 4.07644 4.79878 0.61958 0.77255 0.50109 0.93108\n- 362 3.21620 4.60972 4.67679 4.17813 3.21469 4.37323 4.80530 2.12345 3.99433 0.93518 3.05922 4.42701 4.67779 4.22699 4.16074 3.76147 3.47769 1.83889 5.23913 4.07510 410 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.06816 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PrrC__EcoprrI.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PrrC__EcoprrI.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1319 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PrrC__EcoprrI\n-LENG 432\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 19 10:26:32 2021\n-NSEQ 395\n-EFFN 5.915718\n-CKSUM 2200246261\n-GA 20 20;\n-STATS LOCAL MSV -11.5764 0.69880\n-STATS LOCAL VITERBI -13.1770 0.69880\n-STATS LOCAL FORWARD -5.0977 0.69880\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59650 4.60574 2.84354 2.60371 3.28783 2.85419 3.74229 2.84538 2.59752 2.49308 3.76627 2.94128 3.25751 3.02007 2.95354 2.61150 2.82267 2.81201 4.74155 3.43149\n- 2.68631 4.42238 2.77533 2.73137 3.46367 2.40526 3.72508 3.29323 2.67706 2.69344 4.24556 2.90330 2.73753 3.18081 2.89814 2.37900 2.77533 2.98532 4.58490 3.61516\n- 0.21142 1.71283 4.58471 1.50420 0.25128 0.00000 *\n- 1 4.09908 5.65999 4.93844 4.65490 3.91972 4.77270 3.38162 4.00886 4.17635 3.27195 0.31457 4.83708 5.29459 4.73946 4.32112 4.34139 4.42106 3.98962 5.58880 4.06615 9 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00789 5.24179 5.96414 0.61958 0.77255 0.48576 0.95510\n- 2 2.66190 5.08397 3.51095 2.66999 4.28901 3.60336 4.09628 2.91103 2.93882 3.32807 3.34285 2.71612 3.24013 3.28029 3.38372 1.50802 2.19420 2.78040 5.61343 4.30862 10 s - - -\n- 2.68657 4.42308 2.77517 2.73085 3.46377 2.40587 3.72578 3.29267 2.67679 2.69369 4.24709 2.90325 2.73814 3.17888 2.89777 2.37890 2.77480 2.98582 4.58560 3.61586\n- 0.91110 0.80876 1.88053 1.21312 0.35278 0.48576 0.95510\n- 3 2.62717 3.41205 3.22307 1.90652 4.75512 3.73812 3.31689 4.22923 2.44942 3.66156 3.88061 2.89818 3.71770 1.70377 3.15826 2.79682 2.53195 3.80853 5.87006 3.86403 21 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18599 5.90834 0.61958 0.77255 0.63271 0.75747\n- 4 2.79735 5.27577 3.43993 2.88205 4.18719 3.87922 3.67536 3.94075 2.40476 2.05873 2.56331 3.17259 3.82920 2.43651 2.15032 2.94375 2.29711 3.36634 5.77378 4.43353 22 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00699 5.36263 6.08498 0.61958 0.77255 0.78361 0.61019\n- 5 1.74970 5.54958 2.60473 2.54479 4.89327 3.81640 4.00364 4.37826 2.23631 3.36483 4.59061 2.66137 3.79977 2.78751 2.83728 1.92792 2.87765 3.47206 5.98308 4.57296 23 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00699 5.36263 6.08498 0.61958 0.77255 0.78361 0.61019\n- 6 2.55036 5.40128 3.36400 1.75862 3.00352 3.84751 4.04209 4.13266 2.35903 3.12112 3.56560 3.34314 2.83013 2.50016 2.96141 2.97331 3.06767 3.75945 5.87139 2.43974 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00699 5.36263 6.08498 0.61958 0.77255 0.78361 0.61019\n- 7 3.65694 4.99259 5.57816 4.96937 3.44903 4.86544 5.17156 1.70363 4.77699 0.73169 2.65471 5.01563 5.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.62656 0.76449\n- 425 3.03517 4.49621 3.97871 3.66720 1.37192 3.75063 3.81982 2.59235 3.58053 2.01183 3.35806 3.81463 4.22127 3.80334 3.74581 3.30925 3.34033 2.56717 4.14139 2.53884 1974 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.53635 0.87919\n- 426 2.70289 4.65668 3.20275 2.67726 3.82582 3.47000 3.66144 3.10540 1.70856 2.74519 3.06135 3.11232 3.88993 2.85890 2.52091 2.80125 2.93873 2.88516 5.15403 3.88583 1975 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03512 3.76245 4.48480 0.61958 0.77255 0.57479 0.82742\n- 427 2.53868 4.32065 3.18938 3.07702 4.21313 0.92126 4.20060 3.78904 3.24275 3.45649 4.43435 3.35465 3.70825 3.57638 3.48752 2.70813 3.01153 3.33911 5.33397 4.31258 1976 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03512 3.76245 4.48480 0.61958 0.77255 0.57479 0.82742\n- 428 2.84270 4.33322 4.14879 3.67063 2.59494 3.89963 4.28701 2.05210 3.56684 1.89268 3.18387 3.91480 4.30824 3.82693 3.79867 3.26989 3.12702 1.46120 4.85954 3.48139 1977 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03512 3.76245 4.48480 0.61958 0.77255 0.57479 0.82742\n- 429 2.27061 4.15376 3.27242 2.98425 3.87923 1.75199 4.03431 3.10728 2.99135 2.94542 3.90529 3.22238 3.68462 3.33589 3.29189 2.45918 2.71216 2.29212 5.30509 4.04822 1978 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03512 3.76245 4.48480 0.61958 0.77255 0.57479 0.82742\n- 430 2.57575 4.35049 3.33934 2.93352 3.30138 1.76403 3.80168 3.14181 2.82579 2.78094 3.73457 3.27596 3.83266 3.21561 3.12295 2.74929 2.89974 2.87327 3.00048 3.36372 1979 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03512 3.76245 4.48480 0.61958 0.77255 0.57479 0.82742\n- 431 2.75084 4.71170 2.80066 2.56368 3.85161 3.25132 3.71626 3.46356 2.40125 2.98367 4.02830 3.01726 3.80946 1.60636 2.68467 2.81192 3.05359 3.20843 5.16336 3.84719 1980 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03785 3.68880 4.41115 0.61958 0.77255 0.43386 1.04413\n- 432 2.95837 4.35439 4.45000 3.96023 3.39454 4.17081 4.71586 1.35871 3.82584 1.91927 3.23623 4.21631 4.53131 4.12073 4.05088 3.55252 3.23489 1.45569 5.32477 4.10695 1981 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02277 3.79350 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PrrC__PrrC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PrrC__PrrC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1136 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME PrrC__PrrC\n-LENG 371\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 24 14:26:46 2021\n-NSEQ 37\n-EFFN 1.016235\n-CKSUM 3287630254\n-GA 100 100;\n-STATS LOCAL MSV -11.4146 0.69971\n-STATS LOCAL VITERBI -12.3638 0.69971\n-STATS LOCAL FORWARD -5.9772 0.69971\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66184 4.63729 2.84658 2.55177 3.06980 3.20673 3.57821 2.80780 2.58826 2.40121 3.74711 2.90752 3.62101 3.03879 3.00047 2.63008 2.87156 2.75397 4.52554 3.27614\n- 2.68622 4.42229 2.77524 2.73119 3.46350 2.40517 3.72499 3.29345 2.67733 2.69355 4.24638 2.90347 2.73744 3.18151 2.89801 2.37891 2.77524 2.98512 4.58481 3.61498\n- 0.08781 2.57379 4.85142 1.02627 0.44370 0.00000 *\n- 1 2.93289 4.45959 4.20197 3.69559 2.88791 3.95173 4.29092 2.49659 3.54464 1.97180 1.29972 3.94106 4.35107 3.81662 3.75720 3.12249 3.20193 2.45178 4.90122 3.58464 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02256 4.19868 4.92103 0.61958 0.77255 0.48576 0.95510\n- 2 2.19778 4.49633 3.23394 2.78211 4.22179 1.89136 3.94309 3.64330 2.81440 3.27522 4.09004 2.82166 3.31410 3.13523 3.23341 1.97617 2.82804 2.88395 5.51994 4.23531 10 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02256 4.19868 4.92103 0.61958 0.77255 0.48576 0.95510\n- 3 2.57942 5.13184 2.96806 2.16002 4.47704 3.47135 3.46679 3.91988 1.67855 3.29667 4.18527 2.86473 3.86574 2.35821 2.53704 2.70595 2.95281 3.52549 5.53707 4.18852 11 k - - -\n- 2.68613 4.42243 2.77480 2.73116 3.46348 2.40528 3.72512 3.29372 2.67721 2.69362 4.24707 2.90338 2.73735 3.18106 2.89818 2.37905 2.77537 2.98506 4.58495 3.61521\n- 0.20484 2.16657 2.65004 1.81130 0.17846 0.48576 0.95510\n- 4 2.46635 4.81852 2.77562 2.35851 3.84120 3.41702 3.63667 3.40453 2.26844 3.08892 3.89961 2.95000 3.81746 2.78477 2.89847 2.33264 2.18029 3.15966 5.32780 3.98873 28 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04223 4.13323 3.67630 0.61958 0.77255 0.56288 0.84296\n- 5 3.06998 4.54063 4.29819 3.77116 3.23473 4.15375 4.45036 2.15145 3.28495 0.98526 3.12745 4.06852 4.47687 3.86173 3.71070 3.49729 3.31092 2.28740 5.09590 3.90028 29 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11554 4.83789 0.61958 0.77255 0.58193 0.81830\n- 6 2.50650 4.75774 2.93993 2.39261 3.98912 3.43056 3.63919 3.08161 2.27921 2.89341 3.83445 2.78729 3.82225 2.79817 2.83075 2.42153 2.32201 3.02736 5.26879 3.94344 30 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11554 4.83789 0.61958 0.77255 0.52574 0.89432\n- 7 2.53027 5.24123 2.18024 1.56752 4.55555 3.13600 3.67530 4.03672 2.50201 3.53802 4.31843 2.74763 3.834'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02367 4.15111 4.87345 0.61958 0.77255 0.50392 0.92674\n- 364 2.61308 5.01614 2.75337 2.29728 4.31944 3.25124 2.96631 3.77627 2.29967 3.30241 4.06901 2.71281 3.17999 2.60725 2.56074 2.44180 2.84440 3.38438 5.47316 3.41092 654 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02367 4.15111 4.87345 0.61958 0.77255 0.50392 0.92674\n- 365 3.13554 4.52843 4.37577 3.55005 1.25470 4.09395 3.65825 3.02506 3.75931 2.60574 3.65350 3.91016 4.43430 3.88001 3.88851 3.22401 3.36116 2.85860 3.28425 1.81478 655 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02367 4.15111 4.87345 0.61958 0.77255 0.50392 0.92674\n- 366 2.54386 4.69260 3.07610 2.47776 3.59019 3.45767 3.32587 3.30315 2.28089 2.93759 3.53224 2.66470 3.84538 2.75837 2.80220 2.51253 2.75242 3.00898 3.30818 3.90490 656 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02367 4.15111 4.87345 0.61958 0.77255 0.50392 0.92674\n- 367 2.58908 5.06237 2.88602 2.05448 4.38022 3.41272 3.48259 3.83464 2.16239 3.10074 4.11570 2.71545 3.81249 2.20073 2.65758 2.48901 2.88175 3.43951 5.50167 4.12678 657 e - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29350 2.67745 2.69350 4.24672 2.90339 2.73734 3.18151 2.89794 2.37891 2.77513 2.98516 4.58481 3.61496\n- 0.18017 2.65456 2.35870 1.07370 0.41816 0.50392 0.92674\n- 368 2.56132 4.98437 2.65346 1.93359 4.28215 3.37529 3.57493 3.61121 2.25527 3.16029 4.03924 2.80146 3.49304 2.48147 2.81079 2.53688 2.82687 3.34968 4.89228 4.06445 664 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05964 4.06020 3.20273 0.61958 0.77255 0.60191 0.79355\n- 369 2.55143 4.73580 2.99876 1.98089 3.96316 3.42569 3.48255 3.00031 2.26256 2.70984 3.81497 2.97287 3.82126 2.79729 2.84366 2.60106 2.77544 3.05660 5.24360 3.92863 665 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04323 4.02739 3.70961 0.61958 0.77255 0.63308 0.75705\n- 370 2.50219 4.89656 2.80469 2.19331 4.16908 3.28032 3.58935 3.47286 2.32507 3.07657 3.96427 2.70254 3.78015 2.40055 2.83170 2.56086 2.45505 3.24869 5.37818 4.01884 666 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13553 4.01143 2.21974 0.61958 0.77255 0.54600 0.86575\n- 371 2.56515 4.74765 2.95488 2.37073 3.67539 3.17684 3.36994 3.29084 2.29899 3.00431 3.82211 2.92353 3.16849 2.42903 2.77903 2.60257 2.69831 3.08050 5.24909 3.92128 667 k - - -\n- 2.68616 4.42243 2.77512 2.73118 3.46322 2.40519 3.72471 3.29357 2.67751 2.69369 4.24708 2.90301 2.73754 3.18165 2.89790 2.37886 2.77521 2.98526 4.58495 3.61511\n- 0.42453 1.06154 * 1.25829 0.33427 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PsyrTA__PsyrA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PsyrTA__PsyrA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1217 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME PsyrTA__PsyrA\n-LENG 398\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:48 2021\n-NSEQ 825\n-EFFN 2.671909\n-CKSUM 2616856246\n-GA 10 10;\n-STATS LOCAL MSV -11.4520 0.69928\n-STATS LOCAL VITERBI -12.1784 0.69928\n-STATS LOCAL FORWARD -5.7546 0.69928\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40745 4.53022 3.00742 2.63471 3.53881 2.77811 3.80295 2.96435 2.64525 2.40006 3.70121 3.05207 3.30682 3.00069 2.90885 2.57200 2.83855 2.71890 4.48145 3.64274\n- 2.68346 4.40684 2.77501 2.73539 3.46183 2.40762 3.72484 3.29535 2.67956 2.68542 4.24458 2.90654 2.73550 3.17835 2.89819 2.38168 2.77787 2.98324 4.57622 3.62049\n- 0.33738 1.82821 2.07417 4.82488 0.00806 0.00000 *\n- 1 3.30368 4.72601 4.83947 4.28466 3.50100 4.44288 4.82513 2.43759 4.06919 1.99952 0.85253 4.29248 4.68237 4.31869 4.22393 3.78649 3.55505 2.35960 5.35322 4.18553 240 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08924 4.69810 2.57363 0.61958 0.77255 0.50686 0.92227\n- 2 2.63713 5.06248 3.00962 2.55176 4.29859 3.55221 3.70905 3.44965 2.47094 3.21885 3.23353 1.78961 3.85711 2.61759 2.96700 2.45972 2.56187 3.26744 5.54488 4.18669 241 n - - -\n- 2.68630 4.42266 2.77509 2.73139 3.46374 2.40509 3.72466 3.29363 2.67748 2.69359 4.24688 2.90286 2.73735 3.18154 2.89810 2.37872 2.77526 2.98514 4.58518 3.61539\n- 0.49968 0.97112 4.22542 1.22967 0.34586 0.53881 0.87573\n- 3 2.64108 4.21171 4.54483 3.59370 2.83263 3.94432 4.26552 2.18969 3.77413 1.25926 3.01397 3.94665 3.66861 3.91134 3.85924 3.21870 3.03230 2.38954 4.82948 3.17396 259 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05606 4.76110 3.07986 0.61958 0.77255 0.64140 0.74772\n- 4 2.76029 5.24522 2.71717 2.41677 4.56270 3.50292 3.75079 4.02929 2.51459 3.48212 4.24594 2.51174 3.82729 2.83843 3.03334 1.45431 2.50404 3.62315 5.70299 4.30687 260 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01335 4.71839 5.44073 0.61958 0.77255 0.46256 0.99337\n- 5 1.90344 5.22712 2.94478 2.00522 4.53937 3.57134 3.75250 3.77592 2.38397 3.18867 3.88481 2.96900 2.65542 2.70698 2.94877 2.72832 2.71663 3.55549 5.67994 4.19821 261 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01229 4.80082 5.52317 0.61958 0.77255 0.56485 0.84036\n- 6 2.51166 4.28544 2.34513 2.48637 4.55926 3.58322 3.77410 3.57672 2.47443 3.50638 4.28997 1.77854 3.97651 2.56940 2.88287 2.63633 2.63227 3.56681 5.69138 4.29771 262 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01229 4.80082 5.52317 0.61958 0.77255 0.56485 0.84036\n- 7 1.85898 4.79736 3.02845 2.23618 4.40391 3.51992 3.80388 3.84385 2.57373 3.40332 3.74106 3.071'..b'.68619 4.42226 2.77509 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98517 4.58477 3.61504\n- 0.06260 3.27412 3.77962 0.45330 1.00930 0.57562 0.82635\n- 391 2.69403 5.17263 2.99039 2.36335 4.48583 2.40525 3.79114 3.93668 2.36161 3.47443 4.25169 3.05051 1.74429 2.91192 2.90338 2.70633 2.95315 3.45344 5.65513 4.27847 1061 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02335 4.68943 4.27711 0.61958 0.77255 0.71614 0.67068\n- 392 2.30277 4.42229 3.74688 3.17648 3.49675 3.76867 2.48240 2.57150 2.78254 2.24450 3.52878 3.33831 4.01353 3.36369 3.44144 2.99213 2.93000 1.84472 5.01220 3.74448 1062 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21872 4.68746 1.67537 0.61958 0.77255 0.71232 0.67434\n- 393 2.65179 4.85296 3.00658 2.37974 4.40194 3.04897 3.52554 3.85511 2.14226 3.36448 4.15234 2.98569 3.67759 2.73842 1.90809 2.51793 2.63754 3.46709 5.55564 3.66487 1063 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02474 4.49731 4.32021 0.61958 0.77255 0.52499 0.89542\n- 394 2.86238 4.64770 4.30039 3.82490 2.27611 3.49304 4.04927 3.17660 3.73477 2.83644 3.81773 3.93405 4.49838 3.94106 3.89157 3.25321 3.38702 2.97952 4.48353 0.92621 1064 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09038 4.68322 2.56183 0.61958 0.77255 0.75071 0.63871\n- 395 2.51460 4.54135 3.07710 2.54715 4.06941 3.44042 3.68738 3.39651 2.37808 3.17533 3.91488 3.07976 3.94668 1.76661 2.68049 2.63691 2.68277 2.88682 5.45888 4.06097 1065 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08093 4.60778 2.69165 0.61958 0.77255 0.85915 0.55082\n- 396 2.59674 3.95906 4.47283 3.87014 2.04493 3.61503 4.07376 2.20941 3.65104 1.93843 3.15294 3.94742 3.92571 3.86408 3.37129 2.92804 2.93787 2.12020 3.75371 3.37697 1066 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03596 4.54278 3.70173 0.61958 0.77255 0.56739 0.83702\n- 397 2.65729 4.89017 3.05856 2.55512 4.15088 3.32994 3.44040 2.91103 2.29153 2.89602 3.62691 2.89729 3.44555 2.77488 2.13299 2.64909 2.88341 2.77973 5.48050 4.13812 1067 r - - -\n- 2.68632 4.42274 2.77527 2.73103 3.46360 2.40524 3.72495 3.29359 2.67711 2.69360 4.24713 2.90305 2.73765 3.18156 2.89821 2.37870 2.77525 2.98500 4.58526 3.61500\n- 1.15228 0.73571 1.58515 1.20620 0.35572 0.60594 0.78870\n- 398 2.43787 5.06372 2.86089 2.17419 4.11187 3.20546 3.67096 3.92837 2.06971 3.42134 4.16085 2.82353 3.71471 2.20026 2.78879 2.45308 2.82527 3.24295 5.61084 4.21132 1090 k - - -\n- 2.68651 4.42258 2.77498 2.73121 3.46254 2.40526 3.72587 3.29361 2.67749 2.69232 4.24714 2.90402 2.73777 3.18027 2.89835 2.37873 2.77528 2.98542 4.58575 3.61564\n- 0.86963 0.54319 * 1.93712 0.15562 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PsyrTA__PsyrT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/PsyrTA__PsyrT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2090 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME PsyrTA__PsyrT\n-LENG 689\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:46 2021\n-NSEQ 825\n-EFFN 1.564121\n-CKSUM 7919342\n-GA 10 10;\n-STATS LOCAL MSV -12.3652 0.69669\n-STATS LOCAL VITERBI -13.1317 0.69669\n-STATS LOCAL FORWARD -6.6703 0.69669\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50852 4.32255 2.96209 2.65282 3.41256 2.97113 3.72341 2.78474 2.64791 2.41879 3.65393 3.04369 3.40775 2.96599 2.88336 2.67628 2.82147 2.62729 4.62497 3.55013\n- 2.68624 4.42440 2.77628 2.72913 3.46322 2.40751 3.72643 3.29208 2.67288 2.69153 4.24409 2.90363 2.73924 3.18085 2.89672 2.38107 2.77610 2.98543 4.58432 3.61652\n- 0.38872 1.56345 2.18336 4.35500 0.01293 0.00000 *\n- 1 3.36104 4.71747 4.90179 4.33720 3.23304 4.58146 4.90517 2.24523 4.17271 1.43051 1.21350 4.59364 4.80115 4.32676 4.31028 3.92572 3.56801 2.22535 5.27714 4.19560 263 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02419 4.29706 4.57618 0.61958 0.77255 0.61996 0.77211\n- 2 2.55542 5.03362 2.82527 2.14813 4.33235 3.42444 3.63081 3.61422 2.36964 3.29548 3.97617 2.34498 3.36300 2.69820 2.87214 2.38800 2.43003 3.30396 5.49707 4.11635 264 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20297 4.30206 1.77103 0.61958 0.77255 0.63349 0.75659\n- 3 2.55438 4.54887 3.09025 2.59473 3.61516 3.47733 3.69702 3.10429 2.47091 2.74526 3.38219 3.00243 3.85429 2.88715 2.29104 2.60311 2.68833 2.64163 5.11169 3.37278 265 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06360 4.12343 3.09149 0.61958 0.77255 0.69309 0.69321\n- 4 2.58205 4.93240 2.77108 2.32947 4.15857 3.38275 3.60488 3.59317 2.33716 3.20159 3.40424 2.49053 3.75376 2.55370 2.72731 2.36632 2.56107 3.22230 5.40823 4.04328 266 e - - -\n- 2.68616 4.42233 2.77557 2.73170 3.46358 2.40547 3.72521 3.29340 2.67762 2.69280 4.24690 2.90365 2.73749 3.18179 2.89795 2.37885 2.77513 2.98431 4.58368 3.61442\n- 0.60714 1.38826 1.58190 2.25959 0.11025 0.43705 1.03829\n- 5 2.60869 5.00704 2.69621 2.30463 4.34997 3.40276 3.42402 3.78755 1.96431 3.31104 4.01429 2.85951 3.53021 2.55706 2.41534 2.56926 2.79258 3.22113 5.48721 3.87068 330 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05886 4.17029 3.17693 0.61958 0.77255 0.77377 0.61855\n- 6 2.46510 5.05433 2.70804 1.97996 4.30752 3.38556 2.90191 3.80590 2.24474 3.32574 4.08326 2.78076 3.77739 2.55585 2.76135 2.54949 2.75294 3.42303 5.50348 4.11145 331 e - - -\n- 2.68587 4.42262 2.77556 2.73160 3.46361 2.40509 3.72493 3.29391 2.67751 2.69323 4.24662 2.90333 2.73677 3.18139 2.89821 2.37904 2.77541 2.98519 4.58333 3.61506\n- 0.08139 2.67271 4.69928 2.77770 0.06420 0.43655 1.03919\n- 7 2.54194 5.15004 2.54785 2.07630 4.45914 3.21395 3.61544 3.94395 2.28744 3.39026 4.19504 2.88041 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01862 4.38875 5.11109 0.61958 0.77255 0.52386 0.89706\n- 682 1.05533 4.36799 3.77429 3.31044 4.15345 3.23260 4.27850 3.47132 3.26313 3.22217 3.84768 3.51899 3.94108 3.56519 3.59149 2.34083 2.21518 2.93980 5.54738 4.33055 1309 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02060 4.38875 4.83174 0.61958 0.77255 0.52386 0.89706\n- 683 2.62506 4.85252 2.89961 2.41275 4.14916 3.46377 3.64876 3.69302 1.87031 3.10854 4.08237 2.80289 3.85560 2.66013 2.57921 2.13183 2.81525 3.34340 5.50606 4.13106 1310 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01865 4.38680 5.10915 0.61958 0.77255 0.52189 0.89992\n- 684 2.44986 4.63420 3.22072 2.79887 4.13019 3.40461 3.94906 3.48215 2.80761 3.16103 4.02121 3.00362 3.93917 2.96547 3.21214 2.43953 1.29888 3.15556 5.45563 4.17372 1311 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03090 4.38875 4.01671 0.61958 0.77255 0.52386 0.89706\n- 685 2.43441 4.63712 3.22719 2.66698 3.82697 3.08020 3.59423 2.65603 2.56514 2.84975 3.72977 3.14980 3.87991 2.98105 2.64444 2.06146 2.81169 2.64780 5.18435 3.89929 1312 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02912 4.37669 4.12683 0.61958 0.77255 0.51198 0.91455\n- 686 2.56115 4.69612 3.17396 2.61522 3.85729 2.62910 3.15178 3.26151 2.51603 2.58642 3.77191 3.02332 3.53642 2.85872 3.03295 2.41474 2.78970 2.45496 5.23042 3.91744 1313 s - - -\n- 2.68658 4.42229 2.77552 2.73045 3.46386 2.40558 3.72499 3.29202 2.67608 2.69306 4.24610 2.90440 2.73775 3.18202 2.89889 2.37934 2.77454 2.98587 4.58314 3.61410\n- 0.16067 2.04174 3.98351 3.44678 0.03237 0.53313 0.88374\n- 687 2.64787 5.18341 2.63323 2.13206 4.51058 2.41387 3.64322 3.98816 2.16040 3.48102 4.23342 2.75196 3.85310 2.67589 2.84952 2.19360 2.85508 3.56532 5.62520 4.21745 1399 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06491 4.36833 2.99223 0.61958 0.77255 0.55320 0.85592\n- 688 2.77971 5.35399 1.58006 1.95786 4.66834 3.01880 3.73976 4.14424 2.55189 3.64803 4.22172 2.49016 3.89752 2.77910 3.10404 2.60981 3.07853 3.73167 5.79544 4.35388 1400 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25058 4.31492 1.56885 0.61958 0.77255 0.61306 0.78021\n- 689 2.46742 4.67645 2.67919 2.45604 3.88532 3.37843 3.65850 2.51317 2.48304 2.84881 3.75825 2.96915 3.83261 2.52956 2.94067 2.55449 2.81075 2.97101 5.20154 3.68228 1401 e - - -\n- 2.68711 4.42361 2.77533 2.73017 3.46443 2.40614 3.72445 3.29154 2.67617 2.69330 4.24826 2.90266 2.73807 3.18247 2.89803 2.37942 2.77513 2.98535 4.58323 3.61308\n- 0.27816 1.41543 * 3.27589 0.03852 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Pycsar__AG_cyclase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Pycsar__AG_cyclase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,944 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Pycsar__AG_cyclase\n-LENG 307\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Nov 26 11:25:02 2021\n-NSEQ 47\n-EFFN 4.936951\n-CKSUM 78891655\n-GA 40 40;\n-STATS LOCAL MSV -10.9253 0.70110\n-STATS LOCAL VITERBI -11.9678 0.70110\n-STATS LOCAL FORWARD -5.4751 0.70110\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50697 4.38434 2.84256 2.70046 3.37331 2.70123 3.69576 2.88132 2.65987 2.60312 3.73553 2.99989 3.28890 3.14601 2.91597 2.52271 2.79943 2.72182 4.67536 3.50696\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00748 5.29554 6.01789 0.61958 0.77255 0.00000 *\n- 1 4.88723 6.24653 6.03127 5.91634 4.90135 5.27874 6.36978 4.31807 5.69953 3.45173 0.12220 6.00885 5.87093 6.01621 5.69537 5.26784 5.29434 4.45532 6.68125 5.59381 1 M - - -\n- 2.68557 4.42147 2.77585 2.73189 3.46419 2.40476 3.72393 3.29373 2.67706 2.69268 4.24635 2.90412 2.73805 3.18212 2.89835 2.37914 2.77585 2.98380 4.58374 3.61413\n- 0.83803 1.82078 0.90254 1.89961 0.16208 0.48576 0.95510\n- 2 1.78218 5.26511 2.79958 2.50182 4.59494 3.27727 3.76451 4.06915 2.35109 3.56466 4.31246 2.84251 3.96767 2.59126 2.64065 2.12164 2.62230 3.64811 5.70939 4.30886 33 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01256 4.77953 5.50187 0.61958 0.77255 1.41300 0.27894\n- 3 2.79859 4.66328 3.19241 2.91736 3.37799 3.72207 3.95597 3.19909 2.54103 2.29242 3.75871 3.01813 4.10606 3.21283 3.28897 2.37990 2.75823 2.95149 1.94522 3.95916 34 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01256 4.77953 5.50187 0.61958 0.77255 1.30264 0.31720\n- 4 2.53489 5.30405 2.36683 2.38304 4.64551 3.57668 3.31443 4.12892 2.10261 3.35723 4.34570 2.30520 3.97025 2.59349 2.78492 2.34807 2.82737 3.13400 5.73883 4.33008 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01217 4.81077 5.53312 0.61958 0.77255 1.38418 0.28839\n- 5 2.50822 5.23193 2.40701 1.97450 4.54459 3.58885 3.15396 2.82438 2.18717 3.03078 4.28126 3.07002 3.47498 2.71020 3.01504 2.78066 3.03334 3.27261 5.68449 3.67691 36 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01217 4.81077 5.53312 0.61958 0.77255 1.27335 0.32836\n- 6 2.61465 5.32264 1.70497 2.10970 4.66362 3.58953 3.78070 3.57505 2.38670 3.62613 4.36475 2.67189 3.52993 2.70748 2.77465 2.58752 2.87376 3.71115 5.75739 4.34785 37 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18781 4.84120 1.81199 0.61958 0.77255 0.77711 0.61569\n- 7 2.65413 5.25208 2.91182 2.36480 3.73790 3.61804 3.80917 3.47867 2.55832 3.54213 4.30244 3.10072 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01843 4.39885 5.12120 0.61958 0.77255 1.12606 0.39202\n- 300 2.69638 4.30646 3.76383 2.25934 3.42678 3.72976 4.00376 2.01670 3.12530 2.12573 3.40162 3.54585 4.10264 3.40813 3.42803 2.99161 2.71492 2.19745 4.92053 3.18663 938 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01843 4.39885 5.12120 0.61958 0.77255 1.12606 0.39202\n- 301 2.66609 3.74542 2.56814 2.39386 2.89161 3.16303 3.70709 3.49220 2.21497 3.10205 3.91881 3.03777 3.46989 2.86192 2.78591 2.70616 2.89745 3.17491 5.35286 3.08417 939 k - - -\n- 2.68629 4.41929 2.77450 2.73095 3.46393 2.40552 3.72483 3.29314 2.67718 2.69394 4.24729 2.90366 2.73764 3.18165 2.89786 2.37881 2.77546 2.98500 4.58516 3.61542\n- 0.90649 0.52748 5.12120 1.05739 0.42673 1.12606 0.39202\n- 302 2.95716 3.41657 4.82264 4.24491 1.78834 4.19497 4.55927 1.62095 4.08303 2.16506 3.29817 4.31705 4.52466 4.23541 4.15215 3.52344 3.19592 1.71038 5.03030 3.83296 943 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01843 4.39885 5.12120 0.61958 0.77255 1.12606 0.39202\n- 303 2.47891 4.46751 3.50960 3.26007 4.71393 1.17420 4.43788 4.18177 3.41083 3.81912 4.61444 3.47435 2.88277 3.67759 3.76336 1.60834 2.97013 3.55528 6.00893 4.77947 944 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01843 4.39885 5.12120 0.61958 0.77255 1.12606 0.39202\n- 304 3.37404 4.60941 5.31416 4.81418 3.80791 4.88257 5.47679 1.45962 4.72346 2.01477 3.57673 4.99462 5.11749 4.94501 4.88005 4.28315 3.62779 0.85312 5.84852 4.66150 945 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01843 4.39885 5.12120 0.61958 0.77255 1.12606 0.39202\n- 305 3.43734 4.77714 4.67870 4.23762 1.27727 4.36136 2.57334 2.51478 4.09072 2.80543 3.89795 4.15061 4.68841 4.15054 4.17630 3.68391 3.65982 3.12592 3.97525 1.51465 946 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01843 4.39885 5.12120 0.61958 0.77255 1.12606 0.39202\n- 306 3.38575 4.62629 5.32790 4.85926 3.87472 4.88208 5.57471 0.86253 4.76837 2.31322 3.63665 5.03276 5.14745 5.01822 4.93707 4.30694 3.65225 1.27696 5.94902 4.74272 947 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01843 4.39885 5.12120 0.61958 0.77255 1.12606 0.39202\n- 307 2.35963 4.38446 2.70053 2.51241 4.03560 2.98373 3.79518 3.56397 2.67830 3.22714 4.09433 2.27771 3.64646 3.03177 3.04515 1.91660 2.76379 3.13326 5.36936 4.02195 948 s - - -\n- 2.68643 4.42250 2.77506 2.73111 3.46379 2.40524 3.72455 3.29304 2.67748 2.69316 4.24715 2.90299 2.73740 3.18171 2.89782 2.37912 2.77544 2.98519 4.58502 3.61528\n- 0.32495 1.28216 * 1.86884 0.16759 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_IIG__Type_IIG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_IIG__Type_IIG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,23362 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Type_IIG_FAM_0.einsi_trimmed\n-LENG 909\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 22 14:48:54 2017\n-NSEQ 46\n-EFFN 8.144897\n-CKSUM 3182636153\n-GA 300 300;\n-STATS LOCAL MSV -12.3763 0.69583\n-STATS LOCAL VITERBI -14.1122 0.69583\n-STATS LOCAL FORWARD -6.3414 0.69583\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63358 4.52147 2.86044 2.59440 3.21986 2.80594 3.77557 2.90837 2.59303 2.44674 3.93310 2.91755 3.17469 3.08357 2.95405 2.58131 2.84618 2.89166 4.53559 3.41792\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04241 5.77773 3.25898 0.61958 0.77255 0.00000 *\n- 1 3.56039 5.52334 6.38975 5.86906 4.57147 5.80221 6.33757 1.60240 5.76047 2.39926 0.82936 5.97340 6.00930 5.87879 5.81985 5.19641 4.54573 1.69391 6.60239 5.47424 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00479 5.74011 6.46245 0.61958 0.77255 0.69002 0.69628\n- 2 3.25023 5.76242 3.14558 2.16924 5.10813 3.32442 3.50993 4.59456 2.66452 4.06797 4.80292 1.43071 4.41719 2.81542 3.06319 2.01629 2.52676 3.46687 6.19471 3.93009 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.48038 5.74011 0.97223 0.61958 0.77255 0.69002 0.69628\n- 3 2.28448 5.28668 3.35417 2.32348 2.36434 3.81561 3.62697 3.98127 2.30648 3.18703 4.35003 2.87690 4.20653 2.90219 3.03794 2.27448 3.23318 3.63232 2.71282 3.32402 3 s - - -\n- 2.68600 4.42277 2.77365 2.73142 3.46178 2.40564 3.72507 3.29354 2.67792 2.69267 4.24741 2.90398 2.73791 3.18164 2.89823 2.37882 2.77538 2.98521 4.58529 3.61555\n- 0.73036 0.71026 3.62124 0.67869 0.70781 0.20058 1.70517\n- 4 2.84460 5.72774 2.79940 2.58977 5.06312 3.58813 3.51658 3.23405 1.94695 2.43233 3.82782 3.21107 4.41098 2.61945 2.47745 2.88043 2.20170 3.54151 6.16627 3.21184 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05336 5.72210 3.02224 0.61958 0.77255 0.77253 0.61960\n- 5 2.33965 5.71057 2.41829 2.07345 4.08473 3.98701 4.17458 2.93084 2.77848 2.77547 4.75250 2.52033 4.38037 2.50721 2.36368 2.74688 2.42860 4.09860 6.14616 4.73815 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00512 5.67385 6.39620 0.61958 0.77255 0.95923 0.48319\n- 6 2.79903 5.72505 2.34477 2.36332 5.07124 3.98466 3.53539 4.55803 2.41011 4.03079 4.76545 1.50794 3.93588 2.82520 2.50990 2.28869 3.44285 3.22757 6.15702 4.74535 12 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00512 5.67385 6.39620 0.61958 0.77255 0.84673 0.56005\n- 7 2.96170 4.70789 5.19974 3.57720 3.31755 4.48390 4.81434 1.62748 4.39546 1.3452'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04001 3.63427 4.35662 0.61958 0.77255 0.45760 1.00185\n- 1168 2.60523 4.75953 2.47817 2.13498 4.16895 3.16444 3.65994 3.56167 2.47923 3.20824 4.07652 2.12356 3.73194 2.84796 2.88562 2.63069 2.63741 3.21445 5.42947 4.08067 5234 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03747 3.69866 4.42100 0.61958 0.77255 0.48576 0.95510\n- 1169 2.56797 4.70075 2.00180 2.17294 4.02326 3.01764 3.64593 3.57194 2.60878 3.24111 4.14967 2.38782 3.64532 2.87362 3.05835 2.58580 2.90717 3.21424 5.34366 3.94086 5235 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04429 3.53495 4.25730 0.61958 0.77255 0.48576 0.95510\n- 1170 2.66409 4.55732 2.90607 2.58447 2.92648 3.35344 3.21024 3.20383 2.48735 2.79090 3.75258 2.77806 3.83163 2.93701 2.80311 2.74774 2.92702 2.95064 4.46031 2.61329 5236 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04429 3.53495 4.25730 0.61958 0.77255 0.48576 0.95510\n- 1171 2.70793 4.47822 3.18644 2.82383 2.42266 3.42796 2.74064 3.00775 2.70240 2.53441 3.62420 3.18250 3.90042 3.10822 2.99702 2.83226 2.98464 2.82213 4.21886 2.61429 5237 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04429 3.53495 4.25730 0.61958 0.77255 0.48576 0.95510\n- 1172 2.56596 4.56228 2.45286 1.91724 4.02784 2.64825 3.67847 3.42663 2.52863 3.12047 4.05900 2.80735 3.64485 2.91492 2.88650 2.62496 2.90531 3.09896 5.26548 4.00444 5238 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04429 3.53495 4.25730 0.61958 0.77255 0.48576 0.95510\n- 1173 2.53677 4.52535 2.47448 1.99198 4.02098 2.52550 3.68805 3.42234 2.54435 3.11626 4.04940 2.81720 3.63670 2.92699 2.90081 2.60425 2.88434 3.08708 5.26307 4.00557 5239 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04429 3.53495 4.25730 0.61958 0.77255 0.48576 0.95510\n- 1174 2.38186 4.27284 3.05373 2.73804 3.74762 3.06995 3.77266 3.01963 2.49509 2.75761 3.77179 3.07297 3.68461 3.03235 2.52139 2.53837 2.29599 2.73868 5.13984 3.86619 5240 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04429 3.53495 4.25730 0.61958 0.77255 0.48576 0.95510\n- 1175 2.21684 4.10509 2.95317 2.78725 3.70237 2.84306 3.88321 3.19371 2.82408 2.96037 3.96085 3.05360 3.55760 3.21985 3.09583 1.78195 2.67511 2.82372 5.11757 3.79030 5241 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03003 3.52069 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_III__Type_III_MTases.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_III__Type_III_MTases.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4102 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Type_III_MTases_FAM_0\n-LENG 632\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 22 14:31:50 2017\n-NSEQ 78\n-EFFN 3.375366\n-CKSUM 2377376535\n-GA 100 100;\n-STATS LOCAL MSV -12.0996 0.69701\n-STATS LOCAL VITERBI -13.2803 0.69701\n-STATS LOCAL FORWARD -5.8276 0.69701\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61553 4.51349 2.81001 2.55081 3.33658 2.90591 3.71953 2.92663 2.52843 2.52513 3.80197 2.88714 3.32349 3.03963 2.93291 2.60411 2.81776 2.85146 4.50799 3.43875\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19177 5.02032 1.78440 0.61958 0.77255 0.00000 *\n- 1 2.79076 4.50386 4.21721 3.22438 3.56571 4.02663 4.35226 2.78746 3.52939 2.04598 1.11416 3.94810 4.40735 3.81929 3.75979 3.32490 2.88004 2.63578 5.13420 3.94596 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84036 5.56271 0.61958 0.77255 0.87369 0.54027\n- 2 2.17169 5.28224 2.90169 2.35480 4.60947 3.59406 3.78392 3.65575 2.28469 2.96346 4.32781 2.12972 3.98780 2.40360 3.01555 2.21489 2.98960 3.66329 5.72565 4.32565 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01181 4.84036 5.56271 0.61958 0.77255 0.87369 0.54027\n- 3 2.87841 5.26772 3.18291 2.61332 4.58701 3.65780 3.82042 3.70835 1.48896 2.72256 4.32046 2.70524 4.04542 2.54781 2.49340 2.86133 2.38647 3.64551 5.70412 4.34087 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05677 4.84036 3.05166 0.61958 0.77255 0.87369 0.54027\n- 4 2.79978 4.97207 2.63504 2.29263 4.20194 3.63739 3.38085 3.19047 2.12889 2.05726 3.82240 3.17576 4.02679 2.99962 3.11034 2.84216 3.03107 3.12403 5.47988 2.72226 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01235 4.79595 5.51829 0.61958 0.77255 0.94214 0.49396\n- 5 2.70623 5.34403 2.62675 2.34121 4.68326 3.45557 3.79253 4.16803 1.68632 3.64731 4.39043 2.02834 3.99112 2.89398 3.03746 2.32068 2.71584 3.73238 5.78001 4.36685 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01235 4.79595 5.51829 0.61958 0.77255 0.91616 0.51091\n- 6 2.16829 4.82847 3.32934 2.17501 3.80070 3.44501 3.89589 2.54695 2.61394 2.82837 3.00144 3.26275 3.45332 2.73180 3.19148 2.89272 2.33948 3.13508 5.36383 4.06808 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01226 4.80297 5.52531 0.61958 0.77255 0.93183 0.50060\n- 7 2.43227 5.22846 2.90482 2.25372 3.63344 3.19994 3.07299 3.73227 1.95483 2.55377 4.277'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25641 3.94715 1.57569 0.61958 0.77255 0.44180 1.02967\n- 713 2.84178 4.82394 2.87095 2.62605 3.98530 3.33298 3.78350 3.60916 2.45073 3.11656 4.14703 3.08489 3.88643 1.32918 2.73545 2.89226 3.13933 3.34241 5.26710 3.95776 822 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82068 4.54302 0.61958 0.77255 0.66334 0.72387\n- 714 1.09112 4.16802 3.41143 3.20150 4.00210 2.99370 4.22947 3.12000 3.21644 3.00386 4.04230 3.36376 3.72813 3.56263 3.46991 2.51922 2.79304 2.78345 5.43449 4.22920 823 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82068 4.54302 0.61958 0.77255 0.66334 0.72387\n- 715 2.90970 5.00729 2.46903 1.10146 4.34734 3.24205 3.82575 3.79098 2.69988 3.41696 4.39439 2.90665 3.84451 3.04321 3.10249 2.89809 3.21392 3.48061 5.52878 4.25223 824 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82068 4.54302 0.61958 0.77255 0.66334 0.72387\n- 716 2.92624 4.88588 3.09867 2.73117 4.26044 3.42019 3.73316 3.68670 1.11155 3.26364 4.22886 3.15757 3.92501 2.92830 2.42555 2.97221 3.18388 3.39775 5.33719 4.14287 825 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82068 4.54302 0.61958 0.77255 0.66334 0.72387\n- 717 2.92624 4.88588 3.09867 2.73117 4.26044 3.42019 3.73316 3.68670 1.11155 3.26364 4.22886 3.15757 3.92501 2.92830 2.42555 2.97221 3.18388 3.39775 5.33719 4.14287 826 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82068 4.54302 0.61958 0.77255 0.66334 0.72387\n- 718 2.93563 5.05304 0.99529 2.30618 4.42355 3.17291 3.88806 4.00030 2.96282 3.61836 4.59633 2.85951 3.82218 3.12787 3.47115 2.90458 3.27347 3.64536 5.60215 4.30632 827 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82068 4.54302 0.61958 0.77255 0.66334 0.72387\n- 719 2.60332 4.38271 3.26637 3.15980 4.30084 0.81371 4.28229 3.88874 3.33390 3.54919 4.52531 3.43093 3.77218 3.66234 3.57470 2.77394 3.08057 3.42715 5.40871 4.40134 828 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82068 4.54302 0.61958 0.77255 0.38886 1.13267\n- 720 3.08873 5.22356 2.56074 0.82898 4.58974 3.37613 3.97907 4.07387 2.87908 3.66787 4.63775 3.02791 3.98860 3.19317 3.30170 3.05728 3.39492 3.74312 5.73296 4.45822 829 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01822 4.01416 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_III__Type_III_REases.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_III__Type_III_REases.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5575 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Type_III_REases_FAM_0.einsi_trimmed\n-LENG 964\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 22 14:37:40 2017\n-NSEQ 9\n-EFFN 1.173340\n-CKSUM 269470986\n-GA 22 22;\n-STATS LOCAL MSV -12.5485 0.69568\n-STATS LOCAL VITERBI -13.9545 0.69568\n-STATS LOCAL FORWARD -6.7318 0.69568\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59328 4.65107 2.85220 2.55591 3.23795 3.04806 3.68907 2.81104 2.56017 2.46252 3.71454 2.98638 3.44573 2.99037 2.88829 2.69149 2.86263 2.68029 4.84639 3.44093\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28013 5.00247 0.61958 0.77255 0.00000 *\n- 1 2.72509 4.55401 3.42642 2.90958 3.76160 3.58527 3.87682 3.09808 2.23921 2.78189 1.66517 3.31958 4.01739 3.13878 2.96407 2.53314 2.97836 2.86070 5.15353 3.90823 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28013 5.00247 0.61958 0.77255 0.48576 0.95510\n- 2 2.74703 5.18091 2.89139 2.15298 4.52439 2.49838 3.65085 3.98108 1.91549 3.46810 4.23801 2.44748 3.87583 2.76237 2.36553 2.71287 2.97425 3.57420 5.59941 4.22765 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28013 5.00247 0.61958 0.77255 0.48576 0.95510\n- 3 3.40765 4.69454 5.17428 4.60800 2.06320 4.68562 4.90172 1.65700 4.46700 1.06706 2.99212 4.76192 4.86025 4.48722 4.50507 4.03715 3.62555 2.36652 5.12240 3.94496 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28013 5.00247 0.61958 0.77255 0.48576 0.95510\n- 4 2.67482 4.82924 3.06162 2.52499 4.05532 3.49134 2.95184 3.47382 2.46369 2.34839 3.90932 2.70966 3.88753 2.23008 2.89017 2.71810 2.49004 3.16282 5.32513 4.00273 4 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28013 5.00247 0.61958 0.77255 0.48576 0.95510\n- 5 3.42466 4.73152 4.82108 4.36707 1.30895 4.43079 3.93719 2.87048 4.20317 1.42286 3.45830 4.28836 4.71386 4.23079 4.24971 3.76781 3.64457 2.87917 4.12997 2.12666 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02078 4.28013 5.00247 0.61958 0.77255 0.48576 0.95510\n- 6 3.03633 5.44135 2.59869 1.06669 4.78506 3.47510 3.83575 4.23824 2.09430 3.73751 4.58029 2.96347 4.01116 2.98480 2.95406 2.96751 3.28800 3.85168 5.85834 4.48318 6 e - - -\n- 2.68596 4.42230 2.77524 2.73128 3.46359 2.40518 3.72499 3.29359 2.67700 2.69360 4.24695 2.90351 2.73744 3.18151 2.89806 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.31397 1.33659 5.00247 0.18498 1.77855 0.48576 0.95510\n- 7 2.76867 5.27324 2.26483 1.83760 4.58963 3.39811 2.87915 4.07620 2.50235 3.56'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01653 4.50689 5.22923 0.61958 0.77255 0.48576 0.95510\n- 872 2.86018 5.33464 2.76195 2.01699 4.66653 3.49492 3.78704 4.14566 2.57309 3.64071 4.41340 2.31854 3.96077 2.15483 3.06454 1.69203 3.10490 3.72618 5.78793 4.37332 1316 s - - -\n- 2.68622 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29358 2.67744 2.69303 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58481 3.61507\n- 0.32696 1.83618 2.12473 0.22442 1.60434 0.48576 0.95510\n- 873 3.18430 5.54208 0.91806 2.47261 5.11609 1.81851 4.16245 4.68721 3.25639 4.20116 5.07792 3.03995 4.12099 3.35624 3.85548 3.11599 3.53590 4.20477 6.27439 4.84579 1318 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01867 4.38573 5.10807 0.61958 0.77255 0.66517 0.72193\n- 874 2.87507 4.36697 4.17041 3.59453 3.45287 3.99343 4.29623 1.80158 2.34201 1.73260 3.37577 3.88852 4.34134 3.74484 3.68653 3.28293 3.10898 1.82782 5.07156 3.87826 1319 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01867 4.38573 5.10807 0.61958 0.77255 0.66517 0.72193\n- 875 3.28613 4.56142 5.17322 4.62326 3.51304 4.66725 5.10301 1.62332 4.50252 1.69354 2.48812 4.77327 4.90578 4.63803 4.59626 4.02670 3.52372 1.15223 5.46628 4.34113 1320 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01867 4.38573 5.10807 0.61958 0.77255 0.66517 0.72193\n- 876 2.31753 5.00785 2.97962 2.46895 4.38183 3.44725 3.71214 3.82804 1.96079 3.37255 4.15252 2.28182 3.87765 2.83645 2.92748 2.22644 2.47733 3.43694 5.55474 4.18972 1321 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01867 4.38573 5.10807 0.61958 0.77255 0.66517 0.72193\n- 877 2.94727 5.48786 1.44825 1.74602 4.80333 3.44213 3.81740 4.30194 2.66366 3.77955 4.57022 2.90118 3.96618 2.94955 2.33766 2.86781 3.20217 3.87028 5.91795 4.46850 1322 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01867 4.38573 5.10807 0.61958 0.77255 0.66517 0.72193\n- 878 2.77666 5.03879 2.07818 2.45421 2.47035 2.39173 3.78159 3.75499 2.63938 3.33993 4.15833 2.34177 3.93073 2.94124 3.12942 2.78086 3.02919 3.40826 5.53445 4.14942 1323 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01867 4.38573 5.10807 0.61958 0.77255 0.66517 0.72193\n- 879 2.68843 4.78628 3.14951 2.59091 3.99338 3.53354 3.73255 3.40364 2.22116 3.03097 3.01721 3.09225 3.92195 2.27392 2.95281 2.29486 2.91784 3.10764 5.29338 2.65253 1324 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01261 4.37966 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_II__Type_II_MTases.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_II__Type_II_MTases.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,53975 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Type_II_MTases_FAM_0\n-LENG 366\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 22 15:23:19 2017\n-NSEQ 83\n-EFFN 3.766510\n-CKSUM 3095870038\n-GA 20 20;\n-STATS LOCAL MSV -11.0542 0.69981\n-STATS LOCAL VITERBI -12.3494 0.69981\n-STATS LOCAL FORWARD -5.4352 0.69981\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58737 4.42311 2.94192 2.63296 3.24952 2.77912 3.70556 2.90060 2.61870 2.56479 3.83469 2.94550 3.07508 3.03687 2.88285 2.59444 2.83270 2.78563 4.77538 3.51111\n- 2.68648 4.42273 2.77545 2.73091 3.46402 2.40556 3.72536 3.29359 2.67763 2.69327 4.24488 2.90312 2.73728 3.18104 2.89763 2.37859 2.77538 2.98533 4.58525 3.61541\n- 1.45826 1.00361 0.91428 1.03311 0.43990 0.00000 *\n- 1 2.65566 5.08104 2.57438 2.16027 4.36574 3.36982 3.63525 3.44047 2.43979 3.14200 2.98195 2.97777 3.24666 2.81352 2.91378 2.17999 2.70030 3.25963 5.55167 3.97098 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01502 4.60186 5.32421 0.61958 0.77255 1.27373 0.32821\n- 2 2.58918 4.90813 2.97292 2.49327 4.13937 3.46722 3.77463 3.41015 2.44794 2.15168 3.85038 2.54259 3.78545 2.76957 2.96543 2.39240 2.96350 2.56778 5.41565 4.08627 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01490 4.60957 5.33192 0.61958 0.77255 1.26148 0.33301\n- 3 2.32485 4.88641 3.06653 2.24689 2.67994 3.48866 3.57890 3.37930 2.49989 2.72203 3.80383 2.79687 3.96674 2.94663 2.89147 2.33433 2.89857 3.21058 5.39872 3.63599 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01476 4.61910 5.34144 0.61958 0.77255 1.00571 0.45537\n- 4 2.74722 5.07533 3.06716 2.42032 4.00008 3.48032 3.69949 3.56864 2.32213 3.34790 3.01755 2.56099 2.67861 2.82710 2.90612 2.22443 2.80030 3.33667 5.55586 3.17211 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01339 4.71609 5.43843 0.61958 0.77255 0.90261 0.52005\n- 5 2.72843 4.98089 2.94393 1.93558 4.53234 3.50325 3.64594 3.00283 2.28921 3.51276 2.96788 2.37597 3.83051 2.81267 2.96990 2.39712 2.70596 3.59417 5.67725 4.07619 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01220 4.80818 5.53052 0.61958 0.77255 0.82461 0.57698\n- 6 2.60887 5.29482 2.84097 2.09297 3.93480 3.54756 3.56235 3.21896 1.87302 3.59220 3.15683 2.72172 3.90409 2.82241 2.85887 2.35122 2.81956 3.67550 5.73872 4.33919 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01131 4.88327 5.60562 0.61958 0.77255 0.64244 0.74656\n- 7 2.80830 5.34458 2.93208 2.44774 4.67614 3.64642 3.71804 4.15225 1.75369 3.64381 3.01578'..b'.68602 4.42235 2.77512 2.73133 3.46364 2.40522 3.72414 3.29340 2.67750 2.69352 4.24699 2.90340 2.73732 3.18156 2.89810 2.37896 2.77529 2.98507 4.58487 3.61513\n- 0.35772 1.75828 2.05271 1.28437 0.32410 0.48576 0.95510\n- 275 1.56690 4.05944 3.20288 2.95871 4.02906 2.85116 4.04533 3.30836 3.00506 3.11499 4.01034 3.15142 3.58657 3.33219 3.30172 1.91797 2.61273 2.86844 5.41986 4.17633 294 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03671 3.71881 4.44115 0.61958 0.77255 0.58539 0.81393\n- 276 2.34243 4.26974 3.06420 2.71126 3.79877 3.09601 3.81817 3.13121 2.71244 2.90382 3.79412 2.59448 3.70052 3.07628 3.06269 2.14154 2.71381 2.32392 5.19006 3.89618 295 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03671 3.71881 4.44115 0.61958 0.77255 0.58539 0.81393\n- 277 2.59205 4.80363 1.76496 2.20088 4.27382 3.07387 3.70981 3.75415 2.68218 3.38520 4.25289 2.72774 3.69872 2.90527 3.18168 2.15065 2.93332 3.35607 5.56047 4.15199 296 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03671 3.71881 4.44115 0.61958 0.77255 0.42815 1.05473\n- 278 1.89039 4.40645 3.10022 2.41201 3.79926 3.30498 3.83139 2.88988 2.71177 2.77208 3.70867 3.12507 3.82808 3.06983 3.08648 2.65988 2.81721 2.30266 5.21410 3.94425 297 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 279 2.57859 4.55690 2.87800 2.64609 4.02742 3.18087 3.85667 3.53368 2.66339 3.13096 4.07986 3.06662 1.59427 2.77850 2.99284 2.67968 2.94243 3.19270 5.34626 4.05201 298 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 280 1.71082 4.21022 3.35244 2.94437 3.77553 3.13927 3.95552 2.98649 2.88938 2.43112 3.74267 3.23542 3.75816 3.24175 3.21396 2.17520 2.73016 2.68283 5.21224 3.95609 299 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 281 2.53903 3.03131 2.80278 2.86436 3.47835 3.45015 3.84224 2.66570 2.83170 2.06427 3.46213 3.26117 3.89848 3.15395 3.18691 2.75366 2.81130 2.45202 4.96321 3.69564 300 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03231 3.84437 4.56671 0.61958 0.77255 0.48576 0.95510\n- 282 1.05504 4.17870 3.43461 3.22505 4.02491 3.00390 4.25034 3.14626 3.24059 3.02912 4.06437 3.38159 3.74050 3.58443 3.49282 2.52940 2.80483 2.80555 5.45489 4.25210 301 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02186 3.83392 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_II__Type_II_REases.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_II__Type_II_REases.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,40519 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Type_II_REase01\n-LENG 262\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Jun 25 20:31:13 2021\n-NSEQ 118\n-EFFN 39.565002\n-CKSUM 2837528398\n-GA 20 20;\n-STATS LOCAL MSV -10.4951 0.70246\n-STATS LOCAL VITERBI -12.8467 0.70246\n-STATS LOCAL FORWARD -4.1764 0.70246\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54684 4.62684 2.78664 2.61439 3.42742 2.61852 3.78850 3.00786 2.74831 2.49148 3.94860 3.01879 3.04073 3.16071 2.76239 2.54300 2.82247 2.84752 4.83809 3.59959\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.76446 4.48680 0.61958 0.77255 0.00000 *\n- 1 2.88861 4.45613 3.93462 3.52300 3.16802 3.75300 4.28336 2.33317 3.29572 1.78221 1.60258 3.81289 4.21584 3.68659 3.51313 3.22497 3.19329 2.32585 4.99251 3.74280 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.76446 4.48680 0.61958 0.77255 0.48576 0.95510\n- 2 2.86567 4.94430 2.45376 1.19035 4.27807 3.20875 3.79118 3.71051 2.65844 3.34697 4.32974 2.88266 3.80938 3.01172 3.05293 2.86173 3.17044 3.40707 5.47054 4.19699 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.76446 4.48680 0.61958 0.77255 0.48576 0.95510\n- 3 2.94688 4.40061 4.17420 3.78900 3.30516 3.94296 4.53956 1.22333 3.61464 1.91807 3.26211 4.04956 4.38800 3.97642 3.82375 3.43093 3.24952 1.85471 5.17077 3.89703 3 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.76446 4.48680 0.61958 0.77255 0.48576 0.9551\n- 4 2.54082 4.32275 3.19195 3.07978 4.21613 0.91731 4.20335 3.79243 3.24580 3.45964 4.43742 3.35720 3.71041 3.57925 3.49046 2.71031 3.01383 3.34209 5.33655 4.31561 4 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.76446 4.48680 0.61958 0.77255 0.48576 0.95510\n- 5 3.03693 4.53335 4.01364 3.65689 3.10064 3.84086 4.34659 2.30370 3.42552 1.02126 3.16445 3.94229 4.29749 3.81999 3.61775 3.40454 3.33766 2.31219 4.93688 3.63409 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.76446 4.48680 0.61958 0.77255 0.48576 0.95510\n- 6 2.87895 4.97989 1.08665 2.28063 4.34395 3.13360 3.84513 3.90875 2.91038 3.53830 4.51767 2.82992 3.77929 3.08687 3.40870 2.85630 3.21660 3.56082 5.53341 4.23948 6 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03504 3.76446 4.48680 0.61958 0.77255 0.48576 0.95510\n- 7 1.18192 4.14451 3.35740 3.14780 3.94867 2.97102 4.18198 3.05866 3.16128 2.94460 3.99178 3.32333 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18564 5.90799 0.61958 0.77255 1.03233 0.44033\n- 813 2.64439 5.52900 1.83788 1.36908 4.86449 3.72654 3.95954 4.35236 2.23781 3.83029 4.57686 3.19179 4.15140 3.06398 3.22532 2.61692 3.25057 3.91544 5.96339 3.45784 2079 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17770 5.10335 1.85321 0.61958 0.77255 1.03233 0.44033\n- 814 2.40000 4.72002 2.13462 2.50877 3.12062 3.75054 3.98250 2.78632 2.90404 2.94470 3.81374 3.39188 4.13474 3.22947 3.31230 2.55031 3.06514 2.07732 5.27831 3.15662 2080 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01146 4.87055 5.59289 0.61958 0.77255 0.97241 0.47509\n- 815 2.40733 5.20826 2.38384 2.25633 3.07712 2.86016 3.09055 3.96227 2.55604 3.49366 4.26146 3.09406 3.99933 2.91367 2.41434 2.80093 3.04609 3.57400 5.66892 2.65283 2081 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01185 4.83753 5.55988 0.61958 0.77255 1.17306 0.37022\n- 816 2.84533 5.25458 1.81876 2.16838 3.26359 3.61136 3.82040 4.01507 2.58563 3.54055 4.30865 3.09509 3.07183 2.46879 3.07384 2.82528 3.07842 3.62206 5.70626 2.53661 2082 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01185 4.83753 5.55988 0.61958 0.77255 1.17306 0.37022\n- 817 2.80540 4.98758 1.81594 2.19202 4.23164 3.61843 3.84534 2.57662 2.65828 3.23866 4.06744 3.15268 4.02128 2.99972 3.12382 2.84401 2.43154 2.61465 5.51150 4.17558 2083 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01344 4.71208 5.43443 0.61958 0.77255 1.17306 0.37022\n- 818 2.70676 4.40229 3.58285 2.40947 2.05116 3.67909 3.95677 2.84245 3.01310 2.57892 3.50405 3.44357 3.05961 3.31277 3.35283 2.94560 2.94531 2.03474 4.97920 3.72875 2084 v - - -\n- 2.68548 4.42292 2.77587 2.73082 3.46217 2.40549 3.72562 3.29318 2.67808 2.69422 4.24490 2.90414 2.73748 3.18122 2.89556 2.37954 2.77535 2.98467 4.58544 3.61570\n- 0.85700 0.56253 5.14999 1.57304 0.23245 0.39512 1.11963\n- 819 3.47289 5.59934 2.81571 0.49710 5.02299 3.66397 4.33001 4.58345 3.28227 4.13160 5.11478 3.33267 4.29995 3.55451 3.72141 3.42127 3.79037 4.22722 6.09727 4.86067 2093 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01932 4.35191 5.07426 0.61958 0.77255 0.72022 0.66679\n- 820 2.75000 5.14424 2.08378 1.86870 4.43988 3.43870 3.71516 2.96099 2.52150 3.43370 4.21978 2.92693 3.88653 2.84263 3.01952 2.08362 2.99228 3.50521 5.61950 4.22458 2094 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01305 4.34563 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_IV__Type_IV_REases.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM_Type_IV__Type_IV_REases.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,10522 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Type_IV_01\n-LENG 421\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Nov 30 10:24:30 2021\n-NSEQ 111\n-EFFN 23.546173\n-CKSUM 2594863075\n-GA 100 100;\n-STATS LOCAL MSV -11.1777 0.69894\n-STATS LOCAL VITERBI -13.8611 0.69894\n-STATS LOCAL FORWARD -4.8128 0.69894\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48866 4.60546 2.82775 2.66426 3.47227 2.71665 3.67722 3.09544 2.82377 2.39392 3.95768 3.13490 3.01159 3.11479 2.66522 2.58655 2.84186 2.76462 4.56831 3.60922\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00772 5.26355 5.98589 0.61958 0.77255 0.00000 *\n- 1 4.11990 5.51528 5.96371 5.56609 4.03664 5.19451 5.99949 2.99910 5.29898 2.37569 0.39737 5.60352 5.59595 5.43613 5.33343 4.68823 4.44917 2.50013 6.19105 5.08495 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24464 5.26355 1.55194 0.61958 0.77255 0.48576 0.95510\n- 2 2.44015 5.08556 3.32858 2.77029 3.28742 3.74873 3.02401 3.72887 2.38400 2.65892 3.42711 3.28661 2.95504 2.68721 2.48953 2.05218 3.14256 3.41320 3.86944 4.26439 2 s - - -\n- 2.68673 4.41541 2.77610 2.73191 3.46410 2.40586 3.72527 3.29428 2.67836 2.69375 4.24639 2.90401 2.73659 3.18202 2.89703 2.37762 2.77437 2.98536 4.58483 3.61363\n- 1.25220 0.68803 1.55325 2.06079 0.13623 0.62506 0.76621\n- 3 2.18016 4.85421 4.40294 2.64996 3.97160 3.25734 3.56981 2.54719 3.75414 2.54487 2.34506 4.15477 3.02824 4.02274 4.03615 2.53936 2.32574 2.14837 5.45288 3.28347 34 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07173 5.66107 2.72211 0.61958 0.77255 1.21126 0.35357\n- 4 2.33928 5.53460 3.48567 2.92896 4.82283 3.13787 4.16552 4.27048 2.64931 2.54147 4.59073 2.93722 4.36332 2.47460 1.65403 2.55553 2.86530 2.76219 6.00287 3.39346 35 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00554 5.59488 6.31723 0.61958 0.77255 1.36769 0.29396\n- 5 3.09069 6.53035 5.47815 4.33966 6.31345 5.04622 4.72081 5.47784 1.64824 4.74278 5.66131 4.57378 5.34676 3.84570 0.44146 4.56299 4.65429 5.18439 6.63718 5.64727 36 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03195 5.59488 3.58528 0.61958 0.77255 1.13857 0.38607\n- 6 1.80008 5.07074 3.88564 2.91805 3.28796 4.12889 4.36269 3.60645 3.29511 2.09704 3.23193 3.11792 2.77640 3.61842 2.54340 2.58091 2.25707 3.35862 3.84266 4.36935 37 a - - -\n- 2.67509 4.40669 2.77982 2.73982 3.46925 2.40464 3.71820 3.30208 2.68762 2.69047 4.26256 2.91737 2.72727 3.18603 2.86551 2.37935 2.78038 2.99150 4.57408 3.61728\n- 2.24801 0.32216 1.77308 3.48410 0.03116 0.80201 0.59498\n- 7 3.09207 3.73956 5.60878 4.99599 4.15565 4.84780 5.17938 2.16139 4.02317 1.60924 1.24710 4.99786 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 345 2.83788 5.04064 3.24651 2.64669 4.35162 3.60779 3.71702 3.75030 1.84864 2.55746 4.12161 3.13258 3.98854 2.85529 1.89033 2.15339 3.05115 3.41972 5.47303 4.18695 479 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 346 2.77257 5.20720 2.24703 2.37862 4.57229 2.60469 3.74091 4.04680 2.00430 3.55556 4.32907 2.92836 3.89743 2.86323 3.03521 1.82735 3.02630 3.62712 5.71292 4.30477 480 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 347 2.88007 4.42464 3.99749 3.47994 3.49173 3.93709 4.26322 1.39571 3.36284 2.00713 3.46572 2.41431 4.31881 3.68353 3.63228 3.24504 3.12666 2.24035 5.10358 3.85804 481 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 348 3.24429 4.54938 5.08665 4.51423 1.75457 4.52848 4.84473 1.68557 4.36866 1.51159 3.14032 4.63292 4.77084 4.45022 4.42124 3.87017 3.47229 1.81780 5.17532 4.01828 482 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 349 2.71651 5.08931 2.39451 1.76364 2.81437 3.45910 3.68741 3.82648 2.46359 3.36736 4.15108 2.94878 3.87768 2.81249 2.43414 2.70069 2.95149 3.44952 5.54564 4.16061 483 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 350 2.78281 5.18539 2.72893 2.00832 4.55651 3.42492 3.76426 4.02596 2.57647 3.54805 4.33091 2.19855 2.83959 2.89333 3.07268 1.78059 3.04252 3.61420 5.71628 4.31326 484 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 351 2.76288 5.03887 2.87279 1.95776 4.26128 2.66523 3.73497 3.73393 2.52825 3.30681 4.11878 2.99269 3.91914 2.40233 2.98741 2.76452 3.00034 3.38986 5.49859 2.23473 485 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01897 4.37004 5.09239 0.61958 0.77255 0.48576 0.95510\n- 352 2.72576 4.43601 3.60504 3.03643 3.55369 3.69760 3.94232 2.16525 2.23458 1.86230 3.49965 3.43575 2.97238 3.26345 3.21904 2.95676 2.95730 2.62000 5.02507 3.79737 486 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01281 4.36388 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM__Type_I_MTases.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM__Type_I_MTases.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,6572 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Type_I_MTases_FAM_0\n-LENG 512\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 22 17:00:32 2017\n-NSEQ 149\n-EFFN 2.078033\n-CKSUM 707589292\n-GA 150 150;\n-STATS LOCAL MSV -11.8772 0.69791\n-STATS LOCAL VITERBI -12.7381 0.69791\n-STATS LOCAL FORWARD -5.8708 0.69791\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54346 4.55763 2.86275 2.58128 3.24794 2.89355 3.72389 2.87331 2.60580 2.46763 3.64932 2.94594 3.36674 3.02951 2.97798 2.64486 2.85897 2.77575 4.71155 3.42097\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06967 4.65198 2.85161 0.61958 0.77255 0.00000 *\n- 1 3.74734 5.20362 4.95875 4.66962 3.79149 4.46802 5.23832 3.05799 4.39618 2.32085 0.45760 4.84096 4.97899 4.74841 4.50270 4.14230 4.09264 3.14096 5.68342 4.49734 1 M - - -\n- 2.68541 4.42283 2.77605 2.73176 3.46439 2.40620 3.72287 3.29337 2.67778 2.69338 4.24760 2.90369 2.73759 3.18024 2.89811 2.37827 2.77402 2.98527 4.58494 3.61532\n- 0.89435 1.28198 1.15951 2.86238 0.05883 0.58629 0.81280\n- 2 2.54047 4.94050 2.95751 2.34419 4.21469 3.15424 3.30045 3.57797 2.23364 2.98020 3.54753 2.85746 3.47372 2.41927 2.78076 2.48556 2.58246 3.29253 5.41761 4.05562 83 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02190 4.22815 4.95050 0.61958 0.77255 0.71504 0.67173\n- 3 2.47992 4.95370 2.96059 2.33320 3.75451 3.41346 3.67033 3.30252 2.29250 3.12696 3.55073 2.49620 3.73382 2.49542 2.88673 2.37801 2.64124 3.25785 5.43717 4.08018 84 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01882 4.37783 5.10018 0.61958 0.77255 0.61173 0.78179\n- 4 2.25615 5.13141 2.75401 2.31718 4.44648 3.48138 3.67172 3.65439 2.13183 2.91958 4.03481 2.85071 3.24192 2.52523 2.68111 2.52570 2.67785 3.50584 5.58239 4.19056 85 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01675 4.49381 5.21616 0.61958 0.77255 0.40321 1.10314\n- 5 2.42947 4.69565 3.23184 2.45220 3.87490 3.63429 3.85827 2.13399 2.64552 2.66970 3.19543 3.11586 4.01979 2.43437 3.16886 2.65204 2.81784 2.76762 5.24259 3.96155 86 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01460 4.62979 5.35213 0.61958 0.77255 0.51080 0.91633\n- 6 2.60522 5.20827 2.79093 2.40523 4.01495 3.44610 3.71018 3.92869 2.11561 3.44731 4.21119 2.41011 3.91429 2.14594 2.87824 2.55601 2.31150 3.49571 5.65163 4.25176 87 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01452 4.63543 5.35777 0.61958 0.77255 0.50175 0.93006\n- 7 2.69751 4.91390 3.14750 2.58163 4.14388 3.58569 3.78902 2.79402 2.08234 2.27490 3.72750'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 655 2.40916 5.18791 2.40157 2.02907 4.50643 2.38913 3.64935 3.98463 2.36086 3.48187 4.24448 2.68193 3.83224 2.55246 2.83114 2.66411 2.94628 3.56593 5.63198 4.21788 1016 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 656 2.62529 4.33692 3.51169 2.76068 3.23010 3.60473 3.85386 2.81753 2.65460 1.80545 2.80164 3.34486 3.98274 2.93897 3.21066 2.85360 2.70487 2.60092 4.91653 3.68582 1017 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 657 2.92981 4.34144 4.47268 3.39471 2.80522 4.09372 4.39616 1.87178 3.76187 1.24553 2.83343 4.09724 4.40172 3.93839 3.91106 3.39804 3.15754 2.28955 4.93844 3.78964 1018 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 658 2.31455 5.04049 2.92998 2.27385 4.34826 2.97548 3.34568 3.80063 2.02176 3.17050 4.09443 2.91546 3.82227 2.53555 2.61029 2.43866 2.87671 3.41163 5.49168 4.11686 1019 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 659 2.73193 5.20412 2.58323 1.60164 4.52101 3.24480 3.66492 3.99649 2.30900 3.49659 4.26611 2.86432 3.84498 2.42050 2.94610 2.43628 2.78586 3.58222 5.64907 4.23686 1020 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 660 3.25541 4.52111 5.09465 4.57286 3.59867 4.68743 5.19749 1.50515 4.46878 1.71697 3.38654 4.76904 4.93089 4.67086 4.62229 4.06561 3.50358 1.05722 5.59964 4.43502 1021 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 661 2.35905 4.37787 3.42099 2.85450 3.28368 3.57200 3.30393 2.88659 2.65223 2.10490 3.25203 3.27868 3.95275 3.12303 2.90444 2.73703 2.51476 2.51725 4.95322 3.71060 1022 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02183 4.23112 4.95346 0.61958 0.77255 0.48576 0.95510\n- 662 2.24917 5.07984 2.86558 2.11036 4.39597 3.23175 3.62481 3.85500 2.02349 3.37117 4.13879 2.69775 3.82570 2.68690 2.73414 2.30901 2.89709 3.45704 5.53248 4.14798 1023 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01475 4.22403 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM__Type_I_REases.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM__Type_I_REases.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,8706 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Type_I_REases_FAM_0.einsi_trimmed\n-LENG 1006\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 22 18:33:50 2017\n-NSEQ 16\n-EFFN 2.394531\n-CKSUM 3966179657\n-GA 34 34;\n-STATS LOCAL MSV -12.7034 0.69557\n-STATS LOCAL VITERBI -13.8616 0.69557\n-STATS LOCAL FORWARD -6.5625 0.69557\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56687 4.59769 2.84689 2.53442 3.31140 3.04966 3.70479 2.83377 2.52458 2.46930 3.67591 3.00211 3.58609 2.90373 2.90733 2.69297 2.80519 2.74335 4.76449 3.48563\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01287 4.75512 5.47746 0.61958 0.77255 0.00000 *\n- 1 3.97852 5.41633 5.19394 4.94380 3.99908 4.63802 5.47929 3.29331 4.66994 2.52491 0.34642 5.09121 5.16785 5.01593 4.75198 4.37486 4.33748 3.39142 5.88392 4.71270 1 M - - -\n- 2.68648 4.42315 2.77545 2.73090 3.46358 2.40573 3.72169 3.29228 2.67724 2.69351 4.24779 2.90311 2.73731 3.18140 2.89890 2.37910 2.77480 2.98555 4.58567 3.61493\n- 0.91533 1.04052 1.40103 1.98888 0.14716 0.48576 0.95510\n- 2 2.36625 4.59152 3.33338 2.36638 3.76240 3.60204 3.83323 2.67643 2.74232 2.34857 3.68575 3.23797 3.98728 3.07345 2.77517 2.14338 2.92266 2.56774 5.14989 3.88057 29 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07956 4.47783 2.73149 0.61958 0.77255 0.51687 0.90729\n- 3 2.72857 4.75376 3.25470 2.69792 3.18244 3.06469 3.82350 3.34642 2.16814 2.99827 3.84460 3.18969 3.99072 3.02066 3.11397 2.06225 2.25229 3.06609 5.29107 2.94829 30 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01518 4.59089 5.31324 0.61958 0.77255 0.77417 0.61820\n- 4 2.73124 4.93179 3.13009 2.57240 3.03296 3.56077 2.88899 2.98286 2.24235 3.18980 4.00260 2.70463 3.95057 2.24587 3.01536 2.76515 2.34471 3.26435 5.43188 4.09740 31 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01518 4.59089 5.31324 0.61958 0.77255 0.57280 0.82998\n- 5 2.43953 5.19823 3.01006 2.01399 4.53390 3.53904 3.75761 3.99832 2.50886 3.51206 4.27298 2.63865 3.94887 2.86832 2.67243 1.67812 2.66307 3.59049 5.67147 4.28114 32 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01414 4.66160 5.38395 0.61958 0.77255 0.66563 0.72144\n- 6 3.37278 5.82191 2.73569 0.67782 5.18291 3.70115 4.13242 4.66633 2.35713 4.13891 5.00030 3.18743 4.28045 3.29056 3.30555 3.27784 3.63766 4.26143 6.23109 4.83771 33 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01414 4.66160 5.38395 0.61958 0.77255 0.66563 0.72144\n- 7 2.12501 4.96431 3.14300 2.58588 3.27170 3.57890 3.78221 3.62570 2.57794 3.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18434 4.14143 1.88092 0.61958 0.77255 0.67375 0.71293\n- 869 2.77936 4.75357 2.95047 1.77682 3.81647 3.49353 3.81180 3.06954 2.62157 1.94369 3.77034 3.10752 3.95659 3.02897 2.99519 2.86984 3.03082 2.87773 5.26290 3.94799 1442 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98509 4.70744 0.61958 0.77255 0.80767 0.59040\n- 870 3.18161 4.51325 4.73163 4.22422 3.29188 4.45633 4.86285 1.19166 4.05050 1.51556 3.13654 4.47634 4.72366 4.30193 4.22600 3.83840 3.43128 1.83537 5.30109 4.10558 1443 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98509 4.70744 0.61958 0.77255 0.80767 0.59040\n- 871 2.72066 4.54630 3.27500 2.07367 2.49592 3.58445 3.66479 3.05024 2.78221 2.67154 3.62701 3.22217 3.97963 3.10111 3.15956 2.85532 2.95446 2.82990 4.56722 2.36238 1444 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98509 4.70744 0.61958 0.77255 0.80767 0.59040\n- 872 2.58352 4.44669 3.27623 2.78638 3.71402 3.43979 3.82781 2.89633 2.67658 2.68698 3.63361 3.20708 3.90214 2.38234 3.02824 2.74828 2.40093 2.01003 5.13727 3.87840 1445 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02801 3.98509 4.70744 0.61958 0.77255 0.80767 0.59040\n- 873 3.13574 4.44957 4.79112 4.25405 3.35247 4.47135 4.90113 1.40955 4.13666 1.48724 3.15424 4.49676 4.72200 4.34046 4.31110 3.82931 3.37915 1.52545 5.34696 4.19987 1446 i - - -\n- 2.68628 4.42235 2.77530 2.73133 3.46364 2.40523 3.72504 3.29364 2.67708 2.69365 4.24700 2.90357 2.73638 3.18156 2.89811 2.37897 2.77530 2.98528 4.58487 3.61513\n- 0.63317 1.02882 2.19227 0.67639 0.71019 0.51787 0.90582\n- 874 2.96167 4.53413 3.89001 3.36703 1.81970 3.87940 3.65762 3.02263 3.19954 2.59344 3.62508 3.61101 4.23992 3.49668 2.41390 3.16766 3.18960 2.84531 4.12446 1.80531 1449 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02543 4.08015 4.80250 0.61958 0.77255 0.73093 0.65674\n- 875 2.65561 4.29482 3.84898 3.42058 3.55324 3.58841 4.24609 1.38021 3.31587 2.46533 3.54271 3.67191 4.11930 3.65035 3.57463 2.22277 2.98583 2.21498 5.15284 3.89535 1450 i - - -\n- 2.68639 4.42246 2.77445 2.73098 3.46375 2.40534 3.72515 3.29295 2.67719 2.69331 4.24711 2.90367 2.73760 3.18167 2.89821 2.37908 2.77540 2.98539 4.58201 3.61524\n- 0.49131 0.96766 4.80250 1.15274 0.37946 0.35827 1.20027\n- 876 0.89680 4.29212 3.78358 3.52459 4.53623 3.08710 4.53341 3.91006 3.56538 3.65002 4.48425 3.56864 3.86865 3.83486 3.83578 1.72717 2.87884 3.33741 5.89876 4.70790 1455 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01374 4.29445 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM__Type_I_S.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RM__Type_I_S.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,11108 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Type_I_S_01\n-LENG 716\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Nov 29 13:45:58 2021\n-NSEQ 20\n-EFFN 4.047852\n-CKSUM 503283870\n-GA 75 75;\n-STATS LOCAL MSV -12.3916 0.69656\n-STATS LOCAL VITERBI -13.7599 0.69656\n-STATS LOCAL FORWARD -6.4713 0.69656\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.71856 4.43621 2.95376 2.58820 3.31507 2.97552 3.82482 2.71255 2.49620 2.39431 3.80856 2.91405 3.32618 2.97237 3.01632 2.65893 2.86548 2.78151 4.75024 3.33504\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19386 4.98316 1.77566 0.61958 0.77255 0.00000 *\n- 1 4.05029 5.48248 5.26480 5.02657 4.06564 4.68998 5.55289 3.36872 4.75388 2.59127 0.31829 5.16733 5.22552 5.09784 4.82861 4.44642 4.41344 3.47108 5.94658 4.78039 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08182 4.80159 2.65427 0.61958 0.77255 0.86447 0.54693\n- 2 2.45796 5.25029 2.37835 2.48307 4.58004 3.55495 3.10797 4.05493 1.84632 2.94684 4.29548 3.02860 3.94912 2.48666 2.97368 2.46112 2.55964 3.63277 5.69198 4.29095 2 k - - -\n- 2.68421 4.42777 2.77766 2.72807 3.46193 2.40814 3.72691 3.28857 2.67547 2.68972 4.24383 2.90348 2.74015 3.18010 2.89954 2.38195 2.77653 2.98628 4.58466 3.60924\n- 1.38100 0.63113 1.52931 3.42596 0.03306 0.27236 1.43371\n- 3 2.94656 4.48926 4.18466 3.60341 3.57199 4.01140 4.29197 2.24408 2.87319 2.29707 1.55989 3.89759 4.37789 2.27044 3.73394 3.28554 3.17749 2.35307 5.09362 3.89622 97 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01038 4.96928 5.69163 0.61958 0.77255 0.86322 0.54784\n- 4 2.92057 5.40551 3.08058 2.34299 4.74966 2.56240 3.87939 4.22981 2.11795 3.71620 4.46448 1.83051 4.07438 2.98364 3.11943 1.89974 2.75168 3.79953 5.85401 4.44620 98 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01038 4.96928 5.69163 0.61958 0.77255 0.86322 0.54784\n- 5 2.87600 5.37003 2.75373 2.27948 3.53209 3.64613 3.83541 4.18983 1.38489 3.67166 4.41308 2.41526 4.04174 2.93462 2.69010 2.84059 2.68808 3.75768 5.80489 4.39907 99 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01038 4.96928 5.69163 0.61958 0.77255 0.86322 0.54784\n- 6 3.75153 5.02003 5.67352 5.12888 3.77033 5.11233 5.55465 1.19142 4.97660 0.91402 3.55546 5.26377 5.32522 5.06108 5.02592 4.49006 2.94275 2.42119 5.81548 4.73661 100 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01038 4.96928 5.69163 0.61958 0.77255 0.86322 0.54784\n- 7 2.86367 5.36019 2.29291 1.91087 3.48648 3.63917 3.82717 4.18109 2.30383 3.12041 4.40246 2.65986 3.2454'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03565 3.74759 4.46994 0.61958 0.77255 0.69213 0.69417\n- 577 2.66134 4.33287 3.67243 3.24334 3.36225 3.55483 4.12216 2.33915 3.05585 1.58517 3.32242 3.55223 4.05789 3.46412 3.32083 2.95093 2.45169 2.22326 5.06854 3.80371 4039 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03565 3.74759 4.46994 0.61958 0.77255 0.69213 0.69417\n- 578 2.76179 4.93882 2.85688 2.43745 4.16410 3.40388 2.80525 3.65375 1.88587 3.18463 4.03805 2.92414 3.83415 2.31822 2.38670 2.76368 2.97604 3.33369 5.29700 3.99011 4040 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03565 3.74759 4.46994 0.61958 0.77255 0.69213 0.69417\n- 579 1.77640 4.25522 3.50281 3.11756 3.54651 3.31284 4.06871 2.51925 3.00131 2.04176 3.53213 3.40196 3.90046 3.38938 3.28748 2.73100 2.85787 2.33421 5.15262 3.87618 4041 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03565 3.74759 4.46994 0.61958 0.77255 0.69213 0.69417\n- 580 2.64032 4.74773 2.55693 1.95961 4.16366 3.18606 3.71085 3.57091 2.54183 3.20128 4.09441 2.86058 2.20995 2.90810 2.94307 2.67549 2.94771 3.23376 5.41222 4.10218 4042 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03565 3.74759 4.46994 0.61958 0.77255 0.69213 0.69417\n- 581 1.50027 4.06549 3.23322 2.98527 4.04759 2.85987 4.06595 3.32822 3.03020 3.13333 4.02533 3.17042 3.59715 3.35367 3.32609 1.93772 2.62102 2.88388 5.43745 4.19754 4043 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03565 3.74759 4.46994 0.61958 0.77255 0.69213 0.69417\n- 582 2.50852 4.54915 2.91596 2.52219 4.00812 3.23027 3.67902 3.36117 2.12867 3.01757 3.88203 2.97027 2.87523 2.86946 2.75767 2.59455 2.37353 3.03058 5.27984 3.99839 4044 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03565 3.74759 4.46994 0.61958 0.77255 0.69213 0.69417\n- 583 2.62737 4.40659 3.08341 2.75266 3.66551 3.11647 3.67727 3.21986 2.30314 2.80746 3.87422 3.11638 3.68341 2.96787 1.77012 2.75614 2.95253 2.97249 4.92447 3.71408 4045 r - - -\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40518 3.72500 3.29359 2.67731 2.69360 4.24695 2.90313 2.73745 3.18151 2.89768 2.37892 2.77525 2.98523 4.58482 3.61508\n- 0.16914 1.95723 4.24341 1.13992 0.38543 0.37546 1.16146\n- 584 2.34126 4.29469 3.94791 3.44764 3.39262 3.74027 4.28115 2.11666 3.32236 1.67092 3.27932 3.74151 4.18822 3.64672 3.59360 3.09320 3.01402 1.75499 5.13313 3.91762 4051 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 3.81547 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_III__PRTase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_III__PRTase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,872 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_III__PRTase\n-LENG 283\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:25 2021\n-NSEQ 187\n-EFFN 3.866348\n-CKSUM 4081995840\n-GA 20 20;\n-STATS LOCAL MSV -10.9812 0.70177\n-STATS LOCAL VITERBI -11.9427 0.70177\n-STATS LOCAL FORWARD -5.2292 0.70177\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66181 4.41666 2.91148 2.55952 3.15984 3.03855 3.82020 2.73245 2.51455 2.46713 3.67469 2.92559 3.50008 3.07939 2.97796 2.57348 2.84577 2.83633 4.40446 3.44114\n- 2.68608 4.42246 2.77565 2.73152 3.46369 2.40579 3.72556 3.29235 2.67688 2.69331 4.23566 2.90362 2.73818 3.18194 2.89774 2.37909 2.77597 2.98495 4.58505 3.61539\n- 1.34898 0.90113 1.09545 1.86056 0.16911 0.00000 *\n- 1 2.28878 5.05012 3.12307 2.46597 4.20032 3.23022 3.34837 3.51277 2.18110 3.09855 2.84323 2.78380 3.57668 2.80930 2.98090 2.39421 2.68504 3.03548 5.53622 4.18209 43 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09596 4.71759 2.49418 0.61958 0.77255 1.19071 0.36241\n- 2 2.56260 5.17959 2.97115 2.30794 4.28931 3.24830 3.71591 3.49448 1.78672 3.37371 4.08681 2.83833 3.50111 2.54639 2.87650 2.33419 2.73929 3.33081 5.62987 4.10442 44 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01451 4.63614 5.35849 0.61958 0.77255 0.98551 0.46721\n- 3 2.59506 5.24973 3.03726 2.23094 4.58036 3.30519 3.58305 4.05603 1.91111 3.54869 3.25956 2.75437 3.46500 2.71917 2.67301 2.22987 2.63144 3.47125 5.69102 4.28929 45 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01314 4.73434 5.45669 0.61958 0.77255 0.78066 0.61268\n- 4 2.56159 5.26210 2.69367 2.33251 4.57895 3.47747 3.70161 3.36859 2.02723 3.41705 3.14286 2.68079 3.43960 2.71895 2.98568 2.47229 2.68687 2.86390 5.71205 4.19072 46 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01155 4.86242 5.58476 0.61958 0.77255 0.47088 0.97936\n- 5 2.80994 4.37256 3.73687 3.27184 2.93531 4.03306 4.34169 1.91727 3.25372 1.67172 2.20758 3.68593 4.40146 3.94556 3.89223 3.17887 2.93875 2.36075 4.98618 3.68048 47 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00978 5.02769 5.75004 0.61958 0.77255 0.70956 0.67699\n- 6 2.67191 5.39116 2.56986 2.49244 4.73286 3.56637 3.85051 3.83625 2.29147 3.69500 4.43280 2.31119 3.50927 2.82325 2.81988 1.83351 2.26784 3.78001 5.82584 4.41682 48 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00978 5.02769 5.75004 0.61958 0.77255 0.67250 0.71423\n- 7 2.50971 4.95019 3.02834 2.46625 3.36265 3.68226 3.98396 2.70794 2.29401 2.62255 3.65094 3.34433 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00930 5.07805 5.80040 0.61958 0.77255 0.57215 0.83083\n- 276 2.87012 5.40572 2.66049 2.46421 4.74506 3.45687 3.53935 3.25695 1.94070 3.25390 4.44789 2.58982 2.59605 2.64002 2.83354 2.53867 2.78163 3.36739 5.84185 3.72639 432 k - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77515 2.98518 4.58477 3.61503\n- 0.01606 4.35003 5.80040 0.54230 0.87087 0.44464 1.02458\n- 277 1.37438 4.94306 3.59843 3.05291 4.29766 3.18645 4.04285 3.59518 2.96694 3.34672 4.18783 3.50667 3.03203 3.37079 3.46435 2.64343 1.68399 3.06992 5.63652 4.34961 434 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00905 5.10513 5.82747 0.61958 0.77255 0.49230 0.94474\n- 278 3.15420 4.69848 5.11059 4.51807 3.61095 4.52456 4.86149 2.02599 4.35548 1.37075 2.75508 4.62284 1.45126 4.49164 4.42814 3.84145 3.55936 2.44871 5.33543 4.19495 435 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00905 5.10513 5.82747 0.61958 0.77255 0.49230 0.94474\n- 279 4.16492 5.39920 5.95381 5.42130 0.71099 5.39046 5.24087 3.02915 5.25209 1.35366 3.14186 5.43601 5.51038 5.13320 5.18983 4.75698 4.36858 3.08376 5.33386 3.68549 436 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01558 5.10513 4.66823 0.61958 0.77255 0.49230 0.94474\n- 280 2.88149 5.24723 3.25224 2.59885 4.18529 3.45660 3.36475 3.38322 2.50923 3.30351 4.12778 2.80318 1.80516 2.95563 2.65481 2.52596 2.51603 3.18159 5.72367 3.76354 437 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00911 5.09866 5.82101 0.61958 0.77255 0.51215 0.91430\n- 281 4.94820 6.41179 5.55260 4.98529 6.12468 4.99843 5.45650 5.91574 3.70911 5.20169 6.26349 5.21936 5.53279 4.71740 0.11092 5.05020 5.19439 5.59734 6.76864 5.94939 438 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17194 5.09866 1.88478 0.61958 0.77255 0.51215 0.91430\n- 282 2.03964 4.95928 3.08465 2.54017 3.52531 3.18636 3.91939 3.30087 2.58017 2.75041 3.70471 3.11788 3.76620 2.98297 2.55102 2.58869 2.70936 2.85716 4.50418 3.21038 439 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.33474 4.93269 1.28277 0.61958 0.77255 0.85235 0.55584\n- 283 2.68094 5.15045 2.84856 2.04942 4.45962 3.20674 3.56940 3.74057 2.29539 3.44013 2.60841 2.83652 3.91134 2.68173 2.36021 2.65113 2.96169 3.27857 5.60507 3.75446 440 e - - -\n- 2.68586 4.42276 2.77472 2.73120 3.46306 2.40489 3.72518 3.29328 2.67703 2.69377 4.24675 2.90337 2.73791 3.18184 2.89825 2.37932 2.77534 2.98506 4.58528 3.61475\n- 0.74698 0.64207 * 1.23270 0.34461 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_III__PRTase_WH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_III__PRTase_WH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1376 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_III__PRTase_WH\n-LENG 451\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:25 2021\n-NSEQ 443\n-EFFN 5.120430\n-CKSUM 739480374\n-GA 20 20;\n-STATS LOCAL MSV -11.5975 0.69856\n-STATS LOCAL VITERBI -12.3685 0.69856\n-STATS LOCAL FORWARD -5.8055 0.69856\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51712 4.47087 3.03253 2.65449 3.36791 2.97428 3.71220 2.88798 2.64198 2.43092 3.77132 3.05447 3.22649 3.03716 2.73448 2.53798 2.83718 2.76780 4.34347 3.56359\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04653 3.48672 4.20907 0.61958 0.77255 0.00000 *\n- 1 2.60559 4.27517 3.66933 3.26212 3.19288 3.47987 4.09945 2.17692 3.03391 1.91757 2.96289 3.53926 4.00918 3.46390 3.28418 2.90459 2.94948 1.94201 4.96842 3.63580 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04653 3.48672 4.20907 0.61958 0.77255 0.48576 0.95510\n- 2 2.34881 4.42336 2.70155 2.45283 3.86288 3.08311 3.68963 3.10692 2.26995 2.89901 3.87370 2.91317 3.68794 2.92583 2.70767 2.53886 2.81777 2.81759 5.21433 3.90554 2 k - - -\n- 2.68612 4.42221 2.77524 2.73122 3.46356 2.40515 3.72498 3.29345 2.67746 2.69348 4.24682 2.90347 2.73738 3.18153 2.89793 2.37887 2.77525 2.98522 4.58476 3.61507\n- 0.13480 2.71135 2.81900 1.59595 0.22655 0.48576 0.95510\n- 3 2.60847 4.28315 3.56596 3.05721 3.09852 3.42370 3.89935 2.36673 2.89263 1.98125 2.79003 3.40834 3.98216 3.27121 3.18758 2.83872 2.88247 2.23751 4.82062 3.48958 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06438 3.57632 3.37041 0.61958 0.77255 0.51320 0.91274\n- 4 2.66743 4.27789 3.77929 3.36527 3.29323 3.61260 4.22600 1.75793 3.17997 1.95973 3.24888 3.65129 4.11272 3.58128 3.43623 3.02138 2.88936 1.88670 5.08945 3.79634 33 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04337 3.55531 4.27766 0.61958 0.77255 0.51874 0.90454\n- 5 2.58805 4.41519 3.21325 2.78625 3.42013 3.39571 3.77325 2.52949 2.56072 2.32044 3.45662 3.18571 3.87446 2.63006 2.85757 2.76258 2.87507 2.39781 4.97550 3.65017 34 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05897 3.56281 3.54385 0.61958 0.77255 0.52203 0.89972\n- 6 2.40965 4.43788 2.76665 2.51715 3.85697 3.10736 3.69569 3.20579 2.42994 2.88170 3.85302 2.93527 3.70013 2.48584 2.73608 2.53319 2.61917 2.90911 5.21701 3.90545 35 a - - -\n- 2.68621 4.42228 2.77522 2.73124 3.46357 2.40516 3.72493 3.29357 2.67744 2.69345 4.24693 2.90334 2.73740 3.18149 2.89802 2.37890 2.77522 2.98521 4.58468 3.61477\n- 0.19565 2.04363 3.03365 0.86479 0.54670 0.51706 0.90702\n- 7 2.64998 4.47468 3.21740 2.76293 3.04844 3.43950 2.94959 2.90456 2.47652 2.35618 3.33103 3.153'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03688 3.71441 4.43675 0.61958 0.77255 0.51894 0.90424\n- 444 2.57550 4.63555 2.91480 2.51270 4.05186 3.26279 3.62224 3.46110 2.24036 3.07607 3.94112 2.50949 3.76620 2.80488 2.13983 2.64213 2.63552 3.12765 5.26753 3.98256 865 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03766 3.69372 4.41607 0.61958 0.77255 0.51894 0.90424\n- 445 2.62243 4.76586 2.75138 2.39694 4.05984 3.32546 3.56813 3.47603 2.17474 2.96284 3.90928 2.57404 3.77256 2.73388 2.27374 2.58621 2.86296 3.15551 5.26709 3.96235 866 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03766 3.69372 4.41607 0.61958 0.77255 0.51894 0.90424\n- 446 2.57947 4.70019 2.38363 2.29178 3.95233 3.16941 3.61241 3.35068 2.40697 2.58723 3.84851 2.78200 3.74716 2.79995 2.89980 2.53476 2.83666 3.04424 5.25549 3.92320 867 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03766 3.69372 4.41607 0.61958 0.77255 0.51894 0.90424\n- 447 2.46573 4.46880 2.74234 2.41886 3.83262 3.07772 3.64643 3.19298 2.47786 2.87577 3.57167 2.91716 3.71444 2.76508 2.86281 2.47198 2.50489 2.88720 5.16332 3.87268 868 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04144 3.60003 4.32238 0.61958 0.77255 0.51894 0.90424\n- 448 2.67558 4.71237 2.93075 2.40951 4.01805 3.34980 3.55428 3.39380 2.03702 2.93630 3.88599 2.95603 3.80066 2.73474 2.07148 2.65882 2.91151 3.10159 5.20015 3.93956 869 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04144 3.60003 4.32238 0.61958 0.77255 0.51894 0.90424\n- 449 2.35114 4.39981 3.14437 2.72325 3.77078 3.20962 3.70388 3.06424 2.32945 2.75898 3.75489 3.08644 3.75727 2.93394 2.15226 2.62259 2.81311 2.70755 5.13197 3.85301 870 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04231 3.57973 4.30207 0.61958 0.77255 0.48602 0.95469\n- 450 2.07687 4.13794 2.95944 2.71817 3.96937 2.87961 3.87773 3.32713 2.77820 3.05786 3.94935 3.01597 2.56077 3.13660 3.10284 2.14295 2.62784 2.90651 5.33280 4.06273 871 a - - -\n- 2.68600 4.42244 2.77497 2.73125 3.46354 2.40514 3.72498 3.29368 2.67752 2.69358 4.24701 2.90356 2.73740 3.18150 2.89806 2.37877 2.77518 2.98514 4.58475 3.61522\n- 0.09193 2.59441 4.33184 2.39358 0.09574 0.49882 0.93457\n- 451 2.64349 4.49023 3.29773 2.78259 3.17104 3.44221 3.66840 2.88376 2.39758 2.37014 3.55299 3.17716 3.88157 2.96169 2.17553 2.78789 2.90263 2.70534 4.84098 3.45436 937 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02781 3.59627 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_III__WH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_III__WH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,335 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_III__WH\n-LENG 104\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:38 2021\n-NSEQ 18\n-EFFN 1.656738\n-CKSUM 2655020298\n-GA 20 20;\n-STATS LOCAL MSV -9.2811 0.71664\n-STATS LOCAL VITERBI -10.0404 0.71664\n-STATS LOCAL FORWARD -4.0244 0.71664\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72092 4.79541 3.02358 2.51682 3.53769 3.01464 3.87068 2.59457 2.46783 2.25546 3.71421 2.89193 3.58953 3.01531 3.06977 2.67709 2.91738 2.76594 4.83542 3.30497\n- 2.68622 4.42249 2.77525 2.73147 3.46378 2.40524 3.72518 3.29341 2.67746 2.69351 4.24355 2.90371 2.73742 3.18170 2.89825 2.37867 2.77500 2.98515 4.58501 3.61480\n- 0.43983 1.22607 2.77402 1.14494 0.38308 0.00000 *\n- 1 2.70809 4.35056 3.09735 3.14351 3.48030 3.72084 3.99807 2.21722 3.08818 2.52050 1.87238 3.01760 4.10022 3.37777 3.40828 2.98248 2.94252 2.27021 4.96419 3.74149 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01773 4.43710 5.15944 0.61958 0.77255 0.43191 1.04774\n- 2 2.69830 5.11926 2.51868 2.16153 4.42876 3.04910 3.67702 3.35584 1.96123 3.40921 3.41659 2.96728 3.36487 2.78646 2.91318 2.67845 2.46760 3.49065 5.57394 4.18558 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01671 4.49578 5.21813 0.61958 0.77255 0.48576 0.95510\n- 3 2.72263 5.16958 2.20572 1.99218 4.48684 3.48239 3.68957 3.01423 2.02846 3.46280 4.22055 2.95990 3.88752 2.79802 2.93287 2.46408 2.66402 3.54510 5.61879 4.22184 13 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01671 4.49578 5.21813 0.61958 0.77255 0.48576 0.95510\n- 4 2.70882 5.19599 2.72578 2.04028 4.53117 2.75533 3.66974 4.01006 2.14112 3.11493 4.24040 2.66699 3.87405 2.77048 2.47578 2.27995 2.94041 3.58154 5.63353 4.22850 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01671 4.49578 5.21813 0.61958 0.77255 0.48576 0.95510\n- 5 2.69872 4.74454 2.18309 2.25809 3.94343 3.56638 3.78375 2.67663 2.63378 2.69982 3.82717 3.14285 3.95466 2.97363 3.07545 2.78122 2.68055 2.69547 5.27818 3.12157 15 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01671 4.49578 5.21813 0.61958 0.77255 0.48576 0.95510\n- 6 2.69611 4.44909 3.52410 2.44234 3.59124 3.66132 3.90731 2.00355 2.60007 2.36626 3.00410 3.37552 4.04127 3.21973 2.91975 2.90257 2.67222 2.72361 5.02586 3.30660 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01671 4.49578 5.21813 0.61958 0.77255 0.48576 0.95510\n- 7 2.76902 4.18260 4.45705 3.86185 2.77778 3.91613 4.22801 1.60283 3.07048 1.75796 3.23363 3.97989 4.27'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01671 4.49578 5.21813 0.61958 0.77255 0.48576 0.95510\n- 97 2.87922 5.01312 2.88306 2.36544 4.67792 3.44198 4.12782 4.12612 3.00877 3.72903 4.57415 3.20178 1.03168 3.32016 3.43593 2.43178 3.24260 3.69547 5.92864 4.58816 111 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12101 4.49578 2.27477 0.61958 0.77255 0.48576 0.95510\n- 98 2.21394 5.14174 2.61828 2.38047 4.47017 3.44832 3.64948 3.94215 2.16192 3.44179 4.19381 2.47398 3.24337 2.75460 2.59958 2.25523 2.91499 3.52490 5.59008 4.19120 112 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39330 5.11565 0.61958 0.77255 0.63924 0.75012\n- 99 2.71065 5.14620 2.98208 2.22695 4.47830 3.48156 3.65145 3.27101 1.92835 3.43526 4.19476 2.70384 3.87264 2.31885 2.35021 2.43211 2.93739 3.53083 5.57669 4.19835 113 k - - -\n- 2.68628 4.42235 2.77529 2.73133 3.46364 2.40522 3.72504 3.29364 2.67750 2.69365 4.24699 2.90356 2.73749 3.18156 2.89786 2.37851 2.77507 2.98471 4.58487 3.61513\n- 0.37592 1.96289 1.75508 1.05481 0.42811 0.63924 0.75012\n- 100 2.73412 4.23193 4.05266 3.47579 2.75344 3.83784 4.13237 1.84406 2.51531 1.99222 3.24659 3.75169 4.19228 3.62043 3.59673 3.12156 2.96667 2.00098 4.87195 3.67261 119 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10296 4.21071 2.48895 0.61958 0.77255 0.48959 0.94901\n- 101 2.87649 5.18865 3.19001 2.60424 4.57233 3.59843 3.68798 3.98172 1.48847 3.46356 4.26496 2.64737 3.98325 2.80691 2.03457 2.85992 2.43107 3.60979 5.57270 4.28095 120 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06024 4.32808 3.09515 0.61958 0.77255 0.71921 0.66774\n- 102 2.72814 5.22362 2.56190 1.72261 4.56375 3.42808 3.64987 4.04217 2.02588 3.51815 4.27350 2.73022 3.85359 2.51336 2.53547 2.68280 2.96132 3.61325 5.64649 4.24204 121 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02060 4.28844 5.01079 0.61958 0.77255 0.76257 0.62823\n- 103 3.04685 4.63613 4.11191 3.70430 3.45309 3.92809 4.47444 2.71191 3.53678 0.83434 3.40560 3.98445 2.94217 3.88633 3.75654 3.36540 3.35028 2.69183 5.22013 4.00696 122 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10033 4.28844 2.50431 0.61958 0.77255 0.76257 0.62823\n- 104 2.67593 5.09740 2.18100 2.34530 4.42227 2.62626 3.63491 3.88428 2.17800 3.39864 4.16805 2.88904 3.82633 2.75059 2.47195 2.64911 2.57288 3.48208 5.55880 4.16888 123 k - - -\n- 2.68624 4.42231 2.77526 2.73130 3.46240 2.40519 3.72444 3.29360 2.67747 2.69361 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98498 4.58483 3.61509\n- 0.45180 1.01192 * 0.15330 1.95101 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_II__NDT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_II__NDT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,989 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_II__NDT\n-LENG 322\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 19:36:18 2021\n-NSEQ 20\n-EFFN 1.196289\n-CKSUM 223656020\n-GA 20 20;\n-STATS LOCAL MSV -11.1220 0.70072\n-STATS LOCAL VITERBI -11.8748 0.70072\n-STATS LOCAL FORWARD -5.4341 0.70072\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65407 4.36259 2.97122 2.56731 3.12859 3.11014 3.69308 2.67099 2.59960 2.33762 3.64521 3.07020 3.54020 3.09518 3.02561 2.61301 2.93702 2.66948 4.99186 3.27421\n- 2.68632 4.42248 2.77502 2.73117 3.46315 2.40536 3.72518 3.29377 2.67731 2.69378 4.24331 2.90350 2.73740 3.18170 2.89809 2.37861 2.77531 2.98542 4.58500 3.61527\n- 0.60660 1.37396 1.60099 1.41954 0.27684 0.00000 *\n- 1 2.57839 4.36959 3.34681 2.78392 3.51144 3.24171 3.76520 2.66615 2.72943 2.47398 2.52230 2.82099 3.90765 2.74384 3.10231 2.76494 2.80993 2.64680 4.93602 3.41460 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02558 4.07451 4.79686 0.61958 0.77255 0.61671 0.77592\n- 2 2.49757 4.97885 2.47672 2.35169 4.26906 3.39390 3.60713 3.71606 2.21488 3.26202 3.42265 2.73962 3.79949 2.57523 2.85314 2.14170 2.85444 3.34115 5.45078 4.07668 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02404 4.13581 4.85816 0.61958 0.77255 0.57450 0.82779\n- 3 2.61795 4.95991 2.75207 2.07754 4.24244 3.41446 3.61108 3.68501 2.13184 2.97620 3.50464 2.91219 3.80835 2.61122 2.84838 2.29382 2.84914 3.13087 5.43119 4.06318 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02286 4.18543 4.90777 0.61958 0.77255 0.53507 0.88099\n- 4 2.63416 5.02584 2.78146 2.21515 4.32687 3.03178 3.61552 3.78128 1.99939 3.31269 3.59991 2.73826 3.81313 2.73078 2.85330 2.39112 2.46539 3.39342 5.48826 4.10698 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02194 4.22640 4.94874 0.61958 0.77255 0.56964 0.83409\n- 5 3.98830 5.12304 4.93553 4.70188 1.23892 4.65309 3.56481 3.63179 4.52649 2.90211 4.20574 4.28792 4.94376 4.38919 4.48127 4.03942 4.20282 3.56843 3.67348 0.93174 11 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02194 4.22640 4.94874 0.61958 0.77255 0.43667 1.03898\n- 6 2.65217 4.80829 2.82666 1.64007 4.01470 3.48317 3.69239 3.43106 2.50284 2.73199 3.25517 3.02478 3.87641 2.85491 2.95644 2.69782 2.88384 3.12596 4.43316 3.97797 12 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02054 4.29149 5.01383 0.61958 0.77255 0.48576 0.95510\n- 7 2.90644 5.44772 1.57224 1.83605 4.74556 3.38672 3.78628 4.24585 2.67618 3.21804 4.53155 2.09361 3.921'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02054 4.29149 5.01383 0.61958 0.77255 0.48576 0.95510\n- 315 2.68180 5.05421 2.93332 2.40852 4.36509 3.44838 3.64710 3.81322 2.13312 3.13257 4.12043 2.21489 3.85169 2.33930 2.82936 2.27736 2.65382 3.42984 5.51497 4.14546 349 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02054 4.29149 5.01383 0.61958 0.77255 0.48576 0.95510\n- 316 2.67904 5.07110 2.90841 1.82335 4.37643 3.11067 3.64188 3.19413 1.99107 3.35486 4.12792 2.80483 3.84571 2.60895 2.84423 2.66124 2.78458 3.44101 5.52431 4.14743 350 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02054 4.29149 5.01383 0.61958 0.77255 0.48576 0.95510\n- 317 2.63787 4.59406 3.22581 2.51933 3.77466 3.53109 3.75074 2.58683 2.28452 2.68727 2.88747 3.14112 3.91598 2.64824 2.90394 2.50180 2.86864 2.70071 5.13889 3.85934 351 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06599 4.29149 2.99216 0.61958 0.77255 0.48576 0.95510\n- 318 2.63785 4.63375 3.18923 2.46644 3.82476 3.51527 3.39338 2.87814 2.55864 2.15567 3.40550 2.88776 3.90007 2.75041 2.47566 2.73624 2.86722 2.93918 5.16695 3.88142 352 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02148 4.24698 4.96933 0.61958 0.77255 0.54445 0.86788\n- 319 2.66557 5.05585 2.89222 2.28593 4.36394 2.82734 3.36756 3.81694 1.86364 3.34360 4.11681 2.52632 3.83286 2.74820 2.83803 2.41903 2.89774 3.13498 5.51353 4.13623 353 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13215 4.24698 2.21195 0.61958 0.77255 0.54445 0.86788\n- 320 2.86393 5.33482 2.23921 1.70793 4.64575 1.84893 3.75319 4.12754 2.48518 3.64346 4.45804 2.80015 3.87482 2.90154 3.18204 2.79320 3.13069 3.72089 5.81546 4.37274 354 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08583 4.13879 2.71339 0.61958 0.77255 0.66526 0.72184\n- 321 2.45459 4.92745 2.69272 2.25801 4.20041 2.76857 2.91718 3.63814 2.39272 3.20308 3.99644 2.88865 3.79604 2.48241 2.86811 2.61623 2.85024 2.90523 5.40974 4.04560 355 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07882 4.07844 2.83255 0.61958 0.77255 0.72195 0.66515\n- 322 2.03458 4.64316 2.97316 2.51189 4.07628 3.00619 3.71624 3.48902 2.40271 3.10771 3.92940 2.45610 3.78733 2.88672 2.97762 2.28841 2.81707 2.94481 5.35494 4.03981 356 a - - -\n- 2.68620 4.42228 2.77522 2.73116 3.46356 2.40515 3.72497 3.29356 2.67734 2.69345 4.24692 2.90349 2.73742 3.18135 2.89803 2.37889 2.77522 2.98521 4.58479 3.61506\n- 0.21156 1.65716 * 0.27420 1.42788 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_II__NDT2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_II__NDT2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,704 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_II__NDT2\n-LENG 227\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 19:36:12 2021\n-NSEQ 8\n-EFFN 1.769531\n-CKSUM 3424919425\n-GA 20 20;\n-STATS LOCAL MSV -10.4844 0.70389\n-STATS LOCAL VITERBI -11.3901 0.70389\n-STATS LOCAL FORWARD -5.0804 0.70389\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59859 4.06759 2.90233 2.61790 3.31193 2.89475 3.67429 2.77358 2.60775 2.47847 3.72764 2.90590 3.44888 3.03904 3.04802 2.51248 2.82777 2.72795 5.10073 3.64982\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01902 4.36747 5.08981 0.61958 0.77255 0.00000 *\n- 1 3.44897 4.93186 4.63669 4.29746 3.54161 4.24045 4.91815 2.77365 4.03377 2.08328 0.66857 4.50506 4.72721 4.39389 4.17450 3.83612 3.77674 2.83323 5.42951 4.22616 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01902 4.36747 5.08981 0.61958 0.77255 0.48576 0.95510\n- 2 2.73825 5.03901 2.37863 2.10674 3.02642 3.45786 3.73235 3.74874 2.55345 3.32254 4.12705 2.96848 3.89978 2.87534 3.04050 1.73014 2.98107 3.39480 5.52920 4.15404 2 s - - -\n- 2.68943 4.41371 2.77392 2.73215 3.46164 2.40754 3.72606 3.28379 2.67512 2.68941 4.25084 2.90199 2.73894 3.18441 2.90117 2.38020 2.77563 2.98443 4.58820 3.61497\n- 0.77075 1.15092 1.50964 4.20241 0.01507 0.48576 0.95510\n- 3 2.69091 5.11199 2.21870 2.30394 4.44815 3.35819 3.64697 3.91743 2.43046 3.43306 4.21128 2.33318 3.81676 2.77051 2.38814 2.16345 2.93793 3.51149 5.59420 4.19450 135 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02429 4.12561 4.84796 0.61958 0.77255 0.76477 0.62632\n- 4 2.94945 5.41393 1.25258 2.24680 4.72959 3.32991 3.80078 4.22922 2.03344 3.74483 4.58650 2.81792 3.90972 2.95963 3.20188 2.86651 3.22530 3.82192 5.88035 4.43993 136 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02429 4.12561 4.84796 0.61958 0.77255 0.76477 0.62632\n- 5 2.62778 4.79364 2.82321 1.98237 4.24544 3.31916 3.77078 3.64910 2.59969 3.26798 4.09463 2.97753 3.83898 2.93786 3.04462 2.15142 1.91557 3.28245 5.50276 4.16674 137 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02429 4.12561 4.84796 0.61958 0.77255 0.76477 0.62632\n- 6 3.06868 5.18795 3.41597 2.81341 4.58248 3.68370 3.68341 3.99075 1.99928 3.43622 4.31526 3.22935 4.07299 2.06921 1.25944 3.06804 3.25146 3.67279 5.49309 4.29273 138 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02429 4.12561 4.84796 0.61958 0.77255 0.76477 0.62632\n- 7 2.36320 4.35089 3.33612 2.94730 4.26076 3.10653 4.06914 3.66854 2.97092 3.33144 4.15593 3.24425 2.46'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01598 4.54005 5.26239 0.61958 0.77255 0.48576 0.95510\n- 220 2.38780 4.98796 3.11352 2.55290 2.69107 2.89513 3.74045 3.67265 2.19083 3.25277 4.05720 3.07262 3.94347 2.47689 2.12782 2.76237 2.97156 3.33495 5.47053 4.13286 430 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01598 4.54005 5.26239 0.61958 0.77255 0.48576 0.95510\n- 221 2.37653 5.15839 2.57312 2.43077 4.47775 2.87700 3.68718 3.94504 2.14129 2.86907 4.20738 2.49558 3.88975 2.79324 2.53986 2.68955 2.55880 3.53544 5.60755 4.21370 431 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01598 4.54005 5.26239 0.61958 0.77255 0.48576 0.95510\n- 222 2.38338 5.14834 2.28242 2.43607 4.46189 3.49752 3.69343 2.96763 2.44335 3.44038 4.19943 2.51533 3.89401 2.43496 2.54389 2.37950 2.95002 3.52230 5.60137 4.21040 432 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01598 4.54005 5.26239 0.61958 0.77255 0.48576 0.95510\n- 223 2.37874 4.81265 3.19001 2.63090 4.03496 2.44678 3.78265 3.43486 2.28838 2.52647 3.90045 3.13345 3.95864 2.95733 2.57587 2.42531 2.94874 2.64415 5.34087 4.03128 433 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19507 4.54005 1.79247 0.61958 0.77255 0.48576 0.95510\n- 224 2.67050 4.74059 3.17238 2.62483 4.02306 2.70730 3.73331 3.41852 2.46839 2.41225 3.88664 3.10278 2.89673 2.91073 2.03271 2.74264 2.91632 3.11525 5.30170 4.01023 434 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14083 4.23771 2.14625 0.61958 0.77255 0.73828 0.64997\n- 225 2.58267 4.39770 3.40038 3.04986 3.71162 1.67198 4.04844 3.03454 2.99614 1.87116 3.78710 3.37576 3.92292 3.37295 3.29974 2.77578 2.94642 2.79224 5.18841 3.90691 435 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02805 3.98374 4.70609 0.61958 0.77255 0.84474 0.56154\n- 226 2.71466 4.73977 3.18706 2.75462 4.30976 2.10200 3.80300 3.75733 2.36878 3.32797 4.19228 3.16621 3.89289 2.98647 1.52227 2.79076 3.02403 3.38497 5.43812 4.21336 436 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02805 3.98374 4.70609 0.61958 0.77255 0.84474 0.56154\n- 227 2.45372 4.24587 3.47493 3.07784 3.66227 3.26953 4.05154 2.67746 3.00858 2.58030 3.63352 3.36580 2.38211 3.36518 3.31286 2.68072 2.82621 1.76835 5.18905 3.93663 437 v - - -\n- 2.68594 4.42231 2.77526 2.73129 3.46360 2.40519 3.72501 3.29360 2.67717 2.69361 4.24696 2.90353 2.73746 3.18152 2.89807 2.37870 2.77526 2.98524 4.58483 3.61509\n- 0.20410 1.68948 * 0.92091 0.50776 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_IV__2TM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_IV__2TM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,734 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_IV__2TM\n-LENG 237\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:20 2021\n-NSEQ 134\n-EFFN 2.367737\n-CKSUM 1688552676\n-GA 22 22;\n-STATS LOCAL MSV -10.8162 0.70345\n-STATS LOCAL VITERBI -11.4736 0.70345\n-STATS LOCAL FORWARD -5.3282 0.70345\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65767 4.12087 3.18937 2.72668 2.94831 3.16981 3.56959 2.51793 2.66615 2.42412 3.62913 2.92185 3.83895 3.12826 3.12604 2.58686 2.84153 2.63983 4.83354 3.14153\n- 2.68664 4.42287 2.77552 2.73149 3.46277 2.40566 3.72541 3.29262 2.67692 2.69285 4.24035 2.90329 2.73798 3.18209 2.89811 2.37899 2.77542 2.98525 4.58452 3.61544\n- 0.73118 1.11224 1.66157 1.72985 0.19518 0.00000 *\n- 1 2.81508 4.06326 4.88263 4.28283 2.46194 4.24274 4.56546 2.14006 4.10928 1.42224 1.71877 4.36152 4.54551 4.21408 4.15115 3.56137 3.27111 2.41985 4.99478 3.86420 44 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08973 4.52228 2.59088 0.61958 0.77255 0.78919 0.60553\n- 2 2.51615 4.64435 3.26486 2.52214 3.56715 3.27572 3.79949 2.79804 2.07530 2.53865 3.36399 2.72926 3.96167 3.01715 3.10897 2.70251 2.69043 2.84231 4.46060 3.90819 45 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46224 5.18459 0.61958 0.77255 0.89143 0.52775\n- 3 2.72239 5.16861 2.98976 2.39413 4.00400 3.34096 3.66882 3.96547 1.65023 3.46038 4.21638 2.68882 3.40056 2.45364 2.39813 2.61482 2.95021 3.55345 5.60122 4.21722 46 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46224 5.18459 0.61958 0.77255 0.89143 0.52775\n- 4 2.65166 5.18025 2.59277 2.33389 4.51145 3.46563 3.28788 3.98876 2.13684 3.47939 4.22571 2.01678 3.49628 2.67851 2.89777 2.51459 2.66360 3.37056 5.62050 4.21611 47 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01729 4.46224 5.18459 0.61958 0.77255 0.54085 0.87288\n- 5 2.53167 4.98660 3.10071 2.43564 4.24045 3.55152 3.59570 3.27493 2.18210 3.09456 3.40454 2.24544 3.94200 2.82884 2.73476 2.48423 2.96307 3.12286 5.47794 3.01835 48 k - - -\n- 2.68678 4.42185 2.77517 2.73157 3.46303 2.40566 3.72551 3.29187 2.67608 2.69277 4.24757 2.90339 2.73787 3.18185 2.89810 2.37886 2.77564 2.98545 4.58510 3.61510\n- 0.78289 0.64803 3.91999 1.48830 0.25587 0.52807 0.89096\n- 6 2.60387 5.01399 3.10810 2.34780 4.01316 3.45703 3.54282 3.24099 2.31681 3.03387 3.29283 2.42328 3.07429 2.89925 2.82296 2.24354 2.97771 3.06929 5.50297 3.87690 129 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10023 4.65342 2.45522 0.61958 0.77255 0.57260 0.83024\n- 7 2.38386 4.97495 2.93401 2.40457 3.97346 3.39500 3.74570 3.21879 2.37011 2.82706 3.73731 2.49302 3.5'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01546 4.57288 5.29522 0.61958 0.77255 0.70727 0.67922\n- 230 2.57890 3.82271 3.00595 2.26254 4.47713 3.51191 3.39748 3.94209 2.02303 3.26728 4.21050 2.85500 3.33982 2.61436 2.61036 2.10424 2.90698 3.35861 5.61230 4.22090 375 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01522 4.58875 5.31109 0.61958 0.77255 0.73123 0.65646\n- 231 2.52683 4.46215 3.57896 2.93826 3.22234 3.02415 3.94877 2.12001 2.40876 2.09846 3.56474 3.42423 4.07824 3.27203 3.05496 2.53805 2.95758 2.73662 5.04192 3.80491 376 l - - -\n- 2.68627 4.42234 2.77529 2.73132 3.46335 2.40516 3.72467 3.29363 2.67727 2.69336 4.24591 2.90356 2.73749 3.18155 2.89775 2.37896 2.77529 2.98527 4.58486 3.61512\n- 0.09469 2.46029 5.31109 1.20881 0.35461 0.46041 0.99702\n- 232 2.66525 3.17415 3.60421 2.67303 3.32023 3.79175 4.06454 2.29374 2.75458 2.11449 3.34038 3.61874 3.82610 3.31868 3.50412 2.94132 2.68685 2.04321 4.96634 3.75222 383 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01379 4.68622 5.40857 0.61958 0.77255 0.56906 0.83485\n- 233 2.66961 5.26657 2.59017 1.86091 4.60785 3.53501 3.54303 4.09091 1.83056 3.56967 4.30875 3.00370 3.93067 2.65487 2.80360 2.23545 2.99637 3.47752 5.70068 4.07290 384 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01379 4.68622 5.40857 0.61958 0.77255 0.56906 0.83485\n- 234 3.08813 5.24415 3.53013 2.89847 4.57968 3.83075 3.88113 3.16689 2.24629 3.48813 4.32640 3.35779 2.79804 2.85183 1.07103 3.10726 3.28693 3.63811 5.63955 4.39301 385 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01379 4.68622 5.40857 0.61958 0.77255 0.56906 0.83485\n- 235 2.67219 5.25210 2.54824 2.28105 4.23064 3.53420 2.84908 3.82292 1.71304 3.24763 4.29467 2.84055 3.92768 2.53978 2.84898 2.56283 2.92757 3.63907 5.68870 4.28227 386 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01379 4.68622 5.40857 0.61958 0.77255 0.56906 0.83485\n- 236 4.45751 5.63905 4.93017 4.76595 2.38598 4.93123 3.04165 4.35619 4.53287 3.55845 4.87245 4.54231 5.28273 4.63460 4.57951 4.39722 4.68492 4.25845 4.05711 0.39491 387 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04582 4.68622 3.33634 0.61958 0.77255 0.56906 0.83485\n- 237 2.75001 3.55855 4.21200 3.62487 2.80850 3.85223 4.15506 1.92660 3.50497 2.12685 3.34185 3.43240 4.22181 3.72525 2.61155 2.54898 2.57828 2.28233 4.83846 3.50334 388 i - - -\n- 2.68630 4.42237 2.77532 2.73108 3.46334 2.40525 3.72507 3.29321 2.67713 2.69367 4.24702 2.90359 2.73752 3.18139 2.89798 2.37868 2.77532 2.98531 4.58489 3.61484\n- 0.21828 1.62913 * 0.79899 0.59744 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_IX__HEPN.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_IX__HEPN.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,380 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Retron_IX__HEPN\n-ACC PF05168.15\n-DESC Retron_IX__HEPN domain\n-LENG 117\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS yes\n-MAP yes\n-DATE Wed Apr 22 23:17:31 2020\n-NSEQ 78\n-EFFN 7.621948\n-CKSUM 1308015780\n-GA 21.70 21.70;\n-TC 21.70 21.70;\n-NC 21.60 21.60;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.5152 0.71400\n-STATS LOCAL VITERBI -10.3212 0.71400\n-STATS LOCAL FORWARD -4.1499 0.71400\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.30244 4.36744 2.99703 2.41026 3.34019 3.20583 3.69381 2.85922 2.58045 2.29566 3.86023 3.23709 3.68607 3.16177 2.82415 2.72040 3.03090 2.81065 4.60404 3.18027\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01783 5.71773 4.24184 0.61958 0.77255 0.00000 *\n- 1 1.63294 4.70401 5.20844 4.01636 3.32480 4.47906 4.22418 2.34684 4.39892 2.36540 2.72134 4.61720 4.18543 3.96311 4.43293 2.71248 2.74116 1.79687 4.54222 2.53623 1 a - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00496 5.70486 6.42721 0.61958 0.77255 0.55706 0.85072\n- 2 2.94230 5.73753 3.18052 1.36063 5.08163 3.62170 3.89971 4.56692 2.20251 2.85951 4.16162 3.26738 3.82861 2.57807 2.27027 2.62970 3.46033 3.37108 4.87143 4.24081 2 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00496 5.70486 6.42721 0.61958 0.77255 0.44363 1.02639\n- 3 2.40532 5.48110 2.25266 2.15959 3.07373 3.65393 3.91864 3.15542 2.47657 2.38761 4.11722 3.59984 4.46657 3.21828 2.65504 2.93708 3.30940 3.07403 3.88983 2.93870 3 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71773 6.44008 0.61958 0.77255 0.48576 0.95510\n- 4 3.34653 4.22381 5.19519 4.58963 2.91860 4.50118 3.67723 3.17274 4.39720 1.34028 3.85607 4.62270 4.86544 4.54773 2.93182 3.01933 3.57857 2.81272 1.37431 3.33263 4 l - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01536 5.71773 4.42660 0.61958 0.77255 0.48576 0.95510\n- 5 3.32078 3.77616 5.27462 4.65994 2.76039 4.48902 4.82205 1.80043 2.70281 1.27207 2.95748 4.64823 4.85281 4.02781 3.11112 3.79988 3.27703 2.50233 3.99394 3.23910 5 l - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00495 5.70732 6.42966 0.61958 0.77255 0.54391 0.86863\n- 6 3.11636 5.74317 2.85793 1.67788 4.20235 3.69357 4.19096 4.57566 2.19672 3.33192 4.78361 2.88469 4.39748 2.58498 1.65564 2.56638 3.17418 4.13427 6.17533 4.10408 6 r - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71773 6.44008 0.61958 0.77255 0.48576 0.95510\n- 110 3.81540 5.42457 6.22435 5.66978 2.06409 5.56782 6.00996 1.26052 5.52481 1.69987 3.57725 5.73932 5.80164 5.61171 5.54887 4.93471 4.40616 1.21667 6.31016 5.19188 140 v - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71773 6.44008 0.61958 0.77255 0.48576 0.95510\n- 111 3.32777 4.05581 5.28690 4.04377 2.95966 4.49657 3.98604 1.76163 3.86305 1.38994 3.07098 4.65752 4.86032 4.58975 2.87754 3.44415 3.34696 2.07263 4.18036 2.77277 141 l - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00490 5.71773 6.44008 0.61958 0.77255 0.48576 0.95510\n- 112 2.57462 4.11628 2.50618 1.58816 5.09597 3.31258 3.22098 4.58272 2.26377 3.49132 4.17160 2.39517 4.40343 2.80776 2.70795 2.72907 2.86539 4.14103 6.18182 4.77021 142 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02198 5.71773 3.99244 0.61958 0.77255 0.48576 0.95510\n- 113 2.42634 3.89003 3.56776 3.03624 2.38342 4.35885 4.64465 2.49014 2.99375 2.05479 3.35945 3.83240 3.66674 3.61378 3.27496 3.30554 2.88614 2.50610 2.47844 3.36586 143 l - - H\n- 2.68564 4.42244 2.77539 2.73142 3.46373 2.40518 3.72513 3.29206 2.67760 2.69360 4.24709 2.90366 2.73759 3.18165 2.89820 2.37906 2.77494 2.98477 4.58496 3.61522\n- 0.29979 1.45397 3.67359 0.06232 2.80649 0.57874 0.82235\n- 114 2.46101 3.28099 4.98158 3.24818 3.50394 3.67248 4.74834 2.29708 2.64398 1.93568 3.50398 4.49686 4.79718 3.81146 4.33019 3.10335 3.15515 1.39313 5.33498 3.65598 145 v - - H\n- 2.68638 4.42279 2.77573 2.73128 3.46367 2.40539 3.72548 3.29285 2.67655 2.69271 4.24743 2.90352 2.73793 3.18143 2.89854 2.37876 2.77551 2.98452 4.58530 3.61454\n- 0.16155 1.91386 6.39903 1.45154 0.26685 0.69478 0.69152\n- 115 3.06838 5.72708 2.89449 1.58739 5.07333 3.13874 4.17371 4.56011 1.71245 2.84993 4.76748 2.64749 3.84749 2.89716 2.31987 2.75462 3.44483 4.11836 6.15899 4.74733 152 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00510 5.67668 6.39903 0.61958 0.77255 0.69478 0.69152\n- 116 2.89424 4.70552 2.61250 1.91261 4.26494 2.84304 3.57052 2.45737 2.26195 3.13308 4.06684 2.64505 4.38467 3.16739 2.42325 2.68612 3.44485 3.26021 6.13801 4.73352 153 e - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 5.67668 3.58071 0.61958 0.77255 0.37426 1.16412\n- 117 2.78953 4.16336 3.94134 3.62056 3.40325 3.89037 3.77654 2.11045 2.69905 1.65660 3.54431 3.48029 4.71230 2.82847 3.06514 3.21727 3.52025 2.23893 3.61381 3.13820 154 l - - H\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00338 5.69063 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_IX__WHDNAB_E2F_TDP.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_IX__WHDNAB_E2F_TDP.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,236 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Retron_IX__WHDNAB_E2F_TDP\n-ACC PF02319.21\n-DESC E2F/DP family winged-helix DNA-binding domain\n-LENG 69\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 21 21:18:27 2020\n-NSEQ 169\n-EFFN 3.535446\n-CKSUM 2655815412\n-GA 25.70 25.70;\n-TC 25.70 25.80;\n-NC 25.50 25.60;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -8.8194 0.71875\n-STATS LOCAL VITERBI -9.5243 0.71875\n-STATS LOCAL FORWARD -4.1857 0.71875\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65389 4.34445 3.00218 2.76433 3.51399 3.01462 3.87565 2.70085 2.48954 2.29318 3.69305 3.00009 3.75426 3.14429 2.71899 2.62694 2.88525 2.61764 4.32230 3.44820\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01214 5.05763 5.16697 0.61958 0.77255 0.00000 *\n- 1 2.72857 5.18415 3.11501 2.48310 2.87578 3.46155 3.68647 3.92734 1.63301 3.49152 4.27928 2.83380 3.96772 2.85796 2.57827 2.24506 2.90079 3.44278 5.78581 3.81130 1 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00952 5.05501 5.77736 0.61958 0.77255 0.48093 0.96288\n- 2 2.80279 5.40307 1.83452 1.96903 4.74403 2.79225 3.63846 2.89996 2.51724 3.66438 4.33884 2.93013 3.96858 2.68129 2.90480 2.48049 3.03050 3.79151 5.83812 4.42941 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00949 5.05763 5.77998 0.61958 0.77255 0.48576 0.95510\n- 3 2.85389 5.38610 3.01238 2.53931 4.72073 3.32768 3.53388 4.19902 1.29081 3.65702 4.23255 2.76320 4.07220 2.92055 2.87942 2.27191 2.77901 3.45076 5.08567 4.42084 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00949 5.05763 5.77998 0.61958 0.77255 0.48576 0.95510\n- 4 2.81293 4.85077 4.53861 4.30435 5.44910 1.51357 5.29571 4.93476 4.37630 4.58938 5.34734 4.22081 3.81502 4.58915 4.62774 0.68710 2.75804 4.13999 6.75620 5.61777 4 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00949 5.05763 5.77998 0.61958 0.77255 0.48576 0.95510\n- 5 4.54094 5.67575 6.48874 5.89822 3.36590 6.01563 6.21610 2.51152 5.78488 0.36493 2.40144 6.19565 5.83438 5.45324 5.63486 5.45663 4.71681 3.24434 5.96862 5.10857 5 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00949 5.05763 5.77998 0.61958 0.77255 0.48576 0.95510\n- 6 2.46782 4.67653 3.25820 2.58289 4.22772 1.89638 3.68651 3.87914 2.34507 3.32985 3.97578 3.20898 4.10951 2.96626 2.28117 2.50147 2.68574 3.29919 4.09124 4.08409 6 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.7751'..b'.68629 4.42282 2.77560 2.73136 3.46411 2.40489 3.72473 3.29337 2.67753 2.69384 4.24676 2.90374 2.73786 3.18179 2.89728 2.37849 2.77476 2.98444 4.58534 3.61560\n- 0.32175 1.33643 4.39508 1.67948 0.20637 0.33972 1.24468\n- 62 3.06872 5.51595 3.22119 2.71694 4.88267 3.86321 3.98073 4.31447 0.82414 3.79027 4.57267 3.34442 4.25155 3.03342 2.56426 2.99590 3.29992 3.30263 5.90233 4.57464 144 k - - -\n- 2.68623 4.42230 2.77525 2.73129 3.46359 2.40518 3.72500 3.29346 2.67726 2.69360 4.24695 2.90352 2.73745 3.18133 2.89783 2.37886 2.77525 2.98502 4.58482 3.61508\n- 0.07326 3.00111 3.86748 0.90911 0.51564 0.46365 0.99151\n- 63 2.92544 5.42015 3.06956 2.53412 4.75799 3.59159 3.88179 4.23903 2.04604 3.72150 4.46516 1.60889 2.32173 2.67408 3.11156 2.56406 2.93889 3.80741 5.85583 4.31691 148 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01671 5.03991 4.59570 0.61958 0.77255 0.53689 0.87842\n- 64 2.38538 4.25405 2.95280 2.17583 4.70924 3.40760 2.63611 4.09067 2.21380 3.45365 4.19934 2.90673 4.06056 2.62981 2.78180 2.34601 2.68179 3.23016 5.81385 3.54144 149 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00973 5.03294 5.75528 0.61958 0.77255 0.52347 0.89762\n- 65 3.08779 4.50658 5.08173 4.48463 1.91189 4.34312 4.62647 1.44678 4.28553 2.30681 3.42300 4.48432 4.68319 4.40399 4.30228 3.66153 3.38346 2.07414 5.06261 1.99450 150 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02440 5.03991 4.03818 0.61958 0.77255 0.45507 1.00623\n- 66 2.31863 4.90928 3.18174 2.43211 4.30626 3.63883 3.73054 3.75799 1.96835 3.29869 4.20798 3.16689 4.07647 2.30166 1.95878 2.66036 2.87422 3.30642 5.77030 3.91689 151 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00963 5.04330 5.76564 0.61958 0.77255 0.52739 0.89194\n- 67 4.59432 4.32022 5.71165 5.49498 2.43252 5.29215 4.19681 4.26901 5.26542 3.57529 4.84329 4.95943 5.58302 5.07778 5.15797 4.67495 4.81084 4.18156 0.44012 2.23703 152 W - - -\n- 2.68627 4.42234 2.77528 2.73132 3.46363 2.40492 3.72503 3.29342 2.67749 2.69364 4.24698 2.90355 2.73748 3.18155 2.89809 2.37895 2.77528 2.98474 4.58486 3.61412\n- 0.11935 2.44287 3.66539 0.84857 0.55867 0.52739 0.89194\n- 68 2.91201 4.19561 4.30768 3.62709 3.22478 4.00300 3.17412 1.67682 2.90720 2.04031 3.29322 3.11980 4.37348 3.63496 3.29010 3.19216 2.93107 2.06470 4.86710 3.42480 156 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01200 5.02058 5.23441 0.61958 0.77255 0.56112 0.84529\n- 69 2.82881 4.99225 3.47412 3.03969 4.40338 0.90439 4.19621 3.80640 3.00961 3.25558 4.06048 3.38276 4.24793 3.29907 3.40099 2.40254 3.25714 3.43912 5.72144 4.34177 157 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00662 5.02127 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_A__ATPase_TypeIA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_A__ATPase_TypeIA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1625 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_I_A__ATPase_TypeIA\n-LENG 534\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:23 2021\n-NSEQ 316\n-EFFN 4.141907\n-CKSUM 691123933\n-GA 23 23;\n-STATS LOCAL MSV -11.7251 0.69772\n-STATS LOCAL VITERBI -12.9112 0.69772\n-STATS LOCAL FORWARD -5.7107 0.69772\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69597 4.71231 2.89456 2.53496 3.37357 3.09229 3.66108 2.70024 2.50772 2.39429 3.81814 2.88232 3.51663 2.93260 2.97244 2.54071 2.85254 2.81290 4.84251 3.60583\n- 2.68673 4.42285 2.77542 2.73097 3.46414 2.40568 3.72536 3.29392 2.67734 2.69409 4.23651 2.90237 2.73718 3.18173 2.89836 2.37899 2.77497 2.98538 4.58537 3.61550\n- 1.25442 0.94812 1.11690 1.26319 0.33233 0.00000 *\n- 1 2.74539 5.11737 2.83937 2.44422 4.40927 3.37677 3.34783 3.32350 1.97626 3.39949 3.09307 2.82468 3.93412 2.75882 2.24616 2.68931 2.89776 2.97246 5.58307 3.74623 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11094 4.64836 2.34938 0.61958 0.77255 0.72318 0.66399\n- 2 2.77275 4.71828 3.22007 2.34715 3.75685 3.67136 3.64922 2.26641 2.29322 2.69643 2.61420 3.28655 3.72953 3.12005 3.21013 2.51608 2.82053 2.76551 5.26698 3.98821 9 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02576 4.72198 4.10243 0.61958 0.77255 1.03086 0.44114\n- 3 2.77242 5.26198 2.89785 2.10798 4.59815 3.54749 3.25994 3.72137 2.33036 3.56334 4.30518 2.02471 2.60938 2.74211 2.86813 2.51039 2.82228 3.48791 5.69980 4.29416 10 n - - -\n- 2.68618 4.42231 2.77509 2.73129 3.46360 2.40515 3.72501 3.29360 2.67735 2.69355 4.24696 2.90347 2.73746 3.18144 2.89781 2.37885 2.77519 2.98524 4.58483 3.61509\n- 0.19319 1.76400 5.44467 0.32731 1.27605 1.03218 0.44042\n- 4 2.59060 5.26867 2.95645 2.50359 4.60651 3.57183 3.75359 4.07847 1.73098 3.56691 4.03288 2.37092 3.96545 2.85562 2.20626 2.17482 3.02960 3.65639 5.70376 4.30959 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05528 4.73428 3.10124 0.61958 0.77255 0.75223 0.63736\n- 5 2.62604 5.07096 3.15520 2.54282 4.33043 2.87434 3.46695 3.61987 2.32350 3.33889 2.82333 2.81122 4.00372 2.72488 2.85287 2.42773 2.43598 3.11124 5.55856 2.92070 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01238 4.79381 5.51616 0.61958 0.77255 0.94969 0.48916\n- 6 2.81634 4.22091 4.59837 3.99500 2.75068 3.96528 4.03385 1.71518 3.81818 1.89071 3.23673 3.87811 4.33058 3.63914 3.89057 3.14193 2.25444 1.95204 4.84074 3.66009 15 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01227 4.80231 5.52465 0.61958 0.77255 0.96900 0.47717\n- 7 2.68728 5.26401 3.00781 2.47792 4.58916 3.46306 3.78429 3.44525 1.58636 3.55580 4.31294 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01944 5.01384 4.37388 0.61958 0.77255 0.72591 0.66142\n- 527 2.66877 5.35940 2.85926 2.00191 4.69834 3.44715 3.69046 2.94971 2.06066 3.42744 4.12128 2.34977 4.03284 2.62905 2.41125 2.70858 3.09464 3.29954 5.79573 4.38858 880 e - - -\n- 2.68637 4.42264 2.77514 2.73069 3.46393 2.40534 3.72533 3.29370 2.67704 2.69310 4.24729 2.90326 2.73765 3.18028 2.89788 2.37908 2.77551 2.98557 4.58516 3.61542\n- 0.33305 1.49665 2.82374 1.41163 0.27938 0.57102 0.83229\n- 528 2.77561 5.36431 2.48356 2.21991 4.70738 3.42040 3.82021 4.19179 1.80915 3.30205 3.18814 2.74128 4.02651 2.69254 2.29776 2.60531 2.86387 3.75389 5.79807 4.38854 889 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14459 4.95720 2.05892 0.61958 0.77255 0.77344 0.61883\n- 529 2.67701 4.25365 3.77420 3.88580 2.65010 3.95651 4.27247 1.62967 2.54991 2.10317 3.13045 4.01211 4.32331 3.91986 3.84784 3.25330 3.05639 2.07421 4.39119 3.39037 890 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01200 4.82461 5.54696 0.61958 0.77255 0.94717 0.49076\n- 530 2.34429 5.31005 2.77109 2.14986 4.64944 3.46290 2.93003 4.13144 2.38114 3.26417 4.35228 2.49683 3.98157 2.87422 2.59282 1.97454 3.04402 3.69765 5.74604 3.94138 891 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83805 5.56039 0.61958 0.77255 0.97851 0.47140\n- 531 2.37056 5.31903 3.06993 1.82728 4.66055 3.21744 3.78074 4.14153 1.71263 3.33637 4.36157 2.80128 3.98872 2.58087 2.77040 2.66542 3.00296 3.70796 5.75223 4.34688 892 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01184 4.83805 5.56039 0.61958 0.77255 0.97851 0.47140\n- 532 2.68851 5.30449 2.59341 2.07600 4.64536 2.70776 3.42280 3.52278 1.90812 3.30389 4.34634 2.83708 3.97208 2.86402 2.73940 2.28329 3.03501 3.69289 5.73958 4.33118 893 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03704 4.81408 3.56689 0.61958 0.77255 0.97851 0.47140\n- 533 2.78560 5.28561 2.11623 2.37208 3.84968 3.00719 3.74808 4.10901 1.96764 3.37014 4.32753 2.51448 3.95389 2.58766 2.62140 2.61403 2.91248 3.53494 5.72084 4.31262 894 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18788 4.76379 1.81551 0.61958 0.77255 1.01268 0.45137\n- 534 2.49935 5.18745 2.30656 2.36960 4.51646 3.08653 3.68440 3.99103 2.10925 3.19793 3.95581 2.96926 3.88879 2.53407 2.67226 2.47098 2.44665 3.56948 5.62974 4.22897 895 k - - -\n- 2.68662 4.42285 2.77517 2.73001 3.46414 2.40506 3.72555 3.29402 2.67632 2.69375 4.24735 2.90351 2.73785 3.18153 2.89843 2.37823 2.77539 2.98555 4.58537 3.61563\n- 0.65736 0.73026 * 1.50841 0.25008 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_A__HNH_TIGR02646.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_A__HNH_TIGR02646.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,725 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_I_A__HNH_TIGR02646\n-LENG 234\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:23 2021\n-NSEQ 466\n-EFFN 2.933121\n-CKSUM 334817903\n-GA 20 20;\n-STATS LOCAL MSV -10.7537 0.70358\n-STATS LOCAL VITERBI -11.9854 0.70358\n-STATS LOCAL FORWARD -4.9241 0.70358\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60846 3.83845 2.91321 2.52445 3.28328 3.09326 3.47300 2.95937 2.49960 2.53030 3.78717 2.91771 3.41762 2.96650 2.82886 2.66834 2.86262 2.95445 4.48945 3.40994\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07536 3.46389 3.18724 0.61958 0.77255 0.00000 *\n- 1 2.57534 4.25030 3.40737 3.10687 3.12416 3.26641 3.94285 2.36693 2.87986 2.01507 2.87988 3.39201 3.84317 3.35662 3.10521 2.82597 2.93954 2.26642 4.79322 3.44122 1 l - - -\n- 2.68627 4.42234 2.77513 2.73113 3.46339 2.40519 3.72493 3.29316 2.67732 2.69353 4.24699 2.90329 2.73749 3.18155 2.89810 2.37896 2.77525 2.98522 4.58486 3.61512\n- 0.07939 2.80159 4.15980 1.90010 0.16199 0.50147 0.93049\n- 2 2.34822 3.96950 2.87316 2.76835 3.55336 2.07760 3.77350 3.11278 2.81832 2.82836 3.94143 3.06955 3.33646 3.22973 3.00716 2.53582 2.78963 2.80329 4.69464 3.67501 39 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04893 3.43746 4.15980 0.61958 0.77255 0.50147 0.93049\n- 3 2.28241 4.09175 2.92204 2.78076 3.44053 2.84217 3.81393 2.93417 2.77253 2.71745 3.83261 3.06025 3.53688 3.20825 3.01257 2.19235 2.72728 2.65044 4.88111 3.54659 40 s - - -\n- 2.68622 4.42192 2.77512 2.73112 3.46354 2.40515 3.72502 3.29349 2.67738 2.69352 4.24698 2.90350 2.73744 3.18154 2.89809 2.37892 2.77516 2.98517 4.58485 3.61493\n- 0.08554 2.80159 3.85057 1.81433 0.17787 0.50147 0.93049\n- 4 2.60198 4.29161 3.42523 3.12070 3.06149 3.33419 3.93024 2.34609 2.86847 1.91334 3.19933 3.40415 3.90166 3.35996 3.09607 2.85140 2.96164 2.24687 4.76096 3.34314 74 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04872 3.44173 4.16408 0.61958 0.77255 0.50475 0.92547\n- 5 2.65995 4.31469 3.12837 2.89773 2.79166 3.19287 3.65542 2.72843 2.77838 2.30966 3.54714 3.22727 3.75967 3.22668 3.01183 2.83826 2.99844 2.59144 4.36670 2.45215 75 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04872 3.44173 4.16408 0.61958 0.77255 0.50475 0.92547\n- 6 2.36660 4.20380 2.93148 2.75406 3.48792 2.98134 3.82559 2.81400 2.68342 2.52221 3.69041 3.07429 3.64352 3.03357 2.93852 2.54057 2.54885 2.59196 5.00059 3.66619 76 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04872 3.44173 4.16408 0.61958 0.77255 0.50475 0.92547\n- 7 2.19419 4.14646 3.10723 2.92250 3.37684 3.00010 3.91263 2.59009 2.84281 2.30708 3.60180 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03913 3.65620 4.37855 0.61958 0.77255 0.58417 0.81547\n- 227 2.46816 4.21548 3.52964 3.05421 3.06246 3.31385 3.94116 2.33416 2.93287 2.18103 3.18411 3.37608 3.91175 3.29302 3.23602 2.76625 2.74798 2.08125 4.91927 3.60133 1077 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04443 3.53175 4.25409 0.61958 0.77255 0.53140 0.88620\n- 228 2.65005 4.82784 2.08376 2.02222 4.12295 3.09558 3.60108 3.51634 2.39324 3.18347 4.08801 2.67304 3.68143 2.80222 2.90865 2.64359 2.94270 3.19664 5.39519 4.02796 1078 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04514 3.51623 4.23857 0.61958 0.77255 0.53250 0.88464\n- 229 2.59905 4.61780 2.71630 2.30004 3.96966 3.22478 3.59516 3.29158 2.17575 2.96138 3.87391 2.88811 3.74416 2.79453 2.41685 2.66603 2.71265 3.00154 5.22219 3.94309 1079 k - - -\n- 2.68618 4.42227 2.77524 2.73095 3.46362 2.40518 3.72491 3.29334 2.67737 2.69353 4.24697 2.90356 2.73747 3.18141 2.89791 2.37894 2.77531 2.98517 4.58478 3.61509\n- 0.11681 2.34361 4.24999 1.86163 0.16891 0.48997 0.94841\n- 230 2.61290 4.69528 2.66546 2.38571 3.94844 3.25670 3.56781 3.42611 2.23795 2.96535 3.90278 2.61918 3.74918 2.63055 2.37204 2.65651 2.87330 3.11465 5.20160 3.87877 1107 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05379 3.57645 3.71327 0.61958 0.77255 0.51013 0.91733\n- 231 2.56611 4.41763 3.22424 2.73410 3.54744 3.36628 3.67465 2.83036 2.28751 2.50648 3.22344 3.12688 3.82728 2.92360 2.46861 2.72099 2.83668 2.58169 4.98444 3.69599 1108 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04497 3.51996 4.24231 0.61958 0.77255 0.51727 0.90669\n- 232 2.56584 4.30740 3.01844 2.74259 3.55132 3.02498 3.68323 3.11895 2.38866 2.71840 3.82080 3.09759 3.61744 3.00960 1.98370 2.71019 2.91385 2.88120 4.84090 3.62967 1109 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04705 3.47574 4.19809 0.61958 0.77255 0.51727 0.90669\n- 233 2.53989 4.39259 2.83407 2.59241 3.64563 3.07460 3.64742 3.11680 2.16644 2.78156 3.83218 2.98577 3.66208 2.92722 2.41523 2.65937 2.87746 2.86192 4.97385 3.69419 1110 k - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46354 2.40513 3.72495 3.29355 2.67738 2.69355 4.24690 2.90347 2.73740 3.18147 2.89792 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.07794 2.81995 4.17549 0.70026 0.68609 0.49131 0.94630\n- 234 2.55267 4.39496 3.11380 2.67885 3.35700 3.15690 3.59116 3.03019 2.24063 2.66474 3.62743 3.06851 3.76694 2.89993 2.54829 2.68913 2.82716 2.78523 4.14542 3.40151 1114 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03178 3.46467 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_B__ATPase_TOPRIM_COG3593.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_B__ATPase_TOPRIM_COG3593.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1799 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_I_B__ATPase_TOPRIM_COG3593\n-LENG 592\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:59:42 2021\n-NSEQ 267\n-EFFN 8.885605\n-CKSUM 3579522687\n-GA 50 50;\n-STATS LOCAL MSV -11.7190 0.69727\n-STATS LOCAL VITERBI -13.4557 0.69727\n-STATS LOCAL FORWARD -5.5747 0.69727\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62193 4.57264 2.88384 2.58175 3.24900 2.89557 3.64649 2.79389 2.63320 2.38388 3.86499 2.95496 3.32425 3.10980 2.88177 2.56943 2.83714 2.84407 4.76059 3.55961\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01901 4.36815 5.09049 0.61958 0.77255 0.00000 *\n- 1 3.38986 4.74957 4.94837 4.39396 3.28375 4.60072 4.95211 2.31229 4.21695 1.52268 1.12316 4.63641 4.83835 4.38165 4.35075 3.95514 3.62599 2.13542 5.32377 4.22897 1 m - - -\n- 2.68643 4.42141 2.77541 2.73126 3.46370 2.40497 3.72512 3.29319 2.67693 2.69341 4.24729 2.90331 2.73757 3.18180 2.89827 2.37889 2.77537 2.98477 4.58516 3.61516\n- 0.37057 1.19235 5.09049 1.67107 0.20831 0.48576 0.95510\n- 2 3.29405 4.91312 5.40359 4.80574 4.00487 4.68874 5.05692 2.92041 4.61472 2.65784 0.60435 4.83712 3.51311 4.76602 4.66141 3.37018 3.76467 2.30886 5.57253 4.39860 25 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01545 5.82461 4.39207 0.61958 0.77255 0.48576 0.95510\n- 3 2.81873 5.51783 3.72617 3.16816 4.25232 3.47968 3.45251 3.19930 2.03330 2.58777 4.13211 3.68721 3.70252 2.79074 1.92952 2.68981 2.74075 3.16874 6.02157 2.32997 26 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00438 5.82901 6.55136 0.61958 0.77255 0.48782 0.95183\n- 4 4.46833 5.66822 6.57931 6.08565 4.77281 6.03683 6.65144 0.78771 5.99899 1.09261 4.52259 4.73647 6.22492 6.14220 6.08355 5.45531 4.71718 2.01693 6.87756 5.73710 27 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00429 5.84936 6.57170 0.61958 0.77255 0.51379 0.91186\n- 5 3.06874 4.64451 3.22398 1.63684 5.17346 4.09032 3.78944 3.83411 1.85116 3.37390 4.86864 3.04695 4.48379 2.72501 2.17967 2.30393 2.66038 3.61399 6.26055 4.84940 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00429 5.84936 6.57170 0.61958 0.77255 0.51379 0.91186\n- 6 2.80913 5.82900 3.14932 2.71674 3.65879 3.74851 3.01053 4.22564 1.94403 4.13460 4.86947 2.98815 4.48361 2.54442 1.63671 2.00108 3.06587 4.22004 6.26124 4.22671 29 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00429 5.84936 6.57170 0.61958 0.77255 0.51379 0.91186\n- 7 3.51472 5.11972 5.80661 5.21855 3.25468 5.05918 5.44388 1.04550 5.02935 1.82393 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04205 3.58570 4.30804 0.61958 0.77255 0.55492 0.85359\n- 585 2.52383 4.35313 3.29584 2.84772 3.55140 3.29689 3.77626 2.77649 2.48617 2.51233 3.58771 3.19807 3.82184 3.04748 2.35724 2.70155 2.84152 2.22360 5.02426 3.72845 1715 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04205 3.58570 4.30804 0.61958 0.77255 0.55492 0.85359\n- 586 2.90843 4.41112 3.81007 3.49545 1.65495 3.61731 3.80841 2.50187 3.41347 1.96238 3.30139 3.69162 4.10618 3.67505 3.60467 3.17939 3.22194 2.46306 4.19516 2.62027 1716 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04205 3.58570 4.30804 0.61958 0.77255 0.55492 0.85359\n- 587 2.74622 4.33464 3.86095 3.42936 3.17271 3.69338 4.22643 2.06992 3.22060 1.66348 3.18234 3.71578 4.16609 3.61646 3.46739 3.10445 3.06143 1.77801 4.99556 3.67079 1717 l - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40504 3.72495 3.29355 2.67741 2.69356 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58478 3.61504\n- 0.13522 2.18022 4.30804 0.44024 1.03250 0.55492 0.85359\n- 588 2.72149 4.61973 2.88430 2.59769 3.93730 3.21416 3.65969 3.35483 1.54531 3.00014 4.00755 3.02440 3.75944 2.89159 2.47944 2.80004 3.01432 3.08798 5.13623 3.91418 1719 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04205 3.58570 4.30804 0.61958 0.77255 0.55492 0.85359\n- 589 2.83691 4.39951 3.69281 3.36485 3.06251 3.56438 4.11177 2.29844 3.13631 1.35167 3.23385 3.66138 4.07304 3.57785 3.34744 3.14515 3.15869 2.25346 4.80567 3.45734 1720 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04205 3.58570 4.30804 0.61958 0.77255 0.55492 0.85359\n- 590 2.75337 4.39806 3.25956 2.98164 2.58995 3.35161 3.59250 2.81201 2.84944 2.36329 3.57117 3.29381 3.87570 3.26699 3.09035 2.92065 3.06332 2.67457 4.19616 2.03243 1721 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04606 3.49654 4.21888 0.61958 0.77255 0.44482 1.02426\n- 591 1.49513 4.09459 3.20591 3.00920 3.79094 2.91963 4.05939 2.88638 3.01688 2.77137 3.85834 3.22279 3.63441 3.39231 3.27304 2.46017 2.71899 2.59381 5.24822 4.02024 1722 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04124 3.60468 4.32702 0.61958 0.77255 0.48576 0.95510\n- 592 2.70635 4.52647 3.15975 2.76682 2.98453 3.43223 2.70407 3.01242 2.51025 2.22803 3.63819 3.15731 3.89586 3.02185 2.78911 2.83013 2.97077 2.82428 4.53310 3.00758 1723 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02795 3.59138 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_C__RT_1_C1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_C__RT_1_C1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1754 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_I_C__RT_1_C1\n-LENG 577\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:27 2021\n-NSEQ 180\n-EFFN 1.579285\n-CKSUM 1861278870\n-GA 200 200;\n-STATS LOCAL MSV -11.9030 0.69738\n-STATS LOCAL VITERBI -12.8954 0.69738\n-STATS LOCAL FORWARD -6.5113 0.69738\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58929 4.39820 2.94407 2.67201 3.16526 3.07630 3.63784 2.78943 2.51293 2.45985 3.73231 2.94292 3.45015 2.99864 2.91138 2.63960 2.81007 2.74495 5.08347 3.39319\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07835 3.74306 2.96278 0.61958 0.77255 0.00000 *\n- 1 2.84404 4.42412 3.86731 3.45544 3.15042 3.70385 4.23058 2.30996 3.22963 1.77942 1.75237 3.75166 4.17061 3.62756 3.45351 3.17172 3.14974 2.29384 4.96358 3.70518 1 m - - -\n- 2.68614 4.42140 2.77547 2.73141 3.46320 2.40529 3.72499 3.29322 2.67765 2.69349 4.24656 2.90359 2.73722 3.18166 2.89775 2.37881 2.77532 2.98492 4.58476 3.61516\n- 0.25580 1.71418 3.08804 2.55155 0.08117 0.46642 0.98682\n- 2 2.58549 4.34297 3.61896 3.05242 3.48590 3.65047 3.92786 2.73268 2.88966 2.53513 1.74635 3.28112 3.76672 3.28825 3.26364 2.66398 2.66007 2.53035 4.94158 3.71616 168 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01841 4.39979 5.12214 0.61958 0.77255 0.51132 0.91556\n- 3 2.63671 5.01836 2.88369 2.40808 3.95611 3.42803 3.63611 3.68095 2.27532 3.13735 4.07644 2.65683 3.47554 2.77355 2.75459 1.90065 2.54617 3.37632 5.48973 4.11931 169 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01841 4.39979 5.12214 0.61958 0.77255 0.47011 0.98065\n- 4 2.59169 5.09068 2.81046 2.36980 3.88931 3.46741 3.45057 3.57447 2.04927 3.29794 3.85331 2.58383 3.64127 2.58566 2.55987 2.44959 2.75253 3.40031 5.54717 3.68320 170 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01777 4.43484 5.15719 0.61958 0.77255 0.48576 0.95510\n- 5 3.44858 4.76102 5.15678 4.57454 3.01361 4.69723 4.94704 2.08219 4.43415 0.71067 2.90286 4.75923 4.87947 4.47195 4.49024 4.03536 3.66305 2.50944 5.21136 3.62599 171 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01777 4.43484 5.15719 0.61958 0.77255 0.48576 0.95510\n- 6 2.42184 5.14649 2.52418 2.11516 4.19415 3.45855 3.44462 3.73700 2.18465 3.14582 4.19184 2.75610 3.85180 2.46399 2.81591 2.41417 2.79358 3.48976 5.58974 4.06851 172 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01777 4.43484 5.15719 0.61958 0.77255 0.48576 0.95510\n- 7 2.32165 5.11569 2.83294 2.28493 4.43113 3.40614 3.60926 3.84608 1.99642 2.84651 4.16469 2.84'..b'.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37885 2.77520 2.98518 4.58477 3.61503\n- 0.11702 3.70341 2.45586 0.56919 0.83467 0.45518 1.00604\n- 570 2.29467 4.84682 2.94649 2.37999 4.09976 3.29392 3.57720 3.36549 2.21141 2.97006 3.84725 2.70721 3.52085 2.75060 2.84029 2.34463 2.72071 3.11386 5.34121 3.99629 1113 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02370 4.14997 4.87232 0.61958 0.77255 0.58187 0.81838\n- 571 2.17277 4.67856 3.01699 2.45098 3.92418 3.33813 3.56199 3.32814 2.39463 2.90582 3.74229 2.82352 3.41128 2.79594 2.90893 2.43534 2.55321 2.92320 5.22371 3.91002 1114 a - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89798 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.18277 3.54884 1.97846 0.57295 0.82979 0.58187 0.81838\n- 572 2.38020 4.64339 2.97073 2.41165 3.86518 3.26769 3.60360 3.11969 2.30115 2.86796 3.69053 2.95285 3.32463 2.69984 2.76616 2.54104 2.77745 2.83926 5.16751 3.85860 1116 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03653 3.86844 4.20135 0.61958 0.77255 0.69991 0.68643\n- 573 2.31222 4.67170 2.92921 2.38202 3.91376 3.33226 3.53948 3.27393 2.30604 2.83710 3.77195 2.83590 3.50379 2.65968 2.81737 2.52424 2.68588 3.01125 5.19987 3.88890 1117 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03293 3.82562 4.54796 0.61958 0.77255 0.69637 0.68993\n- 574 2.40686 4.51573 3.03782 2.46540 3.71022 3.36693 3.58686 2.92370 2.39942 2.67622 3.49626 2.94309 3.52609 2.83431 2.87469 2.53175 2.71582 2.75722 5.06008 3.77386 1118 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03331 3.81433 4.53667 0.61958 0.77255 0.69993 0.68641\n- 575 2.35659 4.57681 2.94928 2.44932 3.88367 3.22954 3.63439 3.28124 2.39731 2.85190 3.75721 2.87160 3.36616 2.72008 2.87700 2.36321 2.63174 2.90645 5.19045 3.88984 1119 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03369 3.80327 4.52562 0.61958 0.77255 0.44176 1.02976\n- 576 2.41369 4.35486 2.65343 2.50988 3.51802 3.09403 3.69847 3.01912 2.55214 2.77668 3.74596 2.93434 3.32153 2.96528 2.94764 2.53824 2.75770 2.70005 5.06991 3.71197 1120 a - - -\n- 2.68564 4.42238 2.77540 2.73142 3.46370 2.40524 3.72522 3.29363 2.67710 2.69365 4.24674 2.90357 2.73693 3.18166 2.89803 2.37886 2.77533 2.98522 4.58471 3.61530\n- 0.12305 2.52793 3.32533 2.72471 0.06781 0.47231 0.97700\n- 577 2.62198 4.62797 2.81026 2.46068 3.81864 3.22054 3.37858 3.33424 2.07331 2.85090 3.83443 2.87794 3.76532 2.73360 2.43518 2.65726 2.87657 3.04190 5.09577 3.77725 1263 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03009 3.51842 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_C__RT_1_C2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_C__RT_1_C2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1712 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_I_C__RT_1_C2\n-LENG 563\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:28 2021\n-NSEQ 68\n-EFFN 1.240967\n-CKSUM 2404685688\n-GA 200 200;\n-STATS LOCAL MSV -12.0378 0.69748\n-STATS LOCAL VITERBI -12.8218 0.69748\n-STATS LOCAL FORWARD -6.2862 0.69748\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64849 4.51284 2.95966 2.65467 3.04781 3.11772 3.71108 2.75970 2.46670 2.42931 3.70413 2.86340 3.57370 3.01957 2.95813 2.69708 2.83853 2.77978 5.03314 3.25188\n- 2.68641 4.42186 2.77539 2.73136 3.46328 2.40528 3.72473 3.29309 2.67752 2.69332 4.24527 2.90354 2.73759 3.18168 2.89802 2.37882 2.77525 2.98529 4.58505 3.61432\n- 0.44179 2.02860 1.48902 2.08825 0.13228 0.00000 *\n- 1 2.59176 4.38490 3.21858 2.77630 3.53243 3.51666 3.76259 2.68697 2.61911 2.58747 2.15130 3.01238 3.90843 2.90099 3.04333 2.77522 2.82503 2.65198 4.95339 3.70461 52 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02697 4.02224 4.74459 0.61958 0.77255 0.39213 1.12582\n- 2 2.59358 4.38616 3.05094 2.59234 3.50219 3.36957 3.72469 3.13266 2.38180 2.76708 2.50429 2.64025 3.88997 2.88218 2.96405 2.60219 2.81534 2.84375 5.14649 3.73029 53 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02164 4.23966 4.96200 0.61958 0.77255 0.48435 0.95737\n- 3 2.63064 5.01868 2.88672 2.22682 4.07305 3.42392 3.61586 3.77009 2.02367 3.13254 3.85088 2.53756 3.65976 2.61177 2.68434 2.50920 2.65639 3.32476 5.48013 3.77311 54 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02128 4.25621 4.97856 0.61958 0.77255 0.47820 0.96732\n- 4 2.75532 4.15745 4.43081 3.85126 1.93533 3.70892 4.04347 2.21551 3.68761 1.79486 3.11939 3.92497 4.23284 3.84025 3.77500 3.18482 2.98559 2.38599 4.21964 2.53264 55 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02109 4.26534 4.98769 0.61958 0.77255 0.48576 0.95510\n- 5 2.58254 4.76116 2.75012 2.21006 4.37509 3.33037 3.55544 3.83823 2.10336 3.35395 4.00894 2.32931 3.81322 2.63812 2.84652 2.37836 2.76743 3.43595 5.51583 3.57870 56 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05130 4.26534 3.32545 0.61958 0.77255 0.48576 0.95510\n- 6 2.64715 5.12482 2.35684 1.98072 3.99648 3.32172 3.52825 3.92920 2.23657 3.42222 4.17175 2.45887 3.80702 2.55828 2.75513 2.61295 2.83971 3.50653 5.56573 4.03064 57 e - - -\n- 2.68615 4.42226 2.77520 2.73124 3.46338 2.40514 3.72495 3.29355 2.67742 2.69356 4.24691 2.90348 2.73740 3.18147 2.89802 2.37888 2.77520 2.98514 4.58478 3.61504\n- 0.03607 3.56129 4.95812 0.77631 0.61637 0.52441 0.89625\n- 7 2.82985 4.29787 4.71674 4.14017 2.96916 4.19025 4.55710 1.34398 3.99916 1.90570 2.82215 4.270'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02192 4.22709 4.94944 0.61958 0.77255 0.58049 0.82013\n- 556 2.61021 3.54855 3.93614 3.35435 3.24086 3.68913 3.98411 1.87266 2.99528 2.18102 3.18745 3.45877 4.06128 3.49543 3.26358 2.76799 2.84297 2.06666 4.74168 3.54282 947 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03175 4.22709 4.09505 0.61958 0.77255 0.58049 0.82013\n- 557 2.56400 5.04177 2.71743 2.14040 4.35110 3.35042 3.60003 3.72234 2.08315 3.12161 3.97641 2.68876 3.80159 2.56179 2.81023 2.39507 2.70827 3.29747 5.49612 3.93760 948 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03684 4.21748 3.84261 0.61958 0.77255 0.59175 0.80599\n- 558 2.62966 5.05625 2.32002 2.13427 4.36605 3.40190 3.34231 3.45006 2.26493 3.13559 4.10754 2.49958 3.80204 2.68175 2.84386 2.51417 2.80189 3.35170 5.50936 4.11851 949 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02868 4.20309 4.31854 0.61958 0.77255 0.60818 0.78601\n- 559 2.65428 4.48947 3.26830 2.85633 3.00388 3.60665 3.64924 3.01943 2.63677 2.69401 3.59568 3.15441 3.99636 3.13743 3.10579 2.86668 2.93019 2.78552 4.77746 1.74276 950 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06517 4.19702 3.03553 0.61958 0.77255 0.61497 0.77796\n- 560 2.52985 4.95843 2.91654 2.19184 3.86246 3.22021 3.50068 3.68844 2.11370 3.23738 3.92986 2.47271 3.69440 2.72232 2.80304 2.42907 2.68975 3.31670 5.42863 3.94376 951 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05427 4.15542 3.29283 0.61958 0.77255 0.65921 0.72828\n- 561 2.57065 5.01874 2.74506 2.20763 4.32709 3.32714 3.58072 3.69029 2.07865 3.20708 3.92881 2.49796 3.78311 2.57469 2.71155 2.42575 2.80513 3.26946 5.47287 4.08756 952 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09624 4.12544 2.58235 0.61958 0.77255 0.68886 0.69746\n- 562 2.55725 4.82000 2.96021 2.32159 3.93669 3.18797 3.60264 3.42599 2.19365 2.96235 3.71759 2.74308 3.69216 2.70700 2.57851 2.44715 2.74706 3.15881 5.31296 3.63133 953 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08424 4.05528 2.75736 0.61958 0.77255 0.64942 0.73887\n- 563 2.56842 4.71427 2.95731 2.34102 3.93920 3.40987 3.41276 3.21220 2.27811 2.66826 3.64984 2.87833 3.72364 2.73732 2.76985 2.47406 2.62193 3.00294 5.22519 3.77654 954 k - - -\n- 2.68647 4.42264 2.77501 2.73128 3.46351 2.40554 3.72525 3.29312 2.67670 2.69339 4.24701 2.90311 2.73778 3.18156 2.89834 2.37892 2.77527 2.98498 4.58520 3.61433\n- 0.41970 1.07073 * 2.25443 0.11086 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_C__RT_1_C3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_I_C__RT_1_C3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1751 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_I_C__RT_1_C3\n-LENG 576\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:29 2021\n-NSEQ 9\n-EFFN 0.997559\n-CKSUM 3269671403\n-GA 200 200;\n-STATS LOCAL MSV -11.8695 0.69737\n-STATS LOCAL VITERBI -13.0536 0.69737\n-STATS LOCAL FORWARD -6.1929 0.69737\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66080 4.36680 2.94980 2.67779 3.08555 3.08683 3.66675 2.67532 2.50928 2.45575 3.69449 2.91518 3.53570 3.05585 2.94450 2.67619 2.87846 2.70388 4.98139 3.30577\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02279 4.18854 4.91089 0.61958 0.77255 0.00000 *\n- 1 3.25086 4.75541 4.40789 4.03725 3.39027 4.08156 4.69939 2.59970 3.78513 1.94668 0.87890 4.27208 4.55385 4.15141 3.95080 3.62750 3.56769 2.64052 5.26610 4.05107 1 m - - -\n- 2.68666 4.42291 2.77480 2.73065 3.46240 2.40579 3.72513 3.29273 2.67654 2.69300 4.24755 2.90289 2.73770 3.18186 2.89846 2.37941 2.77532 2.98561 4.58543 3.61481\n- 0.68818 1.13665 1.73378 2.26368 0.10978 0.48576 0.95510\n- 2 2.66331 4.99133 2.83896 1.98238 4.30593 2.91618 3.59516 3.73902 2.11410 3.27500 4.07054 2.89139 3.80847 2.72333 2.41825 2.65261 2.59506 3.37098 5.44774 4.09920 31 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02750 4.00312 4.72546 0.61958 0.77255 0.67803 0.70849\n- 3 3.42842 4.79241 4.41786 4.15861 0.81995 4.08464 3.94097 2.93765 4.06273 2.27831 3.64945 4.16830 4.54141 4.19508 4.15012 3.69065 3.73019 2.93769 4.15405 2.50581 32 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02750 4.00312 4.72546 0.61958 0.77255 0.67803 0.70849\n- 4 2.73243 4.56765 3.29207 2.79612 3.44947 3.57326 3.01675 3.05456 2.54122 1.74730 3.61017 3.22392 3.97285 2.63801 2.84572 2.87537 2.96069 2.85033 4.90981 3.54911 33 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02750 4.00312 4.72546 0.61958 0.77255 0.67803 0.70849\n- 5 2.39451 4.98074 2.66524 2.11644 4.30103 3.32886 3.63955 3.74435 2.43743 3.30058 4.10404 2.51541 3.79721 2.45031 2.90590 2.13142 2.91158 3.37351 5.49769 4.12509 34 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10788 4.00312 2.47691 0.61958 0.77255 0.67803 0.70849\n- 6 3.08428 4.42746 4.65202 4.11248 3.30839 4.37570 4.78681 1.64168 3.99190 1.43478 3.12137 4.37476 4.64247 4.21334 4.18531 3.72536 3.32859 1.46505 5.28077 4.12512 35 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02977 3.92501 4.64735 0.61958 0.77255 0.74055 0.64789\n- 7 2.61578 4.81688 2.83697 2.42077 4.21599 3.32220 3.64291 3.63263 1.92149 3.21030 4.02985 2.5170'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02804 3.98399 4.70633 0.61958 0.77255 0.69417 0.69213\n- 569 2.83443 5.18329 2.74760 1.94144 4.53621 3.42389 3.61662 3.95927 1.64038 3.44255 4.26254 2.90532 3.87473 2.41585 2.52917 2.79313 3.05430 3.58805 5.55890 4.23810 663 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10879 3.98399 2.47134 0.61958 0.77255 0.69417 0.69213\n- 570 2.80688 4.54728 3.47415 2.99479 3.50575 3.64019 3.88788 2.74375 2.21551 1.52462 3.49515 3.38557 4.05922 3.17184 2.85749 3.00782 3.05179 2.61358 5.04577 3.77658 664 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90556 4.62790 0.61958 0.77255 0.75481 0.63507\n- 571 2.18131 1.93503 3.79850 3.42892 3.87505 2.95656 4.23553 3.17862 3.31673 2.99571 3.89885 3.43366 3.69232 3.61576 3.54314 1.68148 2.65730 2.78293 5.32034 4.10607 665 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90556 4.62790 0.61958 0.77255 0.75481 0.63507\n- 572 2.47107 2.79641 3.57611 3.04192 3.45516 3.41027 3.90819 2.34093 2.95578 2.50033 3.42452 2.78604 3.89052 3.26940 3.26580 2.72629 2.45076 2.41606 4.92833 3.70242 666 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90556 4.62790 0.61958 0.77255 0.75481 0.63507\n- 573 2.69436 5.13231 2.21782 2.20029 4.43864 2.79796 3.60781 3.90736 2.15521 3.42358 4.21760 2.45548 3.77045 2.43213 2.91094 2.64600 2.94257 3.50960 5.59035 4.18056 667 k - - -\n- 2.68621 4.42229 2.77523 2.73108 3.46357 2.40516 3.72498 3.29325 2.67744 2.69358 4.24608 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61507\n- 0.12523 2.22630 4.62790 0.85830 0.55144 0.75481 0.63507\n- 574 2.56669 4.71688 2.14787 2.37910 4.30629 3.12801 3.81276 3.78218 2.75720 3.40991 4.25921 2.87258 3.75464 3.00856 3.22937 1.53012 2.92745 3.36072 5.59223 4.21866 671 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90556 4.62790 0.61958 0.77255 0.75481 0.63507\n- 575 2.74791 4.36671 3.65716 2.66392 3.38615 3.76046 4.04291 1.89513 3.02178 1.81449 3.29987 3.53107 4.12954 3.37775 3.32889 3.05467 2.98554 2.18849 5.01823 3.78932 672 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03036 3.90556 4.62790 0.61958 0.77255 0.75481 0.63507\n- 576 3.10055 4.60305 3.98575 3.55269 2.34050 3.95732 3.65312 2.85387 3.35167 1.95909 3.55087 3.72758 4.33148 3.64574 3.56011 3.31504 3.34414 2.76304 4.00955 1.38834 673 y - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72495 3.29355 2.67725 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.10979 2.26355 * 0.40138 1.10684 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VIII__DUF626.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VIII__DUF626.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,389 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Retron_VIII__DUF626\n-ACC PF04776.13\n-DESC Protein MS5\n-LENG 120\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Apr 17 04:51:20 2020\n-NSEQ 51\n-EFFN 1.864563\n-CKSUM 974290242\n-GA 25.00 25.00;\n-TC 28.90 25.00;\n-NC 22.80 20.20;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.5684 0.71349\n-STATS LOCAL VITERBI -10.7893 0.71349\n-STATS LOCAL FORWARD -4.2203 0.71349\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57576 4.40152 2.94515 2.53678 3.31955 3.32410 3.69071 2.79282 2.58811 2.40151 3.60384 3.08132 3.46897 3.07202 2.90199 2.69435 2.84599 2.61413 4.27804 3.28239\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12090 4.57588 2.26745 0.61958 0.77255 0.00000 *\n- 1 3.31103 4.67820 4.91709 4.34228 3.04955 4.49707 4.77650 2.48123 4.18524 1.08775 1.48118 4.53719 4.74658 4.30564 4.28744 3.57883 3.53569 2.57075 5.15773 4.02564 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01712 4.47210 5.19445 0.61958 0.77255 0.54261 0.87043\n- 2 2.88608 4.78738 3.75856 3.67258 4.82517 3.47913 4.81395 4.42341 3.80797 4.08913 5.01817 3.85638 0.49889 4.15403 4.05169 2.85806 3.39980 3.86942 6.12085 4.91382 2 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03391 4.51432 3.79928 0.61958 0.77255 0.48700 0.95313\n- 3 2.75274 4.64476 2.11732 1.87689 4.59843 3.32634 3.70351 4.08395 1.98855 3.56274 4.30679 2.54175 3.90073 2.69839 2.95329 2.59154 2.98701 3.64813 5.69545 4.28065 3 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01605 4.53560 5.25795 0.61958 0.77255 0.48817 0.95127\n- 4 2.91461 3.57697 4.41336 3.85900 2.64947 3.97433 4.08387 2.81127 3.70647 2.36883 3.48623 3.97183 4.35813 3.89893 3.84937 2.86115 3.15872 2.63162 1.27551 3.09535 4 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01567 4.55970 5.28205 0.61958 0.77255 0.46794 0.98429\n- 5 2.88627 4.34150 4.36665 3.78108 2.72414 4.00387 4.29296 2.54273 3.65897 1.61170 2.78067 3.98946 1.80261 3.85809 3.82739 3.29566 3.11586 2.44130 4.90970 3.50051 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57588 5.29823 0.61958 0.77255 0.48576 0.95510\n- 6 2.73926 5.02358 2.95840 2.46157 4.33122 3.33853 3.76971 3.76662 2.55416 3.23118 4.13076 3.05765 2.50268 2.76637 3.02710 1.59300 2.76165 3.27856 5.54793 4.19043 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01542 4.57588 5.29823 0.61958 0.77255 0.48576 0.95510\n- 113 2.69223 5.18241 2.84980 1.89131 4.49691 1.93455 3.57739 3.96253 2.35627 3.47461 3.77535 2.98986 3.43518 2.82474 2.88785 2.63468 2.97835 3.55715 5.63386 4.24007 148 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09998 4.57588 2.46693 0.61958 0.77255 0.48576 0.95510\n- 114 2.64155 5.00761 2.96892 2.48038 4.27953 3.37264 3.44945 3.05448 1.90415 2.75167 3.83705 2.90799 3.89732 2.47276 2.67084 2.65962 2.62934 3.35838 5.48583 4.12632 149 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02890 4.49267 4.05705 0.61958 0.77255 0.43112 1.04920\n- 115 2.72184 4.87021 3.15375 2.56359 4.09724 3.56206 3.76758 3.50522 2.45669 2.90351 3.74370 3.10753 2.14938 2.80508 2.93322 2.46012 2.14708 3.19616 5.38172 3.82900 150 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01574 4.55553 5.27787 0.61958 0.77255 0.52227 0.89936\n- 116 2.95904 5.45420 2.58380 2.07638 4.76052 1.40039 3.48286 4.24512 2.70419 3.74438 4.53101 2.72642 4.01674 2.51333 3.22164 2.79885 3.20995 3.82933 5.90147 4.46776 151 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01574 4.55553 5.27787 0.61958 0.77255 0.52227 0.89936\n- 117 2.71338 3.06887 3.40072 3.03549 3.40895 3.69575 1.94980 2.63800 2.98779 2.55881 3.53004 3.43756 3.83252 3.02528 3.33802 2.84235 2.94514 2.63167 5.00612 3.00344 152 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01574 4.55553 5.27787 0.61958 0.77255 0.52227 0.89936\n- 118 3.49082 4.77765 5.39067 4.79478 2.41331 4.76958 5.07521 1.97962 4.63453 1.13309 1.73277 4.91076 4.94874 4.61901 4.62259 4.11579 3.70557 2.27175 5.29641 4.25655 153 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02883 4.55553 4.02252 0.61958 0.77255 0.52227 0.89936\n- 119 2.71011 2.94098 3.39614 2.83278 3.75370 3.62895 3.87178 3.03328 2.70339 2.81399 3.68519 3.28784 4.01778 3.12505 2.58659 1.90466 2.32093 2.79361 5.14967 3.55011 154 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04207 4.54264 3.48821 0.61958 0.77255 0.50741 0.92144\n- 120 3.83739 5.07048 5.60201 5.07023 3.34449 5.19002 5.51507 1.90552 4.89352 0.56385 3.11085 5.30646 5.26527 4.89178 4.91809 4.60735 4.05673 2.51485 5.57238 4.54718 155 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 4.52490 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VII_1__RT_7_A1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VII_1__RT_7_A1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1790 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_VII_1__RT_7_A1\n-LENG 589\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:33 2021\n-NSEQ 8\n-EFFN 0.847656\n-CKSUM 916869649\n-GA 150 150;\n-STATS LOCAL MSV -11.6571 0.69731\n-STATS LOCAL VITERBI -12.7515 0.69731\n-STATS LOCAL FORWARD -6.3085 0.69731\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51048 4.52348 2.91640 2.66475 3.24583 3.04199 3.57332 2.82303 2.64720 2.40351 3.70678 3.08500 3.35202 3.08641 2.81870 2.66963 2.86478 2.67352 4.69109 3.39165\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31730 4.10321 1.36506 0.61958 0.77255 0.00000 *\n- 1 2.92860 4.48625 3.99260 3.58293 3.18661 3.79426 4.33048 2.35697 3.35357 1.79020 1.48432 3.86674 4.25537 3.73948 3.56498 3.27172 3.23328 2.35665 5.01977 3.77631 1 m - - -\n- 2.68624 4.42155 2.77526 2.73129 3.46360 2.40509 3.72501 3.29360 2.67747 2.69348 4.24696 2.90353 2.73746 3.18153 2.89790 2.37873 2.77526 2.98506 4.58483 3.61509\n- 0.11111 2.35916 4.54141 1.32739 0.30812 0.73611 0.65195\n- 2 2.20292 4.14210 3.22006 2.95076 4.09721 2.91550 4.04921 3.43671 2.97583 3.19242 4.07116 3.17281 3.63815 3.31895 3.28518 1.45652 2.23258 2.98123 5.46608 4.21490 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03315 3.81906 4.54141 0.61958 0.77255 0.73611 0.65195\n- 3 3.09635 4.57508 4.10320 3.74392 3.11723 3.91331 4.41645 2.31972 3.51215 0.94394 3.15890 4.02444 4.35862 3.89331 3.69651 3.47954 3.39347 2.34296 4.97602 3.68664 10 l - - -\n- 2.68621 4.42229 2.77523 2.73127 3.46357 2.40516 3.72498 3.29333 2.67718 2.69345 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61507\n- 0.11111 2.35916 4.54141 0.97645 0.47264 0.44509 1.02378\n- 4 2.64854 4.76344 2.37616 2.46341 3.97643 3.41700 3.67735 3.35021 2.22527 2.98688 2.36245 2.97479 3.84653 2.85423 2.91467 2.69907 2.88806 3.06181 5.28424 3.96346 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02665 4.03424 4.75658 0.61958 0.77255 0.44220 1.02896\n- 5 2.11633 4.75394 2.68264 2.45893 4.03608 3.39436 3.66726 3.43549 2.48626 3.06019 3.25296 2.41360 3.81926 2.82806 2.94452 2.63797 2.56927 3.11233 5.31581 3.98686 16 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02485 4.10321 4.82556 0.61958 0.77255 0.48576 0.95510\n- 6 3.75353 4.95646 4.74649 4.45844 1.04782 4.48423 3.51608 3.41224 4.29614 2.72196 4.00222 4.15725 4.78659 4.22793 4.30024 3.85972 3.97346 3.34523 3.64393 1.29635 17 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02485 4.10321 4.82556 0.61958 0.77255 0.48576 0.95510\n- 7 2.17974 4.72029 2.53766 2.47737 3.97375 3.41392 3.66402 2.98705 2.48961 3.00125 3.82992 2.738'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02485 4.10321 4.82556 0.61958 0.77255 0.48576 0.95510\n- 582 2.44190 4.70606 3.09418 2.52756 3.92751 3.46255 3.18164 3.32262 2.11384 2.66643 3.78841 3.02468 3.84946 2.83014 2.60972 2.68201 2.54225 2.77352 5.21899 3.91795 641 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08940 4.10321 2.67358 0.61958 0.77255 0.48576 0.95510\n- 583 2.66398 4.85919 2.85763 2.47062 4.27369 3.34598 3.70180 3.72213 2.41301 3.29080 4.11477 2.14578 2.25596 2.85837 2.47095 2.69076 2.93958 3.35176 5.46770 4.13876 642 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02648 4.04029 4.76264 0.61958 0.77255 0.55355 0.85544\n- 584 2.73357 4.38302 3.69618 3.16890 3.01272 3.65885 3.82941 2.83601 2.99067 2.18722 3.46143 3.48752 2.77170 3.35081 3.26592 2.97186 2.98598 2.65983 2.08112 3.13063 643 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09518 4.04029 2.61452 0.61958 0.77255 0.55355 0.85544\n- 585 2.70018 5.09588 2.08050 2.22889 4.38712 3.28818 2.88095 3.87698 2.49703 3.41230 4.21440 2.49944 3.78942 2.78892 3.00282 2.12124 2.95750 3.48678 5.58297 4.16859 644 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10962 3.97345 2.46490 0.61958 0.77255 0.61676 0.77585\n- 586 2.59654 4.42521 2.71040 2.74961 3.66208 3.46733 3.85173 2.02086 2.78739 2.61553 3.58392 3.19493 3.91930 3.11029 3.17856 2.77974 2.44432 2.44242 5.12999 3.85716 645 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03070 3.89453 4.61687 0.61958 0.77255 0.68184 0.70458\n- 587 2.76820 5.07186 2.75589 1.82511 4.39834 3.39258 3.58978 3.82384 2.18643 3.33366 4.15894 2.88827 3.83739 2.38060 2.19058 2.74314 2.99146 3.46730 5.47472 4.15490 646 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03070 3.89453 4.61687 0.61958 0.77255 0.68184 0.70458\n- 588 2.66123 4.94301 2.18891 2.24798 4.35595 3.20754 3.69948 3.80092 2.59475 3.39279 4.22391 1.88806 3.76925 2.86526 3.08948 2.65233 2.48964 3.41296 5.59326 4.19709 647 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03070 3.89453 4.61687 0.61958 0.77255 0.68184 0.70458\n- 589 2.51784 4.47198 3.08767 2.61949 3.77358 3.33723 3.72846 3.12409 2.58383 2.31459 3.69749 2.58557 3.07304 2.95318 2.97189 2.64040 2.49810 2.84145 5.13988 3.85761 648 l - - -\n- 2.68584 4.42261 2.77519 2.73138 3.46390 2.40523 3.72530 3.29353 2.67737 2.69391 4.24646 2.90341 2.73737 3.18122 2.89775 2.37871 2.77515 2.98532 4.58402 3.61539\n- 0.22773 1.59131 * 2.26321 0.10983 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VII_2__DUF3800.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VII_2__DUF3800.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,353 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Retron_VII_2__DUF3800\n-ACC PF12686.8\n-DESC Protein of unknown function (Retron_VII_2__DUF3800)\n-LENG 108\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sun Apr 19 01:19:18 2020\n-NSEQ 248\n-EFFN 12.832153\n-CKSUM 659890937\n-GA 20.30 20.30;\n-TC 20.30 20.30;\n-NC 20.20 20.20;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -9.7248 0.71574\n-STATS LOCAL VITERBI -10.8953 0.71574\n-STATS LOCAL FORWARD -3.6797 0.71574\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63469 4.30455 2.71224 2.69210 3.21308 2.66224 3.67296 2.96373 2.65996 2.56129 4.03333 2.97674 3.10880 3.10610 2.92707 2.48495 2.90951 2.88645 4.71020 3.43730\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.00000 *\n- 1 3.50459 3.65550 2.79793 3.24486 2.53761 4.35180 3.45669 2.00919 3.17669 1.86732 3.84536 2.87970 4.07459 3.51730 3.49815 3.31269 2.52215 3.03217 4.30132 2.85732 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 2 1.88615 2.64097 5.68878 5.07385 2.70149 4.88398 5.22070 1.50413 4.85682 1.80929 3.25227 5.05149 5.24510 4.98477 4.86018 4.19700 3.94008 1.81111 5.70694 3.59912 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 3 6.48527 7.22548 7.09187 7.16555 0.87168 6.75694 4.80555 5.99044 6.92004 5.01859 6.46314 6.20662 6.98588 6.42313 6.61921 6.18440 6.65464 5.96896 5.28912 0.61613 3 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01043 6.19773 4.78603 0.61958 0.77255 0.48576 0.95510\n- 4 3.18389 2.48428 5.64745 5.03110 2.31517 4.84006 5.17443 1.45473 4.81265 1.75683 3.33790 3.62613 5.20358 4.94108 4.81563 3.67826 3.68178 1.82885 5.66391 3.18821 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00305 6.19034 6.91269 0.61958 0.77255 0.44633 1.02157\n- 5 6.73276 7.97801 0.01675 5.90768 7.92262 6.23064 7.42177 8.17070 6.90329 7.34506 8.58905 6.46204 6.91046 6.91003 7.19820 6.74320 7.12061 7.72897 8.40897 7.93229 5 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 6 4.72266 5.27613 2.13378 0.22630 7.07880 4.59261 5.66812 6.71885 4.96100 6.13471 7.09838 4.37655 5.64752 4.86983 5.76333 4.73192 5.28297 6.17583 8.27623 6.59248 6 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 101 3.06086 3.32402 5.65223 5.03584 2.64875 3.65708 4.40744 1.85832 4.81737 1.62886 3.44276 4.78006 5.20839 4.94579 4.82035 3.88211 3.38673 1.38169 5.66866 2.68573 977 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 102 0.91874 2.51446 5.59012 4.97836 4.14960 4.83716 5.16987 2.72838 4.77381 2.38961 3.35072 4.44515 4.19624 4.91405 4.79889 2.52932 2.98468 2.38151 5.67803 4.50097 978 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 103 2.98301 5.71294 3.93079 3.31891 3.18304 1.54265 3.59035 4.34054 3.45026 3.74080 4.78884 2.52943 4.65013 3.79628 3.40602 2.13299 3.47414 4.03493 2.15201 2.28033 979 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 104 1.42764 3.94784 5.03199 4.40560 3.25152 3.20736 3.86801 2.19094 4.41571 2.12328 3.45602 4.05661 3.01909 4.79303 4.10725 2.42747 2.40437 2.85381 4.96182 4.35632 980 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 105 2.66895 4.09013 5.64736 4.52491 2.00357 4.60908 4.48948 1.48998 4.16320 1.81735 3.33408 4.78132 5.20779 4.58151 4.81856 3.50524 2.98845 1.83691 5.66914 3.53508 981 i - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24641 2.90349 2.73742 3.18149 2.89791 2.37889 2.77522 2.98521 4.58381 3.61505\n- 0.02063 3.94068 6.92008 0.29173 1.37425 0.48576 0.95510\n- 106 2.25853 3.20639 3.97663 3.51136 2.19042 2.65598 3.69929 4.02737 3.14651 3.12914 4.47923 2.54956 4.83230 2.58858 2.50021 2.26825 3.31637 3.54331 3.68829 3.06532 983 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 107 2.43818 5.98552 3.69267 3.27733 2.86946 3.36434 3.86875 4.25896 2.16406 3.63394 3.96280 2.69482 4.73187 2.45594 1.45357 3.02917 3.38936 4.17171 4.37448 2.90174 984 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00303 6.19773 6.92008 0.61958 0.77255 0.48576 0.95510\n- 108 2.39813 4.53340 4.15613 2.98275 3.21293 3.42578 2.51835 3.22892 2.19921 2.29848 3.71088 3.43536 3.74891 3.34730 2.64597 2.60661 3.58371 2.57930 4.35995 2.97009 985 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00204 6.19674 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VI__HTH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_VI__HTH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,320 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_VI__HTH\n-LENG 99\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:24 2021\n-NSEQ 71\n-EFFN 2.223083\n-CKSUM 2429786946\n-GA 60 60;\n-STATS LOCAL MSV -9.4996 0.71779\n-STATS LOCAL VITERBI -10.2072 0.71779\n-STATS LOCAL FORWARD -4.2619 0.71779\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53399 4.75061 3.07605 2.49257 3.38647 3.26415 3.79649 2.74899 2.48489 2.25658 3.67205 3.08641 3.60050 3.01410 2.80845 2.49564 2.91546 2.82996 5.13344 3.60052\n- 2.68633 4.42247 2.77519 2.73132 3.46376 2.40535 3.72517 3.29365 2.67742 2.69348 4.23941 2.90360 2.73762 3.18145 2.89806 2.37909 2.77519 2.98522 4.58499 3.61525\n- 0.49416 0.99200 3.95902 0.70205 0.68432 0.00000 *\n- 1 2.77614 5.08709 2.55240 2.46983 4.35758 3.37811 3.77683 3.58006 2.42326 3.35976 1.90060 2.32259 3.96860 2.82514 3.02946 2.77989 2.79694 3.43719 5.56681 4.20466 12 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68580 5.40814 0.61958 0.77255 0.51596 0.90864\n- 2 3.27554 4.61076 5.12165 4.52970 3.12005 4.48992 4.75766 1.43485 4.35611 1.15924 3.01599 4.60410 4.76213 4.42941 4.38297 3.81628 3.49945 2.55817 5.11294 2.53590 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68580 5.40814 0.61958 0.77255 0.51596 0.90864\n- 3 2.65156 5.07567 2.86439 2.54925 3.76048 1.68774 3.31376 3.78044 2.57218 3.35117 4.14506 2.39722 3.97407 2.92010 3.04881 2.61750 3.01370 3.42706 5.56018 3.73554 14 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68580 5.40814 0.61958 0.77255 0.51596 0.90864\n- 4 2.69255 5.25437 2.81528 1.84686 4.59354 3.53484 3.72194 3.90630 1.98453 3.55664 4.29681 2.91463 3.92826 2.43249 2.51335 2.42837 2.79730 3.64189 4.23998 4.28379 15 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68580 5.40814 0.61958 0.77255 0.51596 0.90864\n- 5 0.94879 4.57857 3.83960 3.37822 4.35982 3.44850 4.39681 3.73315 3.35884 3.43521 4.27972 3.06480 4.10211 3.66033 3.71245 2.54959 2.10303 2.85772 5.73220 4.50267 16 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68580 5.40814 0.61958 0.77255 0.51596 0.90864\n- 6 3.92200 5.12744 5.81568 5.28321 3.49871 5.35282 5.72293 1.37301 5.13499 0.71665 3.24911 5.49930 5.40946 5.09642 5.13744 4.77568 4.14251 2.46895 5.74191 4.73427 17 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01380 4.68580 5.40814 0.61958 0.77255 0.51596 0.90864\n- 7 3.67190 5.75523 4.26808 3.36568 5.37812 4.21104 3.96154 4.62640 1.09218 3.94137 4.82493 3.69747 4.519'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10643 4.64879 2.39266 0.61958 0.77255 0.58603 0.81312\n- 92 2.35282 5.07203 2.68292 1.74641 3.53710 3.19876 3.70998 3.48454 2.35195 3.02032 4.12879 3.01005 3.90714 2.67987 2.95382 2.71051 2.87578 3.43053 5.54168 3.84084 113 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08913 4.55806 2.59307 0.61958 0.77255 0.73076 0.65690\n- 93 2.42244 5.14167 2.90199 1.83599 4.46044 3.32096 3.32555 3.32837 2.37927 3.43545 4.18973 2.50717 3.35780 2.77509 2.55417 2.67137 2.92769 3.38909 5.59016 4.19588 114 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01688 4.48582 5.20816 0.61958 0.77255 0.82505 0.57663\n- 94 2.61993 5.14235 2.68677 2.26738 3.77727 3.30292 3.47318 3.93068 1.95239 3.43663 4.18981 2.95526 3.87039 2.60890 2.40029 2.53418 2.74420 2.98680 5.59006 4.19527 115 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05129 4.48582 3.25114 0.61958 0.77255 0.82505 0.57663\n- 95 2.55036 5.17749 2.53888 2.21257 4.51329 2.94301 3.65136 3.99324 2.34056 3.47879 4.22096 2.50075 3.53658 2.55155 2.65743 2.38579 2.59444 3.56321 5.61551 3.90481 116 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02468 4.45199 4.36458 0.61958 0.77255 0.86422 0.54711\n- 96 2.32668 5.18646 2.63875 1.93706 4.52094 2.98736 3.65738 4.00108 2.26178 3.48725 4.23130 2.64120 3.43197 2.69302 2.76878 2.66075 2.57476 3.57167 5.62488 4.21751 117 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11428 4.44491 2.34077 0.61958 0.77255 0.87207 0.54143\n- 97 2.65679 5.03904 2.76293 2.25243 4.33537 3.33753 3.22120 3.34138 2.19653 2.79649 4.09318 2.94044 3.84273 2.68260 2.39715 2.38649 2.81613 3.30815 5.50134 4.12356 118 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01936 4.34999 5.07233 0.61958 0.77255 0.96702 0.47838\n- 98 2.49499 5.01533 2.96840 2.05822 4.30379 3.35110 3.64770 3.56606 2.13311 2.88195 4.07212 2.79063 3.51823 2.76685 2.69886 2.36144 2.83028 3.16097 5.48354 4.11116 119 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07598 4.34999 2.80919 0.61958 0.77255 0.90519 0.51830\n- 99 2.50141 5.02326 2.52867 2.29404 4.31679 3.44220 3.29907 3.43541 2.17375 3.20971 3.48219 2.93326 3.16815 2.75162 2.58323 2.59090 2.81329 3.27930 5.48796 3.90755 120 k - - -\n- 2.68586 4.42272 2.77548 2.73101 3.46401 2.40531 3.72487 3.29366 2.67633 2.69379 4.24737 2.90386 2.73760 3.18146 2.89766 2.37862 2.77528 2.98546 4.58524 3.61550\n- 0.72363 0.66357 * 1.42776 0.27423 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_V__CSD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_V__CSD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,641 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_V__CSD\n-LENG 206\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 11:38:43 2021\n-NSEQ 494\n-EFFN 5.340561\n-CKSUM 2442765254\n-GA 90 90;\n-STATS LOCAL MSV -10.4246 0.70500\n-STATS LOCAL VITERBI -11.5629 0.70500\n-STATS LOCAL FORWARD -4.5568 0.70500\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50022 4.42843 3.00307 2.73642 3.08922 2.74244 3.76415 2.72975 2.66377 2.41871 3.60924 3.11923 3.45052 3.14366 3.06501 2.67209 2.84380 2.52440 4.90488 3.61674\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03056 3.89903 4.62138 0.61958 0.77255 0.00000 *\n- 1 2.98990 4.53444 4.07781 3.67314 3.21908 3.85385 4.40213 2.39732 3.43982 1.80965 1.32795 3.94740 4.31449 3.81988 3.64204 3.34185 3.29567 2.40655 5.06352 3.82770 1 m - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46340 2.40515 3.72497 3.29356 2.67743 2.69332 4.24692 2.90349 2.73742 3.18148 2.89803 2.37889 2.77522 2.98520 4.58479 3.61505\n- 0.44463 1.70804 1.72757 0.30309 1.34144 0.48576 0.95510\n- 2 2.83596 4.77853 3.00127 2.66230 4.12846 3.33468 3.69015 3.54950 1.27943 3.15335 4.13078 3.09111 3.85242 2.89632 2.42936 2.89274 3.10519 3.26867 5.25433 4.04667 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03684 3.71526 4.43761 0.61958 0.77255 0.63196 0.75833\n- 3 2.89177 4.33596 4.27783 3.79876 3.32766 4.03397 4.57632 1.44632 3.64997 1.87427 3.19601 4.06845 4.42396 3.96788 3.88626 3.41833 3.17695 1.56624 5.23614 4.00013 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03684 3.71526 4.43761 0.61958 0.77255 0.63196 0.75833\n- 4 2.35422 4.13820 3.49089 3.13232 3.61293 3.16758 4.06680 2.56548 3.04769 2.58797 3.63575 3.35799 3.80515 3.40992 3.32520 2.23915 2.75566 1.71368 5.15920 3.87475 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03684 3.71526 4.43761 0.61958 0.77255 0.63196 0.75833\n- 5 2.76023 4.82433 2.85295 2.49510 3.82508 3.37315 2.30062 3.54396 1.96174 3.10038 3.99917 2.96254 3.84049 2.79356 2.47000 2.78965 2.99755 3.24670 5.10593 3.72618 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03684 3.71526 4.43761 0.61958 0.77255 0.63196 0.75833\n- 6 2.61423 4.35497 3.42241 3.02238 3.37250 3.41799 3.95179 2.62643 2.87372 1.65398 3.42187 3.36991 2.94615 3.28866 3.15796 2.83764 2.93151 2.49064 4.97635 3.68241 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03684 3.71526 4.43761 0.61958 0.77255 0.63196 0.75833\n- 7 2.83166 4.34697 4.08775 3.62625 3.27526 3.87326 4.40732 1.96168 3.44719 1.71759 3.21275 3.90255 4.30'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03103 3.88412 4.60647 0.61958 0.77255 0.59624 0.80046\n- 199 2.59458 4.73581 1.99478 2.37563 4.22403 3.18623 3.77596 3.55749 2.69209 3.26124 4.13609 2.87993 3.77263 2.96520 3.15949 2.63857 1.87501 3.20262 5.52255 4.16722 386 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03103 3.88412 4.60647 0.61958 0.77255 0.59624 0.80046\n- 200 2.68947 4.37411 3.62508 3.05732 3.46624 3.64860 3.92804 1.92223 2.76645 2.31805 3.39797 3.43198 4.04376 3.23273 2.37453 2.94775 2.93620 2.20403 5.01324 3.77601 387 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03103 3.88412 4.60647 0.61958 0.77255 0.59624 0.80046\n- 201 2.48279 4.94025 2.14176 2.27560 4.27900 3.28128 3.62475 3.69552 2.09157 3.27745 4.09099 2.81350 3.76746 2.77063 2.90160 2.62699 2.53861 3.32918 5.48471 4.11170 388 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03103 3.88412 4.60647 0.61958 0.77255 0.59624 0.80046\n- 202 2.06465 4.57316 2.89847 2.54350 4.14431 2.35528 3.75036 3.52838 2.07624 3.16685 4.00919 2.98866 3.76120 2.93627 2.89022 2.58685 2.83418 3.15403 5.40151 4.11073 389 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03103 3.88412 4.60647 0.61958 0.77255 0.59624 0.80046\n- 203 3.15016 4.51762 4.58522 4.06511 3.14674 4.36276 4.70992 1.60820 3.88657 1.18509 2.99607 4.34402 4.62415 4.13065 4.06936 3.73004 3.39355 1.96824 5.16020 3.97970 390 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03103 3.88412 4.60647 0.61958 0.77255 0.59624 0.80046\n- 204 2.71772 4.83033 2.93185 2.54186 4.26004 3.35491 3.68058 3.66683 1.59339 3.24165 4.10872 3.00901 2.50415 2.84768 2.57975 2.75494 2.98672 3.32607 5.40251 4.13220 391 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03103 3.88412 4.60647 0.61958 0.77255 0.59624 0.80046\n- 205 2.14054 2.05404 3.71749 3.35037 3.74110 2.91911 4.14811 2.99963 3.21849 2.85730 3.78709 3.37317 3.64394 3.53695 3.44115 1.96328 2.60794 2.63842 5.20405 3.97362 392 s - - -\n- 2.68631 4.42077 2.77533 2.73107 3.46305 2.40526 3.72427 3.29367 2.67754 2.69368 4.24703 2.90360 2.73753 3.18113 2.89814 2.37858 2.77533 2.98532 4.58490 3.61516\n- 0.22077 1.67796 4.47904 1.55148 0.23817 0.59624 0.80046\n- 206 2.81761 4.36148 3.83558 3.34564 2.72202 3.79056 3.83406 1.98461 3.18788 2.10710 3.28924 3.61985 4.16820 3.50194 3.43473 3.11789 3.06451 2.32344 4.38954 2.14350 400 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02391 3.74529 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XIII__ARM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XIII__ARM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3125 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_XIII__ARM\n-LENG 1034\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:21 2021\n-NSEQ 25\n-EFFN 3.598022\n-CKSUM 3455623746\n-GA 100 100;\n-STATS LOCAL MSV -12.6913 0.69551\n-STATS LOCAL VITERBI -13.5161 0.69551\n-STATS LOCAL FORWARD -6.6371 0.69551\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.34157 4.53023 2.96812 2.62453 3.42178 3.13889 3.67596 2.93776 2.67432 2.25667 3.68547 3.15737 3.40183 2.96426 2.79162 2.68374 2.87899 2.78725 4.40372 3.53874\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00936 5.07185 5.79419 0.61958 0.77255 0.00000 *\n- 1 4.01318 5.26151 5.92315 5.37023 3.75874 5.37968 5.77530 2.64033 5.20948 1.79016 0.73426 5.53592 5.52062 5.21866 5.22617 4.77053 4.24163 1.81463 5.91148 4.88133 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00936 5.07185 5.79419 0.61958 0.77255 0.48576 0.95510\n- 2 2.26333 5.42259 3.21151 2.65479 4.77435 3.71880 3.89883 4.24688 1.69349 3.72808 4.47568 2.53465 3.63508 2.99991 2.06980 2.00332 3.18086 3.81993 5.85763 4.46591 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11020 5.07185 2.32204 0.61958 0.77255 0.48576 0.95510\n- 3 2.90062 5.24534 2.67994 2.65800 4.53586 3.69339 3.87779 3.97676 1.92166 1.83406 4.30333 2.77347 4.08475 2.99890 2.18279 2.89586 3.12958 3.01074 5.70726 4.34448 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01035 4.97199 5.69434 0.61958 0.77255 0.73879 0.64950\n- 4 3.17162 4.52872 5.05587 4.45789 2.04630 4.37673 4.71238 1.40251 4.27453 1.89124 3.45339 4.50744 4.70428 3.00211 4.31462 3.69525 3.40291 1.76540 5.17484 4.01177 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01035 4.97199 5.69434 0.61958 0.77255 0.35490 1.20813\n- 5 2.22071 5.42694 2.72338 2.31466 4.76986 3.70453 3.88730 4.24773 1.64716 3.72681 4.47032 3.17441 4.09919 2.98689 1.79727 2.90175 3.16704 3.81692 5.85643 3.50296 5 k - - -\n- 2.68833 4.42187 2.77651 2.72739 3.45977 2.40778 3.72781 3.29294 2.67238 2.69371 4.24840 2.90043 2.73936 3.18217 2.90011 2.37919 2.77506 2.98457 4.58764 3.61680\n- 0.30420 1.35001 5.79419 3.12390 0.04498 0.48576 0.95510\n- 6 2.59459 5.37210 3.17895 2.62304 4.69859 3.69150 3.24324 4.17025 1.90448 3.11081 4.41865 3.16729 2.91768 2.15639 3.10587 1.97938 2.53721 3.75293 5.81623 4.41871 51 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00936 5.07185 5.79419 0.61958 0.77255 0.48576 0.95510\n- 7 2.04757 5.35212 3.18476 2.17669 4.67117 3.69448 3.88636 3.23166 1.76039 3.64692 4.40219 2.79762'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10164 4.69700 2.43585 0.61958 0.77255 1.15212 0.37975\n- 1027 1.76959 5.10616 3.02554 2.20577 4.43136 3.52469 3.75629 3.88179 2.52290 3.42364 4.19925 3.03786 3.08458 2.50809 3.00292 2.27382 2.58377 3.49589 5.60754 4.23235 1427 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.61025 5.33260 0.61958 0.77255 1.23727 0.34274\n- 1028 2.74463 4.92759 3.15409 2.11511 4.16441 3.57601 3.13366 3.20407 2.56598 3.18350 4.00053 3.11125 3.96555 2.92991 2.31575 2.78310 2.08077 2.55467 5.43057 4.10200 1428 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.61025 5.33260 0.61958 0.77255 1.23727 0.34274\n- 1029 1.58681 4.81503 3.32323 2.79787 4.40466 2.72004 3.97271 3.83390 2.77353 3.43210 4.23203 3.24796 3.98489 3.13005 2.27289 2.04170 2.53290 3.42542 5.65294 4.33819 1429 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.61025 5.33260 0.61958 0.77255 1.23727 0.34274\n- 1030 2.74386 4.73502 3.30267 2.74102 3.92952 3.62365 3.84467 2.78613 2.69694 2.97337 2.98957 2.79362 2.09088 3.05075 2.38536 2.84539 2.60746 3.04028 5.27862 3.99253 1430 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.61025 5.33260 0.61958 0.77255 1.23727 0.34274\n- 1031 2.77087 4.74375 3.38540 2.82015 3.98768 2.53516 3.89221 3.34543 2.69690 2.62337 3.88116 3.28365 4.04565 3.10003 1.64482 2.88120 2.60131 2.58195 5.32721 4.05260 1431 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.61025 5.33260 0.61958 0.77255 1.00259 0.45717\n- 1032 2.48977 5.04160 3.17898 2.62080 3.13833 3.60974 3.80451 3.73726 2.54550 3.31670 4.12281 3.13754 4.00453 1.88339 1.90178 2.46251 3.03422 3.39832 5.53060 4.19292 1432 q - - -\n- 2.68491 4.42143 2.77573 2.73113 3.46436 2.40408 3.72577 3.29436 2.67823 2.69378 4.24634 2.90429 2.73585 3.18229 2.89864 2.37852 2.77538 2.98516 4.58559 3.61585\n- 1.09302 0.41499 5.41438 1.38655 0.28760 0.89991 0.52190\n- 1033 1.69961 5.35146 2.52028 1.97405 4.68527 3.57802 3.80190 4.16874 2.28995 3.65229 4.40007 3.04616 3.99635 2.58948 3.05804 2.24783 3.08627 3.73702 5.78920 4.37526 1444 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29723 4.77563 1.39154 0.61958 0.77255 0.61716 0.77539\n- 1034 1.93899 4.91595 3.19131 2.34854 4.16085 2.41868 3.81845 2.89181 2.62684 3.18633 4.00776 3.15064 3.99322 2.97880 2.64280 2.80923 2.34770 3.25415 5.44292 4.11902 1445 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00938 4.67435 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XIII__WHSWIM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XIII__WHSWIM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1721 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_XIII__WHSWIM\n-LENG 566\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:38 2021\n-NSEQ 25\n-EFFN 0.949097\n-CKSUM 1501419413\n-GA 100 100;\n-STATS LOCAL MSV -11.9987 0.69746\n-STATS LOCAL VITERBI -12.7659 0.69746\n-STATS LOCAL FORWARD -6.3416 0.69746\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57154 4.29421 2.88740 2.60593 3.23641 3.04725 3.69154 2.89119 2.65292 2.42013 3.60717 3.11355 3.37282 3.03720 2.82948 2.66225 2.85287 2.67323 4.30327 3.47740\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02342 4.16174 4.88409 0.61958 0.77255 0.00000 *\n- 1 3.22710 4.62137 4.68543 4.13180 3.19448 4.40514 4.74563 2.22989 3.96018 1.46832 1.37313 4.39981 4.66618 4.16353 4.12755 3.74863 3.46486 2.10004 5.19584 4.07997 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02342 4.16174 4.88409 0.61958 0.77255 0.48576 0.95510\n- 2 2.68532 5.04297 2.98380 2.11392 4.36164 3.45399 3.60594 3.37490 1.80198 3.13239 4.09913 2.80591 3.84239 2.50874 2.48891 2.67177 2.90735 3.42109 5.47218 4.12536 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02342 4.16174 4.88409 0.61958 0.77255 0.48576 0.95510\n- 3 3.10921 4.50688 4.61646 4.13421 1.49062 4.20623 4.35310 2.29701 4.00614 1.97917 3.28072 4.24876 4.56500 4.16555 4.14126 3.57439 3.37329 1.59025 4.70435 3.23097 3 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02342 4.16174 4.88409 0.61958 0.77255 0.48576 0.95510\n- 4 2.54931 5.08136 2.71761 2.16997 4.40544 3.39483 3.58906 3.87315 2.18398 3.37431 4.13028 2.47901 3.79475 2.38121 2.48400 2.60205 2.75521 3.25978 5.52296 4.12997 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02342 4.16174 4.88409 0.61958 0.77255 0.48576 0.95510\n- 5 2.58252 4.51367 3.62451 3.11281 2.60982 3.74951 3.34110 3.03606 3.02907 2.66878 3.62773 3.45574 4.12916 3.03830 3.34444 3.02431 3.06754 2.82562 4.38043 1.51516 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02342 4.16174 4.88409 0.61958 0.77255 0.48576 0.95510\n- 6 2.76744 5.12324 3.04112 2.41547 4.47982 3.50073 3.61486 3.90544 1.95558 3.39241 4.18166 2.84002 3.88779 2.20600 1.95374 2.58777 2.80361 3.52467 5.51335 4.19329 6 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02342 4.16174 4.88409 0.61958 0.77255 0.48576 0.95510\n- 7 3.75277 5.02748 4.59112 4.30263 1.92052 4.43592 3.57664 3.49105 4.14693 2.82248 4.10701 4.127'..b'.68607 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29290 2.67741 2.69359 4.24694 2.90351 2.73739 3.18151 2.89805 2.37891 2.77519 2.98523 4.58481 3.61507\n- 0.49067 1.07153 3.09443 0.19921 1.71133 0.69268 0.69361\n- 559 2.18988 4.66958 2.80935 2.44819 4.13688 3.24512 3.70012 3.53823 2.34047 3.15905 3.98999 2.16266 3.76622 2.87345 2.91296 2.51016 2.62361 3.17605 5.39395 4.07676 624 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03061 3.89759 4.61994 0.61958 0.77255 0.73503 0.65295\n- 560 2.10454 4.71116 1.95374 2.37624 4.24299 3.18346 3.75085 3.57705 2.64863 3.26184 4.10683 2.87701 3.75469 2.92640 3.12367 2.59443 2.41179 3.20407 5.52331 4.17045 625 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03061 3.89759 4.61994 0.61958 0.77255 0.73503 0.65295\n- 561 2.19597 4.44061 2.64675 2.71900 3.70068 3.43749 3.84581 2.09001 2.78014 2.65935 3.61996 3.16836 3.90291 3.09640 3.18035 2.75794 2.86122 2.48441 5.15852 3.88057 626 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03061 3.89759 4.61994 0.61958 0.77255 0.73503 0.65295\n- 562 2.52404 4.41610 3.17172 2.67103 3.66908 2.86932 3.72750 3.03312 2.60232 2.71771 2.55343 3.10837 3.82848 2.68297 2.97468 2.57474 2.65197 2.76817 5.05224 3.79084 627 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03061 3.89759 4.61994 0.61958 0.77255 0.73503 0.65295\n- 563 2.76182 5.11484 2.45560 1.57653 4.42223 3.28381 3.64882 3.87559 2.43508 3.41123 4.24611 2.78454 3.37271 2.39471 2.87378 2.72036 3.01814 3.50621 5.58929 4.20542 628 e - - -\n- 2.68607 4.42232 2.77527 2.73125 3.46361 2.40502 3.72502 3.29361 2.67748 2.69362 4.24697 2.90354 2.73740 3.18154 2.89786 2.37894 2.77484 2.98526 4.58484 3.61510\n- 0.26847 1.48901 4.61994 0.86892 0.54370 0.73503 0.65295\n- 564 2.66003 4.94974 2.83357 2.07892 4.24872 3.38169 3.23681 3.67305 1.98254 3.21757 4.02478 2.88467 3.79813 2.70821 2.56037 2.56394 2.61168 3.32059 5.39582 4.06254 633 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03061 3.89759 4.61994 0.61958 0.77255 0.73503 0.65295\n- 565 2.73877 4.35101 4.44273 3.90930 3.39120 4.19394 4.63977 1.38347 3.78894 1.75822 3.22230 4.18098 4.51743 4.05808 4.01499 3.53722 3.21376 1.64070 5.26638 4.08342 634 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03061 3.89759 4.61994 0.61958 0.77255 0.73503 0.65295\n- 566 2.01896 4.24848 3.39380 2.96663 3.65826 2.62470 3.95020 2.85981 2.91274 1.95455 3.62189 3.28641 3.83555 3.25728 3.23501 2.64318 2.78491 2.60269 5.12361 3.87861 635 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02071 3.88769 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XII__RT_12.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XII__RT_12.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1733 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_XII__RT_12\n-LENG 570\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:37 2021\n-NSEQ 44\n-EFFN 1.963135\n-CKSUM 1396665619\n-GA 300 300;\n-STATS LOCAL MSV -11.7782 0.69743\n-STATS LOCAL VITERBI -12.7675 0.69743\n-STATS LOCAL FORWARD -6.4504 0.69743\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55027 4.40787 2.91721 2.66316 3.23833 3.01906 3.67164 2.79306 2.53610 2.45711 3.74396 3.00554 3.46356 3.01273 2.85584 2.61210 2.87346 2.70717 4.86480 3.47804\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03579 4.61174 3.68005 0.61958 0.77255 0.00000 *\n- 1 3.61130 4.98530 5.15446 4.66384 3.43019 4.74488 5.18458 2.31272 4.40137 1.81965 0.75826 4.86996 5.03452 4.61896 4.51448 4.16380 3.87576 2.59786 5.50805 4.36771 1 m - - -\n- 2.68616 4.42264 2.77530 2.73135 3.46303 2.40576 3.72510 3.29350 2.67738 2.69178 4.24697 2.90290 2.73771 3.18181 2.89835 2.37873 2.77504 2.98572 4.58579 3.61577\n- 1.00729 0.95665 1.38383 2.18268 0.11962 0.52403 0.89680\n- 2 2.47278 5.04221 2.70213 2.33448 3.97425 3.43495 3.62977 3.79820 2.26678 3.00532 4.09555 2.63650 2.99426 2.52049 2.86968 2.30849 2.75094 3.40872 5.50283 4.12038 30 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12014 4.30918 2.30501 0.61958 0.77255 0.89077 0.52821\n- 3 2.50099 4.25191 3.60405 2.86412 2.53846 3.60863 3.88106 2.73262 2.97712 2.16145 3.36263 3.24279 3.58743 3.26480 3.29640 2.65578 2.58518 2.25410 4.84733 3.62577 31 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21132 4.93366 0.61958 0.77255 0.85474 0.55407\n- 4 2.64488 4.98853 2.93616 1.83788 4.27289 3.21890 3.63682 3.71678 2.40054 3.07630 4.04957 2.69104 3.83244 2.57043 2.87596 2.29020 2.71407 3.34711 4.66786 4.09188 32 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27086 4.99320 0.61958 0.77255 0.77734 0.61550\n- 5 2.80711 4.64105 3.72323 3.43005 4.06983 3.50864 4.42361 2.88209 3.34620 3.06859 4.17079 3.69358 0.83501 3.75155 3.61963 3.00267 3.22455 3.09588 5.56904 4.28609 33 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09087 4.34065 2.60588 0.61958 0.77255 0.86017 0.55007\n- 6 2.56993 5.05081 2.59925 2.24077 4.35840 3.42194 3.61451 3.63036 2.28226 3.04077 4.10183 2.70124 3.18637 2.59052 2.76723 2.33294 2.65838 3.28546 5.50655 4.11943 34 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02097 4.27076 4.99310 0.61958 0.77255 0.68312 0.70328\n- 7 2.48315 4.98381 3.00990 2.45161 4.25938 3.47739 3.67041 3.69563 2.21118 3.13734 4.04567 2.98195'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 563 2.45055 5.06265 2.79923 2.00954 4.37804 3.40523 3.32233 3.84291 2.27604 3.35424 4.11204 2.73421 3.80108 2.52880 2.61360 2.50375 2.64709 3.43741 5.51221 3.64461 686 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 564 2.91133 4.31211 4.50652 3.92155 2.91366 4.08540 4.39734 1.49146 3.78859 1.68026 2.54923 4.10893 4.39468 3.45720 3.92318 3.39217 3.13969 2.13074 4.92594 3.78096 687 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 565 2.08595 4.42469 3.36148 2.79652 3.58100 3.55306 3.79355 2.55696 2.37177 2.64429 3.52584 3.23524 3.93673 3.07326 2.96122 2.65042 2.84522 2.38998 4.99608 3.38846 688 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 566 2.54524 5.04920 2.58296 2.12783 4.35913 3.24964 3.21384 3.51237 2.30064 3.33918 4.09980 2.45880 3.50431 2.71044 2.75595 2.60325 2.85616 3.42094 5.50284 3.42027 689 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 567 2.33732 4.92000 2.80870 1.96889 3.86037 3.42577 3.63649 3.61746 2.41991 2.72047 3.98606 2.79178 3.82555 2.62945 2.89449 2.42664 2.86251 3.26705 5.40553 4.04782 690 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 568 2.06681 4.27652 3.66051 3.09784 2.37875 3.65093 3.44694 2.75797 3.02881 2.46957 3.38447 3.44731 4.02783 3.07520 3.33548 2.91206 2.87750 2.43212 4.72093 2.67292 691 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 569 2.49237 4.45486 3.30978 2.60893 3.61344 3.00556 3.77339 2.60805 2.63420 2.67650 3.14475 3.19830 3.92063 3.03737 2.88828 2.46413 2.72244 2.61518 5.01886 3.12606 692 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02227 4.21151 4.93385 0.61958 0.77255 0.97484 0.47361\n- 570 2.63912 4.79682 3.06718 2.50282 3.60724 3.47194 3.66242 3.43844 2.16034 2.49006 3.87084 2.78169 3.85904 2.57411 2.38434 2.60655 2.86746 3.12689 5.29481 3.64902 693 k - - -\n- 2.68629 4.42280 2.77525 2.73150 3.46375 2.40474 3.72453 3.29365 2.67697 2.69384 4.24709 2.90393 2.73710 3.18148 2.89728 2.37903 2.77547 2.98535 4.58419 3.61522\n- 0.66515 0.72195 * 1.73139 0.19484 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XI__RT_11.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_XI__RT_11.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1652 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_XI__RT_11\n-LENG 543\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:36 2021\n-NSEQ 92\n-EFFN 1.956909\n-CKSUM 3072668474\n-GA 400 400;\n-STATS LOCAL MSV -11.9383 0.69764\n-STATS LOCAL VITERBI -12.7264 0.69764\n-STATS LOCAL FORWARD -6.1353 0.69764\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56044 4.36905 3.00119 2.69166 3.26415 2.94457 3.62880 2.76910 2.57848 2.50490 3.70966 2.93981 3.42404 3.02977 2.88635 2.62121 2.81230 2.65268 4.98506 3.48202\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02457 4.60952 4.24624 0.61958 0.77255 0.00000 *\n- 1 3.75097 5.20695 4.96253 4.67401 3.79466 4.47072 5.24214 3.06158 4.40052 2.32393 0.45557 4.84495 4.98199 4.75265 4.50664 4.14598 4.09648 3.14481 5.68654 4.50068 1 M - - -\n- 2.68588 4.42169 2.77549 2.73181 3.46327 2.40570 3.72527 3.29271 2.67744 2.69299 4.24672 2.90360 2.73700 3.18138 2.89775 2.37913 2.77497 2.98527 4.58513 3.61522\n- 1.17690 0.84128 1.34473 2.03141 0.14059 0.47471 0.97304\n- 2 2.51914 4.99157 2.73310 2.25369 4.11568 2.90851 3.49599 3.49127 2.40650 3.06006 3.86983 2.61875 3.74070 2.76255 2.84879 2.17523 2.76046 3.34846 5.46342 3.95183 124 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13144 4.31742 2.20879 0.61958 0.77255 0.84911 0.55826\n- 3 2.38407 4.39359 2.51644 2.45889 3.90986 3.47395 3.68636 3.10263 2.47938 2.60837 3.59070 2.91894 3.29527 2.80912 2.96981 2.61729 2.79887 2.83621 4.81788 3.91695 125 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02200 4.22335 4.94570 0.61958 0.77255 0.93486 0.49863\n- 4 2.41456 5.00738 2.37582 2.17264 4.00766 3.18621 3.61307 3.61143 2.35331 3.13345 4.06182 2.69866 3.61538 2.68811 2.81808 2.52473 2.76561 3.32051 5.47126 3.79535 126 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02171 4.23670 4.95904 0.61958 0.77255 0.95192 0.48776\n- 5 2.47653 5.04833 2.68475 2.04585 4.35821 3.41242 3.52572 3.81999 2.32334 3.25478 3.96507 2.64802 3.63239 2.57507 2.66318 2.49577 2.77100 3.02670 5.50244 3.97870 127 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02171 4.23670 4.95904 0.61958 0.77255 0.53256 0.88454\n- 6 2.48742 4.17294 3.69324 3.37675 2.77707 3.26185 4.06103 1.99847 3.26555 1.95633 3.10571 3.71458 3.61842 3.60111 3.57426 2.89339 2.79364 2.30760 4.44571 3.49245 128 l - - -\n- 2.68642 4.42245 2.77551 2.73144 3.46207 2.40513 3.72524 3.29322 2.67735 2.69337 4.24714 2.90360 2.73703 3.18173 2.89797 2.37894 2.77522 2.98518 4.58498 3.61527\n- 0.39452 1.13832 5.17727 1.49915 0.25273 0.67256 0.71416\n- 7 2.58506 4.64810 3.27019 2.65152 3.40067 3.42510 3.50204 2.51309 2.31425 2.66794 3.73682 3.00996 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02399 4.58255 4.30661 0.61958 0.77255 0.52478 0.89571\n- 536 2.60371 4.33833 2.91119 2.71537 3.47939 3.62095 3.75034 2.43752 2.45021 2.28794 3.45709 2.86044 3.81947 2.94657 2.93195 2.65606 2.87184 2.69374 5.20502 3.92832 882 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01545 4.57400 5.29635 0.61958 0.77255 0.53988 0.87424\n- 537 2.27749 4.88469 2.63184 2.11293 4.32019 3.31675 3.68448 4.03810 2.00423 3.52002 4.25971 2.63417 3.74017 2.68665 2.58367 2.49511 2.81953 3.60477 5.65361 4.24633 883 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04597 4.57400 3.36346 0.61958 0.77255 0.53988 0.87424\n- 538 2.65680 3.84466 3.53887 3.31810 2.71208 3.82888 4.14024 2.55706 3.56317 1.82350 2.95951 3.85928 4.19670 3.76179 3.70106 2.87844 2.93870 2.17377 2.97280 2.78392 884 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02470 4.54395 4.28587 0.61958 0.77255 0.59024 0.80788\n- 539 2.25230 4.18777 4.13955 3.55351 3.23880 3.60973 3.48068 2.10914 3.25959 1.82472 2.95965 3.65523 4.17139 3.66206 3.49896 3.08562 2.72518 2.18674 4.79827 3.31734 885 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05880 4.53532 3.07094 0.61958 0.77255 0.60398 0.79105\n- 540 2.25456 5.15371 2.78627 2.28247 4.47713 3.30733 3.66754 3.62572 2.06381 3.26771 4.20032 2.58732 3.65865 2.53634 2.90008 2.36225 2.74304 3.41099 5.59961 4.20212 886 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04744 4.49327 3.34806 0.61958 0.77255 0.66678 0.72023\n- 541 2.38461 4.73963 2.91632 2.05254 4.42939 3.23919 3.57505 3.89324 2.17306 3.33676 3.97571 2.80477 3.57981 2.65606 2.70271 2.31885 2.69389 3.41810 4.69067 4.17824 887 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11688 4.46310 2.31482 0.61958 0.77255 0.68153 0.70490\n- 542 2.54960 4.68194 2.95038 2.45256 4.14669 3.48287 3.54112 3.56986 2.13102 2.64351 3.69715 2.79376 3.62312 2.64932 2.81686 2.40989 2.84015 3.00960 5.39275 3.33964 888 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13390 4.37628 2.18257 0.61958 0.77255 0.73933 0.64901\n- 543 2.63893 5.07124 2.63620 2.27311 4.38510 3.03453 3.42386 3.59928 2.04724 3.09561 4.12050 2.83950 3.46839 2.68665 2.75600 2.35633 2.71054 3.38115 5.52284 4.13186 889 k - - -\n- 2.68461 4.42250 2.77602 2.73147 3.46399 2.40584 3.72508 3.29350 2.67768 2.69295 4.24693 2.90415 2.73591 3.18209 2.89811 2.37922 2.77505 2.98442 4.58602 3.61524\n- 0.70681 0.67967 * 2.41226 0.09389 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_X__VHL.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron_X__VHL.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1394 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron_X__VHL\n-LENG 457\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 21:29:25 2021\n-NSEQ 8\n-EFFN 1.363281\n-CKSUM 316127136\n-GA 20 20;\n-STATS LOCAL MSV -11.7261 0.69849\n-STATS LOCAL VITERBI -12.7045 0.69849\n-STATS LOCAL FORWARD -5.6660 0.69849\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46496 4.45761 2.94228 2.59433 3.35760 2.88191 3.66972 3.03157 2.66169 2.55685 3.79105 3.13137 2.98616 3.02994 2.83459 2.53320 2.80030 2.76467 4.40255 3.69702\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01896 4.37049 5.09283 0.61958 0.77255 0.00000 *\n- 1 3.45258 4.93511 4.64073 4.30208 3.54448 4.24327 4.92208 2.77694 4.03822 2.08594 0.66538 4.50921 4.73031 4.39824 4.17852 3.83987 3.78055 2.83682 5.43253 4.22938 1 M - - -\n- 2.68567 4.42346 2.77425 2.73064 3.46368 2.40633 3.72478 3.29340 2.67714 2.69103 4.24810 2.90437 2.73809 3.18146 2.89891 2.37881 2.77503 2.98541 4.58597 3.61624\n- 0.66266 1.14044 1.80277 2.70029 0.06955 0.48576 0.95510\n- 2 2.01043 4.49891 3.13359 2.83028 4.40865 3.15832 4.06310 3.84605 2.95884 3.48279 4.29780 2.38067 3.82401 3.26741 3.35995 1.31250 2.88032 3.35205 5.69678 4.40948 27 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02258 4.19768 4.92002 0.61958 0.77255 0.69963 0.68671\n- 3 3.14424 5.75532 0.95550 1.80983 5.03929 3.31955 3.92666 4.58463 3.01541 4.07629 4.96054 2.78308 3.97726 3.10555 3.65127 3.00323 3.44848 4.14568 6.21482 4.68092 28 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02258 4.19768 4.92002 0.61958 0.77255 0.69963 0.68671\n- 4 2.86640 5.09679 3.26012 2.63317 4.45057 3.60085 3.64969 3.83748 1.68291 3.34281 4.16554 3.10648 3.97036 2.33018 1.84665 2.86600 3.06453 2.77769 5.47053 4.20818 29 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02258 4.19768 4.92002 0.61958 0.77255 0.69963 0.68671\n- 5 2.28450 4.94629 2.81250 2.43955 4.38836 2.27405 3.73962 3.82982 2.17175 3.38899 4.19018 2.11177 3.85526 2.88292 2.96734 2.68960 2.95656 3.43555 5.57953 4.22232 30 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02258 4.19768 4.92002 0.61958 0.77255 0.69963 0.68671\n- 6 2.78954 4.75477 3.14805 2.27435 3.92711 3.57293 3.77847 3.25443 2.16024 1.66805 3.81945 3.16408 3.98634 2.98447 2.81430 2.88310 3.01602 3.01395 5.25972 3.99159 31 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02258 4.19768 4.92002 0.61958 0.77255 0.69963 0.68671\n- 7 2.55679 2.54400 3.63597 3.09682 3.43711 3.50116 3.93434 2.85123 3.02678 2.57387 3.47457 3.42160 2.9501'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13442 4.10695 2.21349 0.61958 0.77255 0.78445 0.60949\n- 450 1.86988 4.23043 3.91626 3.39520 2.54181 3.63925 4.13570 2.36837 3.31675 2.25094 3.33862 3.65759 4.09904 3.58431 3.58135 2.97304 2.92845 1.88961 4.93889 3.67744 758 a - - -\n- 2.68623 4.42230 2.77525 2.73128 3.46359 2.40518 3.72500 3.29359 2.67720 2.69334 4.24695 2.90352 2.73717 3.18151 2.89806 2.37892 2.77525 2.98524 4.58482 3.61508\n- 0.15588 1.99918 4.72246 0.90342 0.51950 0.69360 0.69270\n- 451 3.13200 5.24046 3.53364 2.86692 4.71392 3.72772 3.66638 4.05965 1.06967 3.48752 4.36260 3.26254 4.09802 2.80078 1.79957 3.12353 3.29511 3.74008 5.51308 4.35550 762 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10695 4.82930 0.61958 0.77255 0.78445 0.60949\n- 452 2.63243 4.84311 2.97831 2.49290 4.26054 2.72560 3.68377 3.68408 2.38794 3.25304 4.06130 2.46552 3.83532 2.82818 2.05276 2.66260 2.42574 3.31390 5.44731 4.12439 763 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02475 4.10695 4.82930 0.61958 0.77255 0.78445 0.60949\n- 453 2.03417 4.35237 3.55334 2.98552 3.48880 3.61541 3.89149 2.30175 2.84648 2.15054 3.43151 3.37793 4.00503 3.21205 2.60037 2.88190 2.88431 2.48865 4.97150 3.74206 764 a - - -\n- 2.68578 4.42259 2.77553 2.73105 3.46388 2.40509 3.72455 3.29253 2.67775 2.69363 4.24724 2.90348 2.73774 3.18180 2.89835 2.37884 2.77442 2.98552 4.58353 3.61537\n- 0.39555 1.52616 2.21349 2.01210 0.14353 0.78445 0.60949\n- 454 3.30063 4.72593 4.39397 4.03591 3.18823 4.14327 4.65169 2.40086 3.80239 0.73266 3.17403 4.29895 4.55765 4.14011 3.95697 3.73126 3.58963 2.47104 5.11227 3.86456 776 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00011 4.72246 0.61958 0.77255 0.86766 0.54461\n- 455 2.25842 2.63342 3.61339 3.17832 3.95156 3.04495 4.11746 3.32199 3.11802 3.04550 3.90712 3.34538 1.98734 3.42357 3.42274 1.93669 2.69849 2.91553 5.35045 4.13537 777 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00011 4.72246 0.61958 0.77255 0.86766 0.54461\n- 456 2.78182 5.14045 2.53054 1.95712 4.36670 3.33618 2.22404 3.89107 2.44626 3.42270 4.24635 2.28334 3.83788 2.81634 2.88705 2.74167 3.03002 3.52140 5.55744 4.15549 778 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00011 4.72246 0.61958 0.77255 0.86766 0.54461\n- 457 2.82750 5.13916 2.92582 1.81400 4.50767 3.47459 3.60111 3.91552 1.83958 3.39758 4.21475 2.96372 3.89050 2.72830 2.05375 2.79953 3.03691 3.55141 5.50620 4.21266 779 e - - -\n- 2.68588 4.42243 2.77511 2.73141 3.46372 2.40492 3.72512 3.29372 2.67759 2.69349 4.24708 2.90364 2.73707 3.18125 2.89789 2.37887 2.77537 2.98536 4.58495 3.61521\n- 0.43716 1.03808 * 1.15048 0.38051 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron__RT_Tot.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Retron__RT_Tot.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,16905 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Retron__RT_Tot\n-LENG 312\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Mar 19 10:50:26 2021\n-NSEQ 101\n-EFFN 1.007904\n-CKSUM 1945764528\n-GA 100 100;\n-STATS LOCAL MSV -11.2089 0.70096\n-STATS LOCAL VITERBI -11.9562 0.70096\n-STATS LOCAL FORWARD -5.5586 0.70096\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59715 4.46538 3.04452 2.74021 3.17449 3.13301 3.61007 2.71931 2.52654 2.41155 3.63033 2.98349 3.47322 3.06857 2.90881 2.58922 2.84130 2.69404 4.81458 3.33709\n- 2.68627 4.42204 2.77546 2.73136 3.46310 2.40539 3.72485 3.29343 2.67741 2.69332 4.24444 2.90358 2.73754 3.18170 2.89779 2.37873 2.77538 2.98504 4.58501 3.61535\n- 0.34056 1.55470 2.55904 2.21634 0.11542 0.00000 *\n- 1 2.60106 4.23946 3.68725 3.01148 3.34548 3.64022 3.92506 2.59964 3.00975 2.12202 1.96331 3.46788 3.89957 3.27327 3.29934 2.84995 2.76800 2.39583 4.84858 3.63748 62 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03069 4.12154 4.26856 0.61958 0.77255 0.57033 0.83319\n- 2 2.58000 4.99967 2.75914 2.25458 4.15558 3.12267 3.31452 3.62311 2.19331 3.28573 4.05274 2.62707 3.78154 2.56571 2.78486 2.30852 2.66679 3.36674 5.45884 3.97412 63 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11540 4.83774 0.61958 0.77255 0.43272 1.04624\n- 3 2.81318 4.23165 4.52212 3.84968 2.91818 4.03040 4.35960 1.83062 3.79344 1.50658 2.54866 3.97548 4.35400 3.96047 3.90815 3.34023 3.07439 1.95105 4.88833 3.73079 64 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02266 4.19417 4.91652 0.61958 0.77255 0.48576 0.95510\n- 4 2.55505 4.11431 3.41608 2.95806 3.04093 3.61284 3.80549 2.12505 2.83863 2.29368 3.33825 3.41575 3.98927 3.12731 3.22818 2.73636 2.77151 2.32538 4.82349 3.17282 65 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02266 4.19417 4.91652 0.61958 0.77255 0.48576 0.95510\n- 5 2.49823 4.97334 2.80821 2.20616 4.10130 3.37608 3.42118 3.49273 2.13219 2.91622 4.02987 2.79521 3.80508 2.65613 2.72743 2.33878 2.78047 3.33267 5.44174 3.98204 66 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02266 4.19417 4.91652 0.61958 0.77255 0.48576 0.95510\n- 6 2.52116 5.03816 2.81211 2.24480 4.24038 3.23726 3.39006 3.80990 2.07027 3.18068 4.08843 2.78908 3.73930 2.43641 2.61371 2.48810 2.78301 3.30792 5.49141 3.83992 67 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02266 4.19417 4.91652 0.61958 0.77255 0.48576 0.95510\n- 7 3.32632 4.66315 4.89582 4.32338 3.00478 4.56292 4.81709 2.06139 4.19307 0.81557 2.84325 4.56649 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04049 3.62280 4.34515 0.61958 0.77255 0.54342 0.86931\n- 647 2.23660 4.35193 2.91299 2.49500 3.84824 2.83992 3.70811 3.18462 2.49626 2.82400 3.75507 2.96998 3.48042 2.93280 2.91709 2.46280 2.64590 2.78720 5.18625 3.91698 1430 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04049 3.62280 4.34515 0.61958 0.77255 0.54342 0.86931\n- 648 2.35986 4.26710 3.34383 2.79617 3.36955 3.31422 3.71485 2.69818 2.57248 2.34233 3.26985 3.18882 3.83789 3.02464 2.93952 2.70381 2.75553 2.44107 4.42262 3.55917 1431 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05504 3.58926 3.65238 0.61958 0.77255 0.54342 0.86931\n- 649 2.49342 4.27794 3.30566 2.78783 3.32703 3.27160 3.68811 2.76218 2.51659 2.40253 3.44707 3.16754 3.81940 3.01239 2.87777 2.61908 2.76216 2.39658 4.38894 3.46599 1432 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04316 3.56011 4.28246 0.61958 0.77255 0.55152 0.85820\n- 650 2.83286 4.39485 3.87680 3.42317 2.62415 3.79351 4.05163 2.16656 3.26221 1.58103 3.08471 3.71410 4.20328 3.59032 3.51313 3.16920 3.11702 2.08542 4.63490 3.17746 1433 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04388 3.54392 4.26627 0.61958 0.77255 0.55152 0.85820\n- 651 2.57123 4.37982 3.05780 2.74521 2.79502 3.24655 3.36166 2.94686 2.56956 2.50468 3.60954 3.10658 3.78385 3.04884 2.73722 2.71207 2.88833 2.75085 4.50333 2.98382 1434 l - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72489 3.29355 2.67738 2.69352 4.24682 2.90348 2.73738 3.18148 2.89802 2.37884 2.77521 2.98520 4.58478 3.61504\n- 0.10309 2.49353 4.17736 0.74885 0.64039 0.49502 0.94048\n- 652 2.27838 4.17699 2.99888 2.72921 3.71835 2.79174 3.79111 3.01218 2.58362 2.79443 3.78629 3.03869 3.62396 3.06870 2.72588 2.44284 2.57407 2.61442 5.13588 3.83303 1438 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04672 3.48259 4.20494 0.61958 0.77255 0.48045 0.96366\n- 653 2.55752 4.58074 2.55872 2.38346 3.93309 3.14877 3.60146 3.34581 2.14752 2.99954 3.90896 2.84965 3.51581 2.81382 2.53101 2.62235 2.85649 3.03627 5.20256 3.90148 1439 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04586 3.50093 4.22328 0.61958 0.77255 0.48020 0.96407\n- 654 2.47704 4.43351 2.90612 2.57841 3.86002 3.14335 3.64184 3.24361 2.21896 2.92494 3.85329 2.97125 3.70813 2.86559 2.31268 2.48366 2.72602 2.93306 5.15662 3.86793 1440 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03064 3.50058 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RexAB__RexA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RexAB__RexA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,737 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RexAB__RexA\n-ACC PF15969.7\n-DESC Intracellular sensor of Lambda phage, Abi component\n-LENG 236\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Feb 25 11:19:19 2021\n-NSEQ 4\n-EFFN 1.058594\n-CKSUM 661726422\n-GA 25.00 25.00;\n-TC 67.70 67.70;\n-NC 21.10 20.20;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.4846 0.70351\n-STATS LOCAL VITERBI -11.2990 0.70351\n-STATS LOCAL FORWARD -5.0239 0.70351\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60037 4.62086 2.82451 2.70320 3.20115 3.05909 3.75799 2.59258 2.57070 2.36103 3.59133 2.96356 3.55236 3.15456 3.06748 2.63560 2.90967 2.63183 5.10936 3.44929\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.00000 *\n- 1 3.28490 4.78538 4.44826 4.08282 3.41525 4.10947 4.73736 2.62859 3.82846 1.96864 0.83704 4.31279 4.58405 4.19356 3.98969 3.66374 3.60353 2.67287 5.29376 4.08084 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 2 2.98490 5.23971 2.96893 2.60175 4.65113 3.55108 3.75632 4.09407 1.18961 3.57817 4.42042 2.18609 4.01966 2.89856 2.54577 2.96190 3.21654 3.72414 5.64888 4.36055 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 3 2.79584 4.34164 3.96461 3.44462 3.54723 3.86551 4.26238 1.80279 3.35964 2.44060 3.48561 2.56396 4.26673 3.66628 3.64378 3.17755 3.05482 1.44243 5.14133 3.90794 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 4 2.62654 4.67306 3.06385 2.59541 3.92449 2.55824 3.76219 3.36539 2.62164 3.00939 3.85495 2.38111 3.88277 2.96229 3.05236 2.70995 2.30107 3.06095 5.26312 2.68608 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 5 3.76236 5.04104 4.61557 4.26382 1.50061 4.48429 2.05085 3.64465 4.12702 2.99360 4.20139 4.10449 4.79218 4.14541 4.22067 3.82568 3.97608 3.51760 3.70284 1.12121 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 6 3.96776 5.11706 4.89889 4.65653 1.44444 4.63386 3.56505 3.62156 4.48517 2.89699 4.19932 4.27189 4.92907 4.36787 4.45548 4.02051 4.18433 3.55671 3.67762 0.81292 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 229 3.09871 5.30709 3.25128 2.74371 4.73089 3.68202 3.71908 4.12112 1.10985 3.55595 4.41560 3.19390 4.08827 2.09985 2.31016 3.07306 3.28535 3.78025 5.60512 4.38566 237 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 230 2.21200 4.85064 2.39197 2.46575 4.10684 3.44812 3.68564 2.63438 2.06986 3.11593 3.94055 2.98619 3.86080 2.83877 2.94081 2.68761 2.89240 3.15693 5.37219 4.03561 238 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 231 2.84147 4.83884 3.00751 1.41280 4.00806 3.57312 3.91092 2.20709 2.74096 2.89859 3.91191 3.17378 4.03771 3.11062 3.14764 2.93332 3.09645 2.83238 5.43520 4.11625 239 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 232 1.13112 4.29655 4.01022 3.62416 3.96002 3.37368 4.49323 2.68917 3.55375 2.82214 3.88076 3.73239 4.04986 3.85129 3.80873 2.80819 2.96630 1.80808 5.53607 4.32545 240 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 233 2.70152 4.90911 2.75093 1.90828 4.40705 1.87383 3.83310 3.82912 2.68413 3.42708 4.24935 2.98452 3.88261 2.99722 3.14612 2.72841 2.20406 3.43735 5.64362 4.28971 241 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 234 2.91640 5.27310 1.11127 2.32569 4.78227 3.29676 3.94187 4.31055 2.96028 3.86242 4.71302 2.88173 3.94032 3.12144 3.52394 2.02468 3.25513 3.85602 6.00992 4.54728 242 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 235 2.71190 4.95595 3.04020 2.05979 4.23214 3.49171 3.65568 2.69294 2.32993 3.20923 4.02313 3.00546 3.88395 2.28059 2.22235 2.72502 2.93494 3.30725 5.41294 4.08995 243 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02205 4.22130 4.94365 0.61958 0.77255 0.48576 0.95510\n- 236 2.73935 4.34402 3.79983 3.22301 3.39325 3.77211 4.03473 2.55925 2.33612 1.89384 2.47445 3.57901 4.13360 3.41231 3.36647 3.04202 2.97037 1.99349 4.95615 3.75300 244 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01490 4.21415 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RexAB__RexB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RexAB__RexB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,446 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RexAB__RexB\n-ACC PF15968.7\n-DESC Membrane-anchored ion channel, Abi component\n-LENG 139\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Feb 25 11:19:07 2021\n-NSEQ 1\n-EFFN 0.378906\n-CKSUM 4067037548\n-GA 27.00 27.00;\n-TC 44.90 133.90;\n-NC 24.40 24.00;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.1155 0.71066\n-STATS LOCAL VITERBI -10.8670 0.71066\n-STATS LOCAL FORWARD -3.9257 0.71066\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47656 4.00202 3.40322 3.08346 3.03939 2.75509 3.83878 2.41425 3.09633 2.17548 3.51353 3.44708 3.51870 3.46004 3.08397 2.62866 2.88973 2.40558 4.92763 3.12960\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.00000 *\n- 1 2.89749 4.46272 3.94768 3.53638 3.17194 3.76237 4.29385 2.33825 3.30869 1.78359 1.57508 3.82494 4.22470 3.69835 3.52477 3.23543 3.20211 2.33255 4.99846 3.75025 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 2 2.63387 4.40391 3.23126 3.05887 4.05692 3.09698 4.14202 3.58020 3.10839 3.21656 4.26443 3.37378 1.02669 3.50027 3.36243 2.79906 3.06862 3.23630 5.26731 4.17728 2 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 3 2.55408 4.33562 3.20784 3.09680 4.23451 0.89356 4.22026 3.81324 3.26463 3.47897 4.45627 3.37290 3.72367 3.59694 3.50856 2.72378 3.02800 3.36041 5.35230 4.33416 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 4 2.73300 4.30517 3.98992 3.65306 3.48320 3.62136 4.47225 2.06588 3.51919 2.18924 3.46613 3.85734 4.18932 3.88727 3.74032 3.12123 3.09827 1.15573 5.25035 3.97461 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 5 3.11415 4.64195 3.69890 3.41295 2.30689 3.72010 3.58249 3.13717 3.27320 2.61522 3.82311 3.60928 4.19757 3.60236 3.47549 3.25950 3.40117 3.00361 3.94606 1.14147 5 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 6 2.95654 4.40587 4.19331 3.80795 3.31273 3.95770 4.55578 1.20547 3.63392 1.92212 3.26677 4.06679 4.40087 3.99395 3.84160 3.44623 3.25864 1.85263 5.18147 3.90935 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 132 3.11415 4.64195 3.69890 3.41295 2.30689 3.72010 3.58249 3.13717 3.27320 2.61522 3.82311 3.60928 4.19757 3.60236 3.47549 3.25950 3.40117 3.00361 3.94606 1.14147 132 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 133 2.64850 4.63703 2.66442 2.54171 3.98589 3.12309 3.85174 3.67836 2.74894 3.33717 4.29527 1.33997 3.77165 3.12679 3.09818 2.72096 3.02872 3.31033 5.30336 3.94300 133 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 134 3.05024 4.54260 4.03392 3.67645 3.10418 3.85738 4.36228 2.30688 3.44499 1.00320 3.16272 3.96078 4.31135 3.83644 3.63551 3.42143 3.35009 2.31873 4.94563 3.64590 134 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 135 2.36643 4.21026 3.34789 3.09898 3.88882 3.05177 4.12297 3.00451 3.04000 2.87121 3.93049 3.32182 3.74906 3.44046 3.30154 2.56696 1.34562 2.70982 5.33534 4.10633 135 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 136 2.90215 4.74242 3.38352 2.91871 4.07273 3.40476 3.76364 3.61018 2.21186 3.14384 4.14938 3.28437 3.91457 2.99124 1.13588 2.99260 3.17636 3.33899 5.19639 4.02372 136 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 137 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 137 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 138 2.81043 4.78761 2.84581 2.60235 3.94242 3.30568 3.75867 3.56135 2.43074 3.07300 4.10684 3.05998 3.85986 1.41525 2.71548 2.86378 3.10904 3.29803 5.23325 3.92150 138 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03461 3.77673 4.49907 0.61958 0.77255 0.48576 0.95510\n- 139 2.87512 4.95831 2.45664 1.17032 4.29341 3.21592 3.79842 3.72831 2.66718 3.36240 4.34384 2.88749 3.81691 3.01818 3.06358 2.86939 3.17972 3.42329 5.48344 4.20908 139 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02343 3.76555 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RloC__RloC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RloC__RloC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2318 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME RloC__RloC\n-LENG 765\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 13:49:06 2022\n-NSEQ 65\n-EFFN 8.390808\n-CKSUM 3620082499\n-GA 120 120;\n-STATS LOCAL MSV -12.1433 0.69634\n-STATS LOCAL VITERBI -13.4878 0.69634\n-STATS LOCAL FORWARD -6.2065 0.69634\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52014 4.40590 2.84936 2.48175 3.29862 3.06949 3.70618 2.84637 2.48787 2.44429 4.01288 2.89910 3.55045 2.98323 2.91046 2.58321 2.82954 2.91422 4.93080 3.61170\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00449 5.80475 6.52709 0.61958 0.77255 0.00000 *\n- 1 5.81695 7.05596 6.78961 6.76849 5.91977 5.91644 7.19556 5.48951 6.67230 4.55108 0.04354 6.86704 6.54538 6.95945 6.58682 6.17451 6.25639 5.63168 7.47883 6.53344 1 M - - -\n- 2.67054 4.41805 2.77281 2.72501 3.46864 2.41843 3.72742 3.27626 2.68291 2.68331 4.25471 2.90931 2.73912 3.17950 2.89848 2.38717 2.77534 2.98609 4.54983 3.62580\n- 2.01024 0.80486 0.87014 4.02221 0.01808 0.48576 0.95510\n- 2 2.63756 5.43929 3.27148 2.58327 4.75733 2.94279 3.41260 3.27924 1.93156 3.04884 4.48715 2.77556 4.17280 2.89838 2.11980 2.61469 2.52694 3.08816 5.88848 3.87302 136 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00771 5.26444 5.98679 0.61958 0.77255 0.41452 1.08075\n- 3 3.25815 5.68343 6.49764 5.93654 3.50650 5.89146 6.28086 1.07157 5.80524 0.76104 3.97824 6.07001 6.00155 5.75020 5.77632 5.28051 4.68630 2.87887 6.37479 5.36178 137 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00519 5.66036 6.38271 0.61958 0.77255 1.09972 0.40491\n- 4 3.01781 5.67237 3.20393 1.94737 4.99962 3.34046 4.17466 3.25563 1.87725 3.27611 4.71774 3.46029 4.37871 3.27698 2.29097 2.15151 2.47915 2.73632 6.11586 3.98617 138 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00519 5.66036 6.38271 0.61958 0.77255 0.69784 0.68848\n- 5 2.53029 4.10847 3.48553 2.62830 5.08682 3.59175 4.19675 4.57180 1.54592 3.58381 4.78398 2.81602 4.40313 2.54020 2.66115 1.77389 2.58185 4.13295 6.17631 4.76628 139 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00491 5.71462 6.43697 0.61958 0.77255 0.91976 0.50852\n- 6 4.63703 5.79217 6.75615 6.26240 3.74787 6.28493 6.86296 0.66510 6.20765 1.32399 4.23159 6.46571 6.32473 6.18809 6.23554 5.73996 4.87197 1.97658 6.82343 5.80541 140 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00491 5.71462 6.43697 0.61958 0.77255 0.91976 0.50852\n- 7 2.59260 5.74658 3.06224 2.37723 4.22086 3.05859 3.39095 4.57846 1.79075 3.30789 4.78711 2.58108 4.401'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02187 5.61975 4.01684 0.61958 0.77255 1.21086 0.35374\n- 758 1.85658 4.03381 3.43285 2.45556 4.98388 3.06292 3.71636 4.46091 1.95093 3.48466 2.71623 2.60561 4.34364 3.01106 2.78557 2.39459 2.99018 3.54567 6.09203 4.68894 1363 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09686 5.60337 2.42329 0.61958 0.77255 1.25127 0.33707\n- 759 2.48613 4.57872 5.10509 4.49352 3.07481 4.35908 2.91321 2.50517 4.29030 1.73444 1.48477 3.56851 4.72317 4.43160 4.31760 3.66803 3.42781 2.48154 5.19897 2.68657 1364 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00601 5.51252 6.23487 0.61958 0.77255 1.44041 0.27027\n- 760 2.80054 3.63902 4.64250 2.49098 3.76631 4.28619 4.58855 2.29963 2.68416 2.07812 1.69994 4.26522 4.65579 4.15720 3.02011 3.57162 2.90871 2.56352 3.42911 4.08175 1365 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05970 5.51252 2.92028 0.61958 0.77255 1.44041 0.27027\n- 761 2.32290 5.59311 2.83151 2.37064 4.93824 2.36600 4.04314 3.88796 1.99403 3.26582 4.63377 3.05329 4.24958 2.69998 2.08072 2.55545 2.80103 3.98379 6.02575 4.61478 1366 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22150 5.44107 1.63811 0.61958 0.77255 1.19828 0.35912\n- 762 2.57353 5.38150 3.07758 2.19297 4.67225 3.12833 4.00325 2.52954 2.76368 3.29793 3.79275 3.30198 3.65354 2.47724 2.66725 1.84870 3.24319 2.79818 5.84816 4.47259 1367 s - - -\n- 2.68708 4.41769 2.77376 2.72949 3.46606 2.40669 3.72675 3.29101 2.67576 2.69322 4.24746 2.90363 2.73761 3.18195 2.89846 2.37942 2.77637 2.98370 4.58623 3.61581\n- 1.09805 0.40941 6.01614 2.14324 0.12474 0.77224 0.61986\n- 763 2.19086 5.47067 3.45797 2.33402 3.22216 3.05793 3.32084 3.34183 2.45676 2.81848 4.52912 2.58751 3.34834 2.83681 3.06710 2.85131 2.54091 3.20259 4.13116 3.43509 1395 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06332 5.52316 2.85840 0.61958 0.77255 1.23487 0.34372\n- 764 2.30553 5.58663 3.37047 2.66617 4.91815 2.92358 4.07613 3.29000 2.09649 3.48156 4.63087 2.45561 3.40380 2.64038 2.63500 2.84512 2.03176 2.98730 6.02750 4.62488 1396 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00616 5.48869 6.21103 0.61958 0.77255 0.90124 0.52099\n- 765 2.35726 3.99543 3.43115 2.39061 3.87800 2.21240 4.13268 4.41286 2.21796 3.29296 3.94008 2.94079 3.02957 2.81782 3.36530 2.12930 2.35567 3.99747 6.06444 4.66695 1397 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00378 5.58068 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RnlAB__RnlA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RnlAB__RnlA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1094 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME RnlAB__RnlA\n-LENG 357\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 15:18:57 2022\n-NSEQ 36\n-EFFN 0.874512\n-CKSUM 2433713144\n-GA 20 20;\n-STATS LOCAL MSV -11.1636 0.69996\n-STATS LOCAL VITERBI -11.9896 0.69996\n-STATS LOCAL FORWARD -5.7870 0.69996\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57192 4.25243 2.98627 2.65158 3.23989 2.96143 3.63837 2.80116 2.68689 2.30584 3.58198 3.07166 3.53007 3.05893 2.94302 2.67995 2.85048 2.64612 4.89965 3.35870\n- 2.68612 4.42194 2.77512 2.73124 3.46362 2.40521 3.72483 3.29336 2.67742 2.69356 4.24590 2.90346 2.73740 3.18154 2.89800 2.37895 2.77528 2.98526 4.58485 3.61511\n- 0.39840 2.21924 1.51451 1.27372 0.32821 0.00000 *\n- 1 2.84818 4.36059 4.10005 3.55283 3.22862 3.93346 4.31459 2.15762 3.40396 1.72476 1.99182 3.86326 4.28992 3.69922 3.65148 3.25479 2.93017 1.94227 5.04362 3.87306 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03174 3.86171 4.58406 0.61958 0.77255 0.58290 0.81708\n- 2 2.50983 4.55777 2.93515 2.31327 3.76228 3.42760 3.66682 3.01464 2.52703 2.79286 3.11547 3.02941 3.82508 2.86986 2.95547 2.65866 2.30510 2.75125 5.11672 3.82586 13 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02916 3.94517 4.66751 0.61958 0.77255 0.50055 0.93190\n- 3 2.51523 4.64651 2.84060 2.20285 3.85653 2.98823 3.65062 3.06963 2.49146 2.89257 3.12939 2.94223 3.82146 2.83340 2.93644 2.64717 2.80734 2.65057 5.17893 3.87230 14 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03334 4.75568 0.61958 0.77255 0.55688 0.85096\n- 4 2.70670 4.75052 3.27877 2.76497 4.29432 3.40798 3.74490 3.68243 2.23740 3.26316 4.12502 3.16267 3.90872 2.91426 1.39825 2.41940 2.82953 3.32696 5.42417 4.18357 15 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03334 4.75568 0.61958 0.77255 0.55688 0.85096\n- 5 2.77489 5.24303 1.88269 2.09692 4.56607 3.28031 3.69076 4.04904 2.58149 3.56449 4.36672 2.06094 3.81535 2.83276 3.11704 2.34300 2.83820 3.63672 5.73586 4.29525 16 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03334 4.75568 0.61958 0.77255 0.55688 0.85096\n- 6 3.48694 4.91047 4.07922 3.84119 2.31646 4.02027 3.70500 3.47454 3.69423 2.88629 4.13334 3.92672 4.49150 3.96120 3.84387 3.60661 3.77504 3.35303 3.96553 0.73513 17 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02667 4.03334 4.75568 0.61958 0.77255 0.55688 0.85096\n- 7 2.89269 5.06780 3.22658 2.65190 4.48370 3.56418 3.62503 3.85300 1.30800 3.34920 4.19143 2.99368 3.9602'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02642 4.04252 4.76487 0.61958 0.77255 0.55920 0.84786\n- 350 2.33669 4.42294 3.28626 2.67213 3.57034 3.51255 2.75718 2.33889 2.65441 2.51605 3.52007 3.18227 3.90095 2.90514 3.02257 2.76083 2.82607 2.69455 4.97993 3.72122 368 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02642 4.04252 4.76487 0.61958 0.77255 0.55920 0.84786\n- 351 3.19434 4.51587 4.80108 4.26774 3.33294 4.50469 4.90660 1.08832 4.10516 1.69817 2.87645 4.51856 4.75315 4.33757 4.27816 3.86903 3.43787 1.83532 5.34438 4.18244 369 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02642 4.04252 4.76487 0.61958 0.77255 0.55920 0.84786\n- 352 2.75988 5.10811 2.29258 2.33630 4.45853 3.36098 3.66790 3.88693 1.50733 3.42876 4.24390 2.87249 3.84630 2.80695 2.80649 2.73118 2.81013 3.50866 5.59151 4.22415 370 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02642 4.04252 4.76487 0.61958 0.77255 0.55920 0.84786\n- 353 2.66569 5.11588 2.13537 2.22208 4.42936 3.19128 3.60518 3.89889 2.08762 3.40739 4.17998 2.44237 3.78748 2.72419 2.77600 2.54388 2.90518 3.35920 5.56585 4.16150 371 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02642 4.04252 4.76487 0.61958 0.77255 0.55920 0.84786\n- 354 3.23958 4.67300 4.55080 4.10433 3.13972 4.29158 4.72016 2.23659 3.87004 0.82337 3.04091 4.35585 4.63548 4.15575 4.03478 3.71959 3.51591 2.21666 5.15761 3.93668 372 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02642 4.04252 4.76487 0.61958 0.77255 0.55920 0.84786\n- 355 3.50125 4.92101 4.09331 3.85734 2.31920 4.03138 3.71083 3.48770 3.71015 2.89697 4.14559 3.93876 4.50256 3.97482 3.85774 3.61985 3.78948 3.36667 3.96852 0.72389 373 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02642 4.04252 4.76487 0.61958 0.77255 0.55920 0.84786\n- 356 2.53406 4.31450 3.48197 2.95890 3.60776 3.43993 3.91970 2.34532 2.88968 2.49454 3.55495 3.32575 3.92121 3.22263 3.23538 1.90972 2.37965 2.53388 5.06876 3.82548 374 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12046 4.04252 2.34408 0.61958 0.77255 0.55920 0.84786\n- 357 2.37410 4.25477 4.25282 3.70577 3.08507 3.99032 4.40831 1.69249 3.61629 2.11102 3.27588 3.96868 4.34956 3.86912 3.85174 3.31122 3.06883 1.49401 5.10523 3.89962 375 v - - -\n- 2.68622 4.42229 2.77524 2.73128 3.46358 2.40517 3.72499 3.29358 2.67731 2.69359 4.24602 2.90345 2.73744 3.18143 2.89781 2.37891 2.77524 2.98517 4.58481 3.61507\n- 0.18454 1.78076 * 0.70527 0.68117 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RnlAB__RnlB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RnlAB__RnlB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,380 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME RnlAB__RnlB\n-LENG 119\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 15:19:02 2022\n-NSEQ 50\n-EFFN 1.687622\n-CKSUM 3285663578\n-GA 20 20;\n-STATS LOCAL MSV -9.6179 0.71368\n-STATS LOCAL VITERBI -10.4190 0.71368\n-STATS LOCAL FORWARD -4.4654 0.71368\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62863 4.38947 2.99578 2.63380 3.12942 3.17121 3.78926 2.72830 2.70836 2.29284 3.52672 2.84955 3.63848 3.05642 3.02438 2.53428 2.86056 2.61527 5.00405 3.62208\n- 2.68621 4.42228 2.77523 2.73126 3.46357 2.40506 3.72498 3.29345 2.67744 2.69351 4.24620 2.90341 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58480 3.61506\n- 0.13163 2.88772 2.69374 0.88215 0.53425 0.00000 *\n- 1 3.06585 4.65903 4.37352 3.96742 3.55891 3.97914 4.68483 2.64192 3.71731 2.12598 0.90888 4.16088 4.49677 4.08858 3.90393 3.41458 3.02605 2.60793 5.39718 4.20763 7 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01815 4.41389 5.13624 0.61958 0.77255 0.58199 0.81823\n- 2 2.69216 4.41689 3.54378 2.75166 1.90656 3.66050 3.88959 2.67485 2.44204 2.62334 3.51981 3.14527 4.04053 3.23653 3.26571 2.90956 2.92323 2.69163 4.93518 2.93171 8 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03457 4.41389 3.82253 0.61958 0.77255 0.58199 0.81823\n- 3 2.70779 5.19796 2.46840 1.92730 4.05922 3.44529 3.66175 4.00873 2.21368 3.49661 4.24558 2.11540 3.85855 2.76628 2.77818 2.46389 2.94192 3.58141 5.63651 4.22668 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01845 4.39777 5.12012 0.61958 0.77255 0.60452 0.79039\n- 4 2.97484 4.34471 4.67888 4.11185 2.60466 4.14642 4.32134 1.28942 3.95509 2.14554 3.28564 4.19484 4.47447 4.10061 4.04290 3.46321 3.20704 2.07861 4.74364 2.38520 10 i - - -\n- 2.68619 4.42164 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69345 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.05258 3.09560 5.12012 0.64404 0.74479 0.60452 0.79039\n- 5 2.66948 5.15866 2.82833 2.22199 4.48836 3.47233 3.39673 3.95309 2.28908 3.44965 4.20756 2.75236 3.87059 2.63637 1.88517 2.68253 2.40270 3.54191 5.59264 4.20627 13 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03997 4.39777 3.61655 0.61958 0.77255 0.60452 0.79039\n- 6 2.37052 4.78699 3.05062 2.54839 4.00581 2.97397 3.52375 3.02129 2.37840 2.66075 3.86359 3.05825 3.89586 2.55748 2.67258 2.67311 2.61440 2.97814 5.30344 3.52037 14 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01885 4.37665 5.09900 0.61958 0.77255 0.58165 0.81865\n- 7 2.54864 4.13239 4.19355 3.60618 2.85499 3.51975 4.10147 2.32600 3.47819 1.67862 3.24747 3.79181 4.15561'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26624 4.98859 0.61958 0.77255 0.77109 0.62084\n- 112 2.77773 4.33797 3.91160 3.33817 3.45593 3.85238 4.13724 1.97842 2.21995 2.20265 3.11303 3.68175 4.21045 3.53332 3.50781 3.12614 3.01119 1.72736 5.02573 3.81728 130 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26624 4.98859 0.61958 0.77255 0.77109 0.62084\n- 113 2.55648 4.21424 3.00863 2.49645 3.44086 3.49637 3.71240 3.25968 2.56358 2.57281 3.75112 2.91915 3.55041 2.79810 2.61823 2.43363 2.65870 2.97693 5.20038 3.14358 131 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26624 4.98859 0.61958 0.77255 0.77109 0.62084\n- 114 2.43058 4.34561 2.87130 2.36291 4.10135 3.45492 3.45835 3.36497 2.44973 2.74479 3.66660 2.72667 3.84508 2.60753 2.61075 2.33835 2.86053 3.04950 5.35317 4.01210 132 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26624 4.98859 0.61958 0.77255 0.77109 0.62084\n- 115 3.24451 4.55117 5.03913 4.46588 2.40161 4.52933 4.85168 1.90184 4.33003 1.15244 3.05469 4.61831 4.75391 4.40642 4.39463 3.87107 3.47015 1.71565 5.17329 4.05393 133 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02107 4.26624 4.98859 0.61958 0.77255 0.77109 0.62084\n- 116 2.51911 4.57172 3.22673 2.66363 3.58390 3.52466 3.74643 2.95175 2.28180 2.29853 3.47041 3.13971 3.90933 2.46724 2.91187 2.74671 2.57117 2.77264 5.11921 3.84188 134 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05097 4.25643 3.33766 0.61958 0.77255 0.77109 0.62084\n- 117 2.40264 4.94719 2.94353 2.31029 4.22385 3.20529 3.63116 3.32532 2.25509 3.11339 4.01142 2.60883 3.82555 2.54545 2.86930 2.12505 2.86431 3.30142 5.42620 4.06485 135 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05352 4.22737 3.28284 0.61958 0.77255 0.79954 0.59699\n- 118 2.44928 4.65406 3.01603 2.54273 3.64966 2.99970 3.68228 3.25189 2.47029 2.72988 3.35497 2.60824 3.85391 2.86981 2.85471 2.39735 2.83132 2.70450 5.18582 3.88378 136 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11065 4.16363 2.41688 0.61958 0.77255 0.78096 0.61243\n- 119 2.47339 3.45390 2.91560 2.66275 3.41036 3.49303 3.48313 2.94030 2.46372 2.61357 3.43778 2.99461 3.87750 2.96512 3.04875 2.59879 2.56486 2.63151 5.03577 3.76656 137 k - - -\n- 2.68619 4.42225 2.77551 2.73145 3.46349 2.40535 3.72482 3.29289 2.67744 2.69340 4.24635 2.90295 2.73736 3.18141 2.89832 2.37872 2.77536 2.98517 4.58508 3.61520\n- 0.55640 0.85161 * 1.41087 0.27962 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2585209417.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2585209417.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1133 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2585209417\n-LENG 370\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:39 2021\n-NSEQ 42\n-EFFN 0.761353\n-CKSUM 2868490510\n-GA 10 10;\n-STATS LOCAL MSV -11.2272 0.69975\n-STATS LOCAL VITERBI -12.2861 0.69975\n-STATS LOCAL FORWARD -5.7938 0.69975\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47809 4.46293 3.02188 2.59568 3.24534 3.02396 3.65917 2.78720 2.65992 2.34388 3.66048 3.14416 3.50944 3.07326 2.81197 2.67295 2.85625 2.62822 4.66159 3.60600\n- 2.68620 4.42239 2.77534 2.73138 3.46345 2.40527 3.72509 3.29368 2.67736 2.69360 4.24362 2.90350 2.73744 3.18143 2.89815 2.37887 2.77488 2.98533 4.58491 3.61517\n- 0.30038 1.41098 4.16294 1.21639 0.35140 0.00000 *\n- 1 2.59442 4.60302 3.07903 2.35521 3.81299 3.44466 3.68443 3.18533 2.52158 2.85025 3.58945 3.04465 3.47272 2.52477 2.93661 2.58057 2.83096 2.16357 5.15257 3.86282 12 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04343 4.76578 0.61958 0.77255 0.49349 0.94287\n- 2 3.48343 4.83604 4.47344 4.22321 0.76856 4.12734 3.96414 2.98928 4.12671 2.32123 3.69593 4.21565 4.58423 4.24822 4.20404 3.74261 3.78573 2.99205 4.16780 2.51554 13 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04343 4.76578 0.61958 0.77255 0.49349 0.94287\n- 3 2.73843 4.97088 2.65242 2.11845 4.24316 3.35541 3.71058 3.30287 2.51192 3.28094 4.13119 1.65131 3.85608 2.87720 2.94530 2.74133 2.99971 3.32383 5.49289 4.12390 14 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04343 4.76578 0.61958 0.77255 0.49349 0.94287\n- 4 2.89116 4.64644 3.59969 3.52240 4.65552 0.50810 4.62931 4.29957 3.72674 3.93133 4.91066 3.76443 4.04289 4.03761 3.94119 3.06847 3.38571 3.79489 5.70252 4.76423 15 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04343 4.76578 0.61958 0.77255 0.49349 0.94287\n- 5 2.47164 4.33279 3.40759 2.95419 3.77364 3.29353 3.96159 3.03877 2.88371 2.18665 3.73768 3.28920 3.86144 3.24171 3.22152 1.65666 2.50238 2.75772 5.20959 3.94981 16 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04343 4.76578 0.61958 0.77255 0.49349 0.94287\n- 6 2.83335 5.27659 2.44023 1.85513 4.58168 3.32303 3.69248 4.06010 2.49693 3.56624 4.38300 1.84560 3.85028 2.31098 2.96030 2.76870 3.08769 3.66364 5.71709 4.30337 17 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04343 4.76578 0.61958 0.77255 0.49349 0.94287\n- 7 3.35181 4.76519 4.46331 4.10707 3.20890 4.19758 4.70942 2.42552 3.87316 0.69009 3.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 3.97560 4.69795 0.61958 0.77255 0.56162 0.84464\n- 363 2.54241 4.52019 3.06091 2.59451 3.07337 3.12407 3.71965 3.20528 2.60240 2.86505 3.72457 2.98114 3.82224 2.66472 3.01203 1.93062 2.81379 2.91365 5.12678 3.81656 388 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08019 3.97560 2.84231 0.61958 0.77255 0.56162 0.84464\n- 364 2.01535 4.45972 2.83047 2.59392 3.75784 3.06775 3.76548 3.35432 2.64671 3.01419 3.85141 3.02960 3.74836 2.96603 3.07397 2.03673 2.53688 3.00150 5.29069 3.99940 389 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12675 3.92518 2.30953 0.61958 0.77255 0.60673 0.78774\n- 365 3.25997 4.68160 4.10368 3.72589 1.88288 4.04187 3.45952 3.06761 3.59687 2.48701 3.71568 3.76989 4.40561 3.75899 3.76739 3.41022 3.50273 2.96973 3.69605 1.17709 390 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03274 3.83117 4.55352 0.61958 0.77255 0.68047 0.70599\n- 366 2.69245 4.60455 3.37941 2.79890 3.78514 3.48785 3.71407 2.90767 2.28413 2.71808 3.72781 3.19876 3.92080 2.92408 1.72401 2.81695 2.94600 2.63827 5.14508 3.87187 391 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03274 3.83117 4.55352 0.61958 0.77255 0.68047 0.70599\n- 367 2.53105 4.39304 3.21235 2.65173 3.46614 3.44548 3.56035 2.93281 2.51673 2.61803 2.96291 3.10280 3.83276 2.93245 2.81396 2.45801 2.55606 2.68548 4.94938 3.54627 392 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04801 3.83117 3.68140 0.61958 0.77255 0.68047 0.70599\n- 368 2.67378 4.79987 3.04665 2.50057 4.08291 3.16205 3.57082 3.47598 1.94398 2.72388 3.89483 2.83343 3.82924 2.66887 2.22633 2.71060 2.89089 3.16715 5.25489 3.97915 393 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07254 3.81641 3.03729 0.61958 0.77255 0.69098 0.69532\n- 369 2.49975 4.35602 3.31146 2.75840 3.54823 3.45234 3.72639 2.41808 2.56759 2.49932 3.48073 3.17515 3.86230 2.93261 2.61871 2.69687 2.54046 2.58359 4.96364 3.71952 394 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 3.77841 4.50076 0.61958 0.77255 0.71686 0.66999\n- 370 1.76844 4.15823 3.32035 2.88821 3.82181 2.59506 3.91515 2.96002 2.85862 2.86564 3.75135 3.17539 3.39200 3.18578 3.20180 2.44655 2.65944 2.55302 5.22162 3.98425 395 a - - -\n- 2.68621 4.42209 2.77522 2.73126 3.46357 2.40516 3.72461 3.29334 2.67731 2.69358 4.24693 2.90345 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.12077 2.17361 * 0.80833 0.58987 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2600853143.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2600853143.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1175 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2600853143\n-LENG 384\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:40 2021\n-NSEQ 53\n-EFFN 1.018982\n-CKSUM 475316399\n-GA 10 10;\n-STATS LOCAL MSV -11.5468 0.69949\n-STATS LOCAL VITERBI -12.2954 0.69949\n-STATS LOCAL FORWARD -5.8161 0.69949\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60469 4.66426 2.95822 2.53187 3.19775 3.21958 3.69396 2.75619 2.56452 2.36225 3.57679 3.00951 3.43644 3.02138 2.89622 2.68232 2.90203 2.70818 4.78457 3.40907\n- 2.68633 4.42253 2.77520 2.73115 3.46348 2.40525 3.72522 3.29319 2.67726 2.69347 4.24345 2.90290 2.73761 3.18174 2.89825 2.37910 2.77544 2.98512 4.58504 3.61531\n- 0.45082 1.23976 2.61124 1.52881 0.24436 0.00000 *\n- 1 2.59644 4.40839 3.34303 2.77672 3.56440 3.53535 3.77135 2.58052 2.41687 2.59216 2.52599 2.79551 3.91790 3.04956 3.00431 2.71958 2.73328 2.58097 4.97788 3.72794 20 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07228 4.13171 2.92475 0.61958 0.77255 0.56628 0.83849\n- 2 2.57631 4.43557 3.14513 2.70117 3.47529 3.25880 3.73635 2.64239 2.39932 2.22234 3.53188 3.02708 3.88531 2.99492 3.06718 2.56442 2.74824 2.67122 4.99816 3.62717 21 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02532 4.08474 4.80709 0.61958 0.77255 0.50493 0.92519\n- 3 2.60492 4.91068 2.81981 2.13097 4.18093 3.41088 3.60850 3.14369 2.26556 3.08357 3.61707 2.56577 3.80326 2.46663 2.85202 2.57656 2.83606 3.06449 5.39031 4.03090 22 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02379 4.14630 4.86865 0.61958 0.77255 0.44754 1.01943\n- 4 2.62875 4.80168 2.95259 2.48444 4.03779 3.46042 3.65539 2.88861 2.03375 3.05534 3.24347 2.71848 3.84857 2.75853 2.46533 2.66934 2.85807 2.98612 5.30242 3.97860 23 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20016 4.92251 0.61958 0.77255 0.48576 0.95510\n- 5 2.54752 5.06784 2.89758 2.26008 4.38464 3.41962 3.42297 3.69990 1.99777 3.35426 4.12072 2.45860 3.81804 2.24092 2.78639 2.52748 2.88306 3.34819 5.51107 4.13215 24 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20016 4.92251 0.61958 0.77255 0.48576 0.95510\n- 6 3.46558 4.81413 4.74536 4.36268 0.90436 4.41070 4.08210 2.49454 4.20641 2.04444 3.43063 4.34491 4.74933 4.29239 4.29075 3.81871 3.72721 2.71970 4.27620 2.64061 25 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20016 4.92251 0.61958 0.77255 0.48576 0.95510\n- 7 2.79693 4.83775 2.92693 2.73974 4.09874 3.37382 4.00765 3.46019 2.86693 3.41544 4.36'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20016 4.92251 0.61958 0.77255 0.48576 0.95510\n- 377 3.26274 4.52915 5.09513 4.56645 3.51361 4.68216 5.16428 1.25761 4.45839 1.55104 3.29841 4.76362 4.91143 4.63437 4.59694 4.05739 3.50688 1.40458 5.53418 4.39302 414 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20016 4.92251 0.61958 0.77255 0.48576 0.95510\n- 378 2.59497 5.08468 2.87579 2.19343 4.40450 3.41552 3.37737 3.86450 2.10282 3.37271 4.13727 2.61693 3.81800 2.52339 2.69486 2.08522 2.80557 3.46279 5.52613 4.14297 415 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20016 4.92251 0.61958 0.77255 0.48576 0.95510\n- 379 2.91240 4.32064 4.46842 3.47475 3.00407 4.08342 4.39609 1.94583 3.76070 1.28581 2.61524 4.09097 4.39259 3.93671 3.90997 3.38823 3.14093 2.11779 4.94278 3.80015 416 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20016 4.92251 0.61958 0.77255 0.48576 0.95510\n- 380 2.48369 4.97736 2.94481 2.40263 4.29680 3.22336 3.62691 3.73956 1.80408 3.28175 4.06278 2.68524 3.55925 2.74872 2.66317 2.37732 2.81502 3.23128 5.46358 4.10155 417 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05392 4.20016 3.28339 0.61958 0.77255 0.48576 0.95510\n- 381 2.53566 4.96010 2.67513 2.37228 4.24546 3.41027 3.49837 3.57744 1.96887 3.05368 4.01808 2.87850 3.61952 2.62038 2.72693 2.45002 2.75624 3.02375 5.42976 4.06078 418 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02324 4.16948 4.89182 0.61958 0.77255 0.52334 0.89780\n- 382 2.63276 5.09470 2.55263 2.10726 4.42241 3.39464 3.28312 3.89334 1.94541 3.38928 4.14228 2.76521 3.79499 2.69413 2.56444 2.50292 2.86379 3.38633 5.53363 3.91919 419 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06973 4.16948 2.95857 0.61958 0.77255 0.52334 0.89780\n- 383 2.59608 4.65390 3.02593 2.46735 3.85739 3.45969 3.67044 3.17757 2.35403 2.38394 3.55384 2.81630 3.84691 2.81015 2.65967 2.56533 2.74955 2.67914 5.18112 3.87995 420 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21447 4.12408 1.73245 0.61958 0.77255 0.57454 0.82773\n- 384 2.55695 4.42848 2.90447 2.25314 3.92656 3.39492 3.60499 2.96394 2.29350 2.95312 3.77824 2.81827 3.78692 2.76873 2.76094 2.41705 2.73685 2.90862 5.21390 3.89358 421 e - - -\n- 2.68633 4.42206 2.77521 2.73110 3.46373 2.40528 3.72521 3.29310 2.67732 2.69367 4.24716 2.90325 2.73766 3.18151 2.89743 2.37868 2.77528 2.98538 4.58503 3.61522\n- 0.49547 0.93977 * 1.47179 0.26073 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2603008502.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2603008502.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1205 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2603008502\n-LENG 394\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:40 2021\n-NSEQ 1552\n-EFFN 1.163361\n-CKSUM 1434864529\n-GA 10 10;\n-STATS LOCAL MSV -11.4941 0.69935\n-STATS LOCAL VITERBI -12.3820 0.69935\n-STATS LOCAL FORWARD -5.7179 0.69935\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57656 4.69580 3.01022 2.57101 3.13754 3.25275 3.61627 2.75740 2.56621 2.33761 3.58021 3.01001 3.51750 3.00799 2.91137 2.66549 2.93107 2.70960 4.75066 3.36479\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24663 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61503\n- 0.05048 3.41318 4.11735 0.52425 0.89649 0.00000 *\n- 1 2.94886 4.51135 4.26525 3.78253 3.38235 3.93364 4.46764 2.47541 3.55370 2.01882 1.16585 4.01077 4.39012 3.89843 3.76005 3.17636 3.25197 2.32285 5.17170 3.94291 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26557 4.98791 0.61958 0.77255 0.49870 0.93476\n- 2 3.82363 5.06253 4.82015 4.55291 0.67180 4.56025 3.74315 3.33428 4.39330 2.60161 3.94788 4.31695 4.88995 4.37110 4.41009 3.98174 4.06466 3.32830 3.87714 2.04947 3 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26557 4.98791 0.61958 0.77255 0.49870 0.93476\n- 3 2.62777 4.25097 3.67771 3.10777 3.07374 3.64883 3.91171 2.07249 2.86628 2.44746 3.35734 2.53555 4.02485 3.28293 3.34117 2.90879 2.85973 2.27616 4.82889 2.90712 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26557 4.98791 0.61958 0.77255 0.49870 0.93476\n- 4 3.22942 4.94701 3.98183 3.93927 5.03874 0.31816 5.01654 4.75274 4.17281 4.34945 5.34127 4.14818 4.34853 4.46657 4.34804 3.41531 3.74050 4.20462 6.01130 5.16017 5 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26557 4.98791 0.61958 0.77255 0.49870 0.93476\n- 5 2.71208 5.15942 2.82558 1.75514 4.49257 3.43984 3.59685 3.95594 1.99012 3.44816 4.21216 2.89412 3.85152 2.66477 2.56662 2.34161 2.88500 3.54556 5.58691 4.20256 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26557 4.98791 0.61958 0.77255 0.49870 0.93476\n- 6 2.68224 4.97080 3.02083 2.46332 4.26237 3.47238 3.65163 3.54085 1.96200 3.22157 4.04292 2.07176 3.86545 2.78140 2.55282 2.56727 2.87652 2.95821 5.43994 4.09853 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02108 4.26557 4.98791 0.61958 0.77255 0.49870 0.93476\n- 7 3.51696 4.83569 5.09356 4.56788 3.20931 4.75881 5.10544 2.13981 4.36811 0.67143 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02203 4.22203 4.94437 0.61958 0.77255 0.55404 0.85478\n- 387 2.53091 4.18246 3.69888 3.18166 3.22107 3.64667 3.88075 1.94023 3.04495 2.28334 3.29296 3.39215 3.95644 3.30275 3.27977 2.76651 2.61008 2.31446 4.78208 2.97382 424 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03332 4.22203 4.01165 0.61958 0.77255 0.55404 0.85478\n- 388 2.55074 5.08505 2.57530 2.20569 4.31207 3.38180 3.43531 3.82713 1.99416 3.37930 4.13399 2.77078 2.92407 2.66485 2.83693 2.46745 2.82240 3.40780 5.53195 4.13481 425 k - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40511 3.72496 3.29339 2.67743 2.69357 4.24692 2.90341 2.73736 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61493\n- 0.16638 3.17150 2.19518 0.85691 0.55247 0.56723 0.83723\n- 389 2.79693 4.22995 4.30178 3.72018 2.71756 3.87543 4.23525 2.02576 3.45166 1.36673 2.88149 3.93005 4.26963 3.78973 3.75323 3.19983 3.02714 2.22860 4.82346 3.64095 431 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02490 4.10102 4.82337 0.61958 0.77255 0.66896 0.71794\n- 390 2.54345 4.69236 2.96040 2.44713 3.13264 3.29937 3.47394 3.30701 2.35709 2.89347 3.77123 2.81553 3.38428 2.81041 2.93309 2.51514 2.58678 3.00981 5.21358 3.36321 432 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05497 4.10868 3.29535 0.61958 0.77255 0.67593 0.71067\n- 391 2.53989 4.92015 2.64552 2.30163 4.13440 3.39004 3.58660 3.33117 2.16768 3.15446 3.93980 2.76888 3.71923 2.62116 2.75508 2.29425 2.76768 3.16413 5.39459 3.94763 433 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17083 4.07918 1.96532 0.61958 0.77255 0.70335 0.68304\n- 392 2.55036 4.58705 3.03297 2.49082 3.34880 3.38290 3.46916 3.17687 2.44677 2.80230 3.67259 2.95478 3.81449 2.83276 2.34594 2.51886 2.79046 2.80520 5.11116 3.54230 434 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02939 3.93774 4.66008 0.61958 0.77255 0.61743 0.77507\n- 393 2.57895 4.80611 2.96027 2.40782 3.73620 3.17490 3.51429 3.38360 2.06714 3.01545 3.87544 2.63047 3.80358 2.71056 2.53243 2.61892 2.81995 3.06562 4.66458 3.92921 435 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05263 4.06751 3.37692 0.61958 0.77255 0.71377 0.67294\n- 394 2.55621 4.78975 2.94580 2.41215 3.94517 3.40739 3.56741 3.18419 2.18256 3.04924 3.76879 2.52680 3.79770 2.58737 2.76857 2.50719 2.69885 2.93302 5.28819 3.95345 436 k - - -\n- 2.68616 4.42224 2.77525 2.73135 3.46362 2.40522 3.72505 3.29339 2.67725 2.69347 4.24697 2.90330 2.73754 3.18137 2.89799 2.37872 2.77529 2.98526 4.58491 3.61517\n- 0.45628 1.00413 * 0.89300 0.52666 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2617826694.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2617826694.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1094 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2617826694\n-LENG 357\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:40 2021\n-NSEQ 32\n-EFFN 0.722656\n-CKSUM 2158855881\n-GA 10 10;\n-STATS LOCAL MSV -11.1652 0.69997\n-STATS LOCAL VITERBI -12.1195 0.69997\n-STATS LOCAL FORWARD -6.1278 0.69997\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43001 4.57691 3.00527 2.59074 3.28817 3.02316 3.66665 2.86575 2.67036 2.35528 3.62006 3.13483 3.41895 3.13388 2.78874 2.62635 2.89379 2.69587 4.25351 3.60694\n- 2.68612 4.42228 2.77517 2.73122 3.46357 2.40513 3.72497 3.29351 2.67743 2.69358 4.24624 2.90349 2.73742 3.18149 2.89803 2.37889 2.77519 2.98521 4.58480 3.61506\n- 0.10646 2.51742 3.89592 0.81925 0.58118 0.00000 *\n- 1 2.60584 4.31389 3.48153 2.86620 3.47997 3.54454 3.86768 2.72071 2.73988 2.48140 1.92626 3.34183 3.96348 3.19764 3.11800 2.74429 2.79422 2.42431 4.94808 3.72075 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01430 4.73665 0.61958 0.77255 0.49810 0.93569\n- 2 3.32715 4.75012 4.17081 3.84601 0.96132 4.08270 3.19302 3.18986 3.71738 2.57197 3.79923 3.88329 4.48184 3.89363 3.86572 3.49643 3.58629 3.09597 3.84768 2.15138 6 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01430 4.73665 0.61958 0.77255 0.49810 0.93569\n- 3 2.67540 4.88286 2.56366 2.29435 4.39034 3.23132 3.78774 3.86271 2.64757 3.44916 4.28624 1.64612 3.81882 2.96517 3.09309 2.09557 2.99935 3.45666 5.62953 4.25625 7 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01430 4.73665 0.61958 0.77255 0.49810 0.93569\n- 4 2.37918 4.84467 2.88503 2.33451 4.13752 2.90461 3.22470 3.56633 2.38813 3.14506 3.94704 2.81981 3.25671 2.75018 2.65936 2.30343 2.82880 3.21691 5.36280 4.01474 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01430 4.73665 0.61958 0.77255 0.49810 0.93569\n- 5 2.71399 5.11335 2.49728 2.20663 4.43749 3.38198 3.47395 3.88631 1.65403 3.38978 4.17891 2.86110 3.81824 2.72419 2.56812 2.60504 2.94381 3.49760 5.53472 4.16888 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01430 4.73665 0.61958 0.77255 0.49810 0.93569\n- 6 3.17094 4.99635 3.67660 3.16055 4.38712 3.62920 3.93538 3.94030 2.30608 3.43054 4.42872 3.50857 4.12641 3.15015 0.78200 3.24931 3.42822 3.65854 5.41361 4.28548 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02719 4.01430 4.73665 0.61958 0.77255 0.49810 0.93569\n- 7 3.32797 4.69449 4.67947 4.18837 2.55747 4.44068 4.56502 2.28191 4.03456 0.84666 2.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06708 3.82140 3.14694 0.61958 0.77255 0.66560 0.72148\n- 350 2.73109 4.84089 3.09158 2.56318 4.23156 3.15947 3.57368 3.60399 1.84115 3.15642 4.00715 3.01256 3.85030 2.72680 1.86778 2.76438 2.81492 3.28124 5.31352 4.07141 381 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03420 3.78852 4.51087 0.61958 0.77255 0.43542 1.04127\n- 351 2.31112 4.40186 3.18868 2.70284 3.96567 2.78772 3.81866 3.36190 2.69188 3.01930 3.85629 3.10113 2.42376 3.02870 2.98213 2.20112 2.62685 2.70372 5.29724 4.02404 382 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02815 3.98020 4.70255 0.61958 0.77255 0.45769 1.00169\n- 352 2.25697 4.70263 3.00429 2.42210 3.95569 2.89460 3.63694 3.36263 2.33129 2.90652 3.80887 2.86361 3.63166 2.80259 2.81066 2.50620 2.64817 2.86863 5.24381 3.92548 383 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02603 4.74838 0.61958 0.77255 0.48576 0.95510\n- 353 3.30001 4.67752 4.68259 4.18485 3.10831 4.44980 4.77797 2.03231 3.96101 0.84508 2.97599 4.45645 4.70986 4.20491 4.11977 3.84430 3.54722 2.23099 5.16131 3.97250 384 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02687 4.02603 4.74838 0.61958 0.77255 0.48576 0.95510\n- 354 2.68012 4.83238 3.08948 2.53451 4.14321 3.45435 3.45754 3.54711 2.18278 3.12578 3.95466 3.01836 3.86005 2.78439 1.95530 2.16131 2.84215 3.08295 5.32686 4.03606 385 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04757 4.02603 3.55399 0.61958 0.77255 0.48576 0.95510\n- 355 2.25243 4.31109 4.22831 3.67748 3.38174 4.00524 4.40902 1.87401 3.57734 1.63335 3.25234 3.96077 4.36005 3.84007 3.82113 3.32186 3.10321 1.71362 5.12667 3.94135 386 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02742 4.00588 4.72823 0.61958 0.77255 0.50678 0.92240\n- 356 2.73009 4.35375 4.46991 3.98779 3.61354 4.10968 4.76443 1.72007 3.87105 2.21198 3.44922 4.21226 4.52904 4.17454 4.10408 3.49434 3.22242 1.04258 5.46096 4.24146 387 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11527 4.00588 2.40058 0.61958 0.77255 0.50678 0.92240\n- 357 2.68827 5.03386 2.93632 2.37790 4.37854 3.44092 3.57098 3.78767 1.69869 3.29533 4.10875 2.79801 3.84655 2.42355 2.31789 2.60342 2.96073 3.43205 5.43092 4.13223 388 k - - -\n- 2.68614 4.42226 2.77514 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24662 2.90348 2.73741 3.18148 2.89802 2.37886 2.77521 2.98520 4.58478 3.61504\n- 0.09721 2.37911 * 0.51915 0.90393 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2623274509.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2623274509.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1172 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2623274509\n-LENG 383\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:40 2021\n-NSEQ 9\n-EFFN 0.812988\n-CKSUM 1349481763\n-GA 10 10;\n-STATS LOCAL MSV -11.2803 0.69952\n-STATS LOCAL VITERBI -12.1515 0.69952\n-STATS LOCAL FORWARD -6.0491 0.69952\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59518 4.50144 2.97331 2.56191 3.27327 3.12596 3.68799 2.74113 2.59910 2.34167 3.62106 3.08023 3.36027 3.04856 2.88207 2.65358 2.94318 2.67185 4.39849 3.54779\n- 2.68615 4.42235 2.77530 2.73118 3.46364 2.40523 3.72505 3.29364 2.67724 2.69365 4.24576 2.90357 2.73750 3.18156 2.89776 2.37886 2.77530 2.98491 4.58487 3.61513\n- 0.41366 1.43739 2.29040 0.92527 0.50489 0.00000 *\n- 1 2.62199 4.50049 3.29311 2.71284 3.64051 3.51317 3.17106 3.02861 2.49397 2.68419 2.77787 3.15689 3.89581 2.94539 2.23829 2.76212 2.84900 2.52432 5.01980 3.75274 7 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02802 3.98474 4.70709 0.61958 0.77255 0.58543 0.81389\n- 2 2.77385 5.19292 2.45887 1.60668 4.51260 2.81419 3.66163 3.97576 2.22160 3.49346 4.30429 2.49176 3.81774 2.80406 2.93425 2.72057 3.02793 3.58295 5.65796 4.25402 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02802 3.98474 4.70709 0.61958 0.77255 0.58543 0.81389\n- 3 2.58441 4.86917 2.56784 2.34898 4.17635 2.96669 3.60554 3.61056 2.10826 3.18221 3.97935 2.87757 3.24037 2.74231 2.86485 2.41637 2.82936 2.90673 5.39280 4.03404 9 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02802 3.98474 4.70709 0.61958 0.77255 0.58543 0.81389\n- 4 2.43148 4.72414 3.07570 2.52558 3.99127 3.43658 3.63560 3.37405 2.17038 2.99668 3.83554 2.70831 3.83885 2.80411 2.27780 2.68573 2.85958 2.53945 5.24389 3.95244 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02802 3.98474 4.70709 0.61958 0.77255 0.50413 0.92642\n- 5 2.57667 4.44832 3.24843 2.48470 3.61439 3.49586 3.72462 2.70421 2.30064 2.45281 3.19688 3.14263 3.87911 2.97417 3.02522 2.53896 2.80775 2.50490 5.01144 3.74893 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02664 4.03449 4.75684 0.61958 0.77255 0.45494 1.00645\n- 6 2.60361 4.74757 3.03732 2.47786 3.98301 3.43696 3.63629 3.38771 2.25234 2.79538 3.40132 2.53331 3.82747 2.79780 2.62038 2.48302 2.45467 3.07869 5.25637 3.94052 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02538 4.08240 4.80474 0.61958 0.77255 0.48576 0.95510\n- 7 2.61807 4.84105 2.99104 2.44449 4.12912 3.41709 3.62485 3.54629 2.22218 3.12959 3.93'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02538 4.08240 4.80474 0.61958 0.77255 0.48576 0.95510\n- 376 2.60419 4.75468 2.97749 2.46809 3.38229 3.40863 3.65594 3.43008 2.15856 3.04365 3.86906 2.68919 2.56806 2.82019 2.89128 2.45256 2.84639 3.11203 5.28744 3.96122 402 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02538 4.08240 4.80474 0.61958 0.77255 0.48576 0.95510\n- 377 3.25281 4.57409 4.88412 4.32648 2.00481 4.48489 4.65717 1.82485 4.19336 1.16991 2.94004 4.50683 4.69368 4.26901 4.28208 3.82517 3.47413 2.27957 4.94227 3.69210 403 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02538 4.08240 4.80474 0.61958 0.77255 0.48576 0.95510\n- 378 2.88519 5.15274 3.05164 2.55710 4.54563 3.53229 3.63657 3.95245 1.46336 3.42889 4.25440 2.20678 3.94439 2.76642 2.21058 2.86548 3.09260 3.59293 5.52049 4.24915 404 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02538 4.08240 4.80474 0.61958 0.77255 0.48576 0.95510\n- 379 2.71645 4.25975 3.90100 3.32876 2.36766 3.77879 4.02660 2.08592 2.54169 1.90330 3.21491 3.63903 4.13345 3.48907 3.45801 3.05748 2.94729 2.33846 4.79956 3.55309 405 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09218 4.08240 2.64236 0.61958 0.77255 0.48576 0.95510\n- 380 2.64150 4.83834 3.01458 2.46398 4.11652 3.43239 3.61119 3.08385 1.95315 3.10836 3.92667 2.68699 3.82890 2.75794 2.46758 2.29923 2.86904 3.19777 5.32120 4.00750 406 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16360 4.01732 2.01800 0.61958 0.77255 0.55433 0.85439\n- 381 2.69131 4.84917 2.89952 2.45276 3.98239 3.40955 3.59985 3.52920 1.83596 3.10928 3.95546 2.42886 3.83601 2.77521 2.63030 2.71562 2.92091 3.21455 5.23565 3.16973 407 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09161 3.88473 2.70334 0.61958 0.77255 0.66978 0.71707\n- 382 2.62942 4.94918 2.34268 2.24383 4.24214 2.85797 3.12310 3.69140 2.21906 3.25111 4.06059 2.78709 3.75199 2.74035 2.88225 2.36160 2.87944 3.32736 5.45028 4.07318 408 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03292 3.82604 4.54838 0.61958 0.77255 0.71268 0.67399\n- 383 2.49397 3.44221 3.35576 2.79576 3.57343 3.38159 3.74730 2.91404 2.60242 2.39188 3.52899 3.18561 3.83280 3.02268 2.41519 2.40858 2.76737 2.66012 4.97707 3.72685 409 l - - -\n- 2.68630 4.42237 2.77503 2.73136 3.46366 2.40525 3.72432 3.29342 2.67753 2.69367 4.24702 2.90310 2.73738 3.18137 2.89797 2.37891 2.77517 2.98513 4.58489 3.61515\n- 0.25543 1.48981 * 1.31742 0.31174 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2634882613.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2634882613.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1214 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2634882613\n-LENG 397\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:41 2021\n-NSEQ 7\n-EFFN 0.960449\n-CKSUM 463293105\n-GA 10 10;\n-STATS LOCAL MSV -11.4292 0.69929\n-STATS LOCAL VITERBI -12.1880 0.69929\n-STATS LOCAL FORWARD -5.9957 0.69929\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51836 4.45716 2.95533 2.59537 3.27453 3.09921 3.67893 2.81895 2.67677 2.30360 3.61464 3.13281 3.28193 3.06349 2.83124 2.62877 2.92054 2.69782 4.36071 3.70191\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16809 4.89043 0.61958 0.77255 0.00000 *\n- 1 3.30559 4.71239 4.67482 4.14924 3.15622 4.42661 4.74506 2.31573 3.91402 1.40608 1.25647 4.42173 4.69615 4.16463 4.07565 3.79959 3.54787 2.41734 5.17622 4.01997 1 m - - -\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73716 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.11928 2.25453 4.89043 0.35178 1.21549 0.48576 0.95510\n- 2 2.35081 4.96225 2.98728 2.45283 4.28722 3.44377 3.63965 3.71367 2.32220 3.26266 4.06042 2.58757 3.85092 2.43076 2.07618 2.68229 2.55955 3.35253 5.44523 4.10949 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16809 4.89043 0.61958 0.77255 0.48576 0.95510\n- 3 2.60440 4.67333 3.06644 2.55976 3.95393 3.42541 3.72152 3.34422 2.55069 2.98984 3.82933 2.44361 3.85744 2.54241 2.98125 2.39121 2.54512 2.30214 5.26732 3.96365 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16809 4.89043 0.61958 0.77255 0.48576 0.95510\n- 4 2.37273 4.33022 3.34818 3.20257 4.57096 1.01342 4.39362 4.06715 3.41102 3.73669 4.56177 3.38599 3.81344 3.67560 3.71829 1.95192 2.88332 3.44150 5.88410 4.66301 5 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16809 4.89043 0.61958 0.77255 0.48576 0.95510\n- 5 2.81913 4.38485 4.01243 3.47618 3.47947 3.86673 4.29024 1.99286 3.35495 1.96308 3.38420 3.79281 4.27350 3.67136 3.63281 3.18541 1.62954 2.14672 5.15161 3.93845 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16809 4.89043 0.61958 0.77255 0.48576 0.95510\n- 6 2.68253 4.83960 2.14031 2.47282 4.12696 3.39916 3.75996 2.83822 2.61557 3.14520 4.00664 2.98961 2.08041 2.93201 3.08005 2.72328 2.94874 3.16191 5.43289 4.08666 7 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02327 4.16809 4.89043 0.61958 0.77255 0.48576 0.95510\n- 7 2.74109 5.14159 2.25374 2.31479 4.49384 1.99330 3.70123 3.96309 2.51436 3.48705 4.278'..b'.68616 4.42239 2.77534 2.73101 3.46368 2.40513 3.72509 3.29335 2.67718 2.69369 4.24704 2.90361 2.73736 3.18161 2.89792 2.37901 2.77516 2.98508 4.58491 3.61470\n- 0.52599 1.23195 2.14297 1.21199 0.35326 0.34803 1.22444\n- 390 2.33452 4.29203 3.26289 3.11456 4.48417 1.08710 4.31191 3.97637 3.31824 3.65038 4.48292 3.31762 3.76488 3.59216 3.62945 2.01724 2.83864 3.37361 5.79981 4.57066 405 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13039 4.08444 2.24982 0.61958 0.77255 0.57969 0.82115\n- 391 2.82988 5.36235 1.73213 1.82668 4.66464 3.24099 3.69908 4.16673 2.63737 3.66535 4.47953 2.29929 3.81016 2.84778 3.19960 2.34887 3.10109 3.74302 5.82892 4.35599 406 d - - -\n- 2.68589 4.42231 2.77525 2.73110 3.46360 2.40519 3.72500 3.29360 2.67747 2.69361 4.24696 2.90327 2.73746 3.18152 2.89807 2.37893 2.77507 2.98524 4.58483 3.61509\n- 0.48172 1.30759 2.19097 0.52919 0.88936 0.67493 0.71171\n- 392 2.98432 4.42065 4.36881 3.87329 3.27420 4.12236 4.59113 1.95753 3.70813 1.43675 3.15389 4.14108 4.48383 4.00584 3.92573 3.49820 3.25694 1.44702 5.19095 3.96831 409 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03136 3.87371 4.59606 0.61958 0.77255 0.75803 0.63222\n- 393 3.00970 4.38106 4.56137 4.07286 3.43274 4.25583 4.81108 1.24914 3.93992 1.94322 3.26459 4.31659 4.60333 4.22539 4.15403 3.64226 3.28400 1.46523 5.38222 4.17006 410 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03136 3.87371 4.59606 0.61958 0.77255 0.75803 0.63222\n- 394 2.64509 4.85682 2.64842 2.35071 4.22562 3.27128 3.65875 3.68683 2.42414 3.25956 4.09456 2.42244 2.46827 2.35380 2.83254 2.65893 2.92195 3.32381 5.44470 4.09498 411 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03136 3.87371 4.59606 0.61958 0.77255 0.75803 0.63222\n- 395 3.25982 4.66120 4.24043 3.95510 1.00969 3.94944 3.87762 2.78328 3.86208 2.15302 3.51321 4.02053 4.40794 4.02969 3.98150 3.52974 3.56093 2.77409 4.12619 2.49300 412 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03136 3.87371 4.59606 0.61958 0.77255 0.75803 0.63222\n- 396 2.71553 4.73892 3.18281 2.69919 4.18355 3.37962 3.70294 3.61660 2.22795 3.18018 4.06815 3.11773 2.75483 2.88283 1.54011 2.78423 2.99186 3.28672 5.32753 4.09388 413 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03136 3.87371 4.59606 0.61958 0.77255 0.60087 0.79481\n- 397 2.59188 4.54891 3.18298 2.61470 3.75070 2.98699 3.67479 3.11907 2.24523 2.78464 2.95997 3.08255 3.85521 2.88707 2.50885 2.70328 2.82280 2.54667 5.09226 3.82133 414 k - - -\n- 2.68631 4.42238 2.77513 2.73099 3.46367 2.40500 3.72508 3.29367 2.67718 2.69368 4.24703 2.90339 2.73753 3.18160 2.89771 2.37900 2.77508 2.98532 4.58490 3.61516\n- 0.46036 0.99712 * 0.89692 0.52395 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2634932349.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2634932349.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1112 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2634932349\n-LENG 363\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:41 2021\n-NSEQ 365\n-EFFN 1.662483\n-CKSUM 3583562965\n-GA 10 10;\n-STATS LOCAL MSV -11.5242 0.69988\n-STATS LOCAL VITERBI -11.9949 0.69988\n-STATS LOCAL FORWARD -5.9975 0.69988\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37003 4.60600 3.06072 2.55994 3.23814 3.05793 3.63680 3.00274 2.68343 2.39423 3.64889 3.14222 3.33175 3.05638 2.76000 2.59543 2.84463 2.70312 4.51508 3.70538\n- 2.68630 4.42262 2.77539 2.73136 3.46403 2.40541 3.72527 3.29348 2.67751 2.69382 4.24184 2.90354 2.73751 3.18197 2.89770 2.37849 2.77471 2.98533 4.58485 3.61534\n- 0.49418 1.10840 2.81604 1.95795 0.15216 0.00000 *\n- 1 2.65044 4.45794 3.12705 2.72481 3.46271 3.62859 3.84621 2.97146 2.72964 2.41291 1.98833 3.32460 3.96683 3.13838 3.07238 2.75469 2.67076 2.62443 4.49358 3.68463 32 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44211 5.16445 0.61958 0.77255 0.57462 0.82763\n- 2 2.83885 4.30728 4.60656 4.01772 1.58945 4.07648 4.36236 2.30196 3.86296 1.59151 3.18009 4.13925 4.40601 4.01640 3.95910 3.38506 2.94225 2.22657 4.85987 3.42571 33 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44211 5.16445 0.61958 0.77255 0.57462 0.82763\n- 3 2.66610 5.09049 2.79719 2.22088 4.38399 3.47621 3.62016 3.72025 2.44699 3.37492 4.15157 1.82299 3.88540 2.81438 2.94854 2.64301 2.27879 3.36278 5.55816 4.05023 34 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44211 5.16445 0.61958 0.77255 0.57462 0.82763\n- 4 2.38852 4.82305 3.04135 2.57389 4.34663 3.29265 3.95203 3.76593 2.77559 3.32824 4.20846 3.04953 1.36001 3.13218 3.18731 2.49109 3.03553 3.38780 5.62238 4.30766 35 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44211 5.16445 0.61958 0.77255 0.57462 0.82763\n- 5 2.44364 5.09634 2.81940 2.18840 4.40033 3.47155 3.67104 3.83206 2.28722 3.04561 4.15038 2.80911 3.86942 2.67941 2.91132 1.87991 2.62215 3.46516 5.55542 4.17038 36 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44211 5.16445 0.61958 0.77255 0.57462 0.82763\n- 6 3.27515 5.00532 3.79654 3.09458 4.80635 3.89376 3.84437 4.16590 2.06180 3.61452 4.49205 3.32543 4.27205 2.81945 0.81555 3.28980 3.45038 3.84961 5.64995 4.49304 37 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44211 5.16445 0.61958 0.77255 0.56372 0.84185\n- 7 3.61899 4.87233 5.46152 4.88706 2.66992 4.95663 5.24087 1.68048 4.75356 0.78991 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02476 4.40143 4.40624 0.61958 0.77255 0.50505 0.92502\n- 356 2.60527 5.11408 2.91195 2.34666 4.42782 2.90897 3.57317 3.65040 2.14544 3.36577 4.16374 2.86361 3.48835 2.68824 1.97825 2.56724 2.81927 3.47583 5.14609 4.17684 521 r - - -\n- 2.68620 4.42228 2.77522 2.73126 3.46350 2.40515 3.72497 3.29350 2.67740 2.69354 4.24692 2.90342 2.73738 3.18144 2.89798 2.37885 2.77519 2.98521 4.58479 3.61506\n- 0.08049 2.83099 3.99662 0.73590 0.65215 0.54371 0.86891\n- 357 1.99188 4.95667 2.90881 2.49086 4.22100 3.45920 3.51923 3.64901 2.43791 3.23094 4.03185 2.95534 2.20348 2.85101 2.84340 2.55417 2.93003 3.29546 5.45323 3.82649 531 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03027 4.44368 4.01408 0.61958 0.77255 0.57229 0.83064\n- 358 2.62287 5.13502 2.81819 2.34519 4.39555 2.98839 3.00579 3.71442 2.25484 3.15977 4.18149 2.72019 3.76364 2.47674 2.46014 2.34334 2.81183 3.40561 5.58062 4.18345 532 k - - -\n- 2.68616 4.42230 2.77525 2.73120 3.46359 2.40507 3.72485 3.29354 2.67737 2.69360 4.24695 2.90347 2.73744 3.18145 2.89786 2.37888 2.77522 2.98524 4.58482 3.61508\n- 0.08423 2.59031 5.15360 1.01303 0.45117 0.49612 0.93877\n- 359 3.64005 4.94343 5.26591 4.69587 3.14459 4.89627 5.16094 2.39450 4.53410 0.57040 2.69679 4.94083 4.65777 4.58212 4.60642 4.25442 3.85397 2.64340 5.36740 4.31922 543 L - - -\n- 2.68614 4.42226 2.77521 2.73124 3.46355 2.40510 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77515 2.98513 4.58478 3.61504\n- 0.03141 3.67470 5.19100 0.80667 0.59121 0.50866 0.91955\n- 360 2.69405 4.87240 3.05503 2.48895 4.41574 3.45840 3.30351 3.85848 2.22505 3.38555 4.16320 3.01735 3.91430 2.63950 1.81082 2.21001 2.63248 3.47891 5.55220 4.16054 548 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01701 4.47817 5.20051 0.61958 0.77255 0.51887 0.90435\n- 361 2.53995 4.16498 3.98717 3.62928 2.99117 3.81701 3.85104 2.42521 3.50045 1.37307 3.24428 3.81790 4.09719 3.71315 3.66474 3.04869 2.93644 2.03260 4.78066 3.58998 549 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01701 4.47817 5.20051 0.61958 0.77255 0.51887 0.90435\n- 362 2.72627 4.24620 4.56762 3.98225 3.33530 4.03498 4.37358 2.06161 3.82283 2.15982 3.32169 4.10416 4.38602 4.01546 3.93506 3.28516 3.08920 1.10871 3.87639 3.70797 550 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14081 4.47817 2.12037 0.61958 0.77255 0.51887 0.90435\n- 363 2.61884 5.11471 2.90292 2.35727 4.43823 3.13196 2.89748 3.90423 1.85474 3.39282 4.16275 2.82159 3.61167 2.63880 2.50076 2.53685 2.82689 3.28405 5.55761 4.16752 551 k - - -\n- 2.68599 4.42192 2.77529 2.73149 3.46386 2.40499 3.72483 3.29372 2.67745 2.69367 4.24722 2.90350 2.73739 3.18156 2.89748 2.37880 2.77493 2.98538 4.58509 3.61533\n- 0.35276 1.21317 * 1.51186 0.24910 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2641389401.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2641389401.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1130 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2641389401\n-LENG 369\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:41 2021\n-NSEQ 5\n-EFFN 0.561523\n-CKSUM 1160419363\n-GA 10 10;\n-STATS LOCAL MSV -11.1269 0.69978\n-STATS LOCAL VITERBI -12.2499 0.69978\n-STATS LOCAL FORWARD -5.8689 0.69978\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57102 4.46359 2.86895 2.67763 3.12829 3.13724 3.70212 2.75108 2.62392 2.32831 3.66456 2.97528 3.34783 3.19987 2.93614 2.64549 2.94845 2.69997 4.60857 3.36329\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.00000 *\n- 1 3.15236 4.57406 4.47041 3.93009 3.05466 4.28279 4.57738 2.19182 3.72954 1.18870 1.88756 4.22980 4.54526 3.97798 3.91578 3.63173 3.38773 2.27911 5.05835 3.91006 1 l - - -\n- 2.68635 4.42260 2.77554 2.73120 3.46309 2.40520 3.72529 3.29321 2.67666 2.69353 4.24375 2.90336 2.73775 3.18181 2.89790 2.37895 2.77554 2.98528 4.58512 3.61538\n- 0.23463 1.61210 4.63919 2.23649 0.11298 0.48576 0.95510\n- 2 3.45837 4.75821 4.43545 4.08192 1.38748 4.24546 3.44772 3.17246 3.94161 2.53556 3.78385 3.94911 4.56736 3.97625 4.02633 3.60549 3.68511 3.09216 3.61565 1.26844 16 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 3 2.76617 5.01564 2.58528 2.34776 4.30398 3.30535 3.67805 3.84603 2.39866 3.38694 4.24335 2.04579 3.83503 1.91238 2.77565 2.75252 3.03725 3.48145 5.50073 4.12515 17 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 4 2.80060 4.65290 3.35870 2.84471 3.70375 3.58985 3.77799 2.97337 1.83103 1.83700 3.66514 3.26149 4.00210 3.00940 2.65232 2.93908 3.03332 2.79977 5.12652 3.85680 18 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 5 2.69618 5.06080 1.93715 2.26636 4.29866 3.31785 2.89808 3.81698 2.38348 3.34727 4.15581 2.81102 3.79059 2.75220 2.44808 2.66500 2.93992 3.44186 5.48570 4.08769 19 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 6 3.05532 4.89167 3.55048 3.05211 4.25749 3.53502 3.85617 3.80213 2.25495 3.30998 4.30885 3.40854 4.03531 3.07416 0.91272 3.13726 3.31817 3.52412 5.32245 4.17505 20 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 7 3.15764 4.50687 4.65071 4.13182 3.20041 4.40235 4.77092 1.42257 3.95972 1.30825 3.04'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 362 2.99450 5.09716 3.38277 2.74832 4.53003 3.61220 3.58772 3.88703 1.35141 3.34795 4.22221 3.15547 3.99150 2.72704 1.68460 2.99623 3.16962 3.57230 5.40460 4.22713 378 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 363 2.81030 4.56046 3.42223 3.26753 4.25920 3.24545 4.34148 3.81583 3.32858 3.43794 4.48957 3.56985 0.74912 3.71602 3.56924 2.97913 3.25532 3.45618 5.43377 4.38042 379 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 364 2.94071 5.11804 3.26193 2.65266 4.53334 3.58301 3.56585 3.89635 1.43533 3.35103 4.20161 3.08944 3.95631 2.34525 1.88685 2.92901 3.11667 3.56707 5.41984 4.21505 380 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 365 3.20492 4.65395 4.26075 3.90066 3.15249 4.03854 4.54246 2.35882 3.66797 0.82245 3.16134 4.17184 4.46618 4.02569 3.83684 3.61437 3.49710 2.40770 5.04803 3.78164 381 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 366 3.00420 5.09438 3.41124 2.76564 4.52852 3.62080 3.58853 3.88289 1.50505 3.34400 4.22099 3.16698 3.99802 2.72877 1.48504 3.00821 3.17729 3.57122 5.39979 4.22767 382 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 367 3.15764 4.50687 4.65071 4.13182 3.20041 4.40235 4.77092 1.42257 3.95972 1.30825 3.04338 4.39914 4.66178 4.19957 4.13776 3.77268 3.40211 1.90330 5.21259 4.03278 383 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03002 3.91685 4.63919 0.61958 0.77255 0.48576 0.95510\n- 368 3.01134 4.43218 4.43327 3.93540 3.29797 4.16932 4.64081 1.95079 3.77331 1.43688 3.17003 4.19602 4.52279 4.06201 3.98465 3.54533 3.28188 1.39097 5.22136 4.00546 384 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23463 3.91685 1.66479 0.61958 0.77255 0.48576 0.95510\n- 369 2.76388 5.02614 2.39795 1.72917 4.29002 3.23373 3.61823 3.74289 2.36881 3.29714 4.18591 2.75906 3.77560 2.34503 2.75634 2.73216 3.02484 3.41106 5.48508 4.12324 385 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02486 3.70708 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2662548665.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2662548665.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1223 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2662548665\n-LENG 400\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:41 2021\n-NSEQ 88\n-EFFN 0.915771\n-CKSUM 3151286292\n-GA 10 10;\n-STATS LOCAL MSV -11.6246 0.69925\n-STATS LOCAL VITERBI -12.2272 0.69925\n-STATS LOCAL FORWARD -5.9135 0.69925\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52554 4.36933 2.97208 2.59756 3.29910 3.03961 3.68418 2.83605 2.66110 2.35578 3.57651 3.14138 3.41531 3.04218 2.79009 2.62231 2.92922 2.66738 4.25065 3.67036\n- 2.68616 4.42227 2.77521 2.73121 3.46356 2.40515 3.72496 3.29356 2.67735 2.69357 4.24692 2.90344 2.73741 3.18148 2.89803 2.37886 2.77521 2.98510 4.58479 3.61505\n- 0.03916 3.48372 4.86524 1.00732 0.45444 0.00000 *\n- 1 3.20504 4.71539 4.35275 3.97531 3.35744 4.04351 4.64801 2.56158 3.72632 1.91831 0.93991 4.21678 4.51288 4.09433 3.89807 3.57843 3.51953 2.59756 5.22922 4.01123 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02387 4.14289 4.86524 0.61958 0.77255 0.48576 0.95510\n- 2 2.61775 4.79287 3.36989 2.83977 4.37941 3.45857 3.79799 3.73359 2.26833 3.32076 4.18318 3.22699 3.96153 2.96467 1.23593 2.65722 2.85849 3.37632 5.48876 4.26403 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02387 4.14289 4.86524 0.61958 0.77255 0.48576 0.95510\n- 3 2.40465 4.29261 3.53994 2.98071 3.48630 3.54785 3.88505 2.47337 2.91149 2.53940 3.44693 3.35881 3.96250 3.22467 2.96353 2.66117 2.12679 2.11159 4.94252 3.71327 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02387 4.14289 4.86524 0.61958 0.77255 0.48576 0.95510\n- 4 2.72584 4.63573 3.32611 3.13870 4.51432 0.78981 4.30040 4.06021 3.15009 3.68310 4.57980 3.45811 3.98741 3.57722 2.93609 2.86677 3.16923 3.58579 5.71074 4.54784 12 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02387 4.14289 4.86524 0.61958 0.77255 0.48576 0.95510\n- 5 2.85497 4.37501 4.72723 4.21373 3.67335 4.33215 4.90644 1.28885 4.11233 2.29320 3.49727 4.41612 4.68256 4.37749 4.31550 3.69963 3.03366 1.20590 5.50963 4.30439 13 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02387 4.14289 4.86524 0.61958 0.77255 0.48576 0.95510\n- 6 2.32396 4.81543 2.83701 2.27429 4.07137 3.41620 3.64486 3.48959 2.44814 2.72324 3.90260 2.95395 3.39319 2.74178 2.91276 2.23304 2.57290 3.16073 5.33132 3.99308 14 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02387 4.14289 4.86524 0.61958 0.77255 0.48576 0.95510\n- 7 2.33712 4.29193 3.33179 3.18586 4.52824 0.97985 4.36581 3.96090 3.36474 3.66465 4.4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02525 4.08728 4.80962 0.61958 0.77255 0.54849 0.86233\n- 393 3.14253 4.44446 4.89380 4.40385 3.63511 4.51365 5.11692 1.35150 4.29481 2.13398 3.43461 4.61153 4.82380 4.55955 4.48872 3.90888 3.41036 1.04896 5.61394 4.40492 416 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02525 4.08728 4.80962 0.61958 0.77255 0.54849 0.86233\n- 394 3.19908 4.51360 4.86284 4.32001 3.33135 4.52027 4.93099 1.74589 4.19722 1.22598 3.13140 4.55549 4.76054 4.37562 4.35323 3.87698 3.43921 1.47052 5.34070 4.21364 417 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02525 4.08728 4.80962 0.61958 0.77255 0.54849 0.86233\n- 395 2.50412 5.05880 2.42027 2.29506 4.37115 2.86935 3.40522 3.83455 2.39385 3.35775 4.13041 2.69741 3.02983 2.46024 2.88833 2.39878 2.88096 3.43643 5.52844 4.13220 418 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02525 4.08728 4.80962 0.61958 0.77255 0.54849 0.86233\n- 396 2.94993 4.33488 4.55078 3.97542 1.72934 4.09701 4.25075 2.20416 3.82994 1.62114 2.49373 4.11261 4.39146 3.95479 3.93108 3.40811 3.17385 2.40805 4.08284 3.34418 419 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02525 4.08728 4.80962 0.61958 0.77255 0.54849 0.86233\n- 397 2.51206 4.54868 3.16801 2.63675 2.79481 3.47462 3.71690 3.12629 2.54802 2.78836 3.65725 3.10602 2.46366 2.66678 2.81312 2.72262 2.84289 2.86290 5.09318 3.80810 420 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05259 4.08728 3.36842 0.61958 0.77255 0.50943 0.91839\n- 398 2.62273 5.05534 2.55831 2.31240 4.37365 3.32571 3.58044 3.83687 2.05307 3.34640 4.10948 2.46671 3.78257 2.52432 2.61886 2.45020 2.76761 3.31138 5.50228 4.11301 421 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11626 4.08262 2.37627 0.61958 0.77255 0.55341 0.85563\n- 399 2.74206 5.09201 3.20686 2.56713 4.47548 3.56181 3.29017 3.85564 1.60383 3.33571 4.16678 2.98493 3.93631 2.71585 1.75640 2.86524 3.06305 3.51624 5.43223 4.19258 422 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18614 3.99411 1.88770 0.61958 0.77255 0.63885 0.75056\n- 400 2.49915 4.88037 2.99424 2.42393 4.21956 3.41928 3.57163 3.61117 1.81403 3.16349 3.99374 2.96030 3.63763 2.71643 2.15473 2.64003 2.91793 3.27984 5.33626 4.05640 423 k - - -\n- 2.68616 4.42228 2.77523 2.73126 3.46357 2.40512 3.72498 3.29357 2.67738 2.69358 4.24693 2.90344 2.73735 3.18149 2.89804 2.37878 2.77518 2.98521 4.58480 3.61506\n- 0.15296 1.95307 * 0.68089 0.70556 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2664250653.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2664250653.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1208 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2664250653\n-LENG 395\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:42 2021\n-NSEQ 18\n-EFFN 0.900879\n-CKSUM 3211690295\n-GA 10 10;\n-STATS LOCAL MSV -11.5606 0.69933\n-STATS LOCAL VITERBI -12.2446 0.69933\n-STATS LOCAL FORWARD -6.0405 0.69933\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50208 4.50557 2.96540 2.57523 3.25673 3.01623 3.72214 2.80276 2.65695 2.42220 3.67335 3.11332 3.27847 3.05295 2.78656 2.65781 2.92732 2.65726 4.46993 3.62924\n- 2.68619 4.42233 2.77527 2.73117 3.46361 2.40520 3.72502 3.29344 2.67742 2.69362 4.24391 2.90354 2.73740 3.18143 2.89808 2.37894 2.77527 2.98526 4.58485 3.61511\n- 0.59600 1.31271 1.71535 0.58269 0.81734 0.00000 *\n- 1 2.25663 4.47289 3.15220 2.38604 3.68539 3.42919 3.70286 3.01889 2.58797 2.72739 2.89791 2.94180 3.83889 2.93274 2.99356 2.67734 2.56419 2.65717 5.06364 3.79075 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07442 3.94546 2.94925 0.61958 0.77255 0.53015 0.88799\n- 2 2.46148 4.56523 3.07782 2.45791 3.80331 3.40808 3.68231 3.18239 2.53582 2.84530 3.04241 2.78752 3.20202 2.88477 2.95866 2.65434 2.27189 2.89907 5.14582 3.85594 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02769 3.99632 4.71867 0.61958 0.77255 0.52746 0.89185\n- 3 2.59179 4.82599 2.78453 2.39697 4.08895 3.38996 3.38356 3.51340 2.41415 3.10466 3.36629 2.25751 3.53023 2.76404 2.87992 2.42826 2.58957 3.17668 5.33536 3.99071 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05745 4.77979 0.61958 0.77255 0.56994 0.83369\n- 4 2.77114 5.28008 1.90747 2.05444 4.58626 3.30057 3.67242 4.07627 2.53956 3.57436 4.36344 2.16690 3.38885 2.66791 3.07301 2.39312 3.02642 3.65616 5.73294 4.28819 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05745 4.77979 0.61958 0.77255 0.56994 0.83369\n- 5 2.83676 5.10049 2.92247 2.49543 4.46554 3.47417 3.64696 3.88898 1.90521 3.39389 4.22094 1.75878 3.91186 2.78459 2.25897 2.82188 3.05961 3.53110 5.51198 4.21507 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05745 4.77979 0.61958 0.77255 0.56994 0.83369\n- 6 3.12294 4.43150 4.85330 4.36181 3.61014 4.48175 5.07673 1.34435 4.25121 2.11177 3.41278 4.57392 4.79512 4.51700 4.44763 3.87462 3.39086 1.08477 5.58320 4.37484 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02603 4.05745 4.77979 0.61958 0.77255 0.56994 0.83369\n- 7 2.76144 4.18265 4.30458 3.73017 2.73777 3.92851 4.25711 1.86436 3.60986 1.82987 3.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 388 2.59750 4.75385 3.00348 2.29685 3.99668 3.13386 3.65379 3.40721 2.46847 3.02360 3.84539 2.73602 3.58983 2.81499 2.92539 2.23126 2.49376 2.79338 5.28039 3.54789 394 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20596 4.13435 1.77124 0.61958 0.77255 0.48576 0.95510\n- 389 2.51008 4.90753 2.31918 2.14866 4.17618 3.34285 3.60538 3.59769 2.41404 2.85074 3.98909 2.52409 3.77765 2.74626 2.89426 2.61326 2.85271 3.00253 5.40253 4.03644 395 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02881 3.95720 4.67954 0.61958 0.77255 0.61341 0.77980\n- 390 2.55039 4.34279 3.32334 2.76898 2.64787 3.49071 3.75131 2.73904 2.57018 2.56993 3.45585 3.02515 3.08947 3.04587 3.09526 2.59197 2.78779 2.52688 4.91835 3.66422 396 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02794 3.98750 4.70985 0.61958 0.77255 0.46260 0.99329\n- 391 2.60168 4.84837 2.58258 2.11331 4.10068 3.40432 3.61965 2.88488 2.41397 3.11338 3.47902 2.59771 3.80484 2.76204 2.88376 2.53165 2.74059 3.18455 5.34421 3.99668 397 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02505 4.09516 4.81751 0.61958 0.77255 0.45886 0.99969\n- 392 2.53375 4.28984 3.83422 3.27545 3.38444 3.73945 4.08190 2.26254 3.19103 1.73712 3.31543 3.60981 2.59449 3.47821 3.48165 3.02524 2.94826 2.11322 4.96576 3.76118 398 l - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46335 2.40515 3.72497 3.29356 2.67734 2.69348 4.24692 2.90337 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61506\n- 0.06358 2.92210 4.85669 0.91431 0.51215 0.48576 0.95510\n- 393 2.60995 4.69919 3.01921 2.58025 4.11188 3.36489 3.76208 3.51397 2.38846 3.13693 3.97246 3.05220 3.85449 2.75442 2.93536 2.01451 1.87787 3.17360 5.38393 4.08319 403 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 394 3.41479 4.75619 4.88364 4.37667 3.14511 4.60950 4.93382 2.03112 4.16094 0.75690 2.98380 4.63865 4.82953 4.35539 4.29358 4.00646 3.65482 2.28821 5.24202 4.09197 404 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02408 4.13435 4.85669 0.61958 0.77255 0.48576 0.95510\n- 395 2.78868 4.80148 3.33042 2.71791 4.01251 3.59828 3.70186 2.98889 1.50034 2.47885 3.86151 3.17113 3.97162 2.87875 2.44239 2.86451 2.99949 3.08036 5.26314 4.00753 405 k - - -\n- 2.68607 4.42239 2.77514 2.73137 3.46368 2.40527 3.72469 3.29368 2.67700 2.69360 4.24704 2.90326 2.73739 3.18142 2.89797 2.37886 2.77533 2.98532 4.58491 3.61517\n- 0.29378 1.36821 * 1.09988 0.40483 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2676476075.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2676476075.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1142 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2676476075\n-LENG 373\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:42 2021\n-NSEQ 15\n-EFFN 0.955811\n-CKSUM 1362345547\n-GA 10 10;\n-STATS LOCAL MSV -11.1523 0.69968\n-STATS LOCAL VITERBI -12.1457 0.69968\n-STATS LOCAL FORWARD -5.6508 0.69968\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40814 4.62299 3.03163 2.61138 3.37452 2.91782 3.60811 2.87983 2.75205 2.39086 3.69393 3.22963 3.17849 3.08178 2.73073 2.63750 2.84108 2.63205 4.69490 3.74975\n- 2.68625 4.42232 2.77526 2.73130 3.46361 2.40520 3.72501 3.29361 2.67748 2.69362 4.24474 2.90353 2.73727 3.18153 2.89808 2.37887 2.77496 2.98525 4.58484 3.61510\n- 0.43839 1.64223 1.82401 0.73468 0.65327 0.00000 *\n- 1 2.53105 4.33252 4.10167 3.57923 3.34822 3.83285 4.33565 2.22981 3.44563 1.99224 1.78343 3.84940 4.25550 3.73778 3.68857 3.17626 3.07137 1.89205 5.10021 3.92072 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99845 4.72080 0.61958 0.77255 0.57605 0.82580\n- 2 2.59434 4.23112 3.65751 3.09830 3.34740 3.12452 3.92319 2.60913 3.01203 1.73136 2.97975 3.44472 3.37964 3.31113 3.31340 2.87607 2.84168 2.27382 4.86053 3.64559 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02627 4.04812 4.77047 0.61958 0.77255 0.54745 0.86375\n- 3 1.92783 4.52635 3.15122 2.47891 3.78992 3.41655 3.74031 3.16157 2.61721 2.83702 2.97913 3.09626 3.13579 2.95853 3.03098 2.50117 2.82101 2.88062 5.15059 3.87119 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02529 4.08563 4.80798 0.61958 0.77255 0.57557 0.82642\n- 4 1.42828 4.40473 3.29143 2.83441 4.03864 3.21930 3.92034 3.40560 2.77123 3.08537 3.93579 3.19497 3.16719 3.14336 2.82793 2.58019 2.48191 3.03610 5.37353 4.11745 7 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02529 4.08563 4.80798 0.61958 0.77255 0.57557 0.82642\n- 5 2.42882 4.55928 2.87386 2.59555 2.94536 3.38760 3.73765 3.23820 2.62128 2.89929 3.75074 3.06643 3.01610 2.94729 3.05182 1.99357 2.82357 2.94275 5.18997 3.89283 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02529 4.08563 4.80798 0.61958 0.77255 0.57557 0.82642\n- 6 2.58357 4.57066 3.16712 2.64397 3.24992 3.41916 3.73388 3.24281 2.56210 2.89428 3.75634 3.10201 2.18956 2.94929 2.51696 2.48237 2.84684 2.95373 5.15999 3.85592 9 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02529 4.08563 4.80798 0.61958 0.77255 0.57557 0.82642\n- 7 1.88611 4.29059 3.30015 3.01900 4.37067 1.46914 4.17525 3.78636 3.13123 3.45640 4.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16550 4.88785 0.61958 0.77255 0.48576 0.95510\n- 366 2.65443 5.12438 2.58529 2.19278 4.44731 3.38122 3.60708 3.92175 2.08035 3.41948 4.17657 2.43966 3.45427 2.52925 2.85855 2.29903 2.72684 3.50419 5.56773 4.16261 394 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16550 4.88785 0.61958 0.77255 0.48576 0.95510\n- 367 3.04714 4.52032 4.52399 4.20591 3.78351 4.01926 4.96333 2.08449 4.07875 2.42529 3.71292 4.34633 4.57060 4.42184 4.26187 3.54908 3.40599 0.72103 5.61427 4.36023 395 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16550 4.88785 0.61958 0.77255 0.48576 0.95510\n- 368 2.61234 4.16791 3.81862 3.24091 3.23086 3.66548 3.36605 2.36152 3.12922 2.22858 3.26976 3.53941 4.03706 3.40659 3.15670 2.93789 2.84386 1.75576 4.73385 2.96511 396 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16550 4.88785 0.61958 0.77255 0.48576 0.95510\n- 369 2.65165 5.08593 2.57126 2.33305 4.40716 3.39636 3.60581 3.87092 2.16125 3.37868 4.14254 2.87629 3.38649 2.28332 2.64063 2.11522 2.88446 3.46579 5.53292 4.14329 397 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16550 4.88785 0.61958 0.77255 0.48576 0.95510\n- 370 3.30128 4.61566 4.95130 4.39825 1.68028 4.52705 4.65156 1.88156 4.25917 1.25895 2.98685 4.55216 4.73649 4.32143 4.33324 3.86952 3.52226 2.34276 4.91457 3.61907 398 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16550 4.88785 0.61958 0.77255 0.48576 0.95510\n- 371 2.66080 5.02487 2.92607 2.39137 4.34041 2.55100 3.24902 3.78456 2.10678 3.31133 4.09085 2.78334 3.39500 2.73084 2.32190 2.48765 2.88996 3.40349 5.47792 4.11696 399 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02333 4.16550 4.88785 0.61958 0.77255 0.48576 0.95510\n- 372 2.26131 4.98782 2.59493 2.36287 4.29515 3.10216 2.99012 3.74448 2.38408 3.28685 4.06578 2.89919 3.80768 2.74192 2.44079 2.30467 2.86589 3.36407 5.47142 4.09689 400 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06817 4.16550 2.98828 0.61958 0.77255 0.48576 0.95510\n- 373 2.54167 5.03877 3.00574 2.47471 4.38061 2.98086 3.62537 3.79978 2.08798 3.31995 4.12227 2.72436 3.87634 2.61154 1.80684 2.73512 2.96312 3.43693 5.47077 4.15470 401 r - - -\n- 2.68522 4.42276 2.77549 2.73174 3.46405 2.40543 3.72546 3.29386 2.67763 2.69350 4.24701 2.90376 2.73763 3.18089 2.89599 2.37892 2.77526 2.98522 4.58528 3.61554\n- 0.51555 0.90925 * 1.89546 0.16281 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2677172838.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2677172838.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1163 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2677172838\n-LENG 380\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:42 2021\n-NSEQ 20\n-EFFN 1.137695\n-CKSUM 3831388970\n-GA 10 10;\n-STATS LOCAL MSV -11.1425 0.69957\n-STATS LOCAL VITERBI -12.0697 0.69957\n-STATS LOCAL FORWARD -5.9496 0.69957\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60367 4.64497 3.04025 2.58278 3.22416 3.16062 3.62401 2.70952 2.59027 2.34381 3.58624 3.01965 3.46728 3.03003 2.85404 2.62648 2.90876 2.66497 4.75431 3.58027\n- 2.68597 4.42235 2.77530 2.73133 3.46364 2.40523 3.72505 3.29321 2.67751 2.69365 4.24496 2.90357 2.73750 3.18157 2.89811 2.37874 2.77530 2.98498 4.58487 3.61513\n- 0.39968 1.82001 1.78713 1.08613 0.41177 0.00000 *\n- 1 3.22204 4.56996 4.77500 4.21156 3.16884 4.46605 4.78715 1.72332 4.06153 1.47484 1.62186 4.46678 4.68906 4.22324 4.20691 3.80531 3.44957 2.15461 5.18415 4.08660 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15475 4.08716 2.06685 0.61958 0.77255 0.68177 0.70465\n- 2 2.73310 5.12387 2.49295 1.78972 4.40931 3.30080 3.10624 3.88656 2.46005 3.41820 4.22807 2.20544 3.80224 2.78843 2.93535 2.45896 2.98482 3.50442 5.58669 4.18403 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02870 3.96110 4.68345 0.61958 0.77255 0.47555 0.97166\n- 3 2.64525 4.85930 3.00896 2.46124 4.11218 3.45197 3.10617 3.52984 2.09674 3.11842 2.72573 2.70288 3.84456 2.60748 2.81059 2.41311 2.87336 3.20196 5.34322 4.01402 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02337 4.16382 4.88616 0.61958 0.77255 0.60476 0.79011\n- 4 2.33133 4.83325 2.94963 2.47156 4.28494 2.59493 3.70487 3.72281 2.47308 3.29016 4.08444 2.37548 3.81893 2.84464 2.39505 2.24440 2.87357 3.33134 5.48888 4.14454 9 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02337 4.16382 4.88616 0.61958 0.77255 0.50308 0.92803\n- 5 2.76879 5.08562 2.91502 1.98519 4.44591 3.46272 3.68273 3.87978 2.33128 3.40233 4.20360 2.98204 3.89811 2.81246 1.89900 2.06955 3.00515 3.50332 5.55444 4.21686 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27720 4.21630 1.48129 0.61958 0.77255 0.54452 0.86779\n- 6 2.64026 4.80738 3.04428 2.47799 4.06966 3.44046 3.59997 3.47211 2.10502 3.05891 3.27075 2.97637 2.78625 2.50264 2.43302 2.67489 2.86278 3.15628 5.28119 3.97859 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02851 3.96761 4.68996 0.61958 0.77255 0.78147 0.61200\n- 7 3.24280 4.60879 4.66644 4.15016 3.11783 4.43522 4.76443 1.84541 3.95462 0.96116 2.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02202 4.22277 4.94512 0.61958 0.77255 0.53661 0.87883\n- 373 2.27104 4.96876 2.92373 2.20293 4.25193 2.74424 3.62766 3.69366 2.26704 3.24805 3.47018 2.73529 3.82197 2.55585 2.86755 2.44478 2.86628 3.32683 5.44429 4.07743 395 e - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67743 2.69326 4.24692 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.14204 2.07709 4.94512 0.31095 1.31956 0.45523 1.00594\n- 374 2.61537 4.39544 3.47296 2.91808 3.59359 3.55274 3.88680 2.67545 2.86894 2.63183 3.06522 3.32484 2.22817 3.18659 3.23463 2.19468 2.87184 2.43971 5.03602 3.79354 397 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26222 4.98457 0.61958 0.77255 0.48576 0.95510\n- 375 2.67318 5.04847 2.88137 2.13227 4.34957 2.70494 3.64457 3.79909 2.13655 2.97074 4.11296 2.31180 3.84044 2.76493 2.86761 2.65863 2.62145 3.41729 5.51316 4.13717 398 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26222 4.98457 0.61958 0.77255 0.48576 0.95510\n- 376 3.07116 4.67902 3.91674 3.45383 3.48854 3.95421 4.23765 2.72656 2.57886 0.94537 3.44923 3.79480 4.35837 3.58115 3.24759 3.35461 3.31922 2.67715 5.17054 3.93719 399 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26222 4.98457 0.61958 0.77255 0.48576 0.95510\n- 377 2.95447 5.25950 3.26151 2.65155 4.66848 3.64213 3.13191 4.06620 1.59665 3.50944 4.32086 2.44450 4.01421 2.78496 1.67877 2.92722 3.14488 3.69719 5.57707 4.31760 400 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26222 4.98457 0.61958 0.77255 0.48576 0.95510\n- 378 2.69017 4.21991 3.96510 3.38708 3.30637 3.76169 4.06083 2.15631 3.25352 1.56112 3.28075 3.66901 4.13230 3.53502 3.04159 2.71699 2.92553 2.17542 4.84650 3.64775 401 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02116 4.26222 4.98457 0.61958 0.77255 0.48576 0.95510\n- 379 2.89977 4.32091 4.41158 3.83272 3.31614 4.06923 4.39567 1.76378 3.67579 1.49838 3.22275 4.05487 4.39802 3.91634 3.13933 3.37579 3.13369 1.75159 5.01545 3.84591 402 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28784 4.26222 1.44382 0.61958 0.77255 0.48576 0.95510\n- 380 3.05396 5.16334 3.44933 2.79751 4.61574 3.66286 3.61913 3.96713 1.21654 3.41142 4.28481 3.20008 4.03679 2.75540 1.73274 3.05002 3.22303 3.64925 5.45298 4.28434 403 k - - -\n- 2.68624 4.42231 2.77526 2.73129 3.46327 2.40507 3.72501 3.29360 2.67747 2.69346 4.24696 2.90353 2.73730 3.18152 2.89807 2.37882 2.77509 2.98524 4.58483 3.61509\n- 0.09092 2.44291 * 1.25644 0.33501 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2734955840.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2734955840.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1136 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2734955840\n-LENG 371\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:42 2021\n-NSEQ 10\n-EFFN 0.737305\n-CKSUM 1181152264\n-GA 10 10;\n-STATS LOCAL MSV -11.4318 0.69972\n-STATS LOCAL VITERBI -12.2599 0.69972\n-STATS LOCAL FORWARD -5.6363 0.69972\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.33440 4.55462 3.02928 2.68555 3.39883 2.96996 3.61219 2.95968 2.78658 2.29579 3.65967 3.27283 2.99866 3.10695 2.76801 2.67753 2.88602 2.62233 4.73869 3.75987\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05849 4.03539 3.24083 0.61958 0.77255 0.00000 *\n- 1 2.98665 4.45355 4.37292 3.85469 3.25379 4.08726 4.54756 2.14493 3.68861 1.76924 1.64785 4.11481 4.45245 3.96108 3.89527 3.44714 3.25639 1.76631 5.15224 3.98330 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.26012 4.00437 1.55684 0.61958 0.77255 0.51806 0.90553\n- 2 2.26499 4.19157 3.22516 2.83715 3.88723 3.02947 3.90515 3.21946 2.82174 2.95678 3.83936 3.13621 2.80232 3.16381 3.16646 1.85899 2.67069 2.47741 5.27173 4.01249 2 s - - -\n- 2.68623 4.42230 2.77508 2.73128 3.46359 2.40518 3.72500 3.29359 2.67731 2.69329 4.24695 2.90352 2.73745 3.18151 2.89806 2.37892 2.77508 2.98523 4.58482 3.61508\n- 0.12786 2.21710 4.50113 1.13926 0.38574 0.55059 0.85947\n- 3 2.39723 4.41277 3.10302 2.66368 4.03808 2.76574 3.79521 3.44067 2.61067 3.08426 3.91912 3.06015 3.73072 2.99674 2.64235 2.00124 2.19050 3.05549 5.33728 4.06408 8 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03072 3.89411 4.61646 0.61958 0.77255 0.45540 1.00566\n- 4 2.45111 4.95090 2.51180 1.99040 4.27377 3.32369 3.62634 3.71828 2.43941 3.27715 4.07174 2.84573 3.16958 2.76223 2.92830 2.43733 2.45472 3.34276 5.47761 4.09972 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02747 4.00437 4.72671 0.61958 0.77255 0.51806 0.90553\n- 5 2.01041 4.36882 3.23138 2.75819 3.92708 2.53138 3.85652 3.31458 2.75734 2.57787 3.83367 3.13969 3.17308 3.08350 3.15253 2.11638 2.75503 2.96047 5.27947 4.01479 10 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02747 4.00437 4.72671 0.61958 0.77255 0.51806 0.90553\n- 6 2.64759 4.70750 3.11318 2.56578 3.32777 2.99801 3.20734 3.35043 2.37358 2.96440 3.81685 3.04431 3.86194 2.83887 1.92419 2.71443 2.87902 3.05828 5.13911 3.79875 11 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02747 4.00437 4.72671 0.61958 0.77255 0.51806 0.90553\n- 7 2.56601 4.55373 3.12096 2.42782 3.74980 3.03605 3.67000 2.97003 2.52570 2.43516 3.6'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02661 4.03539 4.75774 0.61958 0.77255 0.48576 0.95510\n- 364 2.48036 4.57052 3.38115 2.80011 3.77041 3.53999 3.77375 3.00996 2.47064 2.32881 3.66943 3.22603 3.94956 2.99476 1.85047 2.82199 2.92499 2.60370 5.15136 3.90008 378 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02661 4.03539 4.75774 0.61958 0.77255 0.48576 0.95510\n- 365 2.98146 4.70870 3.60672 3.47130 4.44793 3.38713 4.53311 4.03809 3.54310 3.64611 4.70473 3.76030 0.57364 3.92688 3.76786 3.15466 3.43639 3.66440 5.58708 4.57169 379 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02661 4.03539 4.75774 0.61958 0.77255 0.48576 0.95510\n- 366 2.70597 4.92000 3.03001 2.10660 4.20247 3.46797 3.61232 3.06533 2.23286 3.16589 3.99175 2.98638 3.86067 2.55223 1.96834 2.72161 2.92434 3.27695 5.36255 4.05840 380 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02661 4.03539 4.75774 0.61958 0.77255 0.48576 0.95510\n- 367 3.16450 4.48954 4.79186 4.24928 3.31167 4.47206 4.87867 1.73205 4.12621 1.26104 3.11571 4.49456 4.71965 4.31668 4.29354 3.82592 3.40544 1.48999 5.31200 4.17837 381 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02661 4.03539 4.75774 0.61958 0.77255 0.48576 0.95510\n- 368 2.61988 4.97994 2.37871 2.12471 4.27218 3.36887 3.59257 3.32386 2.35519 3.26228 4.04652 2.86305 3.78468 2.71706 2.35267 2.40399 2.85441 3.34268 5.44817 4.07400 382 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02661 4.03539 4.75774 0.61958 0.77255 0.48576 0.95510\n- 369 3.24004 4.56943 4.82187 4.27717 3.21420 4.52102 4.89100 1.74720 4.13726 1.03483 3.01292 4.53671 4.74337 4.30675 4.29173 3.87805 3.47628 1.85571 5.26926 4.15931 383 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02661 4.03539 4.75774 0.61958 0.77255 0.48576 0.95510\n- 370 2.12413 4.85310 2.45345 2.22107 4.21079 2.96777 3.68120 3.63541 2.52339 3.22923 4.04229 2.89094 3.79773 2.83505 3.00363 2.63385 2.24177 3.27457 5.45695 4.09961 384 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20339 4.03539 1.79357 0.61958 0.77255 0.48576 0.95510\n- 371 2.06400 4.24991 3.47957 2.96713 3.57680 3.38372 3.92832 2.32351 2.90558 2.52637 3.50405 3.31708 2.87429 3.23131 3.24775 2.70809 2.78951 2.25268 5.06728 3.83183 385 a - - -\n- 2.68540 4.42254 2.77532 2.73136 3.46349 2.40524 3.72523 3.29383 2.67770 2.69353 4.24719 2.90375 2.73704 3.18125 2.89830 2.37860 2.77508 2.98527 4.58506 3.61532\n- 0.41327 1.08319 * 1.71935 0.19746 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2753529055.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrA_2753529055.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1220 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrA_2753529055\n-LENG 399\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:43 2021\n-NSEQ 34\n-EFFN 0.742920\n-CKSUM 3215849592\n-GA 10 10;\n-STATS LOCAL MSV -11.6050 0.69925\n-STATS LOCAL VITERBI -12.2018 0.69925\n-STATS LOCAL FORWARD -5.8239 0.69925\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48956 4.50777 2.89390 2.63255 3.35917 3.05104 3.66380 2.84279 2.69408 2.34426 3.62148 3.20382 3.32815 3.06729 2.78723 2.65775 2.90263 2.63542 4.21734 3.62980\n- 2.68614 4.42229 2.77515 2.73127 3.46358 2.40517 3.72499 3.29358 2.67745 2.69359 4.24656 2.90341 2.73744 3.18151 2.89785 2.37885 2.77515 2.98523 4.58481 3.61507\n- 0.19562 2.95146 2.07615 1.24098 0.34122 0.00000 *\n- 1 2.76668 4.31390 4.04087 3.51213 3.32158 3.81303 4.28505 2.19916 3.37153 1.96596 1.95415 3.79894 4.22521 3.67580 3.62245 3.14960 2.77593 1.85511 5.07009 3.88724 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91468 4.63703 0.61958 0.77255 0.60447 0.79046\n- 2 3.05285 4.88937 3.54778 3.04984 4.25464 3.53298 3.85455 3.79912 2.25399 3.30737 4.30628 3.40644 4.03336 3.07264 0.91583 3.13489 3.31583 3.52120 5.32048 4.17266 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91468 4.63703 0.61958 0.77255 0.60447 0.79046\n- 3 2.37136 4.20940 3.53230 2.99798 3.46888 3.45428 3.89613 2.28174 2.93373 2.50002 3.42468 3.13564 3.91030 3.24308 3.26015 2.50232 2.62383 2.01926 4.94101 3.71387 11 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91468 4.63703 0.61958 0.77255 0.60447 0.79046\n- 4 2.71743 4.48889 3.39987 3.30453 4.44645 0.66685 4.42240 4.05616 3.49156 3.70505 4.68099 3.56411 3.88139 3.81235 3.72314 2.89052 3.20195 3.57632 5.53063 4.54971 12 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91468 4.63703 0.61958 0.77255 0.60447 0.79046\n- 5 2.56195 4.27174 3.73276 3.24742 3.61453 3.47946 4.16298 2.26013 3.13658 2.42407 3.52339 3.53567 4.01653 3.48346 3.43964 2.84567 1.72847 1.98563 5.21694 3.98224 13 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91468 4.63703 0.61958 0.77255 0.60447 0.79046\n- 6 2.65541 4.71322 2.82869 2.55370 4.12626 3.26914 3.78628 3.61270 2.53831 3.19268 4.09969 3.01642 1.77701 2.37045 2.88681 2.72022 2.97475 3.27270 5.39896 4.09031 14 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03008 3.91468 4.63703 0.61958 0.77255 0.60447 0.79046\n- 7 2.29081 4.28430 2.99621 2.78353 4.28589 1.53899 4.02267 3.72190 2.95857 3.38193 4.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03895 4.76130 0.61958 0.77255 0.48576 0.95510\n- 392 3.10542 4.42297 4.81203 4.32064 3.59565 4.44808 5.04038 1.39707 4.20783 2.10297 3.40274 4.53667 4.76862 4.47756 4.40811 3.83963 3.37466 1.06896 5.56101 4.35054 405 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03895 4.76130 0.61958 0.77255 0.48576 0.95510\n- 393 3.14968 4.44345 4.87709 4.35177 3.48129 4.53170 5.01491 1.27461 4.24143 1.76283 3.27884 4.57880 4.79020 4.46363 4.41991 3.90084 3.39868 1.34718 5.46865 4.29870 406 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03895 4.76130 0.61958 0.77255 0.48576 0.95510\n- 394 2.32460 4.74886 2.85735 2.42869 4.12992 3.33567 3.71685 3.53791 2.38385 3.15042 3.98397 2.97104 2.08926 2.80948 2.92476 2.49353 2.89526 3.19727 5.39221 4.07618 407 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03895 4.76130 0.61958 0.77255 0.48576 0.95510\n- 395 3.23630 4.59452 4.64215 4.14519 1.34904 4.34068 4.22976 2.09802 4.00077 1.68176 3.12227 4.27012 4.61586 4.12539 4.12719 3.68805 3.47085 2.37487 4.50270 2.98469 408 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03895 4.76130 0.61958 0.77255 0.48576 0.95510\n- 396 2.50643 4.78450 2.95248 2.44120 4.12329 3.12401 3.64263 3.54429 2.25394 3.13317 3.94256 2.88950 2.61186 2.79075 2.66099 2.42728 2.58267 3.19560 5.35697 4.02587 409 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03895 4.76130 0.61958 0.77255 0.48576 0.95510\n- 397 2.63821 5.01272 2.66107 2.30375 4.32162 3.38233 3.58731 3.76872 2.22637 3.29620 4.07702 2.79717 3.53203 2.64553 2.10901 2.35712 2.80879 3.38671 5.46541 4.09687 410 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03895 4.76130 0.61958 0.77255 0.48576 0.95510\n- 398 2.69303 5.07878 3.22923 2.64369 4.48709 3.56913 3.61935 3.86036 1.75056 3.35062 4.18856 2.84668 3.95848 2.75310 1.54285 2.89135 3.08910 3.52233 5.45144 4.21897 411 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24902 4.03895 1.59546 0.61958 0.77255 0.48576 0.95510\n- 399 2.63782 4.94356 2.64808 2.24177 4.24335 3.01963 3.56016 3.67239 2.14276 3.21700 4.02252 2.84376 3.55955 2.63301 2.24179 2.62845 2.86865 3.31509 5.39838 4.05437 412 k - - -\n- 2.68626 4.42233 2.77510 2.73131 3.46362 2.40511 3.72491 3.29362 2.67741 2.69360 4.24698 2.90351 2.73730 3.18151 2.89782 2.37877 2.77527 2.98526 4.58458 3.61504\n- 0.35826 1.20029 * 0.77753 0.61533 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2585209417.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2585209417.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,617 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2585209417\n-LENG 198\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:37 2021\n-NSEQ 42\n-EFFN 1.345825\n-CKSUM 4000436617\n-GA 10 10;\n-STATS LOCAL MSV -10.4284 0.70549\n-STATS LOCAL VITERBI -11.0884 0.70549\n-STATS LOCAL FORWARD -5.0924 0.70549\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63976 4.47347 2.74517 2.53620 3.15164 3.17408 3.69631 2.87832 2.63645 2.49416 3.71959 3.00648 3.14956 3.02709 2.94178 2.68416 2.80496 2.73439 4.35494 3.52011\n- 2.68623 4.42230 2.77512 2.73117 3.46359 2.40509 3.72500 3.29359 2.67735 2.69360 4.24587 2.90337 2.73745 3.18152 2.89806 2.37892 2.77525 2.98524 4.58482 3.61508\n- 0.13298 2.48134 3.19694 0.98937 0.46492 0.00000 *\n- 1 2.84326 4.43059 3.95917 3.44683 3.41094 3.83781 4.19993 2.40596 3.26670 2.27594 1.32429 3.20964 4.25166 3.62014 3.51649 3.16432 3.10504 2.46399 5.03480 3.78892 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01981 4.32720 5.04955 0.61958 0.77255 0.53619 0.87941\n- 2 2.34190 5.10003 2.93993 2.29740 4.42026 3.45336 3.63969 3.87800 2.15608 3.38943 4.15407 2.93625 2.85651 2.17971 2.60564 2.44784 2.91290 3.47868 5.54508 4.16542 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01981 4.32720 5.04955 0.61958 0.77255 0.53619 0.87941\n- 3 2.66126 5.03087 2.84280 2.31926 4.32416 3.45006 3.64347 3.77266 2.29221 2.57822 4.08679 2.32653 3.84452 2.38041 2.71612 2.65152 2.60864 3.39364 5.49349 3.93428 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01981 4.32720 5.04955 0.61958 0.77255 0.53619 0.87941\n- 4 2.28762 4.61213 3.23764 2.67630 3.77950 3.54507 2.38754 2.89419 2.55454 2.61845 3.70095 3.15403 3.93035 2.60795 3.04304 2.76836 2.88552 2.91168 5.14547 3.12924 8 a - - -\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69347 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77511 2.98519 4.58478 3.61504\n- 0.25274 3.16461 1.70870 0.64093 0.74824 0.53619 0.87941\n- 5 2.35698 4.16223 3.21287 2.65838 3.81687 3.44230 3.74265 3.18782 2.46029 2.85936 3.71577 3.11823 2.25866 2.95473 2.70522 2.69314 2.83477 2.61504 5.16520 3.88856 11 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08688 4.13521 2.69993 0.61958 0.77255 0.40793 1.09371\n- 6 2.57369 4.32992 3.55488 2.98846 2.93856 3.62427 2.43693 2.82178 2.93422 2.20817 3.43418 3.37813 3.17220 3.23224 3.27404 2.79651 2.86918 2.48323 4.86153 3.04832 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02084 4.27690 4.99925 0.61958 0.77255 0.49254 0.94437\n- 7 3.47182 5.12610 4.13031 4.05052 4.96887 3.78928 5.06738 4.66202 4.15293 4.22480 5.30'..b'.68624 4.42235 2.77529 2.73133 3.46364 2.40523 3.72458 3.29364 2.67751 2.69365 4.24700 2.90336 2.73749 3.18087 2.89791 2.37882 2.77511 2.98506 4.58487 3.61513\n- 0.28451 1.42119 5.08486 0.67618 0.71041 0.48576 0.95510\n- 191 2.49439 5.53177 1.79456 1.31574 4.83500 3.41528 3.83422 4.34063 2.64818 3.82176 4.61902 2.87053 3.96288 2.83822 3.29172 2.87787 3.22952 3.90561 5.97129 4.49901 218 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01912 4.36251 5.08486 0.61958 0.77255 0.48576 0.95510\n- 192 2.66892 5.11477 2.29478 2.26165 4.43383 3.44313 3.63856 3.36117 1.90899 3.40834 4.16376 2.68728 3.84054 2.74516 2.79614 2.52269 2.67102 3.36871 5.56269 4.16810 219 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01912 4.36251 5.08486 0.61958 0.77255 0.48576 0.95510\n- 193 2.72128 5.14218 2.80258 2.43020 4.47393 3.48430 3.65147 3.92896 1.60755 2.91194 4.19299 2.71416 3.66922 2.53706 2.48780 2.69593 2.94686 3.52718 5.56936 4.19867 220 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01912 4.36251 5.08486 0.61958 0.77255 0.48576 0.95510\n- 194 2.49057 5.08360 2.80277 2.31168 4.39420 3.44985 3.63991 3.85447 2.04312 2.85801 4.13446 2.86718 3.84326 2.54703 2.58951 2.30169 2.60857 3.45578 5.53629 4.15025 221 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01912 4.36251 5.08486 0.61958 0.77255 0.48576 0.95510\n- 195 2.51521 5.21431 1.87327 2.36698 4.60093 3.26838 3.75553 4.08158 2.57721 3.58839 4.36094 2.21866 3.22201 2.87940 3.08915 2.11320 3.03551 3.65205 5.74603 4.32869 222 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01912 4.36251 5.08486 0.61958 0.77255 0.48576 0.95510\n- 196 2.65902 5.35982 1.92538 1.98273 4.67819 3.42200 3.12862 4.17261 2.57079 3.65518 4.42389 2.04174 3.90542 2.86330 3.09509 2.42666 3.07725 3.73937 5.79818 4.35744 223 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02828 4.36251 4.19049 0.61958 0.77255 0.48576 0.95510\n- 197 2.89703 5.43737 1.71848 2.13514 4.75673 2.97973 3.78011 4.25321 1.64456 3.73002 4.51197 2.78744 3.93458 2.90762 3.13418 2.82246 3.14904 3.81944 5.86952 4.42280 224 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29038 4.35353 1.43063 0.61958 0.77255 0.49902 0.93427\n- 198 2.65353 4.95781 2.38562 2.28669 4.24786 2.52291 3.65236 3.68774 2.47311 2.71709 4.06077 2.59350 3.81151 2.79408 2.95975 2.36140 2.90049 3.32793 5.47006 4.09874 225 e - - -\n- 2.68627 4.42254 2.77507 2.73126 3.46333 2.40530 3.72523 3.29338 2.67680 2.69384 4.24719 2.90308 2.73753 3.18175 2.89830 2.37904 2.77506 2.98457 4.58506 3.61532\n- 0.49238 0.94461 * 1.42856 0.27398 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2600853143.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2600853143.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,764 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2600853143\n-LENG 247\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:37 2021\n-NSEQ 53\n-EFFN 3.768616\n-CKSUM 2720750047\n-GA 10 10;\n-STATS LOCAL MSV -10.8912 0.70303\n-STATS LOCAL VITERBI -11.5932 0.70303\n-STATS LOCAL FORWARD -5.4333 0.70303\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.72980 4.52953 2.87185 2.46415 3.29590 3.26371 3.70171 2.67857 2.43274 2.50437 3.76826 2.76923 3.68542 3.00930 2.99930 2.66303 2.87595 2.77146 4.48416 3.37650\n- 2.68676 4.42331 2.77556 2.73141 3.46459 2.40550 3.72600 3.29211 2.67649 2.69316 4.23522 2.90367 2.73820 3.18252 2.89837 2.37913 2.77540 2.98484 4.58485 3.61445\n- 1.06137 0.62600 2.12619 1.43349 0.27243 0.00000 *\n- 1 2.48744 5.21624 3.19407 2.42550 3.97232 3.67456 3.86974 3.94196 2.33023 3.33776 2.40600 2.02341 3.55749 2.56181 3.11462 2.58184 2.86619 3.14505 5.68867 4.31942 22 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17156 4.98590 1.89169 0.61958 0.77255 0.66365 0.72354\n- 2 2.82166 5.24679 2.45992 2.10640 3.77197 3.06348 3.80032 3.41327 2.10438 2.84202 3.76370 2.80793 4.00193 2.90889 2.78958 2.50234 2.71521 3.21345 5.70049 4.31115 23 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01155 4.86289 5.58523 0.61958 0.77255 0.83335 0.57020\n- 3 2.85493 4.51377 3.60581 3.27007 3.64125 3.32837 4.12507 2.21914 2.96736 1.95188 3.62027 2.26651 4.23875 3.50207 3.53830 2.90020 2.58613 2.17354 5.10386 3.45181 24 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01101 4.90989 5.63224 0.61958 0.77255 0.67847 0.70805\n- 4 2.63471 5.33877 2.87440 2.41126 4.66766 3.64721 3.83618 3.12926 2.28428 3.63711 4.38382 2.52606 2.64758 2.93800 2.50816 1.89714 3.09877 3.21947 5.78126 4.38038 25 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01029 4.97784 5.70019 0.61958 0.77255 0.60243 0.79292\n- 5 2.73524 4.36266 4.68192 2.76730 3.14391 4.09787 4.42015 1.78026 3.91747 1.34420 2.86745 4.17937 4.46083 4.09107 4.00850 3.04299 3.18339 2.38041 4.98654 3.80624 26 l - - -\n- 2.68630 4.42237 2.77490 2.73114 3.46366 2.40525 3.72507 3.29366 2.67713 2.69367 4.24702 2.90305 2.73752 3.18158 2.89813 2.37882 2.77514 2.98530 4.58489 3.61515\n- 0.35557 1.21724 5.75140 0.09177 2.43395 0.37023 1.17304\n- 6 2.92626 4.04803 2.65142 2.27047 2.88146 2.78221 3.92778 3.14098 2.57021 2.65155 4.31287 2.36883 2.97503 3.05256 2.91786 2.55953 3.15751 3.44120 5.72959 4.36437 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00901 5.10960 5.83195 0.61958 0.77255 0.48576 0.95510\n- 7 2.77700 4.36069 4.79254 4.18628 3.12004 4.11860 4.44506 2.17783 3.32713 1.42781 2.39'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07544 5.79779 0.61958 0.77255 0.58622 0.81289\n- 240 2.69455 5.40867 2.58046 2.49680 4.74969 3.68321 3.87055 3.88932 1.56350 3.71214 3.71239 3.15227 3.56282 2.28199 2.54989 2.41477 3.03925 3.40454 5.84372 4.43541 310 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07544 5.79779 0.61958 0.77255 0.58622 0.81289\n- 241 2.90818 5.40323 2.55126 1.75474 4.74186 3.15188 3.87187 3.58643 1.76018 3.06802 3.47513 3.15418 4.07755 2.68185 2.84120 2.79395 2.89101 3.79041 5.83970 4.43281 311 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07544 5.79779 0.61958 0.77255 0.58622 0.81289\n- 242 2.90960 5.41319 2.33817 1.66462 4.75518 3.68325 3.61992 3.41285 1.87675 3.40939 4.45476 3.15181 3.53435 2.73294 3.09963 2.69841 2.55562 3.80219 5.84757 4.43837 312 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07544 5.79779 0.61958 0.77255 0.58622 0.81289\n- 243 2.72956 5.43701 2.76575 1.68894 4.78374 3.69119 3.88013 4.26922 1.73961 3.74137 4.47829 2.97162 4.08769 2.25035 2.45818 2.88677 2.93238 3.82876 5.86674 4.45691 313 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00933 5.07544 5.79779 0.61958 0.77255 0.58622 0.81289\n- 244 2.91430 5.42373 2.53530 2.15531 4.76804 3.68437 3.87374 3.68640 1.68320 3.72843 4.46493 1.99206 4.07965 2.75543 2.97645 2.37306 3.14564 3.62060 5.85638 4.44562 314 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06162 5.07544 2.92789 0.61958 0.77255 0.58622 0.81289\n- 245 2.53155 5.38540 2.92057 2.06033 4.72597 2.67418 3.35874 3.72264 2.22089 3.42783 4.42724 2.19229 3.56303 2.94619 2.50599 2.84981 2.94996 3.42917 5.82078 3.68290 315 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12095 5.02365 2.23177 0.61958 0.77255 0.71621 0.67061\n- 246 2.84824 5.33321 3.10559 1.92967 4.66976 3.62404 3.80985 2.97907 1.83356 3.42570 4.37668 2.37798 4.01716 2.40621 2.81241 2.63116 2.80938 3.71939 5.76972 4.36702 316 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19195 4.91367 1.78794 0.61958 0.77255 0.70763 0.67887\n- 247 2.61813 5.22830 2.27715 2.35407 4.54049 3.28877 3.77743 3.47198 1.93985 2.60168 4.27779 2.96074 3.61553 2.88551 3.01309 2.42362 2.83852 3.60116 5.68116 3.53957 317 k - - -\n- 2.68681 4.42288 2.77450 2.72872 3.46417 2.40512 3.72557 3.29383 2.67656 2.69381 4.24753 2.90324 2.73803 3.18154 2.89813 2.37923 2.77542 2.98581 4.58540 3.61566\n- 0.82414 0.57734 * 1.18292 0.36583 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2603008502.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2603008502.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,761 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2603008502\n-LENG 246\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:38 2021\n-NSEQ 1552\n-EFFN 2.560577\n-CKSUM 1997455973\n-GA 10 10;\n-STATS LOCAL MSV -10.9341 0.70307\n-STATS LOCAL VITERBI -11.8721 0.70307\n-STATS LOCAL FORWARD -4.9318 0.70307\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64347 4.82895 2.84678 2.45678 3.27121 3.15242 3.67888 2.77353 2.49994 2.55533 3.68457 2.86672 3.65939 2.93465 3.01927 2.61326 2.87651 2.82568 4.53830 3.22694\n- 2.68630 4.42237 2.77504 2.73133 3.46358 2.40525 3.72507 3.29325 2.67753 2.69346 4.24354 2.90359 2.73752 3.18159 2.89813 2.37894 2.77529 2.98497 4.58489 3.61515\n- 0.56093 1.51984 1.55793 0.57912 0.82187 0.00000 *\n- 1 2.71658 4.42591 3.51107 2.93861 3.56132 3.42373 3.95528 2.61091 2.99399 2.38300 1.87354 2.97225 4.07949 3.29585 2.91781 2.87894 2.75793 2.51067 5.00948 3.77741 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05788 4.56429 3.08303 0.61958 0.77255 0.76967 0.62206\n- 2 2.72243 5.22111 2.56365 1.83721 4.56070 3.36527 3.27661 4.04306 1.98924 3.45640 3.65151 2.53502 3.81248 2.64052 2.91293 2.64955 2.95386 3.49328 5.65648 4.24834 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01565 4.56072 5.28307 0.61958 0.77255 0.46620 0.98720\n- 3 2.76970 5.20457 2.97525 2.12595 4.51935 3.55549 3.38518 3.98431 2.16133 2.75177 3.19445 2.85433 3.67250 2.05004 2.94413 2.61958 2.88719 3.29405 5.65570 4.13482 6 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01333 4.72015 5.44250 0.61958 0.77255 0.64036 0.74888\n- 4 2.77120 4.83707 2.85747 2.11419 3.06376 3.63541 3.78893 3.05641 2.57017 2.47145 3.76709 3.04181 3.17663 3.03382 3.13713 2.74965 2.92011 3.14908 5.36522 2.55087 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01333 4.72015 5.44250 0.61958 0.77255 0.64036 0.74888\n- 5 2.74191 5.13220 3.08378 2.27127 4.42057 3.40705 3.43273 3.34793 1.88947 2.72356 4.18834 2.84120 3.96108 2.73606 2.79927 2.53205 2.53609 2.88145 5.60016 4.22689 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01333 4.72015 5.44250 0.61958 0.77255 0.64036 0.74888\n- 6 3.76059 5.01525 5.65920 5.07516 1.24986 5.06849 5.30058 1.80192 4.92140 1.22008 2.88483 5.20210 5.19026 4.85138 4.88769 4.43029 3.96986 2.74100 5.42851 4.33704 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01333 4.72015 5.44250 0.61958 0.77255 0.64036 0.74888\n- 7 2.73572 5.29442 2.36786 2.41015 4.63361 2.95721 3.75224 4.11716 2.14998 3.59816 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02741 4.79549 3.97535 0.61958 0.77255 0.50807 0.92044\n- 239 2.45553 5.23333 2.55238 2.18828 3.89336 3.52337 3.76549 3.71073 2.37644 2.66716 4.28131 2.61726 3.30693 2.82651 2.44015 2.60198 2.82532 3.32808 5.68283 4.10353 306 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03671 4.78062 3.58793 0.61958 0.77255 0.46932 0.98198\n- 240 2.29811 5.14652 2.80872 1.57495 4.11732 3.54072 3.59016 3.21178 2.49375 3.04537 3.98300 3.04354 3.30694 2.90426 3.02821 2.64358 2.91442 3.39184 5.61618 4.24385 307 e - - -\n- 2.68646 4.42286 2.77395 2.73053 3.46415 2.40537 3.72555 3.29238 2.67723 2.69354 4.24577 2.90329 2.73800 3.18152 2.89862 2.37899 2.77537 2.98548 4.58538 3.61512\n- 0.35506 1.22154 5.49948 1.75879 0.18905 0.44865 1.01746\n- 241 2.54456 5.47286 2.13589 1.22055 4.80228 3.38312 3.87943 4.29308 2.34995 3.77185 4.52797 3.06872 4.05822 2.89596 3.18027 2.89599 3.19108 3.59675 5.90827 4.47932 326 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01224 4.80526 5.52760 0.61958 0.77255 0.48576 0.95510\n- 242 2.63277 5.26599 2.97137 1.81200 4.59243 3.42283 3.77112 3.77411 2.01736 3.12788 4.31201 3.05635 3.38750 2.84527 3.00284 2.12278 2.54702 3.64666 5.71024 4.31094 327 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02530 4.80526 4.08656 0.61958 0.77255 0.48576 0.95510\n- 243 2.78360 5.32002 2.53337 1.70624 4.41561 3.51583 3.76860 3.92466 2.13896 3.62401 4.36223 2.67726 3.97233 2.03749 3.00229 2.62322 3.00282 3.70944 5.75325 4.34142 328 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03169 4.79235 3.77640 0.61958 0.77255 0.51509 0.90993\n- 244 2.78985 5.28682 2.62051 1.93575 4.62678 3.56502 3.62000 4.10854 1.96864 3.36891 4.32900 3.03461 3.95840 2.59881 2.47562 2.48372 2.47628 3.67475 4.13441 4.31520 329 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17580 4.76624 1.87926 0.61958 0.77255 0.55623 0.85183\n- 245 2.71828 5.23858 2.40249 1.84322 4.57827 2.69605 3.63615 3.81267 2.26463 3.24961 4.28117 2.53442 3.90403 2.64106 2.76368 2.70225 2.97029 3.62643 5.67380 4.19753 330 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17855 4.60541 1.87392 0.61958 0.77255 0.78070 0.61265\n- 246 2.42798 5.09467 2.78368 2.18117 4.39958 3.40977 3.61723 3.18428 2.18581 3.25708 3.61168 2.75194 3.71903 2.42880 2.90523 2.41334 2.75781 3.31927 5.55214 4.16684 331 e - - -\n- 2.68613 4.42255 2.77504 2.73080 3.46384 2.40517 3.72525 3.29373 2.67672 2.69385 4.24720 2.90309 2.73770 3.18118 2.89822 2.37883 2.77538 2.98546 4.58494 3.61533\n- 0.64702 0.74151 * 0.97544 0.47325 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2617826694.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2617826694.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,650 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2617826694\n-LENG 209\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:38 2021\n-NSEQ 32\n-EFFN 1.402344\n-CKSUM 1775285472\n-GA 10 10;\n-STATS LOCAL MSV -10.4703 0.70482\n-STATS LOCAL VITERBI -11.2741 0.70482\n-STATS LOCAL FORWARD -5.2507 0.70482\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46637 4.26008 2.87875 2.57761 3.31176 2.82014 3.79645 2.86147 2.71848 2.52321 3.67835 3.07033 3.34796 3.10213 2.86830 2.66102 2.85777 2.61815 4.75531 3.52093\n- 2.68683 4.42321 2.77533 2.73187 3.46382 2.40562 3.72503 3.29336 2.67744 2.69388 4.24291 2.90288 2.73770 3.18192 2.89717 2.37891 2.77480 2.98363 4.58573 3.61521\n- 0.31416 1.60744 2.67078 2.87483 0.05808 0.00000 *\n- 1 2.41019 4.28758 3.80102 3.25562 3.46163 2.72012 4.05782 2.68604 3.16471 2.31705 1.74438 3.56599 4.07366 3.45915 3.45107 2.93854 2.92047 2.38581 4.97710 3.76700 44 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02055 4.29093 5.01328 0.61958 0.77255 0.43379 1.04425\n- 2 2.31428 4.98014 2.98429 2.10338 4.25658 3.27954 3.34012 3.69584 2.28553 3.16985 3.34565 2.96368 3.14807 2.78463 2.90373 2.27710 2.80826 3.33367 5.45765 4.09376 45 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01924 4.35597 5.07831 0.61958 0.77255 0.48576 0.95510\n- 3 2.14182 4.28330 3.66947 3.09805 2.50216 3.66035 3.92670 2.67712 3.03654 2.42183 3.19626 3.09300 4.03690 2.81118 3.35035 2.56992 2.87645 2.46991 4.21730 3.38350 46 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01924 4.35597 5.07831 0.61958 0.77255 0.48576 0.95510\n- 4 2.64722 4.15594 4.43887 3.85222 2.25561 3.91524 4.25878 1.88337 3.70436 2.20817 3.26223 3.98030 4.27498 3.89504 3.82293 3.00749 2.71149 1.64897 4.84221 3.65472 47 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01924 4.35597 5.07831 0.61958 0.77255 0.48576 0.95510\n- 5 2.29322 5.15474 2.87943 1.87701 4.47976 3.44476 3.45529 3.94998 2.22595 3.44860 4.20500 2.39238 3.85237 2.68533 2.75767 2.41145 2.92845 3.53546 5.59582 4.19881 48 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01924 4.35597 5.07831 0.61958 0.77255 0.48576 0.95510\n- 6 2.47383 4.40777 3.61422 3.30452 4.41245 3.20412 4.36807 3.78004 3.31398 3.49688 4.34745 3.49840 2.84634 3.63892 3.62455 2.49824 0.92126 3.30051 5.76814 4.54676 49 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01924 4.35597 5.07831 0.61958 0.77255 0.48576 0.95510\n- 7 2.03986 4.60169 3.25197 2.69057 3.78420 3.54956 3.77597 2.63228 2.27287 2.72397 3.69'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01863 4.38810 5.11044 0.61958 0.77255 0.48576 0.95510\n- 202 2.94522 5.42738 1.29132 1.93213 4.72150 3.43444 3.84326 4.19185 2.74372 3.72080 4.52859 2.71555 3.97138 2.98668 3.28558 2.87666 3.20710 2.77860 5.89667 4.44982 264 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01863 4.38810 5.11044 0.61958 0.77255 0.48576 0.95510\n- 203 2.90161 4.37163 4.30834 3.75426 3.21502 4.02941 4.41055 1.42508 3.65339 2.26551 3.38585 4.00619 2.15181 3.89958 3.87591 3.34081 3.15196 1.95450 5.10993 3.90486 265 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01863 4.38810 5.11044 0.61958 0.77255 0.48576 0.95510\n- 204 2.57932 5.08656 2.65869 2.20530 4.06465 3.45279 3.64437 3.64929 2.27478 3.37647 4.13686 2.77257 3.48552 2.21739 2.76506 2.58408 2.77542 2.79089 5.54107 4.15272 266 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01863 4.38810 5.11044 0.61958 0.77255 0.48576 0.95510\n- 205 3.35514 4.60479 5.27859 4.80973 3.89284 4.83506 5.53287 1.42631 4.71807 2.35462 3.66102 4.98355 5.11652 4.98110 4.89563 4.25690 3.62409 0.77599 5.94218 4.72324 267 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01863 4.38810 5.11044 0.61958 0.77255 0.48576 0.95510\n- 206 2.19693 4.66230 3.21851 2.65955 3.87109 3.53561 3.77267 2.93205 2.32099 2.91582 3.76607 3.14401 3.93102 2.97575 2.91454 2.11286 2.48787 2.64998 5.21831 3.92893 268 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01863 4.38810 5.11044 0.61958 0.77255 0.48576 0.95510\n- 207 2.64215 4.69339 3.31131 2.73607 2.76230 3.59568 3.78643 3.12896 2.42084 2.92080 3.78634 3.20345 3.55500 2.99603 1.65408 2.83361 2.95531 3.00290 5.21411 3.93748 269 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01863 4.38810 5.11044 0.61958 0.77255 0.48576 0.95510\n- 208 3.37784 5.45276 3.77900 3.09896 4.97697 3.92406 3.83906 4.31552 0.74562 3.70993 4.59916 3.47149 4.29660 2.97413 2.02947 3.36425 3.53018 3.99751 5.69626 4.57038 270 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.35018 4.36874 1.26311 0.61958 0.77255 0.48576 0.95510\n- 209 2.50763 5.18311 2.11857 2.11631 4.48813 3.32218 3.27898 3.96596 2.30648 3.47137 4.25035 2.22047 3.79733 2.75592 2.95966 2.55353 2.95301 3.55530 5.63119 4.20978 271 e - - -\n- 2.68612 4.42237 2.77523 2.73120 3.46365 2.40509 3.72506 3.29365 2.67728 2.69361 4.24667 2.90358 2.73751 3.18134 2.89790 2.37895 2.77497 2.98520 4.58488 3.61515\n- 0.51017 0.91728 * 0.67000 0.71684 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2623274509.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2623274509.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,659 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2623274509\n-LENG 212\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:38 2021\n-NSEQ 9\n-EFFN 1.384277\n-CKSUM 1368770000\n-GA 10 10;\n-STATS LOCAL MSV -10.3940 0.70466\n-STATS LOCAL VITERBI -11.3667 0.70466\n-STATS LOCAL FORWARD -5.1093 0.70466\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61083 4.54297 3.02265 2.56262 3.28022 3.10118 3.59377 2.73551 2.60432 2.42842 3.68340 2.97040 3.39264 3.01982 2.87145 2.69389 2.87321 2.64809 4.51908 3.45073\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16830 4.37999 1.94929 0.61958 0.77255 0.00000 *\n- 1 3.26864 4.63093 4.82029 4.25830 3.22529 4.48770 4.82684 2.22604 4.10555 1.42613 1.40972 4.50488 4.72786 4.26641 4.24826 3.82887 3.50056 1.96153 5.23134 4.13678 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23347 4.95582 0.61958 0.77255 0.67369 0.71300\n- 2 2.67994 4.88158 2.87984 1.97588 4.12839 2.83150 3.71029 3.57449 2.53482 3.17539 3.99690 2.97659 3.86980 2.87140 2.99749 2.11830 2.92655 3.24390 5.40081 2.71202 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02178 4.23347 4.95582 0.61958 0.77255 0.38398 1.14302\n- 3 2.66580 4.99330 2.68180 2.07920 4.27059 3.46836 3.66449 3.70976 2.43078 2.84568 3.31719 2.61013 3.86069 2.78934 2.34666 2.66688 2.89693 2.89094 5.46838 4.10365 3 e - - -\n- 2.68650 4.42257 2.77478 2.73131 3.46286 2.40529 3.72527 3.29262 2.67750 2.69387 4.24611 2.90379 2.73701 3.18178 2.89833 2.37919 2.77552 2.98428 4.58509 3.61427\n- 0.44237 1.04581 5.10234 1.35399 0.29869 0.48576 0.95510\n- 4 2.68079 4.26686 3.80999 3.23596 2.86910 3.71910 2.75732 1.79851 2.66031 2.43913 3.36638 3.56190 4.09227 3.42408 3.41423 2.98651 2.91247 2.26182 4.84473 3.61555 13 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16258 4.37999 1.98396 0.61958 0.77255 0.48576 0.95510\n- 5 2.66329 3.55185 2.02684 2.39348 4.31687 3.41246 3.66163 3.76473 2.43404 3.31551 4.10140 2.30605 3.83870 2.78909 2.50779 2.65795 2.90587 3.38745 5.50332 4.13061 14 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02166 4.23907 4.96142 0.61958 0.77255 0.66757 0.71940\n- 6 1.93193 4.28927 3.71648 3.19494 3.60468 2.42693 4.06940 2.73735 3.13385 2.25099 3.56125 3.50114 4.01100 3.43014 3.44656 2.83775 2.88698 1.91274 5.08900 3.86842 15 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02166 4.23907 4.96142 0.61958 0.77255 0.38685 1.13691\n- 7 2.69698 5.02096 3.00204 2.07514 4.30106 3.48608 3.67357 3.74140 1.77462 3.29353 3.192'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01878 4.37999 5.10234 0.61958 0.77255 0.48576 0.95510\n- 205 2.94249 4.93470 3.51967 2.88179 4.21977 3.72539 3.80086 3.51494 1.84383 3.16015 4.03959 3.31104 4.10053 2.97416 1.79209 3.01833 3.14828 1.81548 5.39669 4.17058 230 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01878 4.37999 5.10234 0.61958 0.77255 0.48576 0.95510\n- 206 2.69179 4.32008 3.73186 3.16734 3.39505 3.70031 3.16994 2.77316 3.06256 1.66234 2.55600 3.51670 4.08176 3.37251 3.35722 2.33064 2.92672 2.57570 4.88792 3.65264 231 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01878 4.37999 5.10234 0.61958 0.77255 0.48576 0.95510\n- 207 2.22687 5.01129 3.00278 2.05977 4.30060 3.48737 3.68521 3.72552 1.83596 2.86402 4.08204 2.99474 3.88683 2.81337 2.87095 2.70519 2.61829 3.36731 5.48776 4.13382 232 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01878 4.37999 5.10234 0.61958 0.77255 0.48576 0.95510\n- 208 2.88015 5.22447 2.17309 2.42262 4.77300 1.37383 3.94706 4.26378 2.88737 3.79660 4.60820 2.45093 3.97282 3.10604 3.42359 2.36025 3.20200 3.80741 5.97213 4.54421 233 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01878 4.37999 5.10234 0.61958 0.77255 0.48576 0.95510\n- 209 2.83088 5.24270 2.10306 1.91575 4.55849 1.89778 3.78406 4.01617 2.63242 3.55632 4.35150 2.92789 3.92825 2.91994 3.14682 2.79271 3.08607 2.83826 5.74049 4.32885 234 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01878 4.37999 5.10234 0.61958 0.77255 0.48576 0.95510\n- 210 2.32221 4.71379 3.18706 2.67711 4.17430 2.17152 3.84727 3.58264 2.29631 3.20758 4.02775 3.14060 3.90183 3.01898 3.10191 1.90183 2.91329 2.73940 5.45837 4.15074 235 s - - -\n- 2.68628 4.42235 2.77530 2.73080 3.46364 2.40523 3.72433 3.29364 2.67751 2.69340 4.24700 2.90357 2.73750 3.18157 2.89811 2.37878 2.77501 2.98529 4.58487 3.61513\n- 0.36157 1.77078 2.01574 0.97055 0.47622 0.48576 0.95510\n- 211 2.65588 4.93624 2.95852 2.03599 4.22142 3.44214 3.65647 3.64432 2.00762 3.21993 4.01818 2.96074 3.84752 2.79076 2.86770 2.38114 2.51420 2.76049 5.43012 4.07968 240 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02155 4.24401 4.96636 0.61958 0.77255 0.38944 1.13145\n- 212 2.80844 5.32986 2.13067 2.06927 4.65505 3.43348 3.72855 4.14577 2.05927 3.62702 4.39040 2.52303 3.90073 2.84452 3.04396 1.91404 3.05224 3.71267 5.76659 4.33475 241 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01268 4.37389 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2634882613.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2634882613.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,659 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2634882613\n-LENG 212\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:38 2021\n-NSEQ 7\n-EFFN 2.115723\n-CKSUM 4090187063\n-GA 10 10;\n-STATS LOCAL MSV -10.2194 0.70465\n-STATS LOCAL VITERBI -11.1531 0.70465\n-STATS LOCAL FORWARD -5.0863 0.70465\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45310 4.44618 2.96208 2.59637 3.27117 3.03707 3.55768 2.93288 2.68645 2.41073 3.68232 2.98644 3.22591 3.00102 2.80980 2.67862 2.90444 2.76967 4.66976 3.51865\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20613 4.66484 1.73244 0.61958 0.77255 0.00000 *\n- 1 3.31553 4.71191 4.93108 4.42230 3.46710 4.47490 4.99284 2.30682 4.23656 1.92569 1.06927 4.60782 4.81873 4.45122 4.37671 3.86184 3.58796 1.74783 5.43922 4.30069 1 m - - -\n- 2.68467 4.42305 2.77484 2.73153 3.46434 2.40593 3.72446 3.29434 2.67724 2.69435 4.24326 2.90310 2.73711 3.18226 2.89768 2.37891 2.77484 2.98520 4.58557 3.61583\n- 0.79682 0.60933 5.19811 1.73975 0.19306 0.33625 1.25331\n- 2 2.23055 4.55413 3.54116 2.98576 3.73314 3.69028 3.97653 2.49868 2.94936 2.79648 2.37171 2.15717 4.09228 3.26572 3.32768 2.24876 2.99737 2.84205 5.15660 3.90874 12 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 3 2.84844 5.28225 1.99874 2.06636 4.60066 3.54677 3.81256 4.06696 2.60427 3.58588 4.35703 3.03134 2.13447 2.93138 3.10449 2.36956 3.09043 2.77354 5.75254 4.34938 13 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 4 1.97842 4.33337 3.92858 3.35496 2.68258 3.80249 4.09037 2.24907 3.27680 2.11298 3.44688 2.79064 4.18035 3.54161 3.54909 2.30748 2.99157 2.58651 4.93782 3.72811 14 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 5 3.33327 4.73129 4.86653 4.32522 2.13692 4.45175 4.65500 2.70450 4.18080 0.82975 3.27780 4.48414 2.86607 4.31390 4.29140 3.78666 3.56832 2.76163 5.04500 3.74868 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 6 1.84688 4.58602 3.57825 3.00188 3.74183 3.73888 3.96359 2.16729 2.37186 2.27266 3.68360 3.42850 4.11847 3.24701 2.50768 2.98361 3.02632 2.84506 5.15581 3.91416 16 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01409 4.66484 5.38718 0.61958 0.77255 0.48576 0.95510\n- 7 1.85125 5.23384 1.92351 2.54400 4.65626 3.53263 3.90162 4.11890 2.72276 3.65376 4.434'..b'.68600 4.42282 2.77495 2.73143 3.46411 2.40536 3.72551 3.29345 2.67679 2.69372 4.24747 2.90403 2.73718 3.18203 2.89765 2.37944 2.77534 2.98274 4.58534 3.61560\n- 0.94550 0.88517 1.61510 1.81932 0.17690 0.70509 0.68135\n- 205 3.59124 4.95444 4.77315 4.42983 3.31788 4.44023 4.97406 2.55544 4.19537 0.52904 3.25367 4.67119 4.82258 4.47384 4.30559 4.07819 3.87399 2.68430 5.31237 4.11464 249 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23592 4.95826 0.61958 0.77255 1.01840 0.44812\n- 206 3.35021 5.29174 3.54812 3.12062 4.76373 3.78081 4.02115 4.22107 0.62886 3.71351 4.67013 3.52288 4.26752 3.20251 2.57668 3.37718 3.58328 3.91384 5.67831 4.55240 250 K - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23592 4.95826 0.61958 0.77255 1.01840 0.44812\n- 207 2.67088 4.50997 3.37693 2.81132 3.64829 3.58749 3.81250 2.98907 2.22844 2.16445 2.64713 3.25380 2.68257 3.07026 3.04041 2.83353 2.90200 2.76760 5.06785 3.81801 251 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23592 4.95826 0.61958 0.77255 1.01840 0.44812\n- 208 2.94330 5.16382 3.27355 2.69480 4.59840 2.35818 3.69805 3.98428 1.72353 3.46204 4.28994 3.15474 4.01935 2.82732 1.58387 2.93872 3.14948 3.62893 5.55363 4.31052 252 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23592 4.95826 0.61958 0.77255 1.01840 0.44812\n- 209 2.70691 4.62338 3.24105 2.75974 2.45534 3.54555 3.80172 3.19332 2.71847 2.80641 3.73558 3.21286 2.16530 2.33261 3.10276 2.82898 2.95859 2.95016 5.03104 3.65189 253 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02173 4.23592 4.95826 0.61958 0.77255 0.65622 0.73150\n- 210 3.11477 5.72075 1.15131 2.30923 5.01324 3.44184 3.94075 4.55033 2.91155 4.01953 4.84438 2.13315 4.04037 2.20817 3.49203 3.00067 3.39363 4.10392 6.16053 4.65214 254 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42195 5.14430 0.61958 0.77255 0.84685 0.55995\n- 211 1.80953 4.92771 3.13244 2.58782 4.26459 3.51446 3.75303 3.67753 2.46590 3.26009 4.07197 3.08836 3.93396 2.34261 2.31899 2.75740 2.31609 3.33234 5.47439 4.15368 255 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01800 4.42195 5.14430 0.61958 0.77255 0.84685 0.55995\n- 212 2.84808 5.26148 1.97834 1.97147 4.55296 2.04556 3.79048 4.01336 2.63373 2.56552 4.34774 2.94310 3.94411 2.92605 3.14557 2.80899 3.09773 3.62626 5.73706 4.32747 256 e - - -\n- 2.68521 4.42276 2.77570 2.72931 3.46404 2.40563 3.72306 3.29405 2.67752 2.69405 4.24740 2.90397 2.73790 3.17943 2.89796 2.37937 2.77527 2.98569 4.58528 3.61554\n- 0.56927 0.83457 * 1.56104 0.23562 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2634932349.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2634932349.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,644 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2634932349\n-LENG 207\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:38 2021\n-NSEQ 365\n-EFFN 3.845711\n-CKSUM 1446299840\n-GA 10 10;\n-STATS LOCAL MSV -10.2934 0.70494\n-STATS LOCAL VITERBI -11.4842 0.70494\n-STATS LOCAL FORWARD -4.9712 0.70494\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54109 4.63593 2.88568 2.57656 3.49974 2.81983 3.69535 2.97333 2.70691 2.49091 3.75434 3.02107 3.13584 3.03736 2.80288 2.60511 2.77399 2.74817 4.15998 3.72496\n- 2.68624 4.42231 2.77519 2.73127 3.46356 2.40516 3.72501 3.29360 2.67747 2.69353 4.24563 2.90353 2.73734 3.18131 2.89796 2.37890 2.77519 2.98525 4.58483 3.61509\n- 0.37657 3.06436 1.32011 0.98735 0.46611 0.00000 *\n- 1 3.42590 4.81740 5.09193 4.54203 3.63512 4.60698 5.07203 2.47561 4.36002 2.07767 0.80062 4.71720 4.93659 4.55893 4.49221 3.96413 3.18703 2.16421 5.54406 4.42446 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01207 4.81872 5.54106 0.61958 0.77255 0.47631 0.97040\n- 2 2.18273 4.87583 3.12242 2.60917 4.27041 3.71994 3.51940 3.44834 2.61869 2.96107 2.64006 2.69718 3.54754 2.54234 3.06150 2.47599 2.55983 2.94951 5.04932 3.70992 10 a - - -\n- 2.68479 4.42288 2.77618 2.73160 3.46292 2.40657 3.72463 3.29314 2.67871 2.69272 4.24686 2.90301 2.73586 3.18103 2.89768 2.37883 2.77498 2.98549 4.58554 3.61624\n- 1.34895 0.32648 3.96189 1.96231 0.15144 0.62145 0.77039\n- 3 2.42639 3.64858 2.97419 2.49753 4.41739 2.99854 3.64945 3.79998 2.47102 2.71346 3.75026 2.70597 2.96544 2.75224 2.87655 2.61883 2.33170 3.14535 5.73047 4.35470 41 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24944 5.03760 1.54051 0.61958 0.77255 0.62290 0.76870\n- 4 2.62710 4.37083 3.95916 3.18540 3.36269 3.88225 4.16733 2.27911 3.23688 1.98719 3.30311 3.47660 4.25522 2.95810 3.28441 3.10137 2.72522 1.66236 4.70827 3.70225 42 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01195 4.82843 5.55078 0.61958 0.77255 0.93172 0.50067\n- 5 2.83068 4.26149 4.76577 4.15831 3.35794 4.04811 4.32355 1.54784 3.96275 2.00161 2.98403 4.18374 4.40964 4.11027 4.00115 3.11322 2.66723 1.57258 4.41620 3.71946 43 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21023 4.87060 1.70411 0.61958 0.77255 1.02776 0.44287\n- 6 2.60336 4.75633 3.19949 2.55738 3.14413 3.43040 2.59592 3.18354 2.56662 2.53532 3.84225 3.22956 3.09066 2.83319 3.15713 2.53213 2.83454 2.89984 4.12690 3.37264 44 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67433 5.39668 0.61958 0.77255 0.67827 0.70825\n- 7 2.42340 5.28680 2.63808 2.20836 4.27759 3.27249 3.54160 3.48712 2.33841 2.98101 4.3'..b'.68632 4.42254 2.77504 2.73126 3.46356 2.40470 3.72433 3.29318 2.67754 2.69379 4.24719 2.90255 2.73760 3.18155 2.89810 2.37913 2.77548 2.98547 4.58506 3.61495\n- 0.13475 2.16573 4.47433 1.66943 0.20869 0.32562 1.28041\n- 200 3.26664 5.93651 0.79755 2.23228 5.25724 3.55545 4.23709 4.77045 3.13251 4.05951 5.02609 2.77665 3.87613 3.36952 3.68917 2.57966 3.30126 4.32233 6.38120 4.90589 460 d - - -\n- 2.68608 4.42253 2.77490 2.73074 3.46338 2.40484 3.72472 3.29382 2.67769 2.69371 4.24718 2.90354 2.73721 3.18175 2.89829 2.37911 2.77521 2.98511 4.58505 3.61510\n- 0.23128 1.59171 5.84139 1.07031 0.41992 0.47189 0.97770\n- 201 3.78822 5.03114 5.82817 5.28793 1.39277 5.21355 5.64504 1.39911 5.15693 2.11114 3.78139 5.37264 5.43393 5.24767 5.19486 4.58929 4.02621 1.38653 5.92016 4.75996 466 v - - -\n- 2.68626 4.42233 2.77527 2.73098 3.46362 2.40520 3.72457 3.29332 2.67748 2.69347 4.24697 2.90354 2.73742 3.18154 2.89803 2.37894 2.77510 2.98511 4.58485 3.61511\n- 0.04778 3.12884 5.84856 1.17503 0.36934 0.48576 0.95510\n- 202 2.68072 5.42728 2.02846 2.23900 4.71749 3.44182 3.79372 4.06085 2.49556 3.63852 4.31166 2.83453 2.15804 2.94834 2.96481 2.46075 2.72633 3.47570 5.86334 3.76198 473 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00886 5.12621 5.84856 0.61958 0.77255 0.48576 0.95510\n- 203 3.88921 5.07631 6.01929 5.57276 4.52678 5.54546 6.36914 1.03219 5.52744 2.85420 4.24422 5.72339 4.99000 5.80573 5.70316 4.99602 4.15375 0.74666 6.67123 5.43101 474 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03041 5.12621 3.72900 0.61958 0.77255 0.48576 0.95510\n- 204 2.57308 5.41394 2.88074 1.79953 4.75179 3.59332 3.68746 3.57303 2.37588 3.18834 4.45650 3.06708 3.61417 2.67074 2.55758 2.43389 2.38292 3.03731 5.85097 4.44441 475 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02487 5.10485 3.99038 0.61958 0.77255 0.55118 0.85865\n- 205 2.65966 5.14628 3.30649 2.15901 3.13887 3.74658 3.94832 3.81249 2.32480 2.81362 3.60733 3.27105 2.52121 3.09293 1.87102 2.80005 3.15192 3.44112 4.41465 4.30288 476 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00920 5.08918 5.81153 0.61958 0.77255 0.59577 0.80104\n- 206 2.50975 5.16342 3.32917 2.76726 4.41318 3.76270 3.95649 3.20084 1.57920 2.79326 4.23246 2.98811 4.15158 3.10059 1.93014 2.96712 2.76863 2.99602 5.65599 4.31966 477 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31696 5.08918 1.32622 0.61958 0.77255 0.59577 0.80104\n- 207 2.18306 5.17840 3.09462 2.37783 4.23799 2.40870 3.78040 3.83437 2.41811 3.26517 4.14895 2.90296 3.84476 2.81499 2.75977 2.00106 2.71309 3.40714 5.64150 4.26205 478 s - - -\n- 2.68619 4.42245 2.77525 2.73115 3.46332 2.40472 3.72515 3.29364 2.67753 2.69374 4.24710 2.90329 2.73756 3.18159 2.89815 2.37886 2.77523 2.98494 4.58470 3.61523\n- 0.32734 1.27596 * 0.80248 0.59460 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2641389401.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2641389401.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,722 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2641389401\n-LENG 233\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:38 2021\n-NSEQ 5\n-EFFN 0.678711\n-CKSUM 3090612974\n-GA 10 10;\n-STATS LOCAL MSV -10.6152 0.70358\n-STATS LOCAL VITERBI -11.5356 0.70358\n-STATS LOCAL FORWARD -5.2610 0.70358\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55039 4.19933 2.84894 2.61634 3.30683 2.92717 3.76452 2.73662 2.72348 2.45779 3.59871 2.87878 3.36303 3.10406 3.05369 2.62443 2.85654 2.76686 4.57144 3.40652\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14167 3.99742 2.17396 0.61958 0.77255 0.00000 *\n- 1 2.98020 4.52667 4.06458 3.65899 3.21367 3.84465 4.39084 2.39068 3.42634 1.80609 1.35094 3.93477 4.30523 3.80721 3.63001 3.33085 3.28572 2.39847 5.05646 3.81955 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16168 3.88670 2.04970 0.61958 0.77255 0.58872 0.80977\n- 2 2.79897 4.77378 2.83681 2.59417 3.92600 3.29551 3.74995 3.54331 2.42407 3.05654 4.09196 3.05122 3.85015 1.44904 2.70871 2.85355 3.09813 3.28138 5.22043 3.90782 2 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76021 4.48256 0.61958 0.77255 0.68337 0.70302\n- 3 2.80178 4.84183 3.14375 2.63009 3.89810 3.46456 2.69955 3.58233 2.05248 3.10967 4.00304 3.06141 3.88562 2.76402 1.74698 2.83947 3.01879 3.28657 5.11330 3.77671 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76021 4.48256 0.61958 0.77255 0.68337 0.70302\n- 4 2.35923 4.20265 3.33462 3.08613 3.87549 3.04438 4.11118 2.98926 3.02680 2.85646 3.91773 3.31104 3.74073 3.42840 3.28856 2.55967 1.37818 2.69642 5.32360 4.09330 4 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76021 4.48256 0.61958 0.77255 0.68337 0.70302\n- 5 3.09154 4.51852 4.26884 3.80557 1.79674 4.09466 4.01738 2.33222 3.66524 1.46760 3.06663 3.99211 4.41848 3.86094 3.84464 3.46352 3.33939 2.36508 4.34728 2.80401 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76021 4.48256 0.61958 0.77255 0.68337 0.70302\n- 6 2.70344 4.67909 2.97682 2.57135 3.08452 3.44738 2.79190 3.31104 2.51355 2.89157 3.80775 2.53739 3.87803 2.91785 2.87997 2.76487 2.94219 3.04340 4.59613 2.53993 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03520 3.76021 4.48256 0.61958 0.77255 0.68337 0.70302\n- 7 2.37212 4.40206 2.74789 2.54777 4.09256 3.00526 3.82928 3.61298 2.71574 3.26753 4.125'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 226 2.71618 4.99893 1.59909 2.27662 4.51048 3.19189 3.80511 4.00659 2.76913 3.58693 4.42774 2.81446 3.80877 2.98233 3.29281 1.79616 3.04994 3.57581 5.75417 4.33190 242 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 227 3.42074 4.78635 4.41002 4.14953 0.82748 4.07864 3.93782 2.93049 4.05375 2.27238 3.64303 4.16166 4.53541 4.18762 4.14255 3.68338 3.72244 2.93013 4.15229 2.50464 243 f - - -\n- 2.68624 4.42231 2.77526 2.73080 3.46360 2.40519 3.72501 3.29274 2.67747 2.69361 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58483 3.61509\n- 0.27240 1.47172 4.71976 0.66971 0.71715 0.48576 0.95510\n- 228 2.82691 4.58856 3.52616 3.44214 4.57950 0.55994 4.55353 4.21072 3.64032 3.84882 4.82655 3.69064 3.98365 3.95471 3.86143 3.00263 3.31789 3.71494 5.64037 4.68607 246 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 229 2.82367 4.93683 1.76262 2.45106 3.46198 3.41052 3.69706 3.58090 2.73955 3.16425 4.09031 2.96901 3.91951 3.01005 3.20264 2.83447 3.08682 3.29211 4.95189 2.07760 247 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 230 2.83798 4.70146 3.39633 2.86816 3.75971 3.62501 3.79633 3.03448 1.73787 1.79916 3.70727 3.28592 4.03148 3.02050 2.64838 2.96995 3.06653 2.85993 5.16808 3.90442 248 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 231 2.79950 5.07196 2.60361 2.36532 4.36791 3.33546 3.70525 3.90946 2.42807 3.44211 4.29243 1.93703 3.86370 1.85749 2.81158 2.77978 3.06894 3.53788 5.55271 4.17357 249 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 232 0.84768 4.25817 3.59275 3.39148 4.17995 3.07903 4.39831 3.32441 3.41103 3.20010 4.21944 3.50845 3.83023 3.74103 3.65197 2.60802 2.89411 2.95713 5.59461 4.40920 250 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02766 3.99742 4.71976 0.61958 0.77255 0.48576 0.95510\n- 233 2.55879 4.27603 3.64074 3.20570 3.57073 3.44499 4.10210 1.73825 3.11985 2.53415 3.57004 3.49230 3.99119 3.46186 3.41093 1.91369 2.89685 2.35707 5.11986 3.85425 251 i - - -\n- 2.68627 4.42234 2.77529 2.73034 3.46363 2.40522 3.72504 3.29363 2.67750 2.69364 4.24699 2.90298 2.73749 3.18156 2.89810 2.37896 2.77529 2.98528 4.58486 3.61512\n- 0.26344 1.46276 * 0.96584 0.47911 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2662548665.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2662548665.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,686 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2662548665\n-LENG 221\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:38 2021\n-NSEQ 88\n-EFFN 2.666748\n-CKSUM 1302407276\n-GA 10 10;\n-STATS LOCAL MSV -10.7301 0.70420\n-STATS LOCAL VITERBI -11.1225 0.70420\n-STATS LOCAL FORWARD -4.9014 0.70420\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51119 4.65970 2.97363 2.59145 3.35597 3.11544 3.46970 2.92698 2.63339 2.45017 3.65078 3.00182 3.16441 2.94364 2.81725 2.67066 2.84936 2.74950 4.69899 3.48044\n- 2.68690 4.42349 2.77514 2.73196 3.46306 2.40547 3.72507 3.29224 2.67673 2.69345 4.24364 2.90337 2.73780 3.18208 2.89794 2.37809 2.77600 2.98478 4.58601 3.61527\n- 0.90530 1.04426 1.41212 2.23439 0.11323 0.00000 *\n- 1 2.61720 5.06312 2.97427 2.12954 4.34341 3.53313 3.72669 3.78171 2.28024 3.33746 2.05724 2.64088 3.92698 2.85206 2.58127 2.73798 2.96812 3.31951 5.53401 4.17271 35 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01563 4.56190 5.28425 0.61958 0.77255 0.67106 0.71574\n- 2 2.74899 5.17354 2.56352 2.33479 4.48425 3.53650 3.72762 3.79065 2.08970 3.12497 3.56329 2.40747 3.19719 2.71380 2.96343 2.54844 2.87237 2.63396 5.62733 4.23815 36 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01415 4.66087 5.38321 0.61958 0.77255 0.50851 0.91977\n- 3 2.80409 4.40505 3.90572 2.97591 3.52693 3.83944 4.11484 2.38677 3.26199 2.10111 3.02572 2.60038 4.21414 3.53702 3.55465 3.10184 1.83029 2.23892 5.00853 3.79529 37 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01276 4.76365 5.48599 0.61958 0.77255 0.39999 1.10965\n- 4 2.84874 5.11972 3.21166 2.64641 3.90902 3.65755 3.83982 3.57973 1.73390 3.38111 3.13837 3.16924 4.04560 1.75506 2.56112 2.86188 3.07675 3.10470 5.59497 4.25156 38 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83604 5.55838 0.61958 0.77255 0.48576 0.95510\n- 5 2.45667 5.31797 2.03288 1.88730 4.65864 3.19080 3.77778 3.62249 2.17094 3.45273 4.36010 2.94678 3.98279 2.62362 3.00839 2.51752 2.92274 3.70630 5.75304 4.34389 39 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83604 5.55838 0.61958 0.77255 0.48576 0.95510\n- 6 2.90738 5.39990 1.79689 1.52929 3.24106 3.61042 3.85460 4.20575 2.63024 3.69674 4.45192 2.92737 4.04167 2.71128 3.13334 2.59196 2.92083 3.78041 5.84100 4.42509 40 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83604 5.55838 0.61958 0.77255 0.48576 0.95510\n- 7 3.91679 5.13493 5.86945 5.31203 2.56942 5.31586 5.59722 0.91212 5.17879 1.19094 3.32'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83604 5.55838 0.61958 0.77255 0.48576 0.95510\n- 214 2.02240 5.29382 2.20530 2.37748 4.62534 3.59098 3.78182 3.37135 2.52304 3.59336 4.33853 2.84409 3.98579 2.16773 2.77834 2.42629 2.79708 3.67725 5.73474 4.33167 266 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01186 4.83604 5.55838 0.61958 0.77255 0.48576 0.95510\n- 215 3.25949 5.63090 2.80608 0.66896 5.19572 2.62337 4.27509 4.67982 3.21373 4.20801 5.03786 3.25757 4.29950 3.43910 3.73655 3.21652 2.98234 4.21641 6.36620 4.92843 267 E - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04305 4.83604 3.37545 0.61958 0.77255 0.48576 0.95510\n- 216 2.69495 5.31136 3.02493 2.10324 4.64856 2.04580 3.80267 4.12497 2.14088 3.61826 4.36866 2.40572 3.99866 2.90769 3.04329 2.58887 2.34405 3.70087 5.76167 4.35754 268 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25901 4.80522 1.51415 0.61958 0.77255 0.55588 0.85230\n- 217 2.60709 5.12415 3.01268 2.18763 4.42847 3.21053 3.70084 3.28954 2.12160 2.87920 4.17618 2.39237 3.90272 2.69479 2.62349 2.70427 2.45911 3.49278 5.58126 4.19835 269 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02689 4.56185 4.12963 0.61958 0.77255 0.93935 0.49574\n- 218 2.88661 5.42849 1.77662 1.68284 4.75494 3.00190 3.80284 4.25238 2.38440 3.72675 4.48774 2.54450 3.97073 2.91840 3.13935 2.67156 2.78594 3.81171 5.86240 4.42135 270 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08979 4.55077 2.58602 0.61958 0.77255 0.95201 0.48770\n- 219 2.20513 5.09900 2.35909 2.25967 3.61385 3.48154 3.67667 3.85973 2.43180 3.38640 3.75190 2.82047 3.87606 2.22596 2.91683 2.54744 2.74309 3.46702 5.55792 4.17326 271 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01701 4.47799 5.20034 0.61958 0.77255 1.02826 0.44259\n- 220 2.54526 5.10148 2.37383 2.42483 4.11549 3.08908 3.67308 3.36987 2.42549 3.04831 4.15312 2.67612 3.87365 2.43177 2.54186 2.30009 2.92273 3.47074 5.55882 4.17322 272 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06826 4.47799 2.90722 0.61958 0.77255 1.02826 0.44259\n- 221 2.48862 5.10615 2.95114 1.93390 4.14795 3.16368 3.66020 3.87841 2.16586 3.39644 4.15760 2.37326 3.86109 2.76999 2.84295 2.66337 2.44703 3.47844 5.56023 3.92809 273 e - - -\n- 2.68655 4.42277 2.77494 2.72966 3.46406 2.40476 3.72514 3.29388 2.67726 2.69397 4.24742 2.90320 2.73773 3.18046 2.89823 2.37891 2.77571 2.98570 4.58529 3.61555\n- 0.88184 0.53447 * 1.31014 0.31441 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2664250653.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2664250653.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,668 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2664250653\n-LENG 215\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:39 2021\n-NSEQ 18\n-EFFN 1.182129\n-CKSUM 1035041877\n-GA 10 10;\n-STATS LOCAL MSV -10.7865 0.70450\n-STATS LOCAL VITERBI -11.3656 0.70450\n-STATS LOCAL FORWARD -5.4708 0.70450\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55237 4.66929 2.94099 2.57754 3.26282 3.09756 3.53095 2.88650 2.62904 2.40205 3.67020 3.02455 3.25162 2.99312 2.83801 2.68778 2.84360 2.72635 4.45644 3.57418\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24485 2.90349 2.73742 3.18149 2.89804 2.37890 2.77522 2.98521 4.58480 3.61506\n- 0.60372 1.82794 1.22935 0.25832 1.47995 0.00000 *\n- 1 2.38037 4.22827 3.82466 3.28603 3.40779 3.62516 4.09996 2.34589 3.18727 2.24947 2.22193 3.58791 4.06745 3.48678 3.47017 2.94400 2.55854 1.96057 5.00170 3.79961 2 v - - -\n- 2.68583 4.42234 2.77500 2.73117 3.46363 2.40522 3.72503 3.29363 2.67750 2.69364 4.24699 2.90356 2.73738 3.18155 2.89797 2.37890 2.77505 2.98527 4.58486 3.61512\n- 0.51320 0.93636 4.67026 0.54277 0.87021 0.40679 1.09597\n- 2 2.49579 3.78765 3.13142 2.96556 3.43320 3.59587 3.45398 2.78760 2.91427 2.40489 2.36705 3.35663 3.97646 3.21103 3.25490 2.68105 2.64261 2.27254 4.88698 3.65802 5 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02199 4.22385 4.94619 0.61958 0.77255 0.56377 0.84179\n- 3 2.62016 4.68870 3.10208 2.44840 3.89665 3.47850 3.69603 2.89202 2.53331 2.72806 3.77320 2.20150 3.54052 2.74786 2.97499 2.56054 2.73997 2.72581 5.21865 3.91390 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02199 4.22385 4.94619 0.61958 0.77255 0.56377 0.84179\n- 4 2.62571 4.90440 2.82646 2.31570 4.16544 3.43391 3.26786 3.14892 2.41633 2.77264 3.96912 2.80144 2.77727 2.52597 2.88747 2.45567 2.85727 3.24929 5.39039 4.03684 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02199 4.22385 4.94619 0.61958 0.77255 0.56377 0.84179\n- 5 1.73507 4.48820 3.30858 2.63067 3.75126 3.48375 3.83807 2.81599 2.75041 2.78677 3.67147 3.21700 2.76886 3.08376 3.14695 2.75243 2.86576 2.54291 5.14981 3.88629 8 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02199 4.22385 4.94619 0.61958 0.77255 0.56377 0.84179\n- 6 2.81638 5.23000 2.70894 1.43167 4.55870 3.43180 3.69850 4.01613 2.41415 3.51744 4.31271 2.91242 3.89700 2.31179 2.65735 2.57476 3.05436 3.62184 5.66195 4.28278 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02199 4.22385 4.94619 0.61958 0.77255 0.56377 0.84179\n- 7 2.29636 4.97617 2.62716 2.30235 4.26122 3.00999 3.32043 3.70653 2.38176 2.93569 4.03'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 4.28449 5.00684 0.61958 0.77255 0.48576 0.95510\n- 208 2.66236 4.22294 3.84948 3.27334 2.88069 3.70764 3.94083 2.68111 3.16598 2.39435 2.89470 3.57152 4.07872 3.43989 2.69630 2.97871 2.67307 2.48296 2.21394 3.17266 238 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 4.28449 5.00684 0.61958 0.77255 0.48576 0.95510\n- 209 2.55526 4.30957 3.82428 3.24746 3.39056 3.76475 4.03730 2.12739 3.13504 1.96770 3.07839 3.59102 4.12930 3.43931 2.18485 3.03267 2.95183 2.25158 4.93056 3.72616 239 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 4.28449 5.00684 0.61958 0.77255 0.48576 0.95510\n- 210 3.15375 5.33601 3.50288 2.85700 4.81112 3.77293 3.72022 4.15983 1.67922 3.57819 4.42860 2.71869 4.13971 2.84676 1.16986 3.13303 3.32009 3.82104 5.60757 4.42599 240 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 4.28449 5.00684 0.61958 0.77255 0.48576 0.95510\n- 211 3.17866 5.69763 0.79849 2.28012 5.02539 3.36295 4.01975 4.64276 3.13388 4.14948 5.04556 2.47609 4.03827 3.21177 3.76567 3.05893 3.50708 4.18919 6.24145 4.70949 241 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 4.28449 5.00684 0.61958 0.77255 0.48576 0.95510\n- 212 2.82948 5.31967 2.41989 2.04088 4.62363 3.39729 3.05865 4.11014 2.58008 3.61151 4.39663 1.64175 3.89440 2.86899 3.09846 2.37959 3.07994 3.69520 5.76846 4.33574 242 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 4.28449 5.00684 0.61958 0.77255 0.48576 0.95510\n- 213 2.46304 5.09651 2.44522 2.38560 4.42795 2.09995 3.67515 3.88345 2.27110 3.40889 4.18684 2.92561 3.85912 2.79648 2.37996 2.68696 2.94853 3.48921 5.57767 4.19568 243 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10071 4.28449 2.50080 0.61958 0.77255 0.48576 0.95510\n- 214 2.24684 4.86166 2.82554 2.27791 4.11421 3.20767 3.64424 3.53771 2.35249 2.61103 3.93324 2.66523 3.83020 2.78681 2.90523 2.53319 2.71447 3.02566 5.35941 4.01430 244 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24986 4.20618 1.57898 0.61958 0.77255 0.58457 0.81496\n- 215 2.75887 5.22178 1.89297 2.03848 4.53154 2.50989 3.67039 4.01220 2.55945 3.53028 4.33428 2.74530 3.79892 2.58920 3.09274 2.35687 3.02133 3.60600 5.70525 4.26802 245 d - - -\n- 2.68614 4.42230 2.77524 2.73110 3.46359 2.40518 3.72476 3.29359 2.67746 2.69360 4.24695 2.90330 2.73744 3.18151 2.89788 2.37885 2.77524 2.98523 4.58482 3.61508\n- 0.32715 1.27647 * 0.38138 1.14860 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2676476075.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2676476075.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,659 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2676476075\n-LENG 212\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:39 2021\n-NSEQ 15\n-EFFN 1.365967\n-CKSUM 98678418\n-GA 10 10;\n-STATS LOCAL MSV -10.5906 0.70468\n-STATS LOCAL VITERBI -11.2884 0.70468\n-STATS LOCAL FORWARD -5.0744 0.70468\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53409 4.67167 2.83979 2.57622 3.42494 2.84201 3.49807 3.01172 2.72292 2.37284 3.68293 3.05781 3.20297 3.05513 2.80379 2.72806 2.86242 2.80266 4.11911 3.58530\n- 2.68599 4.41828 2.77519 2.73150 3.46417 2.40558 3.72354 3.29190 2.67776 2.69390 4.24404 2.90309 2.73817 3.18237 2.89827 2.37873 2.77487 2.98516 4.58454 3.61594\n- 0.58314 1.17072 2.02715 2.44760 0.09047 0.00000 *\n- 1 3.43296 4.78632 4.91643 4.37143 3.15185 4.61913 4.91391 2.33021 4.16115 1.16874 1.34036 4.63454 4.82368 4.32843 4.28533 3.98699 3.66072 2.47899 5.23546 4.13961 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02169 4.23752 4.95986 0.61958 0.77255 0.65880 0.72871\n- 2 2.62237 4.72416 2.55175 2.34079 3.45722 3.47525 3.68788 3.10474 2.51711 2.96973 3.80347 3.03423 3.86462 2.86205 2.63551 2.68621 2.48712 2.48130 5.24723 3.93437 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02169 4.23752 4.95986 0.61958 0.77255 0.65880 0.72871\n- 3 2.66610 4.88700 2.91223 2.48784 4.28641 3.39330 3.74223 3.71342 2.38006 3.29589 4.10513 2.18324 2.49746 2.89145 2.96170 2.69326 2.12640 3.34429 5.50758 4.16613 25 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08537 4.23752 2.69740 0.61958 0.77255 0.65880 0.72871\n- 4 2.51013 5.02264 2.59372 1.73365 4.32127 2.94969 3.65966 3.76716 2.46380 2.88249 4.11261 2.88925 3.82817 2.79169 2.95318 2.40458 2.91736 3.39354 5.51808 4.13735 26 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02310 4.17525 4.89760 0.61958 0.77255 0.60206 0.79337\n- 5 2.73355 5.19293 1.81745 2.18679 4.50442 2.93941 3.02888 3.97887 2.48433 3.48890 4.26265 2.86352 3.18179 2.79822 2.99197 2.69107 2.63002 3.56960 5.65100 4.23681 27 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02169 4.23752 4.95986 0.61958 0.77255 0.55084 0.85912\n- 6 1.68985 4.32295 3.64053 3.13509 3.82788 3.34778 4.08303 3.13927 3.09483 2.89497 3.77473 3.42454 3.06860 3.39243 3.43472 2.37052 2.49519 1.91091 5.25179 4.02671 28 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02058 4.28946 5.01181 0.61958 0.77255 0.59800 0.79831\n- 7 2.79344 5.27475 2.37573 1.45022 4.59679 3.40783 3.71364 4.07682 2.51543 3.57389 4.3501'..b'.68603 4.42232 2.77508 2.73107 3.46360 2.40499 3.72501 3.29337 2.67747 2.69361 4.24696 2.90353 2.73746 3.18153 2.89807 2.37893 2.77526 2.98525 4.58484 3.61510\n- 0.39463 1.13962 5.09405 0.14848 1.98065 0.48576 0.95510\n- 205 2.67961 5.00665 2.28866 2.08049 3.55002 2.97481 3.67658 3.72224 2.45702 3.28267 4.07022 2.96336 3.86612 2.80454 2.93763 2.67874 2.21600 3.35963 5.48419 3.64280 249 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01894 4.37171 5.09405 0.61958 0.77255 0.48576 0.95510\n- 206 2.80147 5.29600 1.80926 2.11140 4.62244 2.41377 3.73047 4.10657 2.53431 3.59872 4.36730 2.90243 3.89998 2.84920 2.43652 2.51747 3.04668 3.68189 5.74628 4.32187 250 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01894 4.37171 5.09405 0.61958 0.77255 0.48576 0.95510\n- 207 1.87632 5.04616 2.94325 2.21913 4.34433 3.46077 3.17804 3.79193 2.42832 3.33414 4.11282 2.50240 3.86508 2.79165 2.69217 2.51102 2.74280 3.41417 5.51878 4.14596 251 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01894 4.37171 5.09405 0.61958 0.77255 0.48576 0.95510\n- 208 2.76500 4.67861 3.62043 3.49705 4.90021 0.64280 4.69426 4.43758 3.72693 4.07021 4.92727 3.71549 2.46350 3.99872 4.01891 2.93055 3.26990 3.82527 6.08750 4.99070 252 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01894 4.37171 5.09405 0.61958 0.77255 0.48576 0.95510\n- 209 2.27223 4.72354 2.76193 2.62922 3.30296 1.92406 3.81031 3.48766 2.65755 3.12057 3.94934 3.11109 3.90307 2.98872 3.10538 2.40316 2.66898 3.15771 5.38725 4.07662 253 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10814 4.37171 2.40938 0.61958 0.77255 0.48576 0.95510\n- 210 2.21512 4.32300 3.06003 2.97792 2.65149 3.09221 3.87894 2.27017 2.93186 2.41912 3.43371 3.37089 3.99429 3.22832 3.27511 2.65627 2.85958 2.58819 4.91506 3.68397 254 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09740 4.28425 2.53799 0.61958 0.77255 0.60441 0.79053\n- 211 2.03446 4.35814 3.49699 3.00827 3.84874 3.33180 4.01158 3.13901 2.96518 2.21116 3.78469 3.33947 3.89680 3.28977 3.31949 1.66136 2.60744 2.83761 5.26191 4.02170 255 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02232 4.20917 4.93152 0.61958 0.77255 0.68925 0.69706\n- 212 2.57935 4.38956 3.41709 2.87674 3.60666 1.96784 3.85415 2.99417 2.81868 2.42627 3.57921 3.27931 3.93034 3.14938 3.18201 2.52512 2.53347 2.74096 3.91524 3.77321 256 g - - -\n- 2.68620 4.42227 2.77522 2.73125 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24692 2.90349 2.73742 3.18149 2.89781 2.37876 2.77522 2.98521 4.58479 3.61505\n- 0.15589 1.93551 * 0.29013 1.37899 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2677172838.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2677172838.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,704 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2677172838\n-LENG 227\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:39 2021\n-NSEQ 20\n-EFFN 1.831055\n-CKSUM 2794363698\n-GA 10 10;\n-STATS LOCAL MSV -10.6322 0.70391\n-STATS LOCAL VITERBI -11.1671 0.70391\n-STATS LOCAL FORWARD -5.2562 0.70391\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62052 4.47755 2.93584 2.57078 3.17352 3.18948 3.66570 2.86959 2.53505 2.47163 3.66146 2.90031 3.39026 2.91228 2.95058 2.66224 2.85050 2.76677 4.81064 3.28147\n- 2.68597 4.42232 2.77526 2.73130 3.46361 2.40520 3.72501 3.29310 2.67748 2.69362 4.24469 2.90354 2.73746 3.18153 2.89808 2.37894 2.77526 2.98525 4.58484 3.61510\n- 0.56854 2.01963 1.20082 0.72637 0.66099 0.00000 *\n- 1 2.73691 4.32412 3.94958 3.40974 3.39439 3.75227 4.17469 2.50663 3.29720 2.21400 1.78817 3.70465 2.89308 3.58884 3.55974 3.06722 3.00504 1.95666 5.01189 3.81481 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02224 4.21258 4.93493 0.61958 0.77255 0.77685 0.61591\n- 2 2.65119 5.04053 2.61513 2.19829 4.34051 3.43027 3.63156 3.79369 1.95323 3.32628 3.35316 2.91906 3.82955 2.74730 2.86729 2.32907 2.47417 3.40705 5.50257 4.12213 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28224 5.00459 0.61958 0.77255 0.85498 0.55389\n- 3 2.65787 4.96374 2.61289 2.41636 4.23913 3.44143 3.65870 2.72023 2.14657 3.24141 4.03395 2.31415 3.84679 2.79007 2.91051 2.41937 2.71517 3.31649 5.44945 4.08800 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28224 5.00459 0.61958 0.77255 0.85498 0.55389\n- 4 2.72071 5.12394 2.09730 2.14271 4.41810 3.41525 3.68307 2.90850 2.48481 3.41080 4.19283 2.29845 3.85833 2.80844 2.98287 2.31823 2.96120 3.48809 5.59189 4.19620 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28224 5.00459 0.61958 0.77255 0.69623 0.69007\n- 5 2.69695 5.16246 2.15014 2.17733 4.48324 3.43609 3.65552 3.95658 2.22318 3.45708 3.31196 2.36819 2.98693 2.76382 2.90855 2.66317 2.93132 3.54064 5.60749 4.20369 8 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01924 4.35637 5.07871 0.61958 0.77255 0.77900 0.61409\n- 6 2.68126 4.99743 2.60628 2.43060 4.28782 2.74849 3.68913 3.72980 2.47689 3.29223 4.08211 2.37666 3.86758 2.81993 2.95768 2.42891 2.29982 3.36522 5.49572 3.08367 9 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01924 4.35637 5.07871 0.61958 0.77255 0.60430 0.79067\n- 7 3.48607 4.77455 5.30124 4.71431 1.49520 4.75177 4.99202 2.07903 4.56379 1.18330 2.39'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.46398 5.18632 0.61958 0.77255 0.64486 0.74389\n- 220 4.39191 5.41266 5.27999 5.14248 1.02484 4.95598 3.71165 3.98160 4.94164 3.18210 4.52859 4.53999 5.22701 4.68438 4.80710 4.35977 4.59663 3.93403 3.79762 0.90265 234 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.46398 5.18632 0.61958 0.77255 0.64486 0.74389\n- 221 1.94714 4.31745 3.74440 3.17307 3.43862 3.71325 3.98686 2.23937 3.10244 2.10622 2.94846 3.52682 4.09043 2.74830 3.40755 2.63675 2.92497 2.56095 4.91686 3.70058 235 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.46398 5.18632 0.61958 0.77255 0.64486 0.74389\n- 222 2.79784 5.26447 2.93436 1.68044 4.61449 2.84744 3.70403 4.08073 2.01658 3.55560 4.31615 2.64309 3.92653 2.81115 2.26058 2.75812 3.02575 3.66045 5.67825 4.29522 236 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.46398 5.18632 0.61958 0.77255 0.64486 0.74389\n- 223 2.69765 4.97864 3.03474 1.97846 3.18946 2.95414 3.70443 3.67307 2.47803 2.76009 4.04381 2.43329 3.89812 2.83847 2.42922 2.70944 2.92894 3.32526 5.46164 4.10785 237 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.46398 5.18632 0.61958 0.77255 0.64486 0.74389\n- 224 2.70567 5.18640 2.57985 2.06622 4.51771 3.46769 3.14996 3.99484 1.86538 3.48506 4.23218 2.56239 3.86877 2.76888 2.89926 2.67176 2.64972 3.03915 5.62576 4.22157 238 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01726 4.46398 5.18632 0.61958 0.77255 0.64486 0.74389\n- 225 2.69918 5.00427 3.01465 2.23975 4.29942 2.39722 3.71127 3.73581 2.11984 3.29992 4.08907 3.00947 3.89635 2.84052 2.95132 2.26820 2.51677 2.82190 5.50379 4.14388 239 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22106 4.46398 1.67763 0.61958 0.77255 0.64486 0.74389\n- 226 2.93208 5.50395 2.10506 1.87280 4.80571 3.37166 3.79110 4.31515 2.69121 3.79104 4.58919 1.59943 3.92128 2.37658 3.24042 2.84006 3.19422 3.87814 5.93616 4.46255 240 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02112 4.26403 4.98638 0.61958 0.77255 0.87199 0.54149\n- 227 2.81889 5.35574 2.25751 1.84896 4.67396 2.59547 3.72048 4.16993 2.16412 3.64974 4.42309 2.10427 3.87895 2.84341 3.07813 2.75062 3.06824 3.73565 5.79142 4.34692 241 e - - -\n- 2.68641 4.42248 2.77542 2.73017 3.46377 2.40517 3.72517 3.29377 2.67716 2.69378 4.24713 2.90310 2.73762 3.18132 2.89824 2.37876 2.77542 2.98507 4.58500 3.61526\n- 0.32508 1.28184 * 1.35044 0.29993 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2734955840.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2734955840.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,725 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2734955840\n-LENG 234\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:39 2021\n-NSEQ 10\n-EFFN 1.274414\n-CKSUM 3490500681\n-GA 10 10;\n-STATS LOCAL MSV -10.7642 0.70355\n-STATS LOCAL VITERBI -11.3257 0.70355\n-STATS LOCAL FORWARD -5.3910 0.70355\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47091 4.54791 2.81427 2.64748 3.51583 2.73110 3.69819 3.01537 2.81157 2.48120 3.72589 3.03138 3.13680 3.06421 2.82038 2.61749 2.82732 2.64430 4.23327 3.81885\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.00000 *\n- 1 3.40411 4.89152 4.58609 4.23954 3.50615 4.20514 4.86907 2.73309 3.97814 2.05062 0.70989 4.45308 4.68843 4.33953 4.12435 3.78932 3.72932 2.78868 5.39204 4.18613 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 2 2.65425 4.84519 3.05538 2.28798 3.53136 2.94488 2.92780 3.49778 2.47861 2.60378 3.91749 3.01689 3.87406 2.83802 2.37013 2.43384 2.88511 3.17725 5.34616 4.01419 2 e - - -\n- 2.68531 4.41938 2.77603 2.73094 3.46331 2.40531 3.72512 3.29357 2.67882 2.69275 4.24530 2.90488 2.73755 3.18144 2.89794 2.37867 2.77565 2.98380 4.58325 3.61564\n- 0.86755 1.12096 1.37021 2.87704 0.05795 0.48576 0.95510\n- 3 2.03344 4.24007 3.48857 3.01858 3.81684 3.20857 4.00398 3.09816 2.98876 2.87381 3.75561 3.30621 3.06299 3.29604 3.33173 2.01154 2.75857 1.94961 5.23160 4.00163 40 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02637 4.04467 4.76701 0.61958 0.77255 0.79109 0.60395\n- 4 1.45415 4.17846 3.67768 3.25749 3.88146 3.16559 4.18316 2.96094 3.21022 2.89748 3.82447 3.43679 3.82996 3.50982 3.50603 2.25594 2.77239 1.97977 5.34021 4.12510 41 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02637 4.04467 4.76701 0.61958 0.77255 0.57995 0.82081\n- 5 2.72791 5.05978 2.95917 1.82892 4.37726 3.46627 3.63109 3.80587 2.27411 3.32935 4.12575 2.96125 3.86852 2.42628 2.11054 2.71538 2.95088 3.03772 5.48930 4.15141 42 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02323 4.16983 4.89218 0.61958 0.77255 0.67839 0.70812\n- 6 2.37212 4.91051 2.57967 1.72666 4.17043 3.41499 3.69358 2.70782 2.52008 3.17463 4.00349 2.94004 3.85536 2.84645 2.99496 2.69769 2.92284 3.20061 5.43334 4.08019 43 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02323 4.16983 4.89218 0.61958 0.77255 0.38178 1.14773\n- 7 2.11281 4.36095 3.59381 3.05576 3.52298 3.60935 3.35650 2.85716 2.96802 1.66813 3.49'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 227 2.68940 4.92748 3.05463 2.51466 4.24235 2.15905 3.70100 3.66497 2.42708 3.23888 4.04372 3.02611 3.14722 2.52142 2.23879 2.71122 2.92950 2.94265 5.44741 4.11445 328 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09388 4.32922 2.57134 0.61958 0.77255 0.48576 0.95510\n- 228 2.46583 5.11924 2.63805 1.84886 4.43993 3.41590 3.62673 3.90747 2.37316 3.41193 4.17186 2.89252 3.82633 2.22501 2.54618 2.64020 2.90355 3.26791 5.56418 4.16862 329 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02128 4.25662 4.97896 0.61958 0.77255 0.42999 1.05130\n- 229 2.52177 5.04585 3.03598 2.51307 4.36818 1.93584 3.03017 3.79504 2.03879 3.33650 4.13692 3.02712 3.91744 2.82484 2.50452 2.75930 2.98741 3.43514 5.51017 4.17906 330 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17630 4.32922 1.90747 0.61958 0.77255 0.48576 0.95510\n- 230 2.65367 5.03557 2.66993 2.37983 4.34739 3.42430 3.60708 3.79555 2.12186 3.31882 4.09342 2.91303 3.82092 2.50563 2.12746 2.37137 2.88212 3.06487 5.48333 4.11573 331 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02308 4.17601 4.89835 0.61958 0.77255 0.67209 0.71466\n- 231 2.60233 4.76454 2.49547 2.48110 4.04118 2.89574 3.67829 3.44412 2.49468 2.77370 3.88632 2.99090 2.85540 2.83777 2.95372 2.64943 2.49181 2.80522 5.32088 3.99287 332 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02308 4.17601 4.89835 0.61958 0.77255 0.67209 0.71466\n- 232 2.40908 4.51745 2.89347 2.67205 3.05564 3.50823 3.74511 3.05783 2.65262 2.27575 3.61041 3.14124 3.89781 2.62905 3.06536 2.73893 2.40029 2.80419 5.07414 3.80069 333 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02308 4.17601 4.89835 0.61958 0.77255 0.67209 0.71466\n- 233 2.49380 4.53100 3.20752 2.77157 4.22175 1.72567 3.91835 3.63531 2.73035 3.26535 4.08965 3.16525 3.83130 3.11094 2.65770 2.33730 2.19954 3.22305 5.50361 4.22589 334 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02308 4.17601 4.89835 0.61958 0.77255 0.67209 0.71466\n- 234 1.95223 4.82106 2.35520 2.45422 4.18750 2.93294 3.71919 3.60392 2.55003 3.20958 4.02209 2.64731 3.83341 2.87393 3.02133 2.65231 2.88802 2.68593 5.44450 4.09997 335 a - - -\n- 2.68444 4.42279 2.77557 2.73132 3.46361 2.40488 3.72549 3.29408 2.67795 2.69374 4.24744 2.90401 2.73771 3.18201 2.89662 2.37830 2.77550 2.98573 4.58531 3.61557\n- 0.35632 1.20480 * 2.15563 0.12311 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2753529055.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/RosmerTA__RmrT_2753529055.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,737 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME RosmerTA__RmrT_2753529055\n-LENG 238\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Sep 28 09:01:39 2021\n-NSEQ 34\n-EFFN 1.963135\n-CKSUM 191348359\n-GA 10 10;\n-STATS LOCAL MSV -10.5994 0.70342\n-STATS LOCAL VITERBI -11.1654 0.70342\n-STATS LOCAL FORWARD -5.2087 0.70342\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45509 4.64279 2.86863 2.57782 3.22173 2.88833 3.77771 2.90630 2.64580 2.43986 3.65031 3.11452 3.18951 3.04087 2.76684 2.70077 2.92626 2.69389 5.26330 3.69721\n- 2.68661 4.42163 2.77480 2.73096 3.46224 2.40550 3.72560 3.29173 2.67784 2.69376 4.24223 2.90413 2.73789 3.18175 2.89811 2.37909 2.77465 2.98556 4.58543 3.61512\n- 0.62405 1.20161 1.81083 1.97870 0.14879 0.00000 *\n- 1 2.58867 4.58771 2.87551 2.74333 3.76174 3.58065 3.81125 3.13067 2.71098 2.66499 2.36129 3.21199 3.96696 3.04635 2.38785 2.58661 2.90693 2.39064 5.14461 3.87310 26 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01803 4.42042 5.14277 0.61958 0.77255 0.38529 1.14023\n- 2 2.54438 5.09803 3.02807 2.03517 4.39151 3.03818 3.48839 3.84217 2.33017 3.38088 2.77239 3.00947 3.39397 2.82774 2.50929 2.48307 2.69562 3.30232 5.56293 4.18617 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 0.51549 0.90934\n- 3 2.39564 4.75181 2.50351 2.50079 3.00013 3.59419 2.86363 2.71265 2.66686 2.60090 3.83566 3.17648 3.98120 3.00591 2.84636 2.80820 2.71117 2.95291 5.28613 3.98908 28 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01540 4.57692 5.29926 0.61958 0.77255 0.51549 0.90934\n- 4 2.74684 5.11232 2.00309 1.89232 2.95500 3.52132 3.73362 3.84793 2.50696 3.39281 4.17139 3.01384 3.61014 2.85524 2.99160 2.49071 2.86070 3.47170 5.57985 3.57694 29 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05648 4.57692 3.10940 0.61958 0.77255 0.51549 0.90934\n- 5 3.34498 4.63648 5.25796 4.68155 1.90843 4.65150 5.00071 1.28151 4.52987 1.64057 3.01204 4.78302 4.88478 4.59462 4.56039 3.99789 3.57253 1.95470 5.31145 4.19676 30 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 4.53648 5.25882 0.61958 0.77255 0.58413 0.81551\n- 6 2.49434 5.23520 2.77047 2.01598 4.57563 2.68217 3.69273 4.05415 1.84292 3.53462 4.28030 2.96809 3.90048 2.69285 2.37830 2.70738 2.97561 3.62402 5.66618 4.26330 31 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01604 4.53648 5.25882 0.61958 0.77255 0.58413 0.81551\n- 7 2.10055 5.14627 2.89924 2.45945 4.46783 3.51071 3.70114 3.92624 2.04604 3.44123 4.204'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61174 5.33409 0.61958 0.77255 0.48576 0.95510\n- 231 2.56188 5.24889 1.97411 2.12183 4.57996 3.51357 3.72204 4.05922 2.36482 3.54854 3.66697 2.23316 3.92063 2.82534 2.96819 2.41856 2.83528 3.63249 5.68930 4.28130 280 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61174 5.33409 0.61958 0.77255 0.48576 0.95510\n- 232 2.34420 5.21676 2.28601 2.12637 4.54909 3.51186 3.70226 4.02618 2.17742 3.51645 4.26120 2.98421 3.90661 2.61717 2.65823 2.41588 2.80369 2.87726 5.65691 4.25361 281 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61174 5.33409 0.61958 0.77255 0.48576 0.95510\n- 233 2.51381 5.26789 2.36363 2.04185 4.60907 2.98873 3.14405 4.09523 2.10719 3.57139 4.31103 2.37550 3.91402 2.67073 2.95291 2.71699 2.75598 3.65672 5.70128 4.28778 282 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01487 4.61174 5.33409 0.61958 0.77255 0.48576 0.95510\n- 234 2.83651 5.32152 1.72243 1.73021 4.64333 3.52331 3.78044 4.12170 2.32570 3.61797 4.37856 2.99319 3.96325 2.89300 3.06602 2.64269 2.89352 2.96356 5.76647 4.35095 283 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05045 4.61174 3.23756 0.61958 0.77255 0.48576 0.95510\n- 235 2.67561 5.19120 3.00795 2.35587 4.52024 2.01371 3.71809 3.98223 2.07947 3.48741 4.24810 2.76202 3.92642 2.82666 2.40436 2.59310 2.64185 3.57576 5.63789 4.25370 284 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10586 4.57670 2.40612 0.61958 0.77255 0.54954 0.86089\n- 236 2.57585 5.19319 2.17014 2.40279 4.53003 3.03249 3.69169 4.00633 2.25469 3.50233 4.25373 2.63659 2.81275 2.79762 2.94246 2.31197 2.62679 3.58318 5.64840 4.24344 285 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48769 5.21003 0.61958 0.77255 0.68718 0.69915\n- 237 2.13168 4.99886 3.03289 2.15097 4.27989 3.21676 3.70616 3.71643 2.47986 3.28248 4.07113 2.82605 3.65991 2.83494 2.65665 2.51565 2.35277 2.83233 5.48945 4.12941 286 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23419 4.48769 1.62181 0.61958 0.77255 0.68718 0.69915\n- 238 2.66212 5.13589 2.67492 2.26705 4.46303 3.03651 3.38367 3.93832 2.02449 3.43275 4.18404 2.57582 3.82039 2.53238 2.86023 2.25701 2.64496 3.51741 5.57738 4.17378 287 k - - -\n- 2.68608 4.42243 2.77493 2.73107 3.46372 2.40498 3.72513 3.29372 2.67670 2.69373 4.24708 2.90365 2.73758 3.18164 2.89798 2.37905 2.77538 2.98514 4.58495 3.61521\n- 0.31283 1.31443 * 1.18736 0.36388 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_2TM_1TM_TIR__Rst_1TM_TIR.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_2TM_1TM_TIR__Rst_1TM_TIR.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,581 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_2TM_1TM_TIR__Rst_1TM_TIR\n-LENG 186\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 24 16:45:43 2021\n-NSEQ 100\n-EFFN 2.432251\n-CKSUM 2264456125\n-GA 20 20;\n-STATS LOCAL MSV -10.0359 0.70628\n-STATS LOCAL VITERBI -11.0317 0.70628\n-STATS LOCAL FORWARD -5.1432 0.70628\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56817 4.34133 3.11331 2.73169 3.16301 3.43228 3.66959 2.58632 2.71222 2.22697 3.42468 3.00219 3.51580 3.11847 2.85367 2.73956 2.91965 2.52340 4.91344 3.46734\n- 2.68626 4.42233 2.77527 2.73131 3.46362 2.40521 3.72502 3.29352 2.67741 2.69363 4.24462 2.90355 2.73738 3.18154 2.89809 2.37895 2.77477 2.98526 4.58485 3.61511\n- 0.54015 2.38652 1.12272 0.94894 0.48964 0.00000 *\n- 1 2.65530 4.47566 4.50623 3.93911 3.02271 4.17628 4.51822 2.38789 3.81669 1.84714 1.28956 4.17410 4.50164 4.01563 3.99599 3.49092 3.27679 2.21599 5.08792 3.92915 4 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01890 4.37377 5.09612 0.61958 0.77255 0.34191 1.23930\n- 2 3.12758 4.75017 5.32048 4.73937 3.46522 4.73845 5.09283 1.93625 4.58803 1.35535 1.34627 4.86097 4.96938 4.65471 4.62707 4.08146 3.67453 2.10869 5.41236 4.33073 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01349 4.70861 5.43096 0.61958 0.77255 0.44367 1.02633\n- 3 2.36373 5.13976 2.97849 2.13870 4.42663 3.58143 3.77627 3.61574 2.47682 3.41993 3.47103 3.07648 3.97357 2.32933 3.01936 2.48573 1.93179 3.30780 5.60928 4.23670 6 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01289 4.75375 5.47610 0.61958 0.77255 0.49879 0.93462\n- 4 2.62113 4.19986 4.56500 3.96215 3.13821 3.94030 4.26261 2.54494 3.78743 2.22620 2.74051 3.72032 4.30586 3.95421 3.86310 3.24288 2.23658 1.88098 3.47750 2.07735 7 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01289 4.75375 5.47610 0.61958 0.77255 0.49879 0.93462\n- 5 3.45097 4.74536 5.38248 4.80103 2.71381 4.74963 5.10756 1.91657 4.64255 0.90046 3.32361 4.89216 4.98671 4.70187 4.66326 4.09473 3.35301 1.80497 5.42033 4.32422 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01289 4.75375 5.47610 0.61958 0.77255 0.49879 0.93462\n- 6 2.86018 4.26840 4.59588 4.00160 1.67763 2.50756 4.33522 1.92454 3.83683 2.08475 3.35836 4.09588 4.37340 4.01004 3.92794 3.19754 3.09474 2.23669 4.89070 3.69704 9 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01289 4.75375 5.47610 0.61958 0.77255 0.49879 0.93462\n- 7 2.57888 4.21541 4.65298 4.04984 2.47867 3.97756 3.86093 2.14539 3.86277 2.19111 3.32484'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01373 4.69075 5.41310 0.61958 0.77255 0.51091 0.91616\n- 179 2.43763 5.27751 2.28252 1.77667 4.61857 3.32284 3.73681 4.10201 2.22404 3.51169 4.31949 3.01583 3.94217 2.59767 2.72749 2.49576 2.86976 3.66605 5.71229 3.79780 211 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72632 5.44866 0.61958 0.77255 0.55849 0.84880\n- 180 2.78040 5.27100 2.90144 2.21893 4.61081 3.35266 3.73907 4.09004 1.60218 3.57207 4.08243 3.02491 3.94765 2.47004 2.33523 2.58322 2.81223 3.65899 5.70498 3.75562 212 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72632 5.44866 0.61958 0.77255 0.55849 0.84880\n- 181 2.40321 4.26072 4.73384 4.13179 3.12603 4.05784 4.39433 2.12520 3.94817 1.48281 2.55985 4.18071 4.41128 4.09859 4.00048 3.05336 3.11323 1.77875 4.90918 3.73562 213 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72632 5.44866 0.61958 0.77255 0.55849 0.84880\n- 182 2.51911 4.27934 3.07811 3.57432 3.16083 3.86677 3.74615 2.27059 3.40011 2.15000 2.92513 3.81453 4.23750 3.40323 3.67489 2.76302 2.92856 1.70925 4.40451 3.41302 214 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01325 4.72632 5.44866 0.61958 0.77255 0.55849 0.84880\n- 183 1.97040 4.81196 3.14603 2.50382 3.87298 3.19457 3.86175 3.28005 2.59821 3.05159 3.59571 3.22509 2.84736 3.05422 3.15489 2.53837 3.00509 2.46197 5.34514 2.95683 215 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13467 4.72632 2.14445 0.61958 0.77255 0.55849 0.84880\n- 184 2.11991 4.30473 2.94047 2.07832 3.96280 3.43301 3.71243 3.57625 2.18823 3.41933 4.18429 2.89615 3.29370 2.74097 2.76786 2.30960 2.91082 3.42085 5.59109 4.20720 216 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09631 4.60138 2.50373 0.61958 0.77255 0.76144 0.62922\n- 185 2.62866 5.06448 2.89915 2.16298 4.35216 3.11483 3.49753 3.79954 2.45943 3.06076 4.12083 2.99679 3.02901 2.69314 2.85748 2.34232 2.41550 3.25609 5.53317 3.17823 217 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07490 4.52136 2.79213 0.61958 0.77255 0.86624 0.54564\n- 186 2.42436 3.75960 2.82285 2.30625 4.32425 3.32302 3.48065 3.45531 2.30713 3.31842 4.09604 2.52521 3.87796 2.55640 2.82305 2.43744 2.77207 2.96775 5.50938 3.81998 218 e - - -\n- 2.68501 4.42205 2.77526 2.73143 3.46292 2.40552 3.72446 3.29406 2.67786 2.69331 4.24602 2.90360 2.73781 3.18193 2.89802 2.37918 2.77495 2.98524 4.58529 3.61360\n- 0.65867 0.72886 * 1.44874 0.26771 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_2TM_1TM_TIR__Rst_2TM_TIR.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_2TM_1TM_TIR__Rst_2TM_TIR.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,395 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_2TM_1TM_TIR__Rst_2TM_TIR\n-LENG 124\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 24 16:45:37 2021\n-NSEQ 91\n-EFFN 2.057831\n-CKSUM 2907438726\n-GA 20 20;\n-STATS LOCAL MSV -9.7519 0.71282\n-STATS LOCAL VITERBI -10.4005 0.71282\n-STATS LOCAL FORWARD -4.1721 0.71282\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48116 4.50625 3.18030 2.79921 3.35511 3.00107 3.75795 2.68097 2.62831 2.35381 3.37475 3.21352 3.68936 2.95698 2.76737 2.66879 2.85375 2.56601 4.04274 3.74554\n- 2.68648 4.42229 2.77543 2.73146 3.46296 2.40537 3.72515 3.29296 2.67748 2.69350 4.24419 2.90332 2.73753 3.18138 2.89819 2.37894 2.77522 2.98509 4.58397 3.61486\n- 0.62168 1.82385 1.19880 1.88898 0.16396 0.00000 *\n- 1 2.35789 4.37386 3.48150 2.92628 3.37693 3.57374 3.86961 2.90536 2.87030 2.61556 1.89772 3.17235 3.54058 3.18765 3.06401 2.58426 2.86679 2.67180 4.98013 3.74234 47 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02051 4.29278 5.01513 0.61958 0.77255 0.94761 0.49048\n- 2 2.34162 4.45865 3.39455 2.89753 3.65256 1.52339 3.96907 3.14033 2.88739 3.03728 3.88966 3.27404 3.37265 3.20725 3.27992 2.42032 2.75543 3.01684 5.34187 4.08202 48 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02051 4.29278 5.01513 0.61958 0.77255 0.94761 0.49048\n- 3 2.88983 5.23315 2.98152 2.52693 4.58683 3.54839 3.24055 4.02735 1.31290 3.50918 4.31429 2.38355 3.97061 2.79537 2.60553 2.71543 3.10772 3.64934 5.61601 4.29520 49 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10840 4.29278 2.41842 0.61958 0.77255 0.83470 0.56917\n- 4 2.49516 4.95419 2.83447 2.40644 4.23001 3.19874 3.31135 3.66882 2.28737 3.22988 3.20323 2.93918 3.18423 2.54648 2.88134 2.14864 2.82916 3.30752 5.43252 4.06908 50 s - - -\n- 2.68623 4.42238 2.77532 2.73136 3.46367 2.40488 3.72507 3.29367 2.67696 2.69368 4.24675 2.90351 2.73752 3.18141 2.89797 2.37877 2.77525 2.98531 4.58490 3.61516\n- 0.49113 1.07370 3.07206 0.67322 0.71348 0.49113 0.94658\n- 5 2.70873 5.02692 3.03993 2.48262 4.30831 2.78713 3.69934 3.74518 1.99522 3.30225 2.58041 2.83354 3.69631 2.73960 2.58050 2.42907 2.85558 3.38375 5.49963 4.14126 58 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01698 4.48030 5.20264 0.61958 0.77255 0.52470 0.89583\n- 6 2.14015 5.05913 3.04717 2.49115 4.34298 2.56105 3.71996 3.78501 2.11650 3.33864 3.27917 2.83760 3.91663 2.72716 2.73815 2.51100 2.61807 3.41725 5.53396 4.16753 59 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01553 4.56826 5.29061 0.61958 0.77255 0.50486 0.92531\n- 7 2.59473 5.19964 3.01072 2.45453 4.52686 2.38998 3.70680 3.99659 1.92785 3.49506 3.94235 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64247 5.36482 0.61958 0.77255 0.49079 0.94712\n- 117 2.53041 5.03481 3.09394 2.53649 4.30025 3.10103 3.61897 3.37276 2.52936 3.24682 3.96482 2.87395 3.49022 1.95850 2.37028 2.75504 2.75988 2.74620 5.51854 4.16272 192 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01442 4.64247 5.36482 0.61958 0.77255 0.49079 0.94712\n- 118 2.54783 5.22845 3.00353 2.24304 4.56279 3.14533 3.37554 4.04029 1.89287 3.52856 4.27235 2.88437 2.59742 2.65452 2.70932 2.54531 2.71669 3.43913 5.66709 4.26407 193 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06709 4.64247 2.89582 0.61958 0.77255 0.49079 0.94712\n- 119 3.11830 4.48483 4.86028 4.27445 2.70482 4.31506 4.62196 2.23625 4.11761 0.91544 3.23364 3.89676 4.61817 4.24986 4.19840 3.63383 3.34766 2.10131 5.07074 3.90086 194 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01519 4.59057 5.31292 0.61958 0.77255 0.58541 0.81391\n- 120 2.59322 5.13721 2.97686 2.40480 4.44259 1.94993 3.71155 3.67437 2.23130 3.18402 4.18975 2.93057 3.42214 2.66286 2.67169 2.46278 2.96311 3.50660 5.59425 4.21092 195 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01519 4.59057 5.31292 0.61958 0.77255 0.58541 0.81391\n- 121 2.73149 5.03772 3.04706 2.41773 4.32247 3.35670 3.22076 3.75603 2.54659 3.20444 4.12373 2.90194 3.94903 2.86128 3.01551 1.66485 2.09451 3.40169 5.54005 4.18418 196 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01519 4.59057 5.31292 0.61958 0.77255 0.58541 0.81391\n- 122 2.63076 4.69720 3.45161 3.22833 4.76134 3.36705 4.45142 4.23145 3.35418 3.86182 4.68594 3.52628 3.42589 3.37001 3.70405 0.66613 3.15667 3.67899 6.05536 4.79071 197 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01519 4.59057 5.31292 0.61958 0.77255 0.58541 0.81391\n- 123 2.77088 5.26923 1.69644 2.22542 4.60495 3.50984 3.72144 4.08704 2.39530 3.32148 4.31533 2.79834 3.92105 2.54887 2.51693 2.46357 2.96015 3.65543 5.70383 4.29348 198 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07431 4.59057 2.78919 0.61958 0.77255 0.58541 0.81391\n- 124 2.55997 5.12146 3.00265 2.44574 3.79761 3.50092 3.46309 3.78808 1.93572 3.40931 4.17297 2.21709 3.89314 2.66048 2.54523 2.45521 2.76590 3.33200 5.57673 4.19280 199 k - - -\n- 2.68642 4.42249 2.77537 2.73124 3.46378 2.40487 3.72512 3.29378 2.67734 2.69363 4.24714 2.90344 2.73748 3.18128 2.89735 2.37891 2.77516 2.98543 4.58501 3.61467\n- 0.41174 1.08619 * 1.01435 0.45042 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_2TM_1TM_TIR__Rst_TIR_tm.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_2TM_1TM_TIR__Rst_TIR_tm.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,902 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_2TM_1TM_TIR__Rst_TIR_tm\n-LENG 293\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 24 16:45:50 2021\n-NSEQ 97\n-EFFN 0.973907\n-CKSUM 3223023484\n-GA 20 20;\n-STATS LOCAL MSV -11.2275 0.70149\n-STATS LOCAL VITERBI -12.0092 0.70149\n-STATS LOCAL FORWARD -4.9638 0.70149\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60512 4.48931 2.89327 2.54571 3.36536 3.12849 3.80343 2.77878 2.58565 2.40845 3.63653 3.04692 3.33229 3.01996 2.96177 2.55283 2.88692 2.69370 4.14059 3.65818\n- 2.68632 4.42234 2.77532 2.73135 3.46297 2.40520 3.72513 3.29302 2.67720 2.69352 4.24625 2.90347 2.73755 3.18147 2.89812 2.37892 2.77526 2.98525 4.58480 3.61482\n- 0.08733 2.57598 4.88693 2.07915 0.13357 0.00000 *\n- 1 3.19046 4.66793 4.50978 4.02296 3.22371 4.23220 4.66164 2.35269 3.76332 1.67385 1.15684 4.27492 4.59620 4.07966 3.94352 3.62459 3.46741 2.36288 5.19005 3.98565 66 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17555 4.89790 0.61958 0.77255 0.48576 0.95510\n- 2 3.02014 5.22057 3.13199 2.68278 4.64983 3.60403 3.71601 4.05821 1.07082 3.52681 4.37899 2.69446 4.03989 2.85605 2.32594 3.00485 3.23003 3.70731 5.58630 4.34398 67 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17555 4.89790 0.61958 0.77255 0.48576 0.95510\n- 3 3.20192 4.48911 4.98388 4.48700 3.68003 4.60474 5.19254 1.50650 4.37624 2.12835 3.47604 4.69464 4.89621 4.63869 4.56705 3.99749 3.46538 0.90718 5.66989 4.45965 68 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17555 4.89790 0.61958 0.77255 0.48576 0.95510\n- 4 3.67202 4.98757 4.65761 4.43919 0.62132 4.27014 4.05066 3.17007 4.34159 2.47401 3.86064 4.37559 4.72898 4.42778 4.38569 3.91928 3.97689 3.18148 4.22765 2.56400 69 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17555 4.89790 0.61958 0.77255 0.48576 0.95510\n- 5 3.33920 4.62608 5.03066 4.51447 3.35295 4.67967 5.09230 1.11223 4.35268 1.36386 3.16351 4.74036 4.89889 4.53804 4.48629 4.06808 3.58167 1.92582 5.42079 4.27310 70 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17555 4.89790 0.61958 0.77255 0.48576 0.95510\n- 6 2.49283 4.41139 3.50259 3.34425 4.39682 3.13726 4.43938 3.96665 3.43939 3.66685 4.57395 3.51080 3.90338 3.76595 3.70754 0.71137 2.99770 3.43284 5.74637 4.48549 71 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17555 4.89790 0.61958 0.77255 0.48576 0.95510\n- 7 3.88952 5.14652 4.58629 4.37505 3.04506 4.09737 4.32649 3.93929 4.09829 3.27675 4.55678 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03807 4.05176 3.91370 0.61958 0.77255 0.60841 0.78574\n- 286 2.76602 4.22304 4.18826 3.60837 3.17965 3.89758 4.20506 1.86442 3.48346 1.64892 2.51384 3.85480 3.95833 3.71076 3.49437 3.19218 2.99747 2.07438 4.85678 3.69095 430 l - - -\n- 2.68620 4.42227 2.77519 2.73125 3.46349 2.40513 3.72496 3.29344 2.67743 2.69354 4.24692 2.90349 2.73741 3.18148 2.89790 2.37886 2.77521 2.98520 4.58479 3.61505\n- 0.15838 2.30363 3.06658 0.54140 0.87212 0.59060 0.80742\n- 287 2.51981 4.50431 3.17006 2.52199 3.50743 3.46434 3.68686 3.06202 2.57076 2.63119 3.10641 2.95689 3.55389 2.91252 2.46399 2.61599 2.79699 2.77389 5.05144 3.29991 434 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09168 4.01860 2.66460 0.61958 0.77255 0.63944 0.74990\n- 288 2.45775 4.58690 3.08323 2.52302 3.78879 3.42774 3.50370 3.10721 2.43155 2.80270 3.22942 2.98042 3.70153 2.74270 2.70758 2.34011 2.61353 2.87758 5.12104 3.82797 435 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02885 3.95577 4.67811 0.61958 0.77255 0.69316 0.69313\n- 289 2.66680 4.95138 2.85803 2.27259 4.08298 3.42104 3.57389 3.67239 1.98474 3.21318 4.01765 2.92335 3.81621 2.70457 2.00017 2.66576 2.88713 3.32121 5.38391 3.89078 436 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05147 3.95577 3.47306 0.61958 0.77255 0.69316 0.69313\n- 290 2.60998 5.01916 2.59952 2.06834 4.32630 3.33952 3.56062 3.68440 2.15979 3.30343 4.07774 2.60769 3.60798 2.64745 2.55735 2.45591 2.84335 3.39084 5.46889 4.08462 437 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04664 3.93380 3.64965 0.61958 0.77255 0.71053 0.67606\n- 291 2.79448 4.25691 4.15908 3.58262 2.96137 3.92433 4.21463 2.00005 3.47369 1.46231 2.78966 3.85511 4.24375 3.69385 3.57368 3.21700 2.91401 2.14205 4.85599 3.59259 438 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05947 3.91717 3.27454 0.61958 0.77255 0.72324 0.66393\n- 292 2.45676 4.51326 3.02239 2.48384 3.70576 3.41669 3.57572 2.76841 2.52211 2.65768 3.53112 2.90762 3.08167 2.86350 2.94484 2.54180 2.75122 2.78883 5.06416 3.77959 439 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04039 3.88859 3.95755 0.61958 0.77255 0.62721 0.76374\n- 293 2.57558 4.88300 2.58220 2.26513 4.07109 3.27656 3.03639 3.58881 2.35128 3.15488 3.94694 2.72181 3.76486 2.70472 2.71187 2.43171 2.80811 3.17704 5.36066 3.42986 440 e - - -\n- 2.68643 4.42271 2.77502 2.73065 3.46307 2.40540 3.72530 3.29311 2.67765 2.69313 4.24500 2.90355 2.73782 3.18157 2.89784 2.37905 2.77542 2.98524 4.58515 3.61489\n- 0.54189 0.87143 * 1.90540 0.16106 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_3HP__Hp1.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_3HP__Hp1.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1022 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_3HP__Hp1\n-LENG 333\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:46 2021\n-NSEQ 66\n-EFFN 0.414917\n-CKSUM 266060925\n-GA 67 67;\n-STATS LOCAL MSV -11.2321 0.70041\n-STATS LOCAL VITERBI -12.1647 0.70041\n-STATS LOCAL FORWARD -5.3056 0.70041\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62730 4.23254 2.81727 2.69246 3.18831 2.97195 3.60614 2.72330 2.67005 2.39460 3.71057 3.06241 3.34559 3.24662 3.05125 2.69425 2.90154 2.64376 4.48601 3.15970\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08403 3.80596 2.84122 0.61958 0.77255 0.00000 *\n- 1 2.88340 4.45230 3.92691 3.51515 3.16578 3.74745 4.27720 2.33026 3.28809 1.78151 1.61906 3.80581 4.21063 3.67969 3.50627 3.21882 3.18814 2.32197 4.98905 3.73843 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04148 3.75723 4.05779 0.61958 0.77255 0.52559 0.89454\n- 2 2.34517 4.24372 3.16106 2.87694 3.84987 1.61463 3.95306 3.22084 2.85635 2.96156 3.49672 3.17304 3.70252 3.24344 3.16140 2.51239 2.76575 2.87847 5.25152 3.97112 2 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03552 3.75127 4.47361 0.61958 0.77255 0.53023 0.88787\n- 3 2.24645 4.18273 2.98527 2.84105 4.13581 1.44788 4.04073 3.62269 3.01063 3.33380 4.22125 3.10806 3.61431 3.33288 3.31675 2.27427 2.72491 3.12419 5.45683 4.20767 3 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03552 3.75127 4.47361 0.61958 0.77255 0.53023 0.88787\n- 4 2.75663 4.86780 2.53892 1.50519 4.06769 3.26185 3.71108 3.42007 2.51380 2.91562 4.07909 2.87474 3.81390 2.91475 2.89747 2.77541 3.03959 3.15180 5.37954 4.02899 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04647 3.75127 3.82037 0.61958 0.77255 0.53023 0.88787\n- 5 2.46010 4.27895 3.38361 2.96611 3.51643 3.23527 3.89141 2.88934 2.78459 2.60275 3.64396 3.27370 3.81312 3.21827 3.07076 2.65355 1.68545 2.65318 4.53689 3.68963 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03590 3.74070 4.46304 0.61958 0.77255 0.53147 0.88610\n- 6 2.30630 4.26734 2.81111 2.71294 4.00965 2.94868 3.93317 3.49091 2.87754 3.21452 4.11226 3.04622 3.64928 3.20644 3.21844 1.42935 2.74807 3.05868 5.37383 4.05800 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03571 3.74598 4.46832 0.61958 0.77255 0.53431 0.88207\n- 7 1.21354 4.13738 3.33987 3.13077 3.93120 2.96406 4.16696 3.03872 3.14375 2.92521 3.97570 3.31061 3.6917'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03359 3.80596 4.52830 0.61958 0.77255 0.48576 0.95510\n- 326 2.89799 4.99107 2.46453 1.12404 4.32943 3.23321 3.81636 3.77015 2.68869 3.39878 4.37743 2.89992 3.83514 3.03451 3.08932 2.88825 3.20229 3.46152 5.51372 4.23778 329 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03359 3.80596 4.52830 0.61958 0.77255 0.48576 0.95510\n- 327 2.84689 5.00967 2.92153 2.50990 4.34525 3.43817 3.58016 3.76066 1.57138 3.26654 4.14341 2.97882 3.88070 2.18487 2.29886 2.84363 3.06092 3.44099 5.38546 4.12590 330 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03359 3.80596 4.52830 0.61958 0.77255 0.48576 0.95510\n- 328 2.97941 4.41871 4.23795 3.85251 3.33103 3.99199 4.59403 1.16445 3.67922 1.93259 3.27867 4.10724 4.43103 4.03534 3.88349 3.48216 3.28039 1.84886 5.20693 3.93837 331 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03359 3.80596 4.52830 0.61958 0.77255 0.48576 0.95510\n- 329 2.58652 4.36677 3.24649 3.13835 4.27852 0.83958 4.26127 3.86327 3.31038 3.52549 4.50192 3.41118 3.75575 3.64008 3.55232 2.75681 3.06266 3.40459 5.38981 4.37871 332 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03359 3.80596 4.52830 0.61958 0.77255 0.48576 0.95510\n- 330 2.91888 4.47883 3.97871 3.56844 3.18188 3.78444 4.31906 2.35097 3.33964 1.78786 1.51176 3.85375 4.24584 3.72665 3.55251 3.26044 3.22350 2.34902 5.01304 3.76818 333 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03804 3.80596 4.19368 0.61958 0.77255 0.48576 0.95510\n- 331 2.89459 4.98629 2.46328 1.13073 4.32417 3.23065 3.81366 3.76404 2.68546 3.39345 4.37249 2.89801 3.83243 3.03203 3.08550 2.88542 3.19892 3.45593 5.50930 4.23356 334 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03821 3.80166 4.18923 0.61958 0.77255 0.48942 0.94928\n- 332 2.82496 4.80471 2.85739 2.61312 3.96265 3.31842 3.77002 3.58378 2.43972 3.09344 4.12557 3.07137 3.87218 1.37422 2.72450 2.87690 3.12301 3.31881 5.24915 3.93851 335 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03389 3.79733 4.51968 0.61958 0.77255 0.49307 0.94353\n- 333 2.92391 4.76464 3.40723 2.93663 4.10020 3.42386 3.77560 3.63827 2.21562 3.16806 4.17204 3.30120 3.93176 3.00129 1.09993 3.01279 3.19610 3.36593 5.21485 4.04573 336 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02294 3.78638 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_3HP__Hp2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_3HP__Hp2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1100 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_3HP__Hp2\n-LENG 359\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:46 2021\n-NSEQ 61\n-EFFN 0.457947\n-CKSUM 3344994726\n-GA 26 26;\n-STATS LOCAL MSV -11.2917 0.69999\n-STATS LOCAL VITERBI -11.9709 0.69999\n-STATS LOCAL FORWARD -6.2731 0.69999\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53177 4.33521 2.85138 2.54978 3.35437 2.91046 3.80281 2.72209 2.59451 2.46390 3.78126 3.01927 3.48485 3.14291 2.94803 2.61159 2.86944 2.65192 4.96696 3.54772\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69352 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58468 3.61503\n- 0.06911 3.31534 3.49145 0.59815 0.79812 0.00000 *\n- 1 2.92898 4.48655 3.99315 3.58350 3.18680 3.79465 4.33093 2.35721 3.35412 1.79030 1.48325 3.86725 4.25574 3.73998 3.56547 3.27216 3.23367 2.35695 5.02004 3.77663 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07006 3.81958 3.08510 0.61958 0.77255 0.50330 0.92769\n- 2 1.14968 4.15233 3.37592 3.16601 3.96705 2.97861 4.19807 3.07972 3.18001 2.96499 4.00895 3.33699 3.70971 3.53004 3.43509 2.50458 2.77592 2.74973 5.40326 4.19414 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78388 4.50622 0.61958 0.77255 0.53271 0.88433\n- 3 2.89443 4.84951 3.06430 2.70574 4.21557 3.39075 3.71661 3.63986 1.16693 3.22572 4.19443 3.13324 3.89944 2.91500 2.42424 2.94371 3.15565 3.35351 5.30876 4.10962 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78388 4.50622 0.61958 0.77255 0.53271 0.88433\n- 4 2.89443 4.84951 3.06430 2.70574 4.21557 3.39075 3.71661 3.63986 1.16693 3.22572 4.19443 3.13324 3.89944 2.91500 2.42424 2.94371 3.15565 3.35351 5.30876 4.10962 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78388 4.50622 0.61958 0.77255 0.53271 0.88433\n- 5 3.05800 4.54802 4.04569 3.68783 3.10629 3.86693 4.37142 2.30885 3.45633 0.99286 3.16184 3.97154 4.31939 3.84603 3.64584 3.43125 3.35736 2.32264 4.95074 3.65277 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78388 4.50622 0.61958 0.77255 0.53271 0.88433\n- 6 3.12381 4.64870 3.70924 3.42429 2.30503 3.72828 3.58471 3.14579 3.28434 2.62206 3.83084 3.61762 4.20539 3.61174 3.48529 3.26855 3.41076 3.01250 3.94459 1.12709 8 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03436 3.78388 4.50622 0.61958 0.77255 0.51539 0.90948\n- 7 3.16458 4.58945 4.13397 3.83571 1.14465 3.86881 3.84845 2.69951 3.74501 2.08812 3.44223 3.93479 4.330'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03405 3.79284 4.51518 0.61958 0.77255 0.52551 0.89466\n- 352 2.88766 4.97646 2.46081 1.14457 4.31335 3.22541 3.80819 3.75146 2.67891 3.38250 4.36235 2.89418 3.82690 3.02702 3.07770 2.87968 3.19207 3.44443 5.50020 4.22491 357 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03405 3.79284 4.51518 0.61958 0.77255 0.50341 0.92752\n- 353 2.75832 4.32000 4.03617 3.69877 3.50528 3.65664 4.51194 2.05864 3.56551 2.20443 3.48159 3.89836 4.22171 3.93055 3.78385 3.15732 3.12208 1.10918 5.27848 4.00549 358 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03349 3.80901 4.53136 0.61958 0.77255 0.51221 0.91422\n- 354 2.54718 4.65955 2.56894 2.39740 4.20623 3.11344 3.76111 3.71220 2.57304 3.33575 4.19732 1.69235 3.57001 2.96559 2.99765 2.46240 2.90483 3.30462 5.48732 4.12395 359 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03987 3.80901 4.07955 0.61958 0.77255 0.51221 0.91422\n- 355 2.83652 5.08479 2.25265 1.27210 4.40538 3.19679 3.73578 3.84750 2.64199 3.46720 4.37908 2.76745 3.79706 2.92928 3.10040 2.79528 3.13142 3.50338 5.61010 4.24534 360 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03883 3.80284 4.14938 0.61958 0.77255 0.51733 0.90662\n- 356 2.75644 5.14382 1.64717 2.12603 4.28634 3.19302 2.92101 3.92324 2.57472 3.46178 4.30823 2.58129 3.76122 2.82080 3.08949 2.69674 3.03193 3.54250 5.55428 4.08616 361 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04427 3.79789 3.86846 0.61958 0.77255 0.52140 0.90064\n- 357 2.88375 4.97085 2.45947 1.15250 4.30718 3.22245 3.80513 3.74429 2.67524 3.37627 4.35660 2.89206 3.82378 3.02424 3.07329 2.87645 3.18821 3.43788 5.49501 4.21999 362 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03422 3.78783 4.51018 0.61958 0.77255 0.52954 0.88885\n- 358 2.81993 5.03168 2.68725 2.07238 4.37664 3.35907 3.60132 3.76141 1.58690 3.30974 4.17932 2.89006 3.84180 2.75750 2.46482 2.80248 3.05123 3.43214 5.45038 4.16254 363 k - - -\n- 2.68618 4.42225 2.77520 2.73124 3.46354 2.40513 3.72492 3.29354 2.67739 2.69354 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77519 2.98516 4.58471 3.61503\n- 0.03977 3.57570 4.51018 0.74561 0.64330 0.52954 0.88885\n- 359 2.15469 4.14517 3.03741 2.84353 4.20430 1.76615 4.03778 3.64961 3.00311 3.33679 4.17821 3.09474 3.59708 3.30136 3.33368 1.86644 2.65830 3.11619 5.53682 4.28443 372 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02316 3.77678 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_3HP__Hp3.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_3HP__Hp3.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,704 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_3HP__Hp3\n-LENG 227\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:47 2021\n-NSEQ 23\n-EFFN 0.401489\n-CKSUM 1269324621\n-GA 20 20;\n-STATS LOCAL MSV -10.4945 0.70396\n-STATS LOCAL VITERBI -11.5200 0.70396\n-STATS LOCAL FORWARD -5.0170 0.70396\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64852 4.41026 2.87880 2.70888 3.22001 2.93873 3.89239 2.65309 2.63309 2.36652 3.71791 3.03586 3.56032 3.25563 2.86673 2.62358 2.87143 2.53500 4.69325 3.46952\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.00000 *\n- 1 2.91094 4.47280 3.96725 3.55656 3.17811 3.77632 4.30970 2.34617 3.32819 1.78613 1.53481 3.84308 4.23802 3.71615 3.54226 3.25118 3.21553 2.34285 5.00759 3.76152 1 m - - -\n- 2.68613 4.42209 2.77518 2.73107 3.46345 2.40520 3.72493 3.29325 2.67736 2.69365 4.24702 2.90338 2.73752 3.18147 2.89810 2.37888 2.77524 2.98524 4.58490 3.61503\n- 0.06291 2.99462 4.51750 2.11414 0.12867 0.48576 0.95510\n- 2 2.85806 4.98030 2.84866 2.37066 4.34675 3.40274 3.61800 3.71291 1.38692 3.27537 4.17040 2.97796 3.87823 2.78127 2.36416 2.86213 3.08783 3.40153 5.40291 4.15428 74 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 3 2.90413 4.86075 3.07478 2.71338 4.22943 3.39980 3.72152 3.65431 1.14963 3.23739 4.20495 3.14057 3.90723 2.91885 2.42437 2.95235 3.16421 3.36714 5.31751 4.11983 75 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 4 2.74747 4.31358 4.01641 3.67917 3.49575 3.64160 4.49491 2.06149 3.54566 2.19779 3.47481 3.88079 4.20787 3.91197 3.76521 3.14188 3.11184 1.12882 5.26639 3.99225 76 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 5 2.90413 4.86075 3.07478 2.71338 4.22943 3.39980 3.72152 3.65431 1.14963 3.23739 4.20495 3.14057 3.90723 2.91885 2.42437 2.95235 3.16421 3.36714 5.31751 4.11983 77 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 6 3.21327 4.61446 3.97681 3.66517 2.59576 3.64666 3.81151 3.23529 3.38968 2.64272 3.87251 3.83025 4.15848 3.78153 3.53107 3.41757 3.51021 3.12351 1.05696 2.60224 78 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 7 3.07027 4.55663 4.06420 3.70581 3.10970 3.88191 4.38585 2.31213 3.47422 0.97684 3.16066 3.98851 4.3320'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 220 3.07027 4.55663 4.06420 3.70581 3.10970 3.88191 4.38585 2.31213 3.47422 0.97684 3.16066 3.98851 4.33202 3.86118 3.66211 3.44674 3.36888 2.32896 4.95882 3.66363 292 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 221 2.90413 4.86075 3.07478 2.71338 4.22943 3.39980 3.72152 3.65431 1.14963 3.23739 4.20495 3.14057 3.90723 2.91885 2.42437 2.95235 3.16421 3.36714 5.31751 4.11983 293 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 222 2.90413 4.86075 3.07478 2.71338 4.22943 3.39980 3.72152 3.65431 1.14963 3.23739 4.20495 3.14057 3.90723 2.91885 2.42437 2.95235 3.16421 3.36714 5.31751 4.11983 294 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 223 2.74747 4.31358 4.01641 3.67917 3.49575 3.64160 4.49491 2.06149 3.54566 2.19779 3.47481 3.88079 4.20787 3.91197 3.76521 3.14188 3.11184 1.12882 5.26639 3.99225 295 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 224 2.40164 4.22825 3.44838 3.09470 3.72930 3.18061 4.07596 2.62201 2.97261 2.63699 3.71976 3.34626 3.82339 3.37777 3.25480 2.61876 1.57979 2.48555 5.26562 3.99318 296 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 225 3.07140 4.52605 4.28889 3.80736 3.05915 4.13979 4.47875 1.99595 3.57506 1.10391 2.99512 4.10176 4.47194 3.90338 3.78042 3.52969 3.33300 2.11056 5.01715 3.75313 297 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 226 2.79081 4.90321 2.76906 2.46644 3.90058 3.36307 3.26529 3.65308 2.25916 3.16967 4.08673 2.94905 3.85617 1.71953 2.56282 2.80422 3.04078 3.34877 5.18962 3.79143 298 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03397 3.79516 4.51750 0.61958 0.77255 0.48576 0.95510\n- 227 2.28043 4.19869 3.14249 2.95669 4.00015 2.93016 4.06771 3.51321 3.02511 3.24023 4.17429 3.19262 3.66301 3.38101 3.31217 1.21401 2.75513 3.06539 5.37934 4.08373 299 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02299 3.78418 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_DUF4238__DUF4238_Pers.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_DUF4238__DUF4238_Pers.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,950 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_DUF4238__DUF4238_Pers\n-LENG 309\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:44 2021\n-NSEQ 27\n-EFFN 0.411987\n-CKSUM 2040722010\n-GA 100 100;\n-STATS LOCAL MSV -11.2402 0.70104\n-STATS LOCAL VITERBI -12.0340 0.70104\n-STATS LOCAL FORWARD -5.3653 0.70104\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58459 4.14821 2.89990 2.66501 3.14136 2.79874 3.70665 2.80730 2.68984 2.39326 3.65430 3.06868 3.45178 3.23305 2.97313 2.58958 2.90355 2.62329 4.64635 3.53293\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05829 3.80361 3.37160 0.61958 0.77255 0.00000 *\n- 1 2.89974 4.46439 3.95097 3.53976 3.17295 3.76472 4.29650 2.33955 3.31196 1.78398 1.56823 3.82798 4.22693 3.70133 3.52770 3.23807 3.20434 2.33425 4.99998 3.75214 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03450 3.77982 4.50217 0.61958 0.77255 0.50561 0.92417\n- 2 2.27417 4.19181 3.13029 2.94451 3.98506 2.92361 4.05560 3.49636 3.01182 3.22488 4.16083 3.18249 3.65534 3.36915 3.29886 1.24007 2.74785 3.05200 5.36568 4.06872 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03450 3.77982 4.50217 0.61958 0.77255 0.50561 0.92417\n- 3 2.73543 4.30657 3.99438 3.65745 3.48529 3.62477 4.47605 2.06510 3.52364 2.19065 3.46756 3.86128 4.19244 3.89141 3.74450 3.12470 3.10054 1.15115 5.25304 3.97757 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03450 3.77982 4.50217 0.61958 0.77255 0.50561 0.92417\n- 4 1.15634 4.15067 3.37204 3.16218 3.96321 2.97700 4.19468 3.07531 3.17607 2.96072 4.00534 3.33411 3.70774 3.52654 3.43130 2.50306 2.77412 2.74606 5.39985 4.19030 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03450 3.77982 4.50217 0.61958 0.77255 0.50561 0.92417\n- 5 2.90540 4.74577 3.38706 2.92136 4.07686 3.40763 3.76540 3.61440 2.21236 3.14748 4.15276 3.28686 3.91714 2.99270 1.13041 2.99561 3.17930 3.34303 5.19916 4.02702 5 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03450 3.77982 4.50217 0.61958 0.77255 0.50561 0.92417\n- 6 2.90185 4.73135 3.04308 2.79635 3.22562 3.37416 1.35421 3.58999 2.64226 3.09465 4.13250 3.20837 3.92304 3.16216 2.91222 2.97417 3.20319 3.32716 4.69153 3.17966 6 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03450 3.77982 4.50217 0.61958 0.77255 0.50561 0.92417\n- 7 2.90185 4.73135 3.04308 2.79635 3.22562 3.37416 1.35421 3.58999 2.64226 3.09465 4.13250 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 302 2.89108 4.45796 3.93826 3.52672 3.16910 3.75562 4.28628 2.33457 3.29934 1.78257 1.59486 3.81625 4.21831 3.68986 3.51637 3.22789 3.19574 2.32770 4.99416 3.74487 302 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 303 2.88073 4.83339 3.04950 2.69515 4.19573 3.37786 3.70992 3.61921 1.19200 3.20909 4.17955 3.12304 3.88843 2.90989 2.42450 2.93160 3.14365 3.33406 5.29628 4.09510 303 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 304 2.80427 4.78021 2.84096 2.59792 3.93364 3.30023 3.75395 3.55169 2.42710 3.06419 4.09885 3.05525 3.85464 1.43325 2.71180 2.85827 3.10316 3.28911 5.22639 3.91418 304 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 305 2.54449 4.32632 3.19636 3.08450 4.22125 0.91063 4.20804 3.79822 3.25102 3.46501 4.44265 3.36155 3.71409 3.58415 3.49549 2.71404 3.01775 3.34718 5.34094 4.32077 305 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 306 2.88073 4.83339 3.04950 2.69515 4.19573 3.37786 3.70992 3.61921 1.19200 3.20909 4.17955 3.12304 3.88843 2.90989 2.42450 2.93160 3.14365 3.33406 5.29628 4.09510 306 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 307 2.26944 4.18654 3.12090 2.93521 3.97327 2.91860 4.04632 3.48324 3.00163 3.21297 4.15047 3.17474 3.64948 3.36011 3.28860 1.26079 2.74234 3.04160 5.35504 4.05700 307 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 308 3.04064 4.53592 4.01931 3.66234 3.10162 3.84548 4.35096 2.30456 3.43095 1.01618 3.16393 3.94745 4.30136 3.82457 3.62271 3.40925 3.34112 2.31399 4.93932 3.63738 308 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03492 3.76788 4.49022 0.61958 0.77255 0.51525 0.90970\n- 309 2.72605 4.30118 3.97710 3.64050 3.47721 3.61153 4.46136 2.06824 3.50646 2.18525 3.46209 3.84603 4.18036 3.87542 3.72832 3.11126 3.09177 1.16899 5.24266 3.96611 309 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02364 3.75659 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_HelicaseDUF2290__DUF2290.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_HelicaseDUF2290__DUF2290.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,614 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME DUF2290\n-ACC PF10053.11\n-DESC Uncharacterized conserved protein (DUF2290)\n-LENG 195\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Feb 24 17:22:28 2021\n-NSEQ 5\n-EFFN 0.922852\n-CKSUM 3804573927\n-GA 25.00 25.00;\n-TC 41.50 34.20;\n-NC 23.90 24.60;\n-BM hmmbuild HMM.ann SEED.ann\n-SM hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq\n-STATS LOCAL MSV -10.7514 0.70567\n-STATS LOCAL VITERBI -11.3787 0.70567\n-STATS LOCAL FORWARD -5.0696 0.70567\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63333 4.16147 2.87083 2.66638 3.02554 3.12625 3.40989 2.72321 2.78351 2.43082 3.65153 3.06911 3.27071 3.06540 2.99507 2.68132 2.91156 2.73727 4.67474 3.18174\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.00000 *\n- 1 2.67497 4.20380 3.96945 3.40609 2.44167 3.73738 4.04347 2.48668 3.30814 1.89400 3.25247 3.67139 4.12057 3.55664 3.54383 2.27911 2.91933 2.01642 4.77045 3.51508 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 2 2.62548 2.92962 4.12629 3.56805 3.33001 3.69110 4.16164 2.36101 3.44604 1.94626 3.31023 3.75932 4.12448 3.68857 3.64419 2.55787 2.89791 1.65011 4.88157 3.68284 2 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 3 2.70142 5.08607 2.30785 2.31944 4.31877 3.38247 3.64985 3.82814 2.45364 3.36451 4.15635 2.31127 3.83057 2.19569 2.94155 2.67513 2.94155 3.44914 5.51930 2.89508 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 4 2.68245 5.03930 2.34208 1.98129 2.97414 3.38622 3.64799 3.75995 2.45364 3.31066 4.10669 2.87677 3.82617 2.21181 2.94230 2.66521 2.92130 3.39235 5.49923 4.11091 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 5 2.70832 4.48839 3.41491 2.89782 2.38665 3.61283 3.73531 3.03340 2.87188 2.69485 3.61148 2.39176 4.00926 3.17646 3.23924 2.38426 2.94751 2.80054 4.62664 2.45028 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 6 2.69643 4.69449 3.16965 2.65801 2.53826 3.51479 3.70999 3.30735 2.53463 2.93316 3.81432 2.12164 3.92769 2.95600 2.30670 2.78230 2.93605 3.03367 5.04231 3.64302 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 188 2.29109 4.92333 2.96977 2.47703 4.26020 3.43538 3.66599 3.66993 2.11429 3.23986 4.05320 2.98478 3.86226 1.94049 2.74713 2.70440 2.54364 3.32060 5.43893 4.11454 212 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 189 2.90058 5.45483 1.93391 1.91187 4.76289 2.33063 3.76641 4.27128 2.70494 3.75950 4.56920 1.87298 3.87774 2.91258 3.27208 2.80796 3.17178 3.83831 5.91665 4.43692 213 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 190 2.77181 4.25488 4.09614 3.53114 2.27836 3.84560 2.74201 1.99315 3.40965 1.86747 3.22717 3.75720 4.19642 3.63573 3.61261 3.13438 3.00186 2.42245 4.56227 3.18275 214 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 191 2.79468 4.28623 4.12178 3.54792 2.37490 3.88616 4.15464 2.47560 3.44110 1.59668 2.49428 3.81345 2.81216 3.66384 3.65442 3.17499 3.02556 2.40720 4.80864 3.59738 215 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 192 3.34441 5.09686 3.44026 3.23630 3.51509 3.71202 0.67543 4.09072 3.07365 3.54568 4.61717 3.63097 4.28379 3.60864 3.31831 3.41526 3.66080 3.82090 4.97409 3.46000 216 H - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 193 3.31801 4.63039 4.96438 4.40798 1.85442 4.54913 4.69052 1.94076 4.27095 1.11720 2.95189 4.57578 4.74627 4.32598 4.34417 3.89251 3.53721 2.35836 4.94573 3.68099 217 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 194 1.89543 4.45786 3.22289 2.77929 4.03319 2.35588 3.91180 3.39770 2.80776 3.08793 3.93328 2.36726 3.82765 3.13002 3.21194 2.60550 2.82524 2.39732 5.37756 4.10415 218 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02377 4.14693 4.86927 0.61958 0.77255 0.48576 0.95510\n- 195 3.00558 4.42685 4.41637 3.88960 2.87156 4.06374 4.14126 1.55567 3.66369 2.06864 3.28389 4.03805 4.41438 3.91666 3.81222 3.41201 3.24723 2.38700 1.99828 3.10751 219 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01606 4.13922 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_HelicaseDUF2290__DUF2290_Pers.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_HelicaseDUF2290__DUF2290_Pers.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,689 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME DUF2290_Pers\n-LENG 222\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:44 2021\n-NSEQ 100\n-EFFN 0.869751\n-CKSUM 595426242\n-GA 20 20;\n-STATS LOCAL MSV -10.6773 0.70414\n-STATS LOCAL VITERBI -11.5367 0.70414\n-STATS LOCAL FORWARD -5.3369 0.70414\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62341 4.27889 2.96391 2.68196 3.00673 3.25485 3.56564 2.67783 2.72937 2.40233 3.60991 3.02518 3.29869 3.04461 3.00335 2.69453 2.88371 2.65520 5.02095 3.15616\n- 2.68618 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67741 2.69355 4.24651 2.90348 2.73740 3.18144 2.89801 2.37888 2.77521 2.98515 4.58478 3.61502\n- 0.20747 2.98870 1.98771 0.69560 0.69070 0.00000 *\n- 1 2.69609 4.37036 3.62070 3.13461 3.37404 3.61350 3.97452 2.61799 2.85338 2.24586 1.70647 3.47654 4.05229 3.22087 3.15508 2.87626 2.96486 2.50998 4.95789 3.70479 13 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02831 3.97440 4.69674 0.61958 0.77255 0.48695 0.95322\n- 2 2.56914 4.17789 3.77219 3.19989 3.28302 3.65582 3.95164 2.25778 3.11446 1.92128 2.77495 3.52004 3.11427 3.38762 3.38975 2.84756 2.69659 2.28807 4.80360 3.59844 14 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02594 4.06089 4.78324 0.61958 0.77255 0.53224 0.88501\n- 3 2.57324 4.86587 2.76169 2.38235 4.14236 3.22861 3.61060 3.57238 2.32656 3.14974 3.81206 2.59406 3.79386 2.71372 2.77920 2.41610 2.22219 3.18645 5.36723 4.01512 15 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02578 4.06669 4.78903 0.61958 0.77255 0.53653 0.87893\n- 4 2.46833 4.29557 3.16894 2.58218 3.70662 3.46890 3.28736 3.06396 2.54180 2.60689 3.61787 3.08522 2.69796 2.91725 2.94829 2.50994 2.78210 2.67121 5.07465 3.62242 16 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02578 4.06669 4.78903 0.61958 0.77255 0.53653 0.87893\n- 5 2.56755 5.02351 2.70948 2.13663 4.33578 3.24112 3.57069 3.74022 2.14242 3.25515 4.07549 2.79957 3.77493 2.32303 2.62414 2.56553 2.73559 3.26785 5.47310 4.08805 17 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02578 4.06669 4.78903 0.61958 0.77255 0.53653 0.87893\n- 6 2.51805 5.00480 2.57515 2.11092 4.30452 3.32013 3.58072 3.47434 2.25531 3.29011 4.06041 2.48704 3.77618 2.53602 2.80939 2.53566 2.83787 3.14228 5.46441 4.07954 18 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02578 4.06669 4.78903 0.61958 0.77255 0.53653 0.87893\n- 7 3.01843 4.36623 4.64084 4.10005 3.51574 4.31997 4.77679 1.23543 3.99008 2.01479 3.26053 4.33645 4.6285'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02885 4.09611 4.43983 0.61958 0.77255 0.50191 0.92981\n- 215 2.71951 3.96865 4.10414 3.52510 3.25859 3.84182 4.15303 1.88447 3.40075 1.76310 3.13080 3.78205 4.19349 3.65298 2.97469 3.13216 2.95353 1.90022 4.86427 3.67712 233 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02503 4.09608 4.81843 0.61958 0.77255 0.50877 0.91938\n- 216 2.61868 4.13178 4.04580 3.46713 3.08172 3.68355 4.07104 2.07297 3.35912 1.71276 3.12988 3.71083 3.57681 3.59469 3.56816 3.00014 2.84001 1.98562 4.78164 3.58913 234 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 4.09608 4.44239 0.61958 0.77255 0.50877 0.91938\n- 217 3.12564 4.91341 3.44760 3.07400 2.62426 3.80049 1.30898 3.55967 2.88469 3.02431 4.07736 3.42746 4.22942 3.32615 3.17079 3.18102 3.36724 3.34453 4.23103 2.25283 235 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02512 4.09239 4.81473 0.61958 0.77255 0.51288 0.91322\n- 218 3.12838 4.43364 4.87736 4.32569 2.91018 4.45998 4.84835 1.38894 4.21467 1.62829 3.16017 4.51650 4.71032 4.36917 4.34493 3.80725 3.36513 1.50176 5.25732 4.10108 236 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02512 4.09239 4.81473 0.61958 0.77255 0.51288 0.91322\n- 219 2.25506 4.11909 3.09236 2.51518 3.74766 3.19318 3.52670 3.22871 2.51342 2.79357 3.71713 2.90417 3.83820 2.70472 2.69713 2.39302 2.79104 2.77253 5.16480 3.86492 237 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02512 4.09239 4.81473 0.61958 0.77255 0.51288 0.91322\n- 220 2.59989 3.80386 4.29174 3.71549 3.18803 3.89870 4.24679 1.63576 3.59569 2.06197 3.23891 3.90950 4.25123 3.81417 3.76693 3.20235 2.68392 1.73522 4.88428 3.55584 238 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 4.09239 4.27142 0.61958 0.77255 0.51288 0.91322\n- 221 2.53568 4.66956 3.06248 2.49591 3.76776 3.34590 3.60644 3.27884 2.27999 2.91526 3.75184 2.98055 2.72345 2.79115 2.82963 2.55518 2.81956 2.78127 5.19329 3.28342 239 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19461 4.08273 1.83268 0.61958 0.77255 0.50037 0.93218\n- 222 2.42168 4.75272 2.94213 2.31510 4.00032 3.32183 3.59370 3.31199 2.28087 2.96076 3.83422 2.75525 3.51238 2.71174 2.76394 2.33566 2.77521 2.98808 5.26110 3.93114 240 k - - -\n- 2.68608 4.42236 2.77524 2.73128 3.46353 2.40519 3.72496 3.29358 2.67737 2.69355 4.24701 2.90355 2.73734 3.18134 2.89785 2.37889 2.77524 2.98517 4.58488 3.61504\n- 0.29408 1.36734 * 1.05966 0.42553 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_HelicaseDUF2290__Helicase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_HelicaseDUF2290__Helicase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2144 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Helicase\n-LENG 707\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:45 2021\n-NSEQ 100\n-EFFN 0.759888\n-CKSUM 3873690037\n-GA 20 20;\n-STATS LOCAL MSV -12.3450 0.69660\n-STATS LOCAL VITERBI -13.1472 0.69660\n-STATS LOCAL FORWARD -6.7144 0.69660\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.55830 4.35407 2.87952 2.60007 3.29078 2.96587 3.75803 2.74605 2.62584 2.43621 3.69488 3.02437 3.54241 3.01659 2.92832 2.68635 2.86819 2.64849 4.63607 3.41320\n- 2.68616 4.42229 2.77524 2.73121 3.46358 2.40517 3.72498 3.29352 2.67741 2.69352 4.24639 2.90343 2.73744 3.18145 2.89801 2.37887 2.77520 2.98522 4.58481 3.61499\n- 0.09186 2.70089 3.88137 1.10173 0.40391 0.00000 *\n- 1 2.76966 4.40565 3.73085 3.18676 3.33991 3.71178 4.05757 2.57940 3.00690 2.09822 1.59160 3.57980 4.13331 3.35263 3.26131 2.98595 3.03256 2.47404 4.97582 3.72746 14 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02664 4.03440 4.75674 0.61958 0.77255 0.48292 0.95967\n- 2 3.09283 4.40908 4.76975 4.22925 3.45910 4.43813 4.88450 1.56044 4.12165 1.73697 3.16999 4.46253 4.70892 4.34389 4.30665 3.78899 3.27044 1.21262 5.38782 4.22349 15 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03890 4.04353 3.88150 0.61958 0.77255 0.48903 0.94990\n- 3 2.73048 5.14891 2.22069 2.17131 4.44328 3.31380 3.60183 3.90840 2.46405 3.43979 4.23940 1.98258 3.80960 2.74092 3.00795 2.68618 2.41474 3.51937 5.62140 4.21032 16 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02672 4.03135 4.75370 0.61958 0.77255 0.48093 0.96289\n- 4 3.03254 4.37577 4.70304 4.19625 3.60951 4.34038 4.91387 1.30118 4.08703 2.17121 3.42254 4.41445 4.68037 4.35931 4.29515 3.71401 3.06343 1.21936 5.50056 4.29835 17 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04353 4.76587 0.61958 0.77255 0.48903 0.94990\n- 5 3.12919 4.45275 4.81307 4.32946 3.54623 4.44992 5.03979 1.05579 4.20287 2.02924 3.35678 4.54591 4.77178 4.47052 4.39562 3.84836 3.40051 1.45857 5.53667 4.33255 18 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04353 4.76587 0.61958 0.77255 0.48903 0.94990\n- 6 2.61146 4.71189 3.08221 2.51086 3.92920 3.45241 3.39300 3.21505 2.39143 2.95607 3.66126 2.75494 3.83696 2.65710 2.14340 2.67151 2.63649 3.03740 4.21168 3.90719 19 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02640 4.04353 4.76587 0.61958 0.77255 0.48903 0.94990\n- 7 2.89129 4.64656 3.59984 3.52256 4.65567 0.50800 4.62947 4.29976 3.72692 3.93150 4.91083 3.76458 4.04301 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02674 4.03065 4.75300 0.61958 0.77255 0.50312 0.92796\n- 700 3.33787 4.69019 4.75459 4.23623 2.52347 4.49927 4.60928 2.23257 4.08665 0.85286 2.92636 4.46570 4.71495 4.21277 4.21913 3.85932 3.56668 2.38540 4.89020 3.56627 775 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02674 4.03065 4.75300 0.61958 0.77255 0.50312 0.92796\n- 701 2.73820 4.93688 3.15138 2.48806 4.24125 3.50883 3.59964 3.31737 1.70662 3.09591 3.81519 2.94419 3.88256 2.69732 2.03625 2.75481 2.94619 3.30796 5.35492 4.07434 776 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02674 4.03065 4.75300 0.61958 0.77255 0.50312 0.92796\n- 702 2.41914 5.03241 2.53744 2.16345 4.33846 3.29134 3.58075 3.79888 2.09373 3.32085 4.09115 2.64498 3.77268 2.65289 2.78117 2.40587 2.82654 3.28706 5.48925 4.09879 777 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02674 4.03065 4.75300 0.61958 0.77255 0.50312 0.92796\n- 703 2.38640 4.18273 3.64506 3.07017 3.29494 3.59521 3.80925 2.43041 2.85582 1.84134 3.14700 3.41554 3.96966 3.21911 3.19775 2.82943 2.80127 2.36177 4.77756 3.45989 778 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02674 4.03065 4.75300 0.61958 0.77255 0.50312 0.92796\n- 704 2.93301 4.36643 4.34977 3.77501 2.60241 4.05760 4.26079 2.19775 3.63961 1.15667 2.98134 4.00766 4.35429 3.72568 3.71438 3.35935 3.15761 2.37645 4.53262 3.51527 779 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10205 4.03065 2.53507 0.61958 0.77255 0.50312 0.92796\n- 705 2.53519 4.79330 2.86621 2.35470 3.83931 2.83276 3.59493 3.43392 2.17402 2.91683 3.87260 2.67993 3.67608 2.72068 2.84407 2.45320 2.80620 3.13644 5.29679 3.95723 780 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11410 3.95740 2.42228 0.61958 0.77255 0.57474 0.82748\n- 706 2.56492 4.74802 2.82612 2.37605 3.99254 3.00778 3.58453 3.28141 2.23128 2.75667 3.82836 2.73033 3.77290 2.72120 2.68914 2.50583 2.77745 3.08546 5.25144 3.92436 781 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11887 3.87094 2.39426 0.61958 0.77255 0.64450 0.74429\n- 707 2.59379 4.87073 2.69360 2.12699 4.14650 3.01378 3.55839 3.57393 2.14100 3.10194 3.82132 2.76130 3.68117 2.67752 2.68583 2.55410 2.82802 3.22741 5.34869 4.00069 782 e - - -\n- 2.68618 4.42231 2.77519 2.73098 3.46360 2.40512 3.72501 3.29360 2.67743 2.69360 4.24696 2.90343 2.73746 3.18144 2.89804 2.37886 2.77522 2.98512 4.58483 3.61509\n- 0.34655 1.22801 * 0.67154 0.71523 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_Hydrolase-Tm__Hydrolase-Tm.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_Hydrolase-Tm__Hydrolase-Tm.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,653 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_Hydrolase-Tm__Hydrolase-Tm\n-LENG 210\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:47 2021\n-NSEQ 30\n-EFFN 0.428467\n-CKSUM 93186579\n-GA 20 20;\n-STATS LOCAL MSV -10.4238 0.70476\n-STATS LOCAL VITERBI -11.3425 0.70476\n-STATS LOCAL FORWARD -4.6904 0.70476\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51729 4.19972 3.01952 2.85667 3.11261 2.87835 3.77520 2.61088 2.71776 2.27418 3.65166 2.96581 3.56650 3.29843 3.19205 2.66735 2.94631 2.50791 4.35200 3.44259\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12652 3.81674 2.33464 0.61958 0.77255 0.00000 *\n- 1 2.86151 4.43645 3.89406 3.48199 3.15688 3.72359 4.25129 2.31857 3.25574 1.77961 1.69125 3.77581 4.18851 3.65068 3.47713 3.19275 3.16665 2.30604 4.97472 3.71999 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72663 4.44898 0.61958 0.77255 0.55754 0.85008\n- 2 2.36153 4.39567 2.73545 2.52171 4.10322 3.00365 3.80332 3.56584 2.67660 3.22788 4.08275 2.23395 3.65707 3.02518 3.05319 1.93855 2.67374 3.13470 5.41739 4.09329 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72663 4.44898 0.61958 0.77255 0.55754 0.85008\n- 3 2.75182 5.01519 1.38258 2.13254 4.33049 3.09023 3.72302 3.89064 2.75024 3.51657 4.42623 2.59067 3.73050 2.93244 3.27634 2.71243 3.08142 3.51056 5.60190 4.17067 3 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72663 4.44898 0.61958 0.77255 0.55754 0.85008\n- 4 2.99592 4.50518 3.95034 3.59652 3.09045 3.78878 4.29811 2.29562 3.36541 1.07980 3.17174 3.88505 4.25412 3.76929 3.56266 3.35222 3.29967 2.29361 4.90993 3.59759 4 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72663 4.44898 0.61958 0.77255 0.55754 0.85008\n- 5 2.83696 4.89987 2.44671 1.25467 4.22967 3.18688 3.76993 3.65446 2.63255 3.29861 4.28609 2.86933 3.78659 2.99332 3.02062 2.83907 3.14252 3.35614 5.42983 4.15940 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72663 4.44898 0.61958 0.77255 0.55754 0.85008\n- 6 2.99592 4.50518 3.95034 3.59652 3.09045 3.78878 4.29811 2.29562 3.36541 1.07980 3.17174 3.88505 4.25412 3.76929 3.56266 3.35222 3.29967 2.29361 4.90993 3.59759 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03642 3.72663 4.44898 0.61958 0.77255 0.55754 0.85008\n- 7 2.84563 4.79068 3.01165 2.66913 4.14332 3.34415 3.69412 3.56485 1.25981 3.16557 4.14132 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 203 1.11455 4.16150 3.39692 3.18691 3.98780 2.98745 4.21656 3.10355 3.20148 2.98801 4.02861 3.35274 3.72052 3.54919 3.45564 2.51309 2.78590 2.76965 5.42174 4.21488 203 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 204 2.28485 4.20350 3.15097 2.96521 4.01052 2.93474 4.07616 3.52482 3.03439 3.25083 4.18366 3.19971 3.66837 3.38933 3.32142 1.19642 2.76027 3.07463 5.38874 4.09407 204 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 205 2.62191 4.70590 2.77350 2.47488 4.08281 3.24722 3.70368 3.55744 2.43754 3.13428 4.03231 2.94875 2.31373 2.14960 2.79034 2.67577 2.92365 3.22388 5.34463 4.03087 205 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 206 2.26439 4.23594 3.05066 2.78532 4.10397 2.95509 3.95335 3.54912 2.86229 3.22373 4.08347 3.09005 2.29536 3.20130 3.20646 1.70134 2.70501 3.08573 5.43835 4.16666 206 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 207 2.40000 4.44356 2.74823 2.54420 4.13610 3.03104 3.83771 3.65430 2.72265 3.29984 4.15269 2.21483 3.68891 3.06162 3.10554 1.72923 2.80165 3.20930 5.45269 4.11154 207 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 208 2.92038 5.03391 1.01879 2.29880 4.40264 3.16231 3.87627 3.97617 2.94844 3.59719 4.57537 2.85113 3.81059 3.11646 3.45426 2.89143 3.25811 3.62303 5.58412 4.28859 208 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 209 2.67146 4.76913 2.55405 2.40656 4.13110 3.17261 3.75888 3.70859 2.48708 3.34352 4.25081 1.53183 3.78496 2.98007 2.93621 2.70850 3.01099 3.34208 5.41853 4.04042 209 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03360 3.80571 4.52806 0.61958 0.77255 0.49519 0.94022\n- 210 2.91325 4.87119 3.08463 2.72066 4.24231 3.40824 3.72624 3.66775 1.13371 3.24827 4.21482 3.14753 3.91456 2.92264 2.42471 2.96051 3.17230 3.37983 5.32567 4.12936 210 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02274 3.79485 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_Hydrolase-Tm__Hydrolase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_Hydrolase-Tm__Hydrolase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,887 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_Hydrolase-Tm__Hydrolase\n-LENG 288\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:47 2021\n-NSEQ 55\n-EFFN 0.453186\n-CKSUM 2125705993\n-GA 20 20;\n-STATS LOCAL MSV -10.9787 0.70158\n-STATS LOCAL VITERBI -12.0630 0.70158\n-STATS LOCAL FORWARD -5.3436 0.70158\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59238 4.41403 2.81040 2.64721 3.17144 2.94798 3.70974 2.74042 2.64117 2.42312 3.68092 3.09828 3.38716 3.18266 3.03332 2.67978 2.87157 2.64501 4.60013 3.25244\n- 2.68620 4.42227 2.77521 2.73123 3.46356 2.40515 3.72496 3.29356 2.67738 2.69355 4.24682 2.90346 2.73741 3.18145 2.89800 2.37887 2.77519 2.98515 4.58479 3.61494\n- 0.14210 3.42298 2.30409 1.05707 0.42690 0.00000 *\n- 1 2.87283 4.44459 3.91113 3.49915 3.16137 3.73603 4.26469 2.32449 3.27252 1.78038 1.65334 3.79135 4.19998 3.66567 3.49226 3.20627 3.17772 2.31419 4.98208 3.72953 15 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03584 3.74249 4.46484 0.61958 0.77255 0.55379 0.85512\n- 2 2.86415 4.81348 3.03159 2.68264 4.17126 3.36207 3.70220 3.59379 1.22337 3.18870 4.16151 3.11094 3.87509 2.90427 2.42554 2.91707 3.12926 3.31018 5.28096 4.07735 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03562 3.74842 4.47077 0.61958 0.77255 0.55708 0.85069\n- 3 2.86415 4.81348 3.03159 2.68264 4.17126 3.36207 3.70220 3.59379 1.22337 3.18870 4.16151 3.11094 3.87509 2.90427 2.42554 2.91707 3.12926 3.31018 5.28096 4.07735 17 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03562 3.74842 4.47077 0.61958 0.77255 0.54850 0.86231\n- 4 2.24054 4.13911 3.24154 2.97561 3.94057 2.96014 4.03361 3.13613 2.94028 2.99489 3.94649 3.19962 3.66716 3.32343 3.22498 2.29967 1.57598 2.77328 5.36226 4.10069 18 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03538 3.75497 4.47732 0.61958 0.77255 0.54434 0.86804\n- 5 2.72054 4.29806 3.96693 3.63057 3.47250 3.60371 4.45275 2.07023 3.49638 2.18216 3.45897 3.83708 4.17325 3.86605 3.71881 3.10336 3.08664 1.17963 5.23659 3.95938 19 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03517 3.76088 4.48323 0.61958 0.77255 0.53984 0.87429\n- 6 3.03942 4.53507 4.01744 3.66055 3.10130 3.84396 4.34952 2.30428 3.42916 1.01785 3.16410 3.94575 4.30009 3.82307 3.62108 3.40770 3.33998 2.31340 4.93851 3.63629 20 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03496 3.76675 4.48910 0.61958 0.77255 0.50061 0.93181\n- 7 3.00173 4.41132 4.39054 3.88491 3.24719 4.17861 4.60421 1.31530 3.70105 1.75682 2.86326 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03498 3.76635 4.48869 0.61958 0.77255 0.54341 0.86933\n- 281 2.77397 5.22682 2.04750 1.66349 4.50722 3.16555 3.63582 3.99305 2.56582 3.52446 4.36427 2.26707 3.74516 2.74565 3.09412 2.69521 3.04774 3.60159 5.70187 4.25264 295 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03498 3.76635 4.48869 0.61958 0.77255 0.54341 0.86933\n- 282 3.12792 4.56247 4.09140 3.78875 1.20338 3.83656 3.83889 2.66821 3.69909 2.06481 3.41663 3.90123 4.30011 3.89752 3.84503 3.40142 3.43034 2.65041 4.12538 2.50814 296 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03498 3.76635 4.48869 0.61958 0.77255 0.54341 0.86933\n- 283 2.20380 4.16524 3.34711 2.94147 3.80791 3.08796 3.95367 2.76841 2.87031 2.81451 3.74549 3.21649 3.72080 3.23223 3.18858 2.30405 1.86483 2.62212 5.23711 3.99587 297 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04107 3.76635 4.06877 0.61958 0.77255 0.54341 0.86933\n- 284 2.43004 4.74571 2.75952 2.20170 4.08190 3.30363 3.61790 3.43311 2.08128 3.07246 3.92375 2.89282 3.77784 2.78857 2.71444 2.65349 2.50141 3.11629 5.31764 4.01163 298 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05763 3.76046 3.41954 0.61958 0.77255 0.54794 0.86308\n- 285 3.09489 4.53852 4.05213 3.74591 1.25997 3.80675 3.83120 2.64057 3.65726 2.04482 3.39462 3.87068 4.27239 3.86406 3.81004 3.36881 3.39805 2.62031 4.12922 2.51680 299 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03597 3.73881 4.46115 0.61958 0.77255 0.56424 0.84116\n- 286 2.82788 4.91006 2.91738 2.54327 4.22502 3.39585 3.59450 3.65316 1.44497 3.18934 4.10583 2.99458 3.86721 2.62074 2.30007 2.84715 3.06087 3.35315 5.32296 4.06441 300 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03597 3.73881 4.46115 0.61958 0.77255 0.56424 0.84116\n- 287 2.51385 4.29620 3.15939 3.04501 4.17785 0.96925 4.16854 3.74926 3.20718 3.41956 4.39861 3.32512 3.68304 3.54309 3.45311 2.68293 2.98494 3.30422 5.30353 4.27704 301 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05223 3.73881 3.60806 0.61958 0.77255 0.56424 0.84116\n- 288 2.72352 4.87015 2.69634 2.40434 4.22099 3.28934 3.60649 3.67385 1.72584 3.24825 4.12027 2.38183 3.80010 2.77987 2.50396 2.73651 2.98602 3.33520 5.37060 4.06197 302 k - - -\n- 2.68619 4.42226 2.77521 2.73123 3.46355 2.40514 3.72496 3.29355 2.67727 2.69355 4.24691 2.90341 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.13467 2.07148 * 0.50594 0.92366 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_RT-Tm__RT-Tm.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_RT-Tm__RT-Tm.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,710 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_RT-Tm__RT-Tm\n-LENG 229\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:49 2021\n-NSEQ 14\n-EFFN 0.399902\n-CKSUM 3306788454\n-GA 100 100;\n-STATS LOCAL MSV -10.5827 0.70374\n-STATS LOCAL VITERBI -11.5380 0.70374\n-STATS LOCAL FORWARD -4.9805 0.70374\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59962 4.03722 2.80971 2.70763 3.06555 2.97391 3.82361 2.70748 2.67340 2.36709 3.72889 3.02179 3.61067 3.17132 2.93811 2.63126 3.01244 2.70162 4.52172 3.26304\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10533 3.79387 2.55790 0.61958 0.77255 0.00000 *\n- 1 2.86036 4.43563 3.89231 3.48025 3.15643 3.72231 4.24993 2.31798 3.25403 1.77956 1.69517 3.77423 4.18734 3.64915 3.47559 3.19138 3.16553 2.30522 4.97398 3.71902 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72502 4.44737 0.61958 0.77255 0.54041 0.87350\n- 2 2.25355 4.16830 3.08784 2.90310 3.93054 2.90132 4.01393 3.43596 2.96616 3.17040 4.11415 3.14799 3.62923 3.32909 3.25247 1.33850 2.72371 3.00440 5.31669 4.01464 2 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72502 4.44737 0.61958 0.77255 0.54041 0.87350\n- 3 2.25355 4.16830 3.08784 2.90310 3.93054 2.90132 4.01393 3.43596 2.96616 3.17040 4.11415 3.14799 3.62923 3.32909 3.25247 1.33850 2.72371 3.00440 5.31669 4.01464 3 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72502 4.44737 0.61958 0.77255 0.54041 0.87350\n- 4 3.07841 4.52671 4.03221 3.72435 1.28958 3.79158 3.82772 2.62702 3.63623 2.03528 3.38408 3.85532 4.25842 3.84733 3.79245 3.35246 3.38204 2.60547 4.13187 2.52201 4 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72502 4.44737 0.61958 0.77255 0.54041 0.87350\n- 5 3.10990 4.53408 3.87751 3.55148 2.54348 3.57428 3.74019 3.13240 3.27850 2.55024 3.77269 3.73167 4.08158 3.67479 3.43116 3.31456 3.40433 3.01880 1.24537 2.55447 5 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72502 4.44737 0.61958 0.77255 0.54041 0.87350\n- 6 2.83574 4.89792 2.44647 1.25751 4.22755 3.18595 3.76906 3.65201 2.63148 3.29651 4.28422 2.86882 3.78563 2.99259 3.01926 2.83813 3.14135 3.35393 5.42805 4.15778 6 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03648 3.72502 4.44737 0.61958 0.77255 0.54041 0.87350\n- 7 2.49977 4.28212 3.14226 3.02680 4.15732 0.99851 4.15014 3.72621 3.18683 3.39818 4.37808 3.30830 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 222 3.13344 4.56650 4.09787 3.79585 1.19427 3.84147 3.84026 2.67288 3.70604 2.06824 3.42041 3.90630 4.30470 3.90310 3.85084 3.40684 3.43575 2.65548 4.12492 2.50691 222 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 223 2.88539 4.98851 1.07569 2.28326 4.35327 3.13806 3.84988 3.91943 2.91619 3.54760 4.52671 2.83305 3.78414 3.09132 3.41575 2.86170 3.22303 3.57066 5.54147 4.24722 223 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 224 1.17107 4.14708 3.36356 3.15383 3.95479 2.97352 4.18731 3.06566 3.16748 2.95138 3.99747 3.32784 3.70346 3.51893 3.42304 2.49978 2.77025 2.73803 5.39237 4.18191 224 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 225 1.17107 4.14708 3.36356 3.15383 3.95479 2.97352 4.18731 3.06566 3.16748 2.95138 3.99747 3.32784 3.70346 3.51893 3.42304 2.49978 2.77025 2.73803 5.39237 4.18191 225 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 226 3.04394 4.53822 4.02435 3.66720 3.10249 3.84959 4.35486 2.30535 3.43579 1.01168 3.16350 3.95204 4.30481 3.82866 3.62712 3.41345 3.34421 2.31561 4.94149 3.64031 226 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 227 2.80639 4.78276 2.84262 2.59943 3.93667 3.30210 3.75557 3.55502 2.42834 3.06722 4.10160 3.05687 3.85643 1.42702 2.71305 2.86016 3.10518 3.29218 5.22876 3.91670 227 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 228 2.64413 4.63192 2.66222 2.53908 3.97990 3.11952 3.84791 3.67141 2.74479 3.33100 4.28939 1.35189 3.76795 3.12323 3.09359 2.71699 3.02432 3.30398 5.29810 3.93763 228 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03481 3.77093 4.49327 0.61958 0.77255 0.50473 0.92550\n- 229 2.88334 4.83648 3.05231 2.69714 4.19953 3.38032 3.71117 3.62316 1.18717 3.21227 4.18238 3.12496 3.89052 2.91083 2.42441 2.93390 3.14593 3.33778 5.29866 4.09787 229 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02357 3.75968 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_RT-Tm__RT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_RT-Tm__RT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2897 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_RT-Tm__RT\n-LENG 958\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:50 2021\n-NSEQ 41\n-EFFN 0.437927\n-CKSUM 59526441\n-GA 100 100;\n-STATS LOCAL MSV -12.6253 0.69569\n-STATS LOCAL VITERBI -13.6926 0.69569\n-STATS LOCAL FORWARD -7.0345 0.69569\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61238 4.28513 2.86640 2.71368 3.20071 3.01486 3.66363 2.69322 2.64170 2.35672 3.71860 2.96851 3.51312 3.21523 2.94844 2.61889 2.95139 2.65887 4.56907 3.29551\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16075 3.82420 2.06627 0.61958 0.77255 0.00000 *\n- 1 2.84317 4.42352 3.86597 3.45412 3.15011 3.70285 4.22956 2.30956 3.22833 1.77944 1.75547 3.75046 4.16972 3.62642 3.45234 3.17067 3.14891 2.29325 4.96303 3.70444 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05509 3.70084 3.54415 0.61958 0.77255 0.58196 0.81826\n- 2 2.81398 4.33595 3.99252 3.59104 3.30634 3.81194 4.40348 1.43052 3.41462 1.93186 3.24625 3.86600 4.27568 3.79468 3.64907 3.24238 3.04164 1.84991 5.14909 3.87146 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04756 3.68379 3.84828 0.61958 0.77255 0.59370 0.80359\n- 3 2.32589 4.16594 3.26733 3.02438 3.80695 3.00778 4.05463 2.91158 2.96320 2.78060 3.85536 3.25909 3.70007 3.37181 3.22459 2.52621 1.56270 2.62904 5.26411 4.02705 3 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03840 3.67464 4.39699 0.61958 0.77255 0.59987 0.79603\n- 4 2.80126 4.73344 2.96434 2.63922 4.07356 3.29989 3.67748 3.49301 1.35337 3.10857 4.09299 3.06820 3.82445 2.88971 2.43813 2.86352 3.07636 3.21596 5.22041 4.00796 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03840 3.67464 4.39699 0.61958 0.77255 0.59987 0.79603\n- 5 2.79057 4.85197 1.25361 2.25455 4.20705 3.07259 3.78471 3.75359 2.83626 3.40443 4.39037 2.79485 3.71339 3.03334 3.31381 2.78529 3.12976 3.41872 5.41432 4.12876 5 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03840 3.67464 4.39699 0.61958 0.77255 0.59987 0.79603\n- 6 2.87387 4.36433 4.02573 3.64475 3.25167 3.82639 4.41647 1.36806 3.46723 1.89609 3.23540 3.91739 4.28856 3.84396 3.68656 3.31316 3.18211 1.88060 5.09107 3.80281 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03840 3.67464 4.39699 0.61958 0.77255 0.59987 0.79603\n- 7 2.65159 4.26081 3.83709 3.50683 3.41558 3.50232 4.34557 2.10485 3.37048 2.14885 3.42589 3.72440 4.08'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 951 1.33575 4.09527 3.39797 3.12391 4.02000 2.94568 4.15597 3.07057 3.11363 2.99234 3.96082 3.28270 3.67535 3.45134 3.39274 2.41087 2.36701 2.71093 5.46431 4.24577 954 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 952 3.08420 4.56646 4.08509 3.72619 3.11367 3.89876 4.40222 2.31608 3.49451 0.95906 3.15959 4.00774 4.34628 3.87836 3.68052 3.46429 3.38200 2.33635 4.96800 3.67594 955 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 953 3.08420 4.56646 4.08509 3.72619 3.11367 3.89876 4.40222 2.31608 3.49451 0.95906 3.15959 4.00774 4.34628 3.87836 3.68052 3.46429 3.38200 2.33635 4.96800 3.67594 956 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 954 2.49672 4.91072 2.42762 1.45502 4.29594 3.20492 3.73166 3.60887 2.58224 3.29312 4.21487 2.81491 3.79147 2.91927 3.00821 2.72715 3.02943 3.28516 5.55821 4.19737 957 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 955 2.93520 4.77601 3.41953 2.94610 4.11427 3.43367 3.78199 3.65272 2.21794 3.18053 4.18381 3.31006 3.94068 3.00677 1.08188 3.02332 3.20640 3.37981 5.22435 4.05707 958 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 956 2.58878 4.36891 3.24916 3.14123 4.28153 0.83603 4.26410 3.86670 3.31354 3.52869 4.50507 3.41383 3.75796 3.64307 3.55533 2.75911 3.06506 3.40763 5.39236 4.38176 959 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 957 2.77033 4.97384 2.37944 1.34621 4.39808 2.79399 3.74364 3.84385 2.62482 3.44984 4.33730 2.80122 3.78438 2.93557 3.06488 2.75462 3.07785 3.47765 5.58808 4.25102 960 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03353 3.80795 4.53029 0.61958 0.77255 0.49969 0.93323\n- 958 2.91518 4.87339 3.08672 2.72221 4.24502 3.41003 3.72726 3.67059 1.13037 3.25057 4.21691 3.14902 3.91612 2.92346 2.42481 2.96225 3.17402 3.38251 5.32739 4.13138 961 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02269 3.79711 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_TIR-NLR__TIR.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_TIR-NLR__TIR.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2495 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_TIR-NLR__TIR\n-LENG 824\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue May 25 11:13:51 2021\n-NSEQ 34\n-EFFN 0.427490\n-CKSUM 367186046\n-GA 70 70;\n-STATS LOCAL MSV -12.3734 0.69612\n-STATS LOCAL VITERBI -13.4405 0.69612\n-STATS LOCAL FORWARD -6.2796 0.69612\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60427 4.20486 2.83454 2.63319 3.25591 3.08574 3.82164 2.63284 2.60177 2.34494 3.72042 2.99600 3.53556 3.18139 2.91532 2.68552 2.98030 2.63003 4.78144 3.38047\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04218 3.81596 3.94820 0.61958 0.77255 0.00000 *\n- 1 2.91990 4.47960 3.98016 3.56995 3.18237 3.78547 4.32025 2.35159 3.34110 1.78809 1.50886 3.85511 4.24684 3.72799 3.55382 3.26162 3.22452 2.34981 5.01374 3.76902 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.80733 4.52968 0.61958 0.77255 0.49316 0.94339\n- 2 2.98048 4.41932 4.24001 3.85459 3.33190 3.99358 4.59582 1.16257 3.68132 1.93310 3.27925 4.10913 4.43243 4.03727 3.88544 3.48383 3.28141 1.84873 5.20813 3.93973 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.80733 4.52968 0.61958 0.77255 0.49316 0.94339\n- 3 2.91464 4.87279 3.08615 2.72178 4.24427 3.40953 3.72698 3.66980 1.13129 3.24993 4.21633 3.14860 3.91569 2.92323 2.42478 2.96177 3.17354 3.38177 5.32691 4.13082 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.80733 4.52968 0.61958 0.77255 0.49316 0.94339\n- 4 1.11199 4.16220 3.39848 3.18848 3.98934 2.98812 4.21794 3.10533 3.20308 2.98972 4.03008 3.35392 3.72133 3.55063 3.45717 2.51374 2.78666 2.77113 5.42311 4.21642 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.80733 4.52968 0.61958 0.77255 0.49316 0.94339\n- 5 3.17759 4.59911 4.14884 3.85222 1.12479 3.88007 3.85208 2.71076 3.76118 2.09664 3.45157 3.94661 4.34118 3.94757 3.89698 3.45005 3.47924 2.69640 4.12293 2.49912 5 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.80733 4.52968 0.61958 0.77255 0.49316 0.94339\n- 6 3.08353 4.56598 4.08409 3.72521 3.11348 3.89795 4.40142 2.31588 3.49353 0.95991 3.15964 4.00681 4.34559 3.87753 3.67963 3.46344 3.38136 2.33599 4.96756 3.67534 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03355 3.80733 4.52968 0.61958 0.77255 0.49316 0.94339\n- 7 2.28554 4.20425 3.15227 2.96653 4.01211 2.93545 4.07746 3.52659 3.03582 3.25246 4.18510 3.20081 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03621 3.73230 4.45464 0.61958 0.77255 0.55274 0.85655\n- 817 2.92129 4.38721 4.12295 3.73859 3.28563 3.90317 4.49647 1.27210 3.56325 1.90852 3.25093 4.00359 4.35360 3.92990 3.77608 3.39006 3.22556 1.86167 5.14258 3.86423 817 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04604 3.73230 3.86037 0.61958 0.77255 0.55274 0.85655\n- 818 2.84238 4.78662 3.00816 2.66682 4.13835 3.34098 3.69277 3.55971 1.26635 3.16148 4.13778 3.09554 3.85759 2.89794 2.42825 2.89824 3.11063 3.27823 5.26047 4.05371 818 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03656 3.72282 4.44516 0.61958 0.77255 0.55971 0.84717\n- 819 2.78162 5.07877 2.11279 1.45319 4.38198 3.14975 3.67559 3.82348 2.60393 3.43467 4.32846 2.69070 3.74800 2.86280 3.08860 2.73125 3.07210 3.47228 5.60060 4.20778 819 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03656 3.72282 4.44516 0.61958 0.77255 0.55971 0.84717\n- 820 2.71049 3.69721 3.70872 3.25016 2.60952 3.55450 3.68241 2.76546 3.08287 2.42827 3.51456 3.48341 4.02441 3.41350 3.33042 2.93631 3.00362 2.58872 4.22738 1.70530 820 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03656 3.72282 4.44516 0.61958 0.77255 0.55971 0.84717\n- 821 1.52856 4.05961 3.21102 2.96791 4.02745 2.85373 4.05151 3.29899 3.01231 3.11183 4.01016 3.15766 3.58981 3.34002 3.30705 1.96360 2.61543 2.86221 5.42087 4.17761 821 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03656 3.72282 4.44516 0.61958 0.77255 0.55971 0.84717\n- 822 1.67941 4.08938 3.11628 2.90689 4.10911 1.94724 4.04651 3.42938 3.01923 3.19846 4.08151 3.12774 3.58226 3.32813 3.32706 2.33411 2.63753 2.96106 5.45737 4.23903 822 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04650 3.72282 3.85044 0.61958 0.77255 0.55971 0.84717\n- 823 2.83423 4.77635 2.99942 2.66110 4.12579 3.33298 3.68946 3.54674 1.28297 3.15116 4.12890 3.08993 3.85103 2.89590 2.42969 2.89127 3.10374 3.26610 5.25268 4.04477 823 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03692 3.71323 4.43558 0.61958 0.77255 0.56665 0.83799\n- 824 2.60131 4.57988 2.64347 2.51658 3.91897 3.08430 3.81209 3.60178 2.70626 3.26983 4.23208 1.47710 3.73201 3.09111 3.04974 2.67888 2.98188 3.24051 5.24490 3.88367 824 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02500 3.70132 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_gop_beta_cll__beta.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_gop_beta_cll__beta.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1088 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_gop_beta_cll__beta\n-LENG 355\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Nov 2 17:28:47 2021\n-NSEQ 100\n-EFFN 0.851440\n-CKSUM 2303846826\n-GA 20 20;\n-STATS LOCAL MSV -11.4867 0.70002\n-STATS LOCAL VITERBI -11.9379 0.70002\n-STATS LOCAL FORWARD -6.1040 0.70002\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46503 4.53821 2.89676 2.66316 3.33283 2.96602 3.69150 2.66573 2.73418 2.53593 3.66658 3.08861 3.42238 3.05894 2.87663 2.61945 2.87956 2.63530 4.27308 3.44543\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40516 3.72493 3.29358 2.67741 2.69353 4.24547 2.90348 2.73743 3.18144 2.89800 2.37887 2.77523 2.98522 4.58481 3.61507\n- 0.20946 1.96198 3.02834 0.61525 0.77763 0.00000 *\n- 1 2.67320 4.24600 3.83181 3.26922 3.33506 3.71326 4.02987 2.22024 2.96911 2.24023 1.88314 3.58763 4.09557 3.44317 3.38115 2.94245 2.79700 2.26038 4.89699 3.69349 10 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02585 4.06423 4.78657 0.61958 0.77255 0.53127 0.88638\n- 2 2.53726 4.96393 2.62077 2.30252 4.25452 3.38228 3.58289 3.70159 1.96241 3.24395 3.90440 2.84175 3.78146 2.54725 2.81129 2.44904 2.69442 3.32553 5.42881 3.61157 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08248 4.06423 2.78068 0.61958 0.77255 0.48024 0.96399\n- 3 3.11628 4.41870 4.83066 4.29266 3.45868 4.48308 4.93822 1.36042 4.18663 1.87921 2.97018 4.51897 4.74314 4.39948 4.36280 3.83941 3.36092 1.28473 5.41112 4.25128 12 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02651 4.03938 4.76173 0.61958 0.77255 0.46478 0.98959\n- 4 2.59955 4.97961 2.51745 2.27442 4.27372 3.28473 3.58339 3.59289 2.27072 3.21491 4.03513 2.42954 3.78115 2.60195 2.72488 2.51318 2.78130 3.28720 5.44288 3.43193 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02511 4.09293 4.81528 0.61958 0.77255 0.50001 0.93273\n- 5 3.55260 4.89130 4.54205 4.30337 0.70980 4.18030 3.99469 3.05494 4.20628 2.37633 3.75545 4.27471 4.63766 4.31454 4.27121 3.80766 3.85574 3.06101 4.18765 2.53083 14 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02511 4.09293 4.81528 0.61958 0.77255 0.50001 0.93273\n- 6 2.94436 5.53636 1.50036 1.61595 4.83411 2.67682 3.77908 4.35587 2.76943 3.83752 4.66528 2.59360 3.87158 2.93472 3.36310 2.83266 3.22546 3.91606 5.99446 4.48777 15 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02511 4.09293 4.81528 0.61958 0.77255 0.50001 0.93273\n- 7 2.72898 5.21414 1.98180 2.13181 4.52482 3.21980 3.65062 4.00612 2.47460 3.50741 4.28558 2.3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06810 4.79044 0.61958 0.77255 0.49151 0.94598\n- 348 2.56916 4.96814 2.17341 1.94121 3.85957 3.37893 3.60711 3.64111 2.39212 3.24472 4.03237 2.87488 3.57698 2.73448 2.87649 2.61271 2.85605 3.22627 5.44061 3.81904 366 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02523 4.08801 4.81035 0.61958 0.77255 0.47785 0.96788\n- 349 2.46720 5.10835 2.22641 1.90422 4.41458 3.31638 3.10667 3.76357 2.41030 3.39917 4.17143 2.83400 3.15819 2.73824 2.90962 2.63166 2.90643 3.48049 5.56447 4.15982 367 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04170 4.10312 3.71657 0.61958 0.77255 0.48845 0.95082\n- 350 2.82713 5.32511 1.56634 1.82297 4.63347 3.29656 3.72076 4.12248 2.62743 3.49705 4.43844 2.76784 3.59108 2.86456 3.17279 2.42020 3.09286 3.70688 5.79966 4.34586 368 d - - -\n- 2.68618 4.42225 2.77518 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20984 3.89488 1.77819 0.60258 0.79274 0.50697 0.92211\n- 351 2.54496 4.40693 2.95095 2.44229 3.00400 3.46498 3.69372 2.86467 2.63464 2.52675 3.50075 3.11624 3.85022 2.95858 3.03512 2.63932 2.77696 2.58392 4.93957 3.13122 370 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04909 3.91140 3.57952 0.61958 0.77255 0.42608 1.05862\n- 352 2.73495 5.13774 1.85840 1.73925 3.62692 3.32724 3.67099 3.86063 2.52892 3.41482 4.22461 2.81056 3.82096 2.81283 3.04290 2.69511 2.90904 3.48470 5.60381 4.18743 371 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02593 4.06116 4.78350 0.61958 0.77255 0.51635 0.90806\n- 353 2.64462 4.89446 1.82920 2.23721 3.81995 3.39083 3.65022 3.28057 2.46731 3.04916 3.97169 2.90846 3.82148 2.79912 2.94301 2.65804 2.81034 3.18623 5.39327 4.03098 372 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04748 4.07133 3.52973 0.61958 0.77255 0.52371 0.89726\n- 354 2.56374 4.27473 3.35978 2.67898 2.63835 3.33015 3.79864 2.61076 2.83688 2.22660 3.37725 3.28786 3.92493 2.92027 3.18533 2.79265 2.74124 2.52147 4.85261 3.33423 373 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13937 4.05007 2.18324 0.61958 0.77255 0.54602 0.86572\n- 355 2.55395 4.43539 2.91552 2.39852 3.05864 3.46073 3.69815 2.51421 2.62675 2.65384 3.52999 3.10257 3.85087 2.95112 3.03294 2.54946 2.78684 2.71172 4.98260 3.51911 374 e - - -\n- 2.68618 4.42230 2.77502 2.73103 3.46349 2.40518 3.72500 3.29359 2.67746 2.69352 4.24695 2.90352 2.73745 3.18137 2.89806 2.37892 2.77525 2.98523 4.58482 3.61495\n- 0.21370 1.64813 * 0.71178 0.67485 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_gop_beta_cll__cll.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_gop_beta_cll__cll.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,818 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_gop_beta_cll__cll\n-LENG 265\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Nov 2 17:29:16 2021\n-NSEQ 100\n-EFFN 1.419067\n-CKSUM 3349205774\n-GA 20 20;\n-STATS LOCAL MSV -10.7010 0.70235\n-STATS LOCAL VITERBI -11.5235 0.70235\n-STATS LOCAL FORWARD -5.0142 0.70235\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56445 4.51909 2.95341 2.58314 3.32559 3.15301 3.79957 2.77984 2.46832 2.38548 3.70047 3.02225 3.73122 3.02097 2.76022 2.63300 2.89074 2.60258 4.91781 3.63546\n- 2.68614 4.42229 2.77532 2.73130 3.46344 2.40521 3.72507 3.29331 2.67742 2.69351 4.24509 2.90343 2.73748 3.18142 2.89804 2.37892 2.77530 2.98516 4.58490 3.61506\n- 0.55805 2.02082 1.22034 1.32882 0.30760 0.00000 *\n- 1 2.56562 4.33477 3.39289 2.86930 3.54065 3.35093 3.82319 2.88550 2.68133 2.60696 2.02358 3.07213 3.91384 3.13167 3.11478 2.54480 2.82392 2.52087 4.96843 3.72942 25 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02579 4.06665 4.78899 0.61958 0.77255 0.76326 0.62763\n- 2 2.37115 4.62011 3.02492 2.45950 3.82286 3.45692 3.68369 3.21134 2.47378 2.52901 3.32992 2.94542 3.85030 2.87936 2.96857 2.10806 2.82560 2.89567 5.16076 3.86493 26 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02461 4.11266 4.83500 0.61958 0.77255 0.77328 0.61896\n- 3 2.59320 4.70987 2.99489 2.09720 3.73563 3.26076 3.65480 3.21905 2.42698 2.95938 3.40208 2.99830 3.44944 2.82520 2.93192 2.44255 2.64148 2.74722 5.23014 3.91424 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02416 4.13097 4.85332 0.61958 0.77255 0.44269 1.02809\n- 4 2.39344 4.16943 3.94216 3.36145 3.27412 3.71626 4.00768 2.33484 3.25718 1.81232 2.34084 3.63176 3.84545 3.35502 3.28689 2.84687 2.87560 2.37461 4.77680 3.57799 28 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01980 4.32772 5.05007 0.61958 0.77255 0.47594 0.97102\n- 5 2.67207 4.16160 4.08016 3.49487 2.99326 3.76608 3.72409 2.29196 3.04483 1.45160 2.90858 3.72419 4.13325 3.60698 3.56770 2.89476 2.90367 2.39919 4.76329 3.56670 29 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01889 4.37443 5.09678 0.61958 0.77255 0.51744 0.90645\n- 6 2.75433 5.17246 2.89266 2.45099 4.51817 3.50019 3.66766 3.97062 1.90103 3.46196 4.23046 2.31305 3.89877 2.77749 1.95927 2.59907 2.73329 3.56727 5.59536 4.23106 30 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01889 4.37443 5.09678 0.61958 0.77255 0.51744 0.90645\n- 7 3.50381 5.62714 2.83790 0.47870 5.05555 3.68727 4.35871 4.62204 3.31518 4.16697 5.15197 3.358'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01982 4.32696 5.04930 0.61958 0.77255 0.54013 0.87388\n- 258 2.76480 4.38524 4.54769 4.01472 3.64885 4.21691 4.67858 1.66511 3.49909 2.40991 3.52998 4.23878 4.57791 4.16667 4.08793 3.55624 3.24779 1.01491 5.35584 4.14836 307 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04141 4.32696 3.59881 0.61958 0.77255 0.50917 0.91877\n- 259 2.83150 4.34374 4.11001 3.51937 3.33857 3.90228 4.16456 1.96779 3.10002 1.33014 3.28043 3.79737 4.25352 3.61423 2.95768 3.19861 3.06061 2.40457 4.94370 3.75743 308 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01997 4.31943 5.04178 0.61958 0.77255 0.55029 0.85987\n- 260 2.53885 4.20490 3.18530 2.62420 3.84325 3.39192 3.74050 2.95551 2.03501 2.61756 3.73771 3.11336 3.07528 2.94207 2.77002 2.67951 2.68112 2.73415 5.18964 3.89838 309 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01997 4.31943 5.04178 0.61958 0.77255 0.55029 0.85987\n- 261 3.16678 5.26666 3.59242 2.94833 4.75260 3.78817 3.77738 4.10083 1.91667 3.55330 4.42040 3.34776 3.44939 2.91515 0.97360 3.17284 3.34959 3.77483 5.60527 4.43709 310 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01997 4.31943 5.04178 0.61958 0.77255 0.55029 0.85987\n- 262 2.59876 4.63524 3.22034 2.65538 3.82422 3.33883 3.75012 3.09740 2.21886 2.66161 3.72354 3.07509 3.92231 2.95891 2.40853 2.66457 2.82291 2.20848 5.17406 3.70459 311 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05659 4.31943 3.17700 0.61958 0.77255 0.55029 0.85987\n- 263 2.56901 4.55224 3.31263 2.74279 3.58418 3.56731 3.78519 2.84591 2.06747 2.72706 3.64556 3.20329 3.95009 3.02231 2.56565 2.79915 2.81596 2.08978 5.11120 3.84698 312 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03515 4.28355 3.87560 0.61958 0.77255 0.59639 0.80028\n- 264 2.56469 4.90455 3.01442 2.45378 4.16675 3.32066 3.65177 3.13994 2.06243 2.97839 3.97184 2.95457 3.66193 2.68116 2.38029 2.32317 2.72852 3.25051 5.38944 4.04597 313 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29372 4.26941 1.42495 0.61958 0.77255 0.61356 0.77962\n- 265 2.27704 4.41744 2.78912 2.31464 4.15547 3.37431 3.51826 3.58925 2.26709 3.15803 3.95228 2.55434 3.77734 2.44691 2.82858 2.53033 2.74119 3.23544 5.36757 4.01031 314 k - - -\n- 2.68613 4.42215 2.77525 2.73127 3.46371 2.40526 3.72511 3.29340 2.67719 2.69367 4.24707 2.90363 2.73751 3.18163 2.89807 2.37844 2.77511 2.98512 4.58494 3.61520\n- 0.38476 1.14136 * 1.18210 0.36620 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_gop_beta_cll__gop.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Rst_gop_beta_cll__gop.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,401 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Rst_gop_beta_cll__gop\n-LENG 126\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 3 12:08:21 2021\n-NSEQ 37\n-EFFN 0.654907\n-CKSUM 3440853076\n-GA 20 20;\n-STATS LOCAL MSV -9.8994 0.71243\n-STATS LOCAL VITERBI -10.6302 0.71243\n-STATS LOCAL FORWARD -4.2918 0.71243\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46974 4.30044 3.11218 2.71819 3.54239 2.87003 3.70464 2.59284 2.74862 2.35975 3.57726 2.99727 3.70501 3.07937 3.01066 2.62469 2.75314 2.61571 4.28496 3.61147\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02811 3.98157 4.70391 0.61958 0.77255 0.00000 *\n- 1 3.05751 4.58971 4.16765 3.77036 3.25915 3.91599 4.48030 2.44580 3.53214 1.83835 1.18347 4.03407 4.37812 3.90739 3.72445 3.41753 3.36544 2.46433 5.11392 3.88476 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05647 3.98157 3.31735 0.61958 0.77255 0.48576 0.95510\n- 2 3.22857 4.62273 4.57587 4.07707 3.09301 4.36676 4.69539 1.99040 3.85678 0.92389 2.97141 4.35652 4.64213 4.12032 4.03049 3.75480 3.47768 2.17554 5.12195 3.91858 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02890 3.95400 4.67635 0.61958 0.77255 0.51308 0.91292\n- 3 2.79205 4.79072 2.75529 2.64915 4.16711 3.23945 3.98844 3.89538 2.89914 3.53311 4.48813 1.02147 3.89546 3.26161 3.25633 2.85631 3.17677 3.50935 5.46372 4.10980 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02890 3.95400 4.67635 0.61958 0.77255 0.51308 0.91292\n- 4 3.08655 4.88901 3.20755 2.97604 3.34351 3.51786 0.98154 3.80206 2.81695 3.28566 4.33522 3.38194 4.07506 3.34343 3.07760 3.15659 3.39283 3.53564 4.80743 3.29214 4 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02890 3.95400 4.67635 0.61958 0.77255 0.51308 0.91292\n- 5 3.06494 4.40403 4.70194 4.21022 3.50118 4.36522 4.93314 1.19950 4.08726 2.00087 3.31735 4.43982 4.69307 4.35914 4.29115 3.75374 3.33505 1.37551 5.46655 4.26125 5 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02890 3.95400 4.67635 0.61958 0.77255 0.51308 0.91292\n- 6 3.36603 4.82196 3.95905 3.70402 2.29884 3.92545 3.65849 3.36397 3.55920 2.79680 4.03062 3.82463 4.39755 3.84564 3.72608 3.49450 3.65318 3.23842 3.94562 0.84031 6 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02890 3.95400 4.67635 0.61958 0.77255 0.51308 0.91292\n- 7 2.76846 4.53554 3.45890 3.36881 4.50909 0.61370 4.48386 4.12877 3.56115 3.77262 4.74922 3.6232'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 119 2.92932 5.46474 1.75611 1.29583 4.75434 3.22221 3.75706 4.26224 2.75756 3.77720 4.63240 2.69301 3.83726 2.92405 3.33711 2.82056 3.21619 3.84579 5.92934 4.44267 135 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 120 2.61276 4.64185 3.01283 2.53491 2.96794 3.42487 3.33703 3.26734 2.51989 2.90054 3.76105 2.13487 3.84480 2.88410 2.84825 2.54888 2.85456 2.98276 5.04009 3.65369 136 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 121 2.46808 4.29117 3.42136 2.91419 3.52955 3.34103 3.89829 2.58334 2.85968 2.68097 3.60285 3.27112 3.85810 3.18928 3.21276 2.15287 1.94463 2.60723 5.09210 3.83929 137 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 122 2.71716 5.06986 2.02631 1.75485 4.35169 3.29905 3.66740 3.74191 2.53434 3.35249 4.18078 2.79721 3.80452 2.81690 3.04074 2.68757 2.97409 2.73204 5.57595 4.17386 138 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 123 2.60570 4.78572 2.83988 2.15627 4.06913 3.35762 3.64193 3.48400 2.43904 2.83242 3.91577 2.91993 2.83268 2.72784 2.87980 2.19721 2.85440 3.15631 5.33050 3.99812 139 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 124 2.76159 5.10000 2.47756 1.86003 4.43676 2.15356 3.68569 3.89145 2.50158 3.43635 4.26396 2.80922 3.82156 2.36848 2.95718 2.72760 3.02682 3.51452 5.61802 4.23237 140 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 125 1.84436 4.34196 3.02833 2.70859 4.26399 1.54403 4.04625 3.62693 2.98448 3.33512 4.18903 3.14042 3.73496 3.28776 3.34784 2.50583 2.80352 3.16746 5.58767 4.33260 141 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 3.97295 4.69529 0.61958 0.77255 0.49447 0.94134\n- 126 2.80422 5.14683 2.34878 1.90071 4.49498 3.24214 3.72361 3.97742 2.59216 3.53526 4.38439 1.62970 3.82277 2.89365 3.05940 2.67675 3.09238 3.59034 5.69815 4.28248 142 n - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29350 2.67739 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.03009 3.51841 * 0.62605 0.76508 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SEFIR__bSEFIR.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SEFIR__bSEFIR.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1259 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME SEFIR__bSEFIR\n-LENG 412\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 20:48:53 2022\n-NSEQ 545\n-EFFN 10.174675\n-CKSUM 1609527019\n-GA 170 170;\n-STATS LOCAL MSV -11.3837 0.69907\n-STATS LOCAL VITERBI -12.7777 0.69907\n-STATS LOCAL FORWARD -5.0843 0.69907\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65148 4.56436 2.83371 2.57051 3.24990 2.90610 3.75945 2.82372 2.57290 2.52008 3.77466 3.00483 3.24756 3.11050 2.92954 2.55826 2.87945 2.77668 4.55431 3.34962\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 3.41280 4.13515 0.61958 0.77255 0.00000 *\n- 1 2.48639 4.15373 3.20053 2.99664 3.13878 3.03447 3.85933 2.51120 2.83860 2.18740 3.23192 3.27148 3.66500 3.31504 3.04454 2.71208 2.88646 2.37177 4.69857 3.36961 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 3.41280 4.13515 0.61958 0.77255 0.48576 0.95510\n- 2 2.47161 4.02621 2.94361 2.80999 3.27651 2.74845 3.72006 2.86042 2.71956 2.48213 3.71372 3.12439 3.39471 3.20304 2.64167 2.66944 2.87841 2.65980 4.55566 3.43179 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 3.41280 4.13515 0.61958 0.77255 0.48576 0.95510\n- 3 2.36990 4.05270 2.95086 2.82696 3.28367 2.80723 3.78434 2.79173 2.80134 2.52793 3.73499 3.11252 3.48110 3.24625 3.00458 2.42667 2.80306 2.56674 4.68295 3.42387 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 3.41280 4.13515 0.61958 0.77255 0.48576 0.95510\n- 4 2.36990 4.05270 2.95086 2.82696 3.28367 2.80723 3.78434 2.79173 2.80134 2.52793 3.73499 3.11252 3.48110 3.24625 3.00458 2.42667 2.80306 2.56674 4.68295 3.42387 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 3.41280 4.13515 0.61958 0.77255 0.48576 0.95510\n- 5 2.47161 4.02621 2.94361 2.80999 3.27651 2.74845 3.72006 2.86042 2.71956 2.48213 3.71372 3.12439 3.39471 3.20304 2.64167 2.66944 2.87841 2.65980 4.55566 3.43179 5 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 3.41280 4.13515 0.61958 0.77255 0.48576 0.95510\n- 6 2.35423 3.38534 3.26759 3.07736 3.25582 2.76704 3.85799 2.60912 2.93354 2.36304 3.60417 3.27815 3.43088 3.37367 3.08631 2.59758 2.78968 2.41094 4.61335 3.48037 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05019 3.41280 4.13515 0.61958 0.77255 0.48576 0.95510\n- 7 2.47767 4.12144 3.15523 2.98005 3.14411 2.97659 3.85066 2.41264 2.86666 2.23019 3.51733 3.25579'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 405 2.11843 4.07210 3.01786 2.87904 3.41566 2.86232 3.87977 2.69437 2.85763 2.46152 3.68134 3.15505 3.54119 3.29154 3.07321 2.56010 2.79093 2.48311 4.85465 3.63087 1732 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 406 2.69033 4.20071 3.35273 3.04819 2.68702 3.10836 3.61058 2.77362 2.78742 2.22937 3.47650 3.32700 3.65929 3.25974 2.97177 2.89586 3.01458 2.65835 3.12217 2.76946 1733 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 407 2.35072 4.09305 3.03434 2.88024 3.42438 2.89592 3.88286 2.67991 2.82690 2.45218 3.66705 3.15551 3.57259 3.27637 3.04882 2.55518 2.47545 2.47017 4.89347 3.64190 1734 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 408 2.60012 4.18732 3.32161 3.10050 2.51106 3.12999 3.82065 2.47403 3.03088 2.09105 3.40255 3.37168 3.72653 3.41353 3.23633 2.84090 2.97546 2.36590 4.45854 3.04140 1735 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 409 2.36183 3.95197 2.87544 2.77376 3.50167 2.15452 3.75691 3.06546 2.81270 2.77932 3.91427 3.07519 3.31665 3.23012 2.99129 2.55407 2.80025 2.77169 4.64151 3.62849 1736 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 410 2.50597 4.20744 2.82996 2.67095 3.47318 2.90525 3.71140 2.92729 2.25666 2.63881 3.79305 3.03932 3.53604 3.08237 2.78635 2.66541 2.88546 2.70238 4.78922 3.58811 1737 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 411 2.30195 4.08771 2.92773 2.79018 3.39694 2.84087 3.80671 2.89248 2.77541 2.66992 3.80836 3.07111 3.53087 3.21540 3.00816 2.25256 2.74409 2.62420 4.83535 3.50968 1738 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04935 3.42919 4.15153 0.61958 0.77255 0.48576 0.95510\n- 412 2.38087 4.14173 2.80125 2.67472 3.38579 2.83555 3.72212 3.02925 2.68198 2.78580 3.88988 2.59583 3.50534 3.13354 2.92081 2.53979 2.80075 2.74634 4.75497 3.44656 1739 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03349 3.41332 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SanaTA__SanaA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SanaTA__SanaA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,425 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SanaTA__SanaA\n-LENG 134\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Sep 12 15:06:01 2022\n-NSEQ 19\n-EFFN 1.294189\n-CKSUM 854205163\n-GA 20 20;\n-STATS LOCAL MSV -9.6343 0.71138\n-STATS LOCAL VITERBI -10.6383 0.71138\n-STATS LOCAL FORWARD -4.0944 0.71138\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57652 4.63389 3.11510 2.73548 3.47816 2.80686 3.89184 2.73169 2.53585 2.44426 3.49833 3.16180 3.46194 2.96352 2.66082 2.67142 2.82358 2.59997 5.17251 3.56625\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.32111 4.33855 1.34093 0.61958 0.77255 0.00000 *\n- 1 3.11190 4.63537 4.23741 3.84698 3.29389 3.96406 4.54256 2.48710 3.60472 1.86549 1.08391 4.10235 4.42837 3.97691 3.78928 3.47744 3.42203 2.51244 5.15571 3.93106 1 m - - -\n- 2.68637 4.42213 2.77545 2.73142 3.46379 2.40538 3.72461 3.29367 2.67683 2.69366 4.24648 2.90346 2.73750 3.18171 2.89758 2.37861 2.77515 2.98517 4.58502 3.61512\n- 0.59787 0.97238 2.63333 1.35237 0.29925 0.80166 0.59527\n- 2 2.56314 4.23677 3.51830 2.95601 2.89254 3.55265 3.79745 2.71621 2.89653 2.25657 3.34299 3.33045 3.32272 3.19079 3.22487 2.39688 2.79888 2.41274 4.74803 2.88121 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02820 3.97841 4.70076 0.61958 0.77255 0.74472 0.64410\n- 3 2.75226 5.07423 2.99075 2.45645 4.42646 3.46859 3.59413 3.84614 1.99852 3.34410 4.14438 2.53310 3.86545 2.37227 1.99481 2.48325 2.96652 3.47660 5.47258 4.16132 16 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02639 4.04383 4.76618 0.61958 0.77255 0.38187 1.14754\n- 4 2.65975 4.41138 3.45850 2.67397 3.55226 3.61216 3.86810 2.88544 2.84525 2.14419 2.08778 2.85343 3.99948 3.17808 3.19862 2.86673 2.65099 2.66345 4.99385 3.75478 17 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02030 4.30320 5.02554 0.61958 0.77255 0.53508 0.88097\n- 5 2.38679 4.50099 3.34892 2.85874 3.98554 3.36831 3.94665 3.02640 2.84321 3.04120 3.89525 2.83368 3.90511 3.17638 3.23738 2.25930 1.50319 3.01810 5.34668 4.08148 18 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02030 4.30320 5.02554 0.61958 0.77255 0.53508 0.88097\n- 6 2.28861 4.14988 4.29930 3.71120 2.74014 3.85685 4.17639 2.12453 3.57759 1.81599 2.84812 3.88096 4.21292 3.77577 3.72328 3.15378 2.35315 2.11947 4.79141 3.61099 19 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02030 4.30320 5.02554 0.61958 0.77255 0.53508 0.88097\n- 7 2.58915 4.87016 3.17868 2.59381 4.12115 3.54711 3.69864 3.51378 1.83658 2.59693 3.94506 3.08796 3.9282'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01959 4.33855 5.06090 0.61958 0.77255 0.48576 0.95510\n- 127 2.74158 5.14919 2.83730 2.40192 4.49651 2.45260 3.69717 3.95729 2.01825 3.46950 4.24429 2.20360 3.88314 2.63385 2.90191 2.24290 2.98339 3.55317 5.62612 4.24128 149 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01959 4.33855 5.06090 0.61958 0.77255 0.48576 0.95510\n- 128 2.79845 5.00429 3.18711 2.60565 4.27962 3.57463 3.70239 3.70693 2.05799 3.26402 4.08391 3.09901 3.95947 2.84475 1.76362 2.17254 3.01560 3.37643 5.43679 3.03246 150 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01959 4.33855 5.06090 0.61958 0.77255 0.48576 0.95510\n- 129 2.67718 4.70634 3.20802 2.64297 3.92508 3.53664 3.74891 3.30133 1.96538 2.78227 3.80438 3.12831 3.92844 2.93981 2.78382 2.56528 2.25365 2.37911 5.24439 3.95544 151 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01959 4.33855 5.06090 0.61958 0.77255 0.48576 0.95510\n- 130 3.33423 4.61545 5.18583 4.61954 3.33802 4.67545 5.05356 1.61814 4.48982 1.21279 2.40103 4.77989 4.88014 4.56519 4.55315 4.02955 3.56213 1.66840 5.34995 4.27457 152 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01959 4.33855 5.06090 0.61958 0.77255 0.48576 0.95510\n- 131 2.69161 5.07492 2.97895 2.18422 4.38448 3.47037 3.35669 3.18985 2.22277 3.35612 4.12925 2.25652 3.86251 2.76162 2.19726 2.67649 2.75976 3.44725 5.52080 4.15310 153 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01959 4.33855 5.06090 0.61958 0.77255 0.48576 0.95510\n- 132 2.31054 4.22922 3.79225 3.22298 2.27695 3.34608 3.95997 2.70395 3.14712 2.29082 3.34636 3.54042 3.58754 3.41420 3.42396 2.66691 2.87940 2.49641 4.80575 2.49735 154 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14537 4.33855 2.10178 0.61958 0.77255 0.48576 0.95510\n- 133 2.57072 5.12601 2.59795 1.28465 4.54333 3.35797 3.80537 3.97615 2.65376 3.54346 4.36858 2.91592 2.70175 2.95849 3.13360 2.78389 3.08928 3.58290 5.73908 4.34743 155 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02218 4.21537 4.93772 0.61958 0.77255 0.64163 0.74747\n- 134 2.67251 5.05899 2.89118 2.38113 4.37465 2.91974 2.88540 3.82645 2.20237 3.34901 4.12431 2.28530 3.83374 2.74495 2.59003 2.29147 2.90421 3.43798 5.51343 4.14103 156 k - - -\n- 2.68580 4.42258 2.77510 2.73156 3.46387 2.40522 3.72528 3.29349 2.67759 2.69388 4.24723 2.90313 2.73739 3.18179 2.89728 2.37901 2.77512 2.98517 4.58510 3.61406\n- 0.54112 0.87250 * 1.38174 0.28921 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SanaTA__SanaT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SanaTA__SanaT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,965 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SanaTA__SanaT\n-LENG 314\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Aug 23 12:05:47 2022\n-NSEQ 20\n-EFFN 1.528320\n-CKSUM 3890912051\n-GA 20 20;\n-STATS LOCAL MSV -11.0777 0.70092\n-STATS LOCAL VITERBI -11.9449 0.70092\n-STATS LOCAL FORWARD -5.5320 0.70092\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50408 4.46620 2.86211 2.59008 3.27093 3.20831 3.63053 2.78761 2.63025 2.37141 3.58264 3.14756 3.56370 3.02074 2.83732 2.68953 2.85735 2.60956 4.96145 3.49413\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07206 4.44287 2.85136 0.61958 0.77255 0.00000 *\n- 1 3.47535 4.95566 4.66614 4.33125 3.56274 4.26105 4.94688 2.79779 4.06630 2.10290 0.64570 4.53541 4.74987 4.42569 4.20387 3.86353 3.80463 2.85964 5.45164 4.24978 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06194 4.38941 3.04372 0.61958 0.77255 0.56650 0.83819\n- 2 2.68533 5.16776 2.57632 2.28185 4.50226 3.43689 3.63840 3.97925 1.90091 3.46641 4.21496 2.67107 3.20488 2.74167 2.54545 2.20475 2.91749 3.55349 5.60419 4.20092 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34689 5.06924 0.61958 0.77255 0.62364 0.76785\n- 3 2.56546 5.09642 2.40274 2.19845 4.41195 3.44030 3.63509 3.87659 2.12869 3.38884 4.14685 2.92067 3.83664 2.74309 2.56723 2.43184 2.52051 2.97073 5.54760 4.15603 3 k - - -\n- 2.68625 4.42233 2.77527 2.73131 3.46361 2.40520 3.72502 3.29361 2.67748 2.69317 4.24697 2.90326 2.73723 3.18117 2.89808 2.37894 2.77527 2.98526 4.58484 3.61511\n- 0.09511 2.47170 5.06924 1.22993 0.34575 0.62364 0.76785\n- 4 2.74278 4.34312 3.81990 3.25174 3.41879 3.76698 4.03783 2.15935 2.64155 1.50633 3.37496 3.59311 3.23756 3.43482 3.37179 3.04364 2.97584 2.48826 4.94786 3.74121 9 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34689 5.06924 0.61958 0.77255 0.62364 0.76785\n- 5 2.42006 5.04631 3.04761 2.49639 4.37676 3.50062 3.68141 3.80744 1.79380 3.34355 4.13365 2.68230 3.90085 2.80538 2.47359 2.72908 2.14780 3.43725 5.51411 4.17350 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34689 5.06924 0.61958 0.77255 0.62364 0.76785\n- 6 2.66371 5.05269 2.66169 2.39606 4.35143 3.44661 3.64718 3.80552 2.30447 3.33862 4.10891 2.93568 3.17325 2.26083 2.88819 2.21349 2.48712 3.41891 5.51575 3.37863 11 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01942 4.34689 5.06924 0.61958 0.77255 0.62364 0.76785\n- 7 2.41469 5.08919 2.34343 2.17153 4.38637 3.44348 3.66723 3.84186 2.43941 2.59562 4.14845 2.92988 3.857'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35675 5.07909 0.61958 0.77255 0.57744 0.82402\n- 307 1.45727 3.45339 4.08073 3.52350 3.46542 3.74799 4.21112 2.18073 3.42647 2.20817 3.43027 3.76578 4.18316 3.68389 3.66652 3.06339 2.73818 2.28010 5.00704 3.80625 342 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35675 5.07909 0.61958 0.77255 0.57744 0.82402\n- 308 2.25726 5.10012 2.58416 2.20986 4.40843 3.44296 3.15995 3.87103 2.40667 2.93660 4.15252 2.28543 3.84599 2.64673 2.89452 2.65287 2.69502 3.47123 5.55450 4.16335 343 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35675 5.07909 0.61958 0.77255 0.57744 0.82402\n- 309 2.23594 5.05224 2.78617 2.40106 4.35246 3.45115 3.64479 3.80631 2.21547 2.89435 4.10676 2.67047 3.84505 2.58505 2.62844 2.26213 2.72621 3.41891 5.51321 4.13336 344 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35675 5.07909 0.61958 0.77255 0.57744 0.82402\n- 310 2.60388 4.40398 4.81547 4.24159 3.37121 4.31607 4.68608 1.83529 4.10632 1.37347 2.67937 4.39030 4.61250 4.26453 4.21473 3.64305 3.29402 1.61765 5.16285 4.01847 345 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35675 5.07909 0.61958 0.77255 0.57744 0.82402\n- 311 2.65507 4.14491 4.06405 2.90658 2.97884 3.15425 4.04323 1.99714 3.36531 1.76931 3.24780 3.70821 4.11783 3.59524 3.56195 3.03238 2.88703 2.38791 3.50394 3.54422 346 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35675 5.07909 0.61958 0.77255 0.57744 0.82402\n- 312 2.68566 5.16163 2.73259 1.96601 4.49512 2.97946 3.63856 3.96975 2.07934 3.11109 4.20809 2.57211 3.84486 2.74184 2.35373 2.65162 2.91683 3.54661 5.59718 4.19740 347 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35675 5.07909 0.61958 0.77255 0.57744 0.82402\n- 313 2.30103 4.75438 3.14199 2.58574 3.96685 3.52003 3.18009 3.36891 2.23009 3.00241 3.83875 2.83660 3.91032 2.90703 2.97037 2.73771 2.17347 3.07521 3.18753 3.96801 348 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15386 4.35675 2.04188 0.61958 0.77255 0.57744 0.82402\n- 314 2.67134 4.41803 2.92183 2.91874 3.53959 3.62969 3.87945 1.96215 2.84441 2.05732 3.48671 3.34014 4.01153 3.18331 2.71675 2.88395 2.90414 2.57804 5.00630 3.76318 349 i - - -\n- 2.68627 4.42274 2.77569 2.73153 3.46403 2.40516 3.72544 3.29233 2.67666 2.69353 4.24739 2.90348 2.73697 3.18134 2.89811 2.37921 2.77502 2.98490 4.58526 3.61552\n- 0.45886 0.99969 * 1.84660 0.17170 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1328 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Septu__PtuA\n-LENG 435\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 7 15:31:23 2021\n-NSEQ 83\n-EFFN 7.464630\n-CKSUM 1868000025\n-GA 75 75;\n-STATS LOCAL MSV -11.7097 0.69876\n-STATS LOCAL VITERBI -12.7371 0.69876\n-STATS LOCAL FORWARD -4.9471 0.69876\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60272 4.65097 2.87040 2.58995 3.36373 2.86561 3.67000 2.88431 2.67105 2.40913 3.79955 2.98770 3.22690 3.01763 2.85242 2.53491 2.83400 2.80648 4.61716 3.67894\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00919 5.08974 5.81209 0.61958 0.77255 0.00000 *\n- 1 4.52521 5.91871 5.71183 5.54780 4.52774 5.02699 6.02561 3.89279 5.29796 3.06160 0.18401 5.65446 5.59728 5.62710 5.32680 4.91464 4.91467 4.01823 6.36360 5.23703 1 M - - -\n- 2.68809 4.42551 2.77326 2.72540 3.44832 2.41544 3.73424 3.27824 2.68151 2.68349 4.24775 2.90329 2.74588 3.18031 2.88842 2.38453 2.78420 2.98499 4.58081 3.60155\n- 1.28835 0.50135 2.13233 4.38902 0.01249 0.48576 0.95510\n- 2 2.93830 4.66557 3.65907 4.02893 2.45121 3.23384 4.57908 2.76526 3.91372 2.53669 1.16728 4.24803 3.55216 3.72939 3.19589 3.56239 3.17304 2.46698 5.27597 4.08278 591 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11648 5.50736 2.24528 0.61958 0.77255 0.79066 0.60431\n- 3 3.11355 5.39978 3.46503 2.50331 4.08235 3.92697 3.43058 3.51363 1.96892 3.32649 2.87817 3.08214 3.56508 3.07430 1.71888 2.95473 3.34481 3.27255 4.08603 2.72199 592 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00619 5.48323 6.20558 0.61958 0.77255 0.78807 0.60646\n- 4 3.35223 4.71331 5.31601 3.85787 2.69243 4.54470 4.88689 1.03084 4.50140 1.51700 3.38063 4.70478 4.89419 4.62885 4.51405 3.45345 3.58472 2.23969 5.36298 4.19363 593 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00590 5.53084 6.25319 0.61958 0.77255 0.96837 0.47755\n- 5 3.14119 5.65424 2.10267 2.15043 5.00035 3.91457 3.35539 4.48703 1.76710 3.42435 3.91293 2.63655 4.30807 2.69950 2.40893 2.60034 2.74446 3.64441 6.08628 4.67473 594 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00579 5.55070 6.27305 0.61958 0.77255 0.84825 0.55890\n- 6 3.14994 5.66242 3.04957 2.22790 5.00827 3.63190 3.07771 4.49479 2.07020 3.59468 4.70287 2.75485 3.76738 2.78695 2.22382 1.98594 2.39999 4.05348 4.53854 3.41423 595 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00570 5.56663 6.28897 0.61958 0.77255 0.70402 0.68239\n- 7 4.24412 5.49335 6.26721 5.69327 2.43188 5.61192 5.98511 1.34024 5.54081 0.80191 3.91328 5.78601 5.7835'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01785 4.43045 5.15280 0.61958 0.77255 0.58276 0.81725\n- 428 2.38907 4.90995 2.81655 2.30490 4.15600 3.50561 3.70808 2.90513 2.50102 2.64002 3.97835 2.63867 3.13993 2.85209 2.78049 2.50817 2.91233 3.24620 5.40694 3.48539 1671 e - - -\n- 2.68632 4.42253 2.77504 2.73137 3.46349 2.40502 3.72486 3.29382 2.67744 2.69348 4.24656 2.90342 2.73753 3.18153 2.89718 2.37887 2.77547 2.98529 4.58505 3.61531\n- 0.86783 0.98280 1.58048 1.11090 0.39938 0.67145 0.71533\n- 429 2.66225 4.57411 3.22396 2.52776 3.83313 1.74066 3.86977 3.12439 2.75400 2.38081 3.76070 3.21605 3.95742 3.10883 3.14122 2.80029 2.93313 2.61346 5.22791 3.95321 1677 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06927 4.26571 2.93963 0.61958 0.77255 0.94389 0.49284\n- 430 2.62631 4.94695 2.64434 2.24040 4.22368 3.42955 3.62225 3.66187 2.14654 2.73990 4.00699 2.93156 3.82087 2.43260 2.64957 2.62867 2.85675 3.03271 4.18714 4.05941 1678 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02211 4.21855 4.94089 0.61958 0.77255 0.98256 0.46897\n- 431 2.24271 5.01644 2.66132 2.22601 4.31973 3.39916 3.61213 3.77241 2.20501 3.30624 4.08019 2.89110 3.80622 2.73020 2.63852 2.19860 2.67325 3.38672 5.48380 4.10410 1679 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02320 4.17096 4.89331 0.61958 0.77255 0.67777 0.70876\n- 432 2.63701 4.73210 2.66800 2.12869 3.93561 3.29210 3.62884 3.33533 2.41231 2.61605 3.89204 2.41415 3.78318 2.82538 2.79749 2.68016 2.89575 3.04554 5.24650 3.90295 1680 e - - -\n- 2.68580 4.42255 2.77507 2.73070 3.46356 2.40542 3.72524 3.29311 2.67757 2.69345 4.24719 2.90344 2.73769 3.18176 2.89797 2.37887 2.77549 2.98476 4.58507 3.61533\n- 0.21858 1.69004 4.43728 2.27222 0.10879 0.44523 1.02353\n- 433 2.22705 4.18322 3.04050 2.87729 4.22991 1.46866 4.08104 3.70578 3.05515 3.39551 4.24903 3.12912 3.62874 3.35684 3.37493 2.06882 2.71033 3.16922 5.55525 4.30466 1702 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03293 3.82564 4.54799 0.61958 0.77255 0.50961 0.91812\n- 434 2.57271 4.34805 3.26858 2.81720 3.11179 2.86046 3.68715 2.83153 2.71263 2.25514 3.50139 3.20054 3.87528 3.09283 3.03396 2.75270 2.84284 2.61811 4.64226 2.71475 1703 l - - -\n- 2.68620 4.42227 2.77507 2.73125 3.46355 2.40514 3.72496 3.29356 2.67742 2.69356 4.24691 2.90348 2.73741 3.18148 2.89786 2.37888 2.77521 2.98520 4.58478 3.61505\n- 0.12482 2.25328 4.39921 0.64677 0.74178 0.44820 1.01826\n- 435 2.63622 4.22732 3.84777 3.33836 2.75744 3.64418 4.12194 2.19982 3.25059 2.10695 3.26523 3.62791 4.09176 3.54146 3.52811 2.98193 2.52245 1.73588 4.93675 3.65815 1706 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02383 3.74875 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuA_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuA_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1604 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Septu__PtuA_2\n-LENG 527\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jan 13 14:51:35 2022\n-NSEQ 30\n-EFFN 2.772217\n-CKSUM 1041496242\n-GA 80 80;\n-STATS LOCAL MSV -11.8189 0.69778\n-STATS LOCAL VITERBI -12.8616 0.69778\n-STATS LOCAL FORWARD -6.2098 0.69778\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66068 4.58793 2.90621 2.55382 3.19972 3.00370 3.62243 2.81269 2.60782 2.43082 3.74357 2.94703 3.43551 3.07765 2.95844 2.53023 2.82208 2.77583 4.75814 3.43208\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12837 4.11676 2.26165 0.61958 0.77255 0.00000 *\n- 1 3.08681 4.61419 4.20548 3.81180 3.27762 3.94207 4.51390 2.46782 3.57140 1.85258 1.12821 4.07100 4.40528 3.94494 3.75951 3.44990 3.39588 2.49009 5.13631 3.90966 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.19335 4.01555 1.84659 0.61958 0.77255 0.51249 0.91380\n- 2 2.56289 4.18370 3.61282 3.04428 2.90760 3.58436 3.85492 2.15338 2.68221 2.31256 2.96236 3.39748 3.96059 3.25418 3.25451 2.62494 2.79685 2.36364 4.77861 3.55176 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03024 3.90950 4.63185 0.61958 0.77255 0.68316 0.70323\n- 3 2.49322 4.59040 2.78846 2.50120 4.20617 3.15819 3.78746 3.62483 2.62714 3.25879 4.09752 1.83738 3.00104 2.97522 3.03898 2.56832 2.46025 3.22202 5.47982 4.15756 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09940 3.90950 2.59606 0.61958 0.77255 0.68316 0.70323\n- 4 2.58798 4.57950 3.09027 2.59478 3.86144 3.38389 3.67273 2.77226 1.96432 2.87953 3.76250 3.04915 3.82892 2.87271 2.73102 2.28316 2.84566 2.90134 5.17403 3.89224 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03237 3.84248 4.56482 0.61958 0.77255 0.63749 0.75209\n- 5 2.55605 4.60814 3.04437 2.52463 3.88950 3.37403 3.65303 3.27597 2.17784 2.91744 3.22002 3.00355 2.90268 2.83884 2.83052 2.30315 2.80836 2.97657 5.19290 3.89913 5 k - - -\n- 2.68673 4.42312 2.77462 2.73073 3.46107 2.40605 3.72558 3.29003 2.67768 2.69287 4.24684 2.90222 2.73815 3.18168 2.89847 2.37946 2.77591 2.98632 4.58406 3.61469\n- 0.55737 1.02301 2.69158 3.28931 0.03799 0.68333 0.70306\n- 6 3.01326 4.43873 4.30252 3.91767 3.35900 4.04130 4.65024 1.10681 3.74534 1.95005 3.29826 4.16625 4.47496 4.09616 3.94456 3.53461 3.31294 1.84603 5.24489 3.98102 63 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03214 3.84950 4.57185 0.61958 0.77255 0.72747 0.65997\n- 7 2.78056 5.05668 2.34797 1.97800 4.38762 3.21158 3.70838 3.87837 2.56295 3.46254 4.33441 1.65009 3.79'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01229 4.80099 5.52334 0.61958 0.77255 0.54519 0.86686\n- 520 2.59014 5.30457 2.41397 2.22904 4.64585 3.23902 3.50199 3.28728 1.94586 3.60808 4.34649 2.11868 3.96910 2.86144 2.69927 2.64826 3.03359 3.69322 5.73918 4.33020 1061 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01229 4.80099 5.52334 0.61958 0.77255 0.54519 0.86686\n- 521 2.63705 5.25759 2.57532 2.51161 4.58174 3.24404 3.76941 3.62597 2.13415 3.11172 3.80438 2.60665 3.97311 2.57849 2.26015 2.48230 3.02944 3.63695 5.70294 3.04707 1062 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03601 4.80099 3.60645 0.61958 0.77255 0.54519 0.86686\n- 522 2.53221 5.27686 2.24875 1.99934 4.61703 3.21966 3.34146 4.10030 2.26103 2.92917 4.31921 2.52264 3.94118 2.60933 2.96822 2.73884 2.66047 3.66494 5.71203 4.30278 1063 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01336 4.71812 5.44047 0.61958 0.77255 0.59438 0.80274\n- 523 2.62060 5.24020 2.53305 2.09284 4.57968 2.64476 3.70451 4.06195 2.24919 3.30098 4.28254 2.65718 3.90976 2.65510 2.68598 2.23774 2.97339 3.62788 5.67600 3.75183 1064 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07705 4.63151 2.74235 0.61958 0.77255 0.59438 0.80274\n- 524 2.71397 5.19247 2.66455 1.82337 4.52344 3.01213 3.67937 4.00012 2.23554 3.49160 3.31527 2.65633 3.88282 2.43100 2.91239 2.57539 2.94556 3.22301 5.63321 4.22989 1065 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07743 4.53134 2.75292 0.61958 0.77255 0.69373 0.69257\n- 525 2.37846 5.04052 2.81994 1.95052 4.32815 2.83401 3.67299 3.18633 2.06304 3.32089 4.09756 2.97079 3.87005 2.79252 2.91580 2.67440 2.91235 3.18506 5.50944 3.71870 1066 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01782 4.43230 5.15465 0.61958 0.77255 0.77427 0.61812\n- 526 2.67228 5.13415 2.59187 2.19326 4.45256 2.74555 3.62613 3.92528 2.28088 3.42832 4.18921 2.60134 3.81603 2.27033 2.88893 2.50521 2.51513 3.51184 5.58161 4.17671 1067 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02236 4.20760 4.92995 0.61958 0.77255 0.61514 0.77776\n- 527 2.49708 4.26696 3.44513 3.05290 3.50877 3.31599 4.00339 2.50326 2.88636 2.08947 3.50676 3.35727 3.88691 3.31451 3.16749 2.73211 2.08712 2.32453 5.10899 3.82118 1068 t - - -\n- 2.68591 4.42304 2.77541 2.73092 3.46375 2.40552 3.72350 3.28997 2.67663 2.69327 4.24769 2.90393 2.73763 3.18139 2.89880 2.37908 2.77599 2.98598 4.58556 3.61515\n- 0.21397 1.64701 * 3.19915 0.04165 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,665 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Septu__PtuB\n-LENG 214\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Apr 7 15:31:30 2021\n-NSEQ 100\n-EFFN 6.637573\n-CKSUM 1064432915\n-GA 50 50;\n-STATS LOCAL MSV -10.3130 0.70455\n-STATS LOCAL VITERBI -12.0062 0.70455\n-STATS LOCAL FORWARD -4.3065 0.70455\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58378 3.83201 2.85220 2.58935 3.42391 2.99345 3.52756 3.00653 2.56545 2.49793 3.80570 2.91734 3.20426 3.02349 2.79006 2.64463 2.89293 2.94253 4.50520 3.43597\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00586 5.53893 6.26127 0.61958 0.77255 0.00000 *\n- 1 5.32863 6.63733 6.40104 6.33614 5.37626 5.58253 6.77163 4.86177 6.17260 3.95818 0.07461 6.42457 6.19554 6.47414 6.12936 5.69748 5.75358 5.00624 7.06432 6.03662 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10363 5.53893 2.35907 0.61958 0.77255 0.48576 0.95510\n- 2 2.98053 4.98243 3.79895 3.23492 3.61230 4.04057 3.88296 1.77225 2.24493 3.05779 3.55769 3.41823 3.58689 3.52805 1.46503 3.07038 3.34803 3.27058 4.62432 4.28088 2 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00646 5.44176 6.16410 0.61958 0.77255 0.85566 0.55339\n- 3 2.63354 4.53700 3.24462 2.73363 3.07607 3.89736 3.00453 3.54559 1.99135 3.72212 3.99593 2.89118 2.47954 3.21350 2.06924 2.75044 2.99279 3.49973 4.74429 3.47936 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00637 5.45548 6.17783 0.61958 0.77255 0.85566 0.55339\n- 4 3.16053 4.54310 4.18585 4.46107 2.91505 3.83391 4.15738 1.33778 4.25735 1.97155 3.66181 4.02696 4.68862 4.39836 4.28382 3.63360 3.20574 1.45101 5.16445 3.60844 4 i - - -\n- 2.68630 4.42101 2.77495 2.73124 3.46366 2.40517 3.72507 3.29308 2.67742 2.69367 4.24702 2.90342 2.73741 3.18159 2.89784 2.37899 2.77532 2.98513 4.58489 3.61515\n- 0.19377 2.45395 2.40576 0.80179 0.59516 0.85566 0.55339\n- 5 2.72602 5.55025 2.20017 1.99349 4.89417 3.81651 3.57078 3.05398 2.30591 3.85504 4.59121 2.56987 4.20995 2.63180 2.64251 2.70980 2.61559 2.93639 5.98362 4.01318 11 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00699 5.36323 6.08558 0.61958 0.77255 1.09522 0.40717\n- 6 3.18014 5.79681 3.75334 3.12169 5.21062 4.13971 3.48154 4.62583 1.19853 3.37226 4.84651 3.61468 3.17685 2.88217 1.31757 3.38406 3.47018 4.22993 6.13007 4.83802 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01901 5.36323 4.25817 0.61958 0.77255 0.61776 0.77469\n- 7 2.48908 5.58315 2.81003 2.55073 4.22764 1.98269 3.54763 3.44928 2.62138 3.27220 4.62493 2.52159 2.8316'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07887 4.52520 2.73321 0.61958 0.77255 0.91047 0.51473\n- 207 2.68343 5.16229 2.77533 2.12526 4.49548 2.77985 3.64490 3.97173 1.97032 3.21103 4.20724 2.92645 3.52910 2.62172 2.57184 2.32605 2.91457 3.54678 5.60068 4.19882 773 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01817 4.41304 5.13539 0.61958 0.77255 0.97675 0.47246\n- 208 2.39954 4.60149 3.23631 2.54153 3.78072 3.54263 3.76679 2.65079 2.65280 2.83283 3.69102 3.15443 3.46213 2.66043 2.87063 2.62668 2.47263 2.72770 5.14880 2.93795 774 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01947 4.34425 5.06659 0.61958 0.77255 0.97675 0.47246\n- 209 2.29235 4.97893 2.77718 2.39174 4.27096 2.78878 3.62702 3.71590 2.18139 3.01035 4.04363 2.92619 3.43581 2.74832 2.55552 2.47987 2.73881 3.34271 5.45522 4.08543 775 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06249 4.24663 3.07338 0.61958 0.77255 0.89546 0.52496\n- 210 2.42591 4.71407 2.98078 2.43812 3.49804 3.09448 3.61401 3.36403 2.28117 2.98008 3.80393 2.94789 3.37186 2.62841 2.70663 2.37316 2.80064 3.05181 5.23574 3.91493 776 k - - -\n- 2.68596 4.42201 2.77518 2.73114 3.46377 2.40536 3.72517 3.29377 2.67735 2.69355 4.24713 2.90321 2.73741 3.18132 2.89778 2.37895 2.77531 2.98513 4.58500 3.61499\n- 0.52393 0.91974 4.68989 1.29084 0.32164 0.63080 0.75964\n- 211 2.31480 5.07783 2.51091 2.14739 4.39437 3.12674 3.28712 3.86150 2.36098 3.37180 4.13113 2.87380 3.17781 2.71430 2.52568 2.46568 2.86994 3.45409 5.52978 4.13390 783 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06337 4.19330 3.07236 0.61958 0.77255 0.58336 0.81649\n- 212 2.66050 4.74698 2.99698 2.51083 3.97936 3.37887 3.00811 3.47645 2.16364 3.04927 3.90805 2.97499 3.17212 2.75116 2.05751 2.70626 2.89654 3.16554 5.19368 3.88851 784 r - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67743 2.69345 4.24692 2.90349 2.73742 3.18149 2.89803 2.37880 2.77522 2.98504 4.58479 3.61505\n- 0.19674 1.79005 4.45282 0.51653 0.90779 0.57326 0.82939\n- 213 2.52238 4.32861 4.16074 3.61967 3.32088 3.98361 4.39656 1.87246 3.50361 1.53558 3.17520 3.92487 4.33962 3.78771 3.75922 3.30829 3.10735 1.76727 5.12806 3.94298 792 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03204 3.85265 4.57500 0.61958 0.77255 0.39832 1.11307\n- 214 2.64830 4.41156 2.96952 2.84043 3.51724 3.57744 3.84537 1.85851 2.80210 2.32065 3.46977 3.27448 3.97321 2.83612 3.16346 2.85219 2.88535 2.51512 5.00005 3.74188 793 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01814 4.01888 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuB_2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Septu__PtuB_2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,848 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Septu__PtuB_2\n-LENG 275\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Jan 13 14:51:42 2022\n-NSEQ 30\n-EFFN 5.174561\n-CKSUM 4279710416\n-GA 90 90;\n-STATS LOCAL MSV -11.1502 0.70202\n-STATS LOCAL VITERBI -12.3975 0.70202\n-STATS LOCAL FORWARD -4.9113 0.70202\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.73228 3.81034 2.90908 2.58798 3.22696 3.11314 3.60858 2.83764 2.44611 2.54537 3.76754 2.77718 3.29966 3.08148 3.02075 2.60300 2.87076 2.95292 4.81138 3.21095\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00690 5.37610 6.09845 0.61958 0.77255 0.00000 *\n- 1 5.03220 6.37608 6.15490 6.05759 5.05523 5.37880 6.50384 4.49382 5.85700 3.61460 0.10386 6.14722 5.97855 6.16861 5.83989 5.40894 5.44564 4.63435 6.80775 5.73841 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04114 5.37610 3.33327 0.61958 0.77255 0.48576 0.95510\n- 2 3.08462 4.55520 4.57035 3.98204 3.14475 4.19064 3.46021 1.75176 2.26608 1.92677 2.72334 2.66067 4.55983 4.07455 3.37576 3.47775 3.31664 2.56522 3.16362 3.97603 2 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00714 5.34210 6.06445 0.61958 0.77255 0.61443 0.77860\n- 3 3.03402 5.48180 3.03085 2.75211 3.10664 3.81778 3.41899 4.26982 1.35125 3.77612 4.52924 2.69901 3.14888 3.11268 2.60413 2.77628 2.91966 3.85874 3.91349 3.13120 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00714 5.34210 6.06445 0.61958 0.77255 0.61443 0.77860\n- 4 2.77331 4.49909 4.90078 4.29618 3.03388 4.25056 4.57574 1.38289 3.38357 1.49821 3.61386 4.35797 2.96183 4.27682 3.44704 3.55489 3.33074 2.32888 5.12018 3.94047 4 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.44432 5.34210 1.03859 0.61958 0.77255 0.61443 0.77860\n- 5 2.84357 5.33135 2.32599 1.64532 4.66661 3.61790 3.80784 3.35824 2.22300 3.00998 4.37483 2.73112 4.01260 2.39315 3.03795 2.80992 3.07489 3.26624 5.76961 4.36433 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01103 4.90881 5.63116 0.61958 0.77255 1.41527 0.27821\n- 6 2.84205 5.09027 2.54344 2.41083 3.27816 3.66331 3.86412 2.88542 2.65214 2.94060 4.15688 2.54515 3.30452 3.00405 2.58547 2.37379 2.70510 2.98579 5.58332 3.39091 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01103 4.90881 5.63116 0.61958 0.77255 1.41527 0.27821\n- 7 2.84011 5.25610 2.76958 2.22027 4.56356 3.62910 3.19119 3.32115 2.35083 3.54520 4.30687 3.11278 2.477'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04465 5.29584 3.25301 0.61958 0.77255 0.76095 0.62965\n- 268 2.99222 5.49000 1.91615 2.12356 4.82959 2.40945 3.95547 3.52082 2.02729 3.28874 3.63911 2.58894 4.16109 3.05362 3.18440 2.69240 2.88607 3.87770 5.92594 4.51821 656 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00776 5.25895 5.98129 0.61958 0.77255 0.86014 0.55009\n- 269 3.00335 5.13077 3.45188 2.44837 3.09578 3.85196 4.06104 2.24243 2.40810 3.05450 4.20739 2.26643 4.24060 2.60929 3.33703 2.75032 2.60617 3.45140 5.64760 2.47385 657 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00776 5.25895 5.98129 0.61958 0.77255 0.86014 0.55009\n- 270 3.02445 4.49406 4.51380 3.28676 2.69844 3.36073 4.43550 1.73080 2.56859 2.25417 3.60918 4.12238 4.50019 4.01658 3.04227 3.41841 3.25647 1.91996 5.10603 2.58755 658 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07050 5.23405 2.76869 0.61958 0.77255 0.86014 0.55009\n- 271 2.93135 5.42890 2.86393 2.24541 4.76849 3.20843 3.89473 3.02336 1.99417 3.73183 4.47100 2.54930 4.10047 2.69865 2.23395 2.56258 2.82423 3.24203 5.86485 3.15910 659 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04805 5.12914 3.19427 0.61958 0.77255 0.99765 0.46005\n- 272 2.87873 5.39104 2.16621 1.99628 4.73348 3.11757 3.83452 4.22009 2.18806 3.11548 4.43365 2.00399 4.03672 2.59486 3.07270 2.83855 2.79327 3.78051 5.82388 4.41034 660 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05194 4.94247 3.13562 0.61958 0.77255 1.06839 0.42092\n- 273 2.51739 3.47762 3.74286 3.17478 3.67198 3.81774 4.07774 2.34191 2.28291 1.84025 3.64181 3.00900 4.19850 3.42288 3.46577 2.17348 3.06493 2.80586 5.12216 3.89154 661 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01163 4.85554 5.57789 0.61958 0.77255 1.12617 0.39197\n- 274 2.45392 4.68585 3.38344 2.52918 3.14696 3.07949 3.89604 3.23816 2.48539 2.55356 3.77710 3.29369 3.24662 2.74813 3.21501 2.89159 2.99465 2.98007 3.44345 2.40635 662 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01367 4.69516 5.41750 0.61958 0.77255 0.46853 0.98329\n- 275 2.04783 4.35091 3.65044 3.08610 3.48322 3.67791 3.95901 2.39431 3.01505 1.93333 3.44644 3.46404 4.06272 2.78221 3.34094 2.93833 2.43575 2.55802 4.96089 3.73807 663 l - - -\n- 2.68725 4.42332 2.77530 2.73108 3.46269 2.40536 3.72601 3.29214 2.67687 2.69263 4.24226 2.90239 2.73817 3.18155 2.89774 2.37947 2.77565 2.98582 4.58371 3.61610\n- 0.58298 0.81697 * 2.30382 0.10522 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shango__SngA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shango__SngA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1607 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Shango__SngA\n-LENG 528\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:55 2021\n-NSEQ 1420\n-EFFN 11.833153\n-CKSUM 4163926603\n-GA 10 10;\n-STATS LOCAL MSV -11.6929 0.69777\n-STATS LOCAL VITERBI -13.7975 0.69777\n-STATS LOCAL FORWARD -5.3032 0.69777\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57646 4.66331 2.80377 2.52843 3.39277 2.74703 3.78003 3.03754 2.68271 2.48325 3.95126 3.02738 3.03368 3.08302 2.84304 2.54250 2.86392 2.91230 4.49425 3.42090\n- 2.69234 4.42869 2.78327 2.72792 3.45057 2.41046 3.73739 3.26724 2.67460 2.68540 4.23765 2.90534 2.74030 3.18223 2.90020 2.38049 2.78308 2.98565 4.56303 3.60893\n- 0.66046 1.40733 1.43301 4.02587 0.01801 0.00000 *\n- 1 3.24754 4.78559 5.35922 4.48222 3.09239 4.27621 4.77824 2.96115 4.21320 1.55911 0.94041 4.73504 4.94062 4.66630 4.45126 3.77609 3.52235 2.37238 5.40734 4.23124 297 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01814 5.83283 4.19643 0.61958 0.77255 1.52218 0.24620\n- 2 1.99018 5.81183 2.68166 2.15501 4.10217 2.93062 3.67612 3.92616 2.01959 3.44654 3.55013 2.72278 3.66400 3.23967 3.15925 2.39341 2.61348 4.04259 6.24477 4.53617 298 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00514 5.82590 6.12802 0.61958 0.77255 1.54870 0.23892\n- 3 2.29738 5.80819 2.84021 2.25021 4.35204 3.83400 3.86397 3.25306 2.07064 2.61865 4.32772 2.54044 3.78986 2.76665 2.38581 2.71181 2.91921 3.78755 4.48712 4.15255 299 k - - -\n- 2.68680 4.42243 2.77330 2.73207 3.46200 2.40392 3.72615 3.29463 2.67779 2.69259 4.24848 2.90466 2.73766 3.18302 2.89881 2.37823 2.77540 2.98498 4.58272 3.61531\n- 0.53860 0.90979 4.28105 1.41084 0.27963 0.85589 0.55322\n- 4 2.83599 5.86466 2.79362 2.76728 3.76204 3.84627 3.09064 4.08817 1.64272 3.19656 2.69913 2.71532 3.62289 3.07377 2.10902 2.62021 3.58497 3.74489 6.29902 3.93640 321 k - - -\n- 2.68393 4.42970 2.78203 2.73215 3.45469 2.40248 3.72769 3.27913 2.68264 2.68025 4.24882 2.90932 2.74054 3.18889 2.89486 2.38470 2.78154 2.97854 4.57819 3.61142\n- 1.92322 0.24708 2.62022 2.77952 0.06408 1.30320 0.31699\n- 5 2.75874 4.79224 3.49565 2.82357 3.42831 2.99909 4.32722 2.10001 3.22013 1.71232 3.20948 3.64999 4.62985 2.93953 3.72325 2.47662 2.70988 2.56272 4.89000 4.42932 413 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24545 5.85145 1.53820 0.61958 0.77255 1.53383 0.24297\n- 6 2.54455 4.80409 3.16477 2.74803 3.26885 4.04414 4.31678 2.41200 2.73284 1.81309 4.10142 3.11530 4.51422 3.58446 2.79554 2.43898 3.16444 2.28773 5.65199 3.68541 414 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01261 5.61331 4.72345 0.61958 0.77255 1.93800 0.15547\n- 7 2.46148 4.71327 4.73651 3.06325 1.96518 4.13255 4.65633 2.50359 3.13959 2.50665 3.66483 4.22'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00441 6.08891 6.15023 0.61958 0.77255 0.71989 0.66710\n- 521 3.01429 5.75841 1.90694 1.50515 4.84164 3.87377 3.72097 4.39795 2.61728 4.07043 4.72055 2.58844 2.64455 2.43182 3.65925 2.51556 3.06337 4.05174 6.41724 5.00554 4994 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01108 6.08788 4.73939 0.61958 0.77255 0.72671 0.66068\n- 522 2.76967 5.70782 2.10059 1.55742 5.16918 4.21287 4.39979 3.05600 2.33865 3.03586 2.70602 3.18345 4.51753 3.00572 3.01664 3.16564 3.29553 3.13275 4.35664 3.75875 4995 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02105 6.08021 3.98766 0.61958 0.77255 0.77575 0.61685\n- 523 3.43628 4.94727 4.94456 4.93396 3.40225 4.67520 4.18018 1.74216 4.71614 0.93043 2.70564 4.91152 5.02416 4.84488 4.71998 3.84578 3.80655 1.90137 4.99089 4.36679 4996 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00418 6.06262 6.29749 0.61958 0.77255 0.79319 0.60221\n- 524 2.30872 5.97005 2.71771 1.93634 5.08812 3.75682 4.00016 3.33463 1.88598 2.63557 4.07293 3.17296 3.70446 2.91787 2.16310 3.18560 2.85100 3.92276 6.40260 4.84692 4997 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01513 6.06829 4.36614 0.61958 0.77255 0.84372 0.56231\n- 525 2.35764 5.96395 3.09705 1.97017 4.81903 2.65364 3.84779 4.67213 2.23440 2.71201 4.80935 2.63740 3.90460 2.11623 2.72480 2.80056 3.10047 3.58004 6.39599 4.24584 4998 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23467 6.05241 1.57591 0.61958 0.77255 0.90866 0.51594\n- 526 2.97406 4.08904 5.13598 3.26132 3.66065 4.53711 4.53078 1.84771 2.78604 1.54463 2.46868 3.64785 4.39959 3.71116 4.11875 3.48080 3.39191 2.16688 3.15588 3.78171 4999 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09651 5.82215 2.41868 0.61958 0.77255 1.63947 0.21577\n- 527 3.12865 3.61473 3.56863 3.33792 3.15307 3.63413 4.62277 2.22089 2.06184 1.78173 3.03139 3.90113 4.55360 3.72222 3.06303 3.12819 2.49421 2.66744 4.60773 3.61654 5000 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09568 5.72993 2.43046 0.61958 0.77255 1.73249 0.19461\n- 528 2.03907 5.70440 2.92827 2.15888 5.04839 2.23603 4.11811 4.29208 2.41798 3.00742 3.32237 3.11267 3.89346 2.67524 2.31804 2.62323 3.37299 3.88729 6.13772 4.01724 5001 a - - -\n- 2.68516 4.42403 2.77589 2.72841 3.46543 2.40460 3.72492 3.29303 2.67808 2.69412 4.24589 2.90259 2.73852 3.18174 2.89729 2.37920 2.77587 2.98567 4.58668 3.61544\n- 1.27712 0.32689 * 1.35143 0.29958 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shango__SngB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shango__SngB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1340 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Shango__SngB\n-LENG 439\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:56 2021\n-NSEQ 1419\n-EFFN 1.561666\n-CKSUM 4286052643\n-GA 10 10;\n-STATS LOCAL MSV -11.5957 0.69870\n-STATS LOCAL VITERBI -12.2874 0.69870\n-STATS LOCAL FORWARD -5.8185 0.69870\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56406 4.60363 2.93354 2.64109 3.29651 2.85596 3.77817 2.80093 2.65309 2.33936 3.64653 3.04167 3.49470 3.06266 2.89319 2.64535 2.84365 2.67862 4.84143 3.45948\n- 2.68602 4.42227 2.77524 2.73124 3.46358 2.40517 3.72498 3.29355 2.67735 2.69360 4.24619 2.90346 2.73743 3.18153 2.89802 2.37887 2.77518 2.98520 4.58486 3.61515\n- 0.16421 2.67485 2.49473 1.60168 0.22509 0.00000 *\n- 1 2.64912 4.25906 3.86842 3.31188 3.41215 3.57476 4.04469 2.70448 3.16089 2.28528 1.48893 3.51493 4.06732 3.42615 3.42695 2.90088 2.90592 2.41864 4.90993 3.70123 25 m - - -\n- 2.68617 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69355 4.24690 2.90346 2.73740 3.18146 2.89801 2.37885 2.77520 2.98518 4.58477 3.61503\n- 0.22839 3.69703 1.71818 0.54850 0.86232 0.52222 0.89943\n- 2 2.52041 4.88028 2.94864 2.36669 4.13625 3.42904 3.63449 3.32275 2.29692 3.12690 3.59441 2.44564 3.63457 2.71554 2.87631 2.27635 2.54582 3.13581 5.37117 4.00262 27 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06472 4.22786 3.03472 0.61958 0.77255 0.42614 1.05850\n- 3 2.53616 5.08468 2.72448 2.20150 4.39510 3.32319 3.62030 3.72118 2.32602 3.35134 3.75544 2.81953 3.74380 2.31419 2.82317 2.16085 2.74150 3.17025 5.53870 4.14974 28 s - - -\n- 2.68618 4.42239 2.77542 2.73141 3.46286 2.40538 3.72506 3.29370 2.67754 2.69289 4.24717 2.90354 2.73747 3.18152 2.89819 2.37835 2.77517 2.98537 4.58505 3.61531\n- 0.49521 1.15264 2.59350 1.31934 0.31103 0.58888 0.80956\n- 4 2.59329 4.87921 2.99891 2.07397 4.12243 3.40189 3.65960 3.33074 2.34926 2.91393 3.59870 2.95545 3.41670 2.79147 2.68584 2.61768 2.32249 3.07672 5.34568 4.03090 46 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02261 4.31098 4.71774 0.61958 0.77255 0.39847 1.11275\n- 5 2.64222 5.12536 2.98378 2.43853 4.44602 3.47088 3.65295 3.80263 1.79054 3.40293 4.13120 2.81693 2.69630 2.71149 2.38914 2.55924 2.71878 3.50402 5.56918 4.19216 47 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01760 4.44436 5.16670 0.61958 0.77255 0.50040 0.93213\n- 6 3.21403 4.63739 5.28983 4.78800 3.80961 4.85860 5.45143 0.79112 4.68482 2.10338 3.56339 4.97179 5.10886 4.91107 4.84356 4.25659 3.64294 1.56686 5.84262 4.66449 48 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01756 4.44647 5.16882 0.61958 0.77255 0.50259 0.92877\n- 7 2.83689 5.22647 3.12610 2.55954 4.58929 3.58809 3.70831 4.02110 2.03281 3.50266 4.28588 2.971'..b'.68622 4.42235 2.77529 2.73132 3.46364 2.40522 3.72504 3.29278 2.67707 2.69365 4.24699 2.90356 2.73746 3.18155 2.89810 2.37896 2.77481 2.98528 4.58487 3.61513\n- 0.20872 1.90366 3.23504 0.98434 0.46790 0.51693 0.90721\n- 432 2.62845 5.23219 2.03642 1.76732 4.52654 2.91108 3.68526 4.02986 2.37183 3.44229 4.28397 2.87523 3.80179 2.75476 2.90266 2.53842 2.95011 3.58809 5.67275 4.24459 1077 e - - -\n- 2.68616 4.42227 2.77516 2.73124 3.46355 2.40513 3.72496 3.29356 2.67741 2.69356 4.24691 2.90348 2.73739 3.18145 2.89798 2.37887 2.77520 2.98517 4.58478 3.61505\n- 0.24209 3.19087 1.74938 0.72848 0.65902 0.56150 0.84480\n- 433 2.59431 4.41651 3.09094 2.63254 3.20841 3.39175 3.79445 2.47147 2.72654 2.44089 3.47200 3.16339 3.71263 2.94933 3.12714 2.72160 2.82956 2.67690 4.96360 2.69154 1083 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02590 4.22216 4.51892 0.61958 0.77255 0.40731 1.09494\n- 434 2.65718 4.14858 4.18533 3.64350 2.66353 3.80962 4.10095 2.52387 3.46362 1.33152 3.19896 3.70780 4.17534 3.71447 3.66027 3.00790 2.89875 2.30396 4.72813 3.10687 1084 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05856 4.41359 3.10632 0.61958 0.77255 0.55193 0.85764\n- 435 1.68324 4.70227 3.17487 2.60612 3.91948 3.49177 3.77752 3.32714 2.59466 2.94158 3.82851 2.42485 3.89953 2.96037 3.05210 2.61137 2.61410 2.93012 5.29637 3.99565 1085 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02176 4.37427 4.71817 0.61958 0.77255 0.43149 1.04851\n- 436 2.67577 5.17991 2.44656 1.77609 4.50261 3.42604 3.67924 3.86566 2.43960 3.47738 4.23292 2.79532 3.80820 2.74351 2.91173 2.37816 2.26641 3.48589 5.62879 4.22574 1086 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09332 4.44736 2.55893 0.61958 0.77255 0.49628 0.93851\n- 437 2.80734 4.26279 4.41379 3.84153 1.71363 4.02911 4.33582 1.89100 3.79147 1.76035 3.20467 4.08017 4.36690 3.96755 3.90728 3.33736 3.01849 2.22238 4.87124 3.65663 1087 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01888 4.37491 5.09726 0.61958 0.77255 0.43291 1.04589\n- 438 2.67161 5.16518 2.36310 2.08325 4.53578 3.45117 3.62905 3.99770 2.14929 3.48429 4.24017 2.34832 3.85992 2.71661 2.53505 2.53262 2.67442 3.54283 5.63159 4.22305 1088 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01751 4.44954 5.17189 0.61958 0.77255 0.49522 0.94017\n- 439 3.41176 4.70297 5.26325 4.68040 2.21133 4.69786 4.99966 1.68235 4.46235 1.00245 3.02689 4.81344 4.89123 4.55348 4.55259 4.04421 3.63108 2.26643 5.25220 4.16445 1089 l - - -\n- 2.68628 4.42247 2.77536 2.73068 3.46335 2.40520 3.72493 3.29269 2.67747 2.69362 4.24682 2.90361 2.73752 3.18158 2.89789 2.37894 2.77531 2.98529 4.58499 3.61509\n- 0.29444 1.36628 * 1.22123 0.34937 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shango__SngC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shango__SngC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2183 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Shango__SngC\n-LENG 720\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Dec 22 11:57:08 2021\n-NSEQ 1420\n-EFFN 2.927818\n-CKSUM 2713930461\n-GA 10 10;\n-STATS LOCAL MSV -12.2753 0.69654\n-STATS LOCAL VITERBI -13.2439 0.69654\n-STATS LOCAL FORWARD -6.2178 0.69654\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.51105 4.50584 2.94652 2.60326 3.37931 2.86917 3.68430 2.86511 2.67206 2.36753 3.73366 3.11700 3.30862 3.00081 2.86137 2.62185 2.82699 2.71769 4.61940 3.64790\n- 2.68563 4.42290 2.77490 2.73096 3.46163 2.40555 3.72553 3.29362 2.67801 2.69386 4.24383 2.90409 2.73774 3.18118 2.89824 2.37846 2.77574 2.98500 4.58350 3.61569\n- 0.42861 1.93202 1.59097 2.32311 0.10311 0.00000 *\n- 1 2.76897 4.31893 4.23486 3.65777 3.42452 3.89771 4.24073 2.67959 3.50904 2.10709 1.31805 3.86454 4.21087 3.77084 3.64905 3.09202 2.57405 2.38530 4.95841 3.76806 33 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01385 4.68233 5.40468 0.61958 0.77255 0.43649 1.03930\n- 2 2.72972 5.19126 2.55413 2.53557 4.34047 3.52207 3.80525 3.76304 2.34232 3.34539 2.94964 2.42251 3.92030 2.84783 3.03054 2.15612 2.22535 3.11152 5.65649 4.27938 34 s - - -\n- 2.68527 4.42283 2.77465 2.73244 3.46362 2.40638 3.72698 3.29475 2.67795 2.69280 4.24902 2.90476 2.73745 3.18245 2.89636 2.37739 2.77675 2.98484 4.57566 3.61166\n- 1.04912 0.92179 1.37853 2.69679 0.06980 0.59177 0.80597\n- 3 2.56911 4.97617 2.85948 2.46542 4.26917 3.46676 3.71966 3.59206 2.51138 3.22753 3.84962 2.98673 3.69917 2.84771 2.90567 1.45290 2.88157 3.31003 5.49331 4.09376 79 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06492 4.57252 2.94646 0.61958 0.77255 0.85392 0.55468\n- 4 2.57951 5.17452 2.86293 1.84679 4.49314 2.98188 3.45841 3.20524 2.44355 3.45815 4.22265 2.75264 3.79793 2.75091 2.85562 2.15351 2.72716 3.52351 5.62345 4.22543 80 e - - -\n- 2.68617 4.42310 2.77573 2.73177 3.46378 2.40428 3.72336 3.29283 2.67825 2.69242 4.24775 2.90326 2.73675 3.18185 2.89781 2.37950 2.77543 2.98565 4.58374 3.61586\n- 0.27044 1.46896 4.99165 2.45350 0.08992 0.37870 1.15440\n- 5 1.56749 5.03609 2.81063 2.57886 4.20219 3.38587 3.75303 3.12115 2.64476 3.26725 4.10663 3.16664 3.46202 2.88437 3.11086 2.23802 2.87297 2.97981 5.53650 4.19714 121 a - - -\n- 2.68671 4.41967 2.77570 2.73177 3.46407 2.40439 3.72313 3.29301 2.67740 2.69380 4.24743 2.90400 2.73732 3.18108 2.89751 2.37899 2.77542 2.98498 4.58530 3.61557\n- 0.20352 1.71300 5.56703 2.00056 0.14533 0.58157 0.81876\n- 6 4.20460 5.44017 5.16292 4.83673 0.62913 5.00184 3.70388 4.02793 4.85919 3.33945 4.61267 4.68437 5.30689 4.77121 4.83583 3.64073 4.46077 3.90049 4.15766 1.48083 134 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01162 4.85678 5.57912 0.61958 0.77255 0.60240 0.79295\n- 7 2.62776 5.30703 1.93515 2.04386 4.24561 3.00305 3.67351 4.12151 2.50660 3.42143 4.26054 2.676'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01763 4.61388 4.88477 0.61958 0.77255 0.98638 0.46669\n- 713 1.79752 4.00471 3.94506 3.43813 3.35224 3.75444 4.11535 2.65065 3.39149 1.94215 2.51576 3.74070 4.19008 3.60824 3.60462 3.09151 2.35716 2.35565 4.86552 3.66733 2185 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01488 4.61132 5.33367 0.61958 0.77255 0.80028 0.59639\n- 714 2.64823 4.40130 3.47367 2.82050 3.61838 3.68607 3.82814 2.44052 2.27377 2.55557 3.52065 3.28889 3.16737 2.98486 2.46509 2.90144 2.91624 2.56724 3.48759 3.72515 2186 k - - -\n- 2.68327 4.42497 2.77454 2.73200 3.46462 2.40569 3.72346 3.29184 2.67983 2.69260 4.24910 2.90608 2.73636 3.18338 2.89675 2.38026 2.77426 2.98176 4.58597 3.61654\n- 0.56279 0.85365 5.39872 3.22188 0.04070 0.90917 0.51560\n- 715 2.48400 5.12721 2.64633 1.99822 4.40901 2.65069 3.66138 3.52316 2.32969 3.05718 4.20561 2.83131 3.87403 2.61345 2.76565 2.48649 2.82627 3.48711 5.66742 4.23129 2322 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07655 4.67638 2.74288 0.61958 0.77255 0.90391 0.51916\n- 716 2.65960 4.08119 4.57944 3.92877 2.43021 3.89029 4.18125 2.22881 3.76685 1.83526 3.07908 3.98540 4.21441 3.91727 3.83480 3.17180 2.71938 2.09589 2.46774 3.42136 2323 l - - -\n- 2.68618 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29354 2.67717 2.69356 4.24693 2.90347 2.73742 3.18146 2.89802 2.37888 2.77522 2.98517 4.58480 3.61502\n- 0.09967 2.51040 4.29582 0.51571 0.90900 0.97520 0.47340\n- 717 1.91515 3.49022 3.62508 2.86955 3.54281 3.23079 3.94975 2.68307 2.88332 2.19752 3.42591 3.39466 3.92513 3.21776 3.16844 2.89552 2.88092 2.23538 5.00941 3.78046 2332 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06034 4.61037 3.02390 0.61958 0.77255 0.98717 0.46622\n- 718 2.27975 4.78513 2.80454 2.12494 4.46508 3.24095 3.53626 3.72275 2.07784 3.30396 4.20860 2.83504 3.88143 2.57211 2.44631 2.56480 2.83585 3.45235 5.58555 4.18082 2333 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03455 4.56673 3.74781 0.61958 0.77255 1.03186 0.44059\n- 719 2.58048 4.78235 2.95056 2.42779 3.82275 3.29600 3.12340 3.41200 2.35276 2.80267 3.70052 2.48106 3.79509 2.55961 2.56204 2.58197 2.83558 3.25061 5.04838 3.96855 2334 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09937 4.55045 2.47661 0.61958 0.77255 0.92858 0.50271\n- 720 2.57912 4.08545 3.48246 2.94456 3.28048 3.59817 3.52297 2.36900 2.98897 1.76918 3.30262 3.27528 3.93419 3.19859 3.30742 2.85721 2.84525 2.40544 4.57305 3.59647 2335 l - - -\n- 2.67663 4.41675 2.77469 2.73229 3.46294 2.40638 3.71988 3.29435 2.68318 2.68778 4.24849 2.90878 2.73795 3.18311 2.89316 2.38218 2.77704 2.98517 4.58298 3.61960\n- 1.01548 0.44977 * 3.80126 0.02260 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shedu__SduA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Shedu__SduA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1139 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Shedu__SduA\n-LENG 372\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 23 10:14:48 2021\n-NSEQ 800\n-EFFN 18.588257\n-CKSUM 1174767673\n-GA 40 40;\n-STATS LOCAL MSV -11.2209 0.69971\n-STATS LOCAL VITERBI -12.5787 0.69971\n-STATS LOCAL FORWARD -5.1501 0.69971\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70120 4.64607 2.80646 2.53008 3.27987 2.88651 3.71216 2.85827 2.61137 2.46587 3.87310 2.95414 3.22320 3.06390 2.82485 2.56724 2.88245 2.86748 4.57488 3.47448\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04835 3.44923 4.17158 0.61958 0.77255 0.00000 *\n- 1 2.60337 4.27141 3.45978 3.13587 3.12337 3.32472 3.96791 2.33794 2.90240 1.97085 2.77242 3.42641 3.88445 3.37281 3.13173 2.86238 2.95718 2.24796 4.81488 3.46968 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04835 3.44923 4.17158 0.61958 0.77255 0.48576 0.95510\n- 2 2.36288 4.05716 2.91606 2.77213 3.55104 2.77034 3.80095 3.04179 2.78252 2.70383 3.83882 3.08278 2.42377 3.20675 3.00202 2.54378 2.79167 2.76827 4.80650 3.70233 2 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04835 3.44923 4.17158 0.61958 0.77255 0.48576 0.95510\n- 3 2.75830 4.39726 3.80851 3.32844 3.30614 3.68831 4.14313 2.51423 3.13502 1.98095 1.61895 3.64176 3.60162 3.51223 3.39110 3.05091 3.04639 2.44234 5.01275 3.78087 3 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02886 3.95568 4.67803 0.61958 0.77255 0.48576 0.95510\n- 4 2.27873 4.72977 2.70722 2.42406 3.97073 2.83933 3.31945 3.38399 2.42283 2.99728 3.81829 2.93789 3.79014 2.77383 2.78092 2.60983 2.57652 3.06797 4.64146 3.92266 4 a - - -\n- 2.68633 4.42218 2.77540 2.73121 3.46332 2.40524 3.72433 3.29350 2.67762 2.69303 4.24711 2.90360 2.73708 3.18158 2.89802 2.37897 2.77540 2.98496 4.58498 3.61511\n- 0.62637 1.21835 1.77339 1.43706 0.27132 0.48576 0.95510\n- 5 2.57363 4.51922 3.16708 2.59725 3.70108 3.45319 3.53477 3.08286 2.36564 2.46352 3.13209 2.72474 3.83700 2.86788 2.59090 2.68817 2.80084 2.72897 5.04895 3.77679 22 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14458 3.88938 2.17016 0.61958 0.77255 0.45600 1.00462\n- 6 2.57294 4.34450 2.67656 2.15330 3.67858 3.19324 3.59689 3.50238 2.38568 3.09041 3.89333 2.91000 3.78292 2.73764 2.63901 2.42862 2.56965 3.16399 5.31859 3.97233 23 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02703 4.01994 4.74229 0.61958 0.77255 0.50961 0.91811\n- 7 2.41212 4.35344 3.40022 2.75104 3.49973 3.13326 3.79827 2.74496 2.69900 2.28109 3.00600 3.15121 3.93'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03503 3.76479 4.48714 0.61958 0.77255 0.48576 0.95510\n- 365 2.75190 4.96977 2.65778 2.09328 4.24114 3.33453 3.17389 3.68441 1.83614 3.22516 4.07769 2.84630 3.80131 2.71551 2.47907 2.73902 2.97799 3.35611 5.36913 4.05639 1382 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70499 4.42734 0.61958 0.77255 0.48576 0.95510\n- 366 2.54353 4.48257 3.01552 2.31925 3.74634 3.34367 3.70500 2.94035 2.51197 2.70791 3.28638 3.04010 3.80935 2.92395 2.87746 2.66790 2.32888 2.69666 5.13678 3.85815 1383 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03723 3.70499 4.42734 0.61958 0.77255 0.48576 0.95510\n- 367 2.43244 4.28147 3.13827 2.81113 3.60387 3.19473 3.86366 2.76485 2.76301 2.69098 3.69719 2.57669 3.78391 3.16331 3.07945 2.61665 2.79190 1.99519 5.09034 3.75271 1384 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03888 3.66256 4.38491 0.61958 0.77255 0.48576 0.95510\n- 368 2.53311 4.61501 2.52506 2.03956 4.08524 3.10375 3.69926 3.48874 2.54213 3.16059 4.04968 2.82978 3.70423 2.90824 2.93137 2.03073 2.86976 3.13696 5.38166 4.04379 1385 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03888 3.66256 4.38491 0.61958 0.77255 0.48576 0.95510\n- 369 2.85085 4.46439 3.39338 3.09691 2.45090 3.47340 3.56244 2.90256 2.96201 2.43148 3.62706 3.37834 3.97319 3.34867 3.19732 3.01156 3.14714 2.76396 4.07217 1.69269 1386 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04266 3.57165 4.29399 0.61958 0.77255 0.48576 0.95510\n- 370 2.81947 4.38794 3.66350 3.34031 3.06083 3.53702 4.09209 2.30319 3.11262 1.38581 3.24443 3.63711 4.05155 3.55820 3.32448 3.12216 3.14406 2.25331 4.79436 3.44277 1387 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04266 3.57165 4.29399 0.61958 0.77255 0.48576 0.95510\n- 371 2.21689 4.11407 2.97716 2.80532 3.75721 2.85079 3.90758 3.25021 2.85014 3.00854 3.99128 3.06750 3.56841 3.23671 3.12690 1.67751 2.67773 2.86398 5.16475 3.84388 1388 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04266 3.57165 4.29399 0.61958 0.77255 0.48576 0.95510\n- 372 2.21689 4.11407 2.97716 2.80532 3.75721 2.85079 3.90758 3.25021 2.85014 3.00854 3.99128 3.06750 3.56841 3.23671 3.12690 1.67751 2.67773 2.86398 5.16475 3.84388 1389 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02891 3.55790 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ShosTA__ShosA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ShosTA__ShosA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,932 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME ShosTA__ShosA\n-LENG 303\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:48 2021\n-NSEQ 567\n-EFFN 2.850746\n-CKSUM 3081668713\n-GA 10 10;\n-STATS LOCAL MSV -10.9801 0.70121\n-STATS LOCAL VITERBI -11.7566 0.70121\n-STATS LOCAL FORWARD -5.5504 0.70121\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45026 4.53260 3.01509 2.68083 3.44200 2.73048 3.71019 2.84485 2.65467 2.50161 3.81830 3.04180 3.26176 3.06194 2.88906 2.55358 2.76706 2.71778 4.78562 3.58020\n- 2.68408 4.41852 2.77614 2.73301 3.46538 2.40633 3.72382 3.29357 2.67925 2.69389 4.24283 2.90541 2.73594 3.18124 2.89518 2.37856 2.77444 2.98485 4.58517 3.61583\n- 0.98995 1.19980 1.11734 3.13392 0.04452 0.00000 *\n- 1 2.60101 4.22244 3.90807 3.16759 2.98850 3.64968 4.01961 2.57661 3.02588 2.20845 2.08101 3.45933 3.96264 3.42491 3.49543 2.88718 2.45460 2.29639 4.72329 3.47632 113 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02476 4.44948 4.36057 0.61958 0.77255 1.02120 0.44654\n- 2 2.65145 4.92944 2.39606 2.00632 4.47762 3.31546 3.58816 3.84585 2.25972 3.24481 3.99136 2.77052 3.82068 2.71237 2.88181 2.12950 2.75646 3.50701 5.59501 4.19536 114 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03590 4.45429 3.74490 0.61958 0.77255 0.99325 0.46262\n- 3 2.31806 5.03050 2.74188 2.24600 4.07703 3.47457 3.60573 3.37046 2.18575 2.97291 3.60224 2.76040 3.67881 2.66210 2.77546 2.62237 2.76256 3.10179 5.50229 3.96349 115 k - - -\n- 2.68602 4.42241 2.77524 2.73123 3.46370 2.40517 3.72495 3.29354 2.67752 2.69347 4.24696 2.90357 2.73725 3.18140 2.89799 2.37889 2.77511 2.98529 4.58479 3.61494\n- 0.27812 2.24445 1.98918 1.59687 0.22631 0.86733 0.54485\n- 4 2.65452 4.22487 3.60420 3.11181 2.86541 3.55273 3.73922 2.62774 3.24241 2.22206 2.34366 3.51288 4.10838 3.37716 3.35143 2.86910 2.85345 2.44355 3.23464 2.77716 128 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07343 4.45373 2.82748 0.61958 0.77255 0.40888 1.09182\n- 5 2.54226 4.64188 3.16267 2.88524 3.50585 3.70466 3.76020 2.79751 2.77106 2.51780 2.27959 2.91810 3.21924 3.00878 2.89040 2.77838 2.81886 2.63854 5.12884 3.47507 129 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04393 4.73713 3.37502 0.61958 0.77255 0.73418 0.65373\n- 6 2.59526 5.00263 3.00022 2.05807 3.36029 3.47328 3.74406 2.92139 2.20537 2.58792 3.71685 2.91436 3.80749 2.73990 3.05383 2.47858 2.83630 3.33970 5.05199 4.15557 130 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01624 4.71572 4.93967 0.61958 0.77255 0.72898 0.65856\n- 7 2.21718 4.44804 3.65016 3.09327 2.70253 3.62574 3.94099 2.66354 2.97533 2.33904 3.41531 2.9168'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06755 4.59898 2.89579 0.61958 0.77255 0.85268 0.55560\n- 296 2.63247 5.21110 2.36669 2.18802 4.46605 3.35226 3.59047 3.98815 2.06859 3.23864 4.25332 2.69765 3.71250 2.56889 2.70355 2.34925 2.79114 3.50231 5.64719 3.99081 830 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02466 4.55344 4.28095 0.61958 0.77255 0.90366 0.51933\n- 297 2.62997 4.98712 2.67497 2.33157 4.46860 3.49856 3.55371 3.39153 2.36253 3.29404 4.20078 2.50420 2.86943 2.31531 2.87762 2.50676 2.69684 3.24638 5.60276 3.92389 831 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03853 4.55247 3.60236 0.61958 0.77255 0.84806 0.55905\n- 298 2.53958 4.34133 3.49381 2.80013 3.36305 3.55731 3.95880 2.12177 2.99308 2.40646 3.51597 3.21320 3.26542 3.08729 3.28048 2.84555 2.73166 2.10364 4.99643 3.46643 832 v - - -\n- 2.68709 4.42810 2.77482 2.72624 3.46422 2.40635 3.72705 3.29382 2.67606 2.68951 4.25057 2.90625 2.73938 3.18157 2.89857 2.37615 2.77812 2.98431 4.58753 3.61901\n- 1.13634 0.42230 3.75208 3.45171 0.03220 0.88503 0.53222\n- 299 2.58154 5.20265 2.75657 2.31008 4.53772 2.92396 3.64774 4.01627 2.37611 3.42575 4.17610 2.83521 3.47380 2.02533 2.27520 2.52661 2.93442 3.46517 5.64098 4.23667 968 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07903 4.55222 2.72650 0.61958 0.77255 0.88498 0.53226\n- 300 2.66259 4.20140 4.04764 3.42556 2.21879 3.51611 4.07137 2.49063 3.28017 1.69539 3.16022 3.24418 3.94768 3.42843 3.56136 2.97755 2.72839 2.41110 4.80914 3.50391 969 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05401 4.50567 3.18120 0.61958 0.77255 0.97889 0.47117\n- 301 2.61874 5.08373 2.65978 2.27069 4.38351 3.35842 3.67374 3.78627 2.23311 3.05909 4.13677 2.89290 3.57701 2.73158 2.91313 2.18006 2.38782 3.38357 5.54453 3.30290 970 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05721 4.46883 3.12029 0.61958 0.77255 1.01618 0.44938\n- 302 2.67777 4.38593 3.40131 3.00458 3.30430 3.65967 3.83461 2.68588 2.65314 1.49579 3.39973 3.40351 3.98636 3.01200 3.16300 2.86482 2.90887 2.65739 4.96649 3.73477 971 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07303 4.42949 2.83855 0.61958 0.77255 1.01955 0.44747\n- 303 2.60538 4.78985 2.60978 2.35160 3.08462 3.51216 3.72078 3.01775 2.40599 2.48761 3.86643 3.06363 3.90092 2.88874 2.38300 2.72037 2.89538 3.08797 5.30633 3.93348 972 e - - -\n- 2.68639 4.42322 2.77522 2.73117 3.46295 2.40571 3.72576 3.29371 2.67810 2.69139 4.24787 2.90351 2.73795 3.18051 2.89826 2.37879 2.77547 2.98408 4.58541 3.61600\n- 0.72146 0.66561 * 2.06256 0.13597 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ShosTA__ShosT.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/ShosTA__ShosT.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,734 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME ShosTA__ShosT\n-LENG 237\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Aug 2 13:21:47 2021\n-NSEQ 567\n-EFFN 8.491676\n-CKSUM 2371827406\n-GA 10 10;\n-STATS LOCAL MSV -10.4958 0.70345\n-STATS LOCAL VITERBI -12.0635 0.70345\n-STATS LOCAL FORWARD -4.9136 0.70345\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57744 4.34222 2.82596 2.73818 3.27865 2.86894 3.68728 2.84634 2.62076 2.50925 3.90612 2.95465 3.11144 3.15682 2.90870 2.52250 2.78341 2.85015 4.57009 3.46301\n- 2.68597 4.42307 2.77548 2.73190 3.46407 2.40581 3.72536 3.29413 2.67797 2.69357 4.23060 2.90395 2.73749 3.18219 2.89862 2.37886 2.77388 2.98529 4.58362 3.61577\n- 1.53449 1.07363 0.81493 0.99305 0.46275 0.00000 *\n- 1 2.80897 4.80467 3.54472 3.13583 3.07521 3.62786 3.54904 3.15623 2.25023 2.70776 2.04192 3.43124 3.18204 3.07565 3.40266 2.61857 2.74059 2.57374 5.00753 3.22888 11 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00841 5.17838 5.90073 0.61958 0.77255 1.18736 0.36388\n- 2 2.81065 5.41343 3.32162 2.76515 4.45436 3.74777 3.59233 3.83268 1.85436 3.19922 2.72515 2.98108 3.54959 2.78191 1.83162 2.68377 2.73151 3.41873 5.87507 3.98933 12 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00733 5.31581 6.03815 0.61958 0.77255 0.91255 0.51333\n- 3 2.94004 4.63059 4.64563 3.18182 2.97768 3.92995 4.57044 2.60767 3.53312 1.17591 2.27129 3.12538 3.40588 3.80233 3.95267 3.21101 3.39203 2.72078 4.20402 4.05159 13 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00627 5.47091 6.19326 0.61958 0.77255 1.13970 0.38554\n- 4 3.10041 5.49465 3.44332 2.81928 4.78471 3.92847 4.03005 3.04886 1.30598 2.63896 3.43771 3.10599 4.32006 2.65353 2.68478 2.75540 2.32956 3.85544 5.96096 4.58790 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00602 5.51093 6.23328 0.61958 0.77255 1.32520 0.30890\n- 5 2.36264 5.50953 3.42641 2.65632 4.80578 2.31895 4.11201 2.74563 1.99176 2.67042 3.94658 3.08226 4.11260 2.47574 2.93491 2.46496 3.09044 3.11654 5.97259 4.59318 15 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00602 5.51093 6.23328 0.61958 0.77255 1.18970 0.36286\n- 6 2.59471 4.95995 5.66979 5.09840 3.75286 4.96126 5.38198 1.11875 4.92704 1.72280 4.08049 5.12424 5.28485 5.08453 4.96926 3.79977 3.89412 1.32811 5.83862 4.65411 16 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00591 5.52975 6.25210 0.61958 0.77255 1.28588 0.32353\n- 7 3.05371 4.72672 1.92374 3.27690 2.81914 3.21476 4.14699 1.49434 3.78682 2.26712 3.29164 3.9124'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00747 5.29673 6.01908 0.61958 0.77255 1.68150 0.20591\n- 230 2.46703 5.52269 2.78267 1.80634 4.86729 3.42595 3.37529 3.63639 2.30322 3.25225 4.56347 2.77170 3.55744 2.80831 2.73075 2.26965 2.79381 3.19588 5.95565 4.54498 589 e - - -\n- 2.68385 4.42352 2.77424 2.72965 3.46499 2.40602 3.72246 3.29117 2.68006 2.69648 4.24840 2.89832 2.74038 3.17958 2.89954 2.38074 2.77535 2.98474 4.58967 3.60761\n- 1.95281 0.15582 6.02708 2.62737 0.07501 0.75787 0.63236\n- 231 3.16808 4.44438 4.62476 4.14954 2.97830 3.94523 4.04936 1.77246 4.28720 1.16694 3.48601 4.50646 4.73398 4.43286 2.73790 3.48646 3.15600 2.18780 4.83780 4.03825 613 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03415 5.53633 3.51880 0.61958 0.77255 1.12656 0.39178\n- 232 2.36859 5.64726 1.93361 2.24332 4.99166 3.51854 3.74098 3.76310 2.65903 3.14110 4.68810 3.11954 3.12586 2.95388 2.47607 2.25404 2.57198 3.74921 6.08035 4.21130 614 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05066 5.54519 3.09027 0.61958 0.77255 1.12866 0.39077\n- 233 2.82415 5.64400 1.77926 1.87798 4.76430 3.90594 4.09295 3.97382 2.43202 3.78841 4.68455 2.56993 3.20637 2.74919 2.41660 2.71790 3.06469 3.61329 4.40130 4.66520 615 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11553 5.52996 2.25246 0.61958 0.77255 1.32807 0.30787\n- 234 2.55053 3.74335 3.63407 3.32174 2.32513 4.19029 4.47586 2.19705 2.95597 1.47545 3.56843 3.62254 3.64325 3.29729 3.66079 3.13516 3.30091 2.69614 5.01319 3.84330 616 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06700 5.42895 2.80655 0.61958 0.77255 1.55426 0.23743\n- 235 2.39934 4.79180 3.52271 3.18412 2.10518 3.76972 3.55021 2.36716 2.69260 2.15690 3.53188 2.82255 4.02095 3.66192 3.71169 3.09080 3.17183 2.95986 5.37513 2.54281 617 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04932 5.36890 3.13577 0.61958 0.77255 1.61616 0.22147\n- 236 2.54798 5.53795 2.28150 1.65736 4.88370 3.63193 3.74382 4.01851 2.28777 3.39263 4.57843 2.95167 3.02299 2.42277 2.71198 2.90477 2.93195 3.61481 5.97022 4.55885 618 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12963 5.33020 2.14781 0.61958 0.77255 1.68518 0.20507\n- 237 2.45054 5.12306 3.15042 2.85564 3.49070 3.58436 3.90976 2.22829 2.61716 2.29601 4.01683 2.93905 3.93235 2.39179 2.57292 2.41213 3.05518 3.39158 5.16609 4.31417 619 i - - -\n- 2.68746 4.42429 2.77444 2.73300 3.46250 2.40631 3.72557 3.29128 2.67704 2.69197 4.24918 2.90394 2.73681 3.18099 2.89927 2.37933 2.77589 2.98666 4.56355 3.61255\n- 1.46874 0.26164 * 1.81336 0.17806 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SoFic__SoFic.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SoFic__SoFic.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1106 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME SoFic__SoFic\n-LENG 361\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:47 2021\n-NSEQ 3806\n-EFFN 4.010801\n-CKSUM 1304054029\n-GA 250 250;\n-STATS LOCAL MSV -11.1495 0.69991\n-STATS LOCAL VITERBI -12.1952 0.69991\n-STATS LOCAL FORWARD -5.4845 0.69991\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52584 4.66186 3.02918 2.59195 3.35701 2.96695 3.61474 2.82347 2.70324 2.33947 3.68587 3.03495 3.29920 3.01435 2.82505 2.67301 2.82891 2.77304 4.67649 3.41161\n- 2.68684 4.42119 2.77599 2.73277 3.45991 2.40631 3.72623 3.29235 2.67800 2.69229 4.24092 2.90330 2.73795 3.18106 2.89775 2.37907 2.77533 2.98416 4.58602 3.61441\n- 0.65257 1.51016 1.35317 3.01726 0.05017 0.00000 *\n- 1 2.73449 4.37700 3.98171 3.40110 3.48224 3.82504 4.08163 2.71436 3.22674 2.30327 1.35732 3.67502 3.88985 3.53111 3.32935 3.02971 2.85984 2.41019 4.97899 3.70119 160 m - - -\n- 2.68607 4.42336 2.77499 2.73127 3.46227 2.40611 3.72466 3.29273 2.67747 2.69391 4.24714 2.90371 2.73763 3.18109 2.89714 2.37892 2.77503 2.98498 4.58560 3.61504\n- 1.03519 0.62201 2.22583 1.95114 0.15328 0.81207 0.58687\n- 2 2.23404 5.15845 2.67996 2.41627 4.10881 3.54788 3.62476 3.35703 2.44317 3.09150 3.09977 2.84518 3.05894 2.65169 2.93467 2.46093 2.58060 3.30601 5.50677 4.21972 214 a - - -\n- 2.68625 4.42257 2.77517 2.73148 3.46381 2.40418 3.72498 3.29373 2.67747 2.69384 4.24664 2.90362 2.73769 3.18150 2.89727 2.37909 2.77503 2.98546 4.58510 3.61532\n- 0.81623 0.64084 3.47207 0.63606 0.75369 0.90401 0.51910\n- 3 2.77311 4.12871 4.44034 3.84973 2.35565 3.96071 3.98076 2.50793 3.59679 1.95767 3.06154 3.61368 4.23864 3.48303 3.39028 3.22458 2.99964 2.40312 3.17525 2.02982 218 l - - -\n- 2.68637 4.42235 2.77527 2.73123 3.46355 2.40536 3.72499 3.29305 2.67752 2.69333 4.24691 2.90345 2.73746 3.18151 2.89798 2.37909 2.77507 2.98465 4.58388 3.61511\n- 0.69202 0.76040 3.44341 0.47463 0.97317 0.53757 0.87747\n- 4 2.71504 5.34396 2.65326 2.28155 4.72765 3.34688 3.66983 3.84014 2.17736 3.39968 2.91962 2.59509 3.62631 2.35977 2.73261 2.46136 2.58232 3.67151 5.72917 4.23813 230 k - - -\n- 2.68637 4.42299 2.77544 2.73093 3.46305 2.40547 3.72446 3.29372 2.67788 2.69418 4.24764 2.90263 2.73636 3.18128 2.89776 2.37949 2.77515 2.98555 4.58407 3.61329\n- 1.14984 0.40708 4.03287 1.44180 0.26984 0.68236 0.70406\n- 5 2.59810 5.38817 2.49226 2.33558 4.33595 2.72737 2.98715 3.66049 2.22519 3.62270 3.89088 2.78140 3.31698 2.48487 2.89970 2.53564 2.76780 3.63643 5.80288 3.73995 259 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16376 5.04288 1.93381 0.61958 0.77255 0.59222 0.80542\n- 6 2.50947 4.10792 3.91089 3.43233 3.17799 3.87529 4.03715 2.54759 3.24245 1.72198 2.90628 3.71541 3.56012 3.72322 2.87344 3.09930 2.99883 2.35360 4.98725 2.42025 260 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01084 4.94494 5.60949 0.61958 0.77255 0.96624 0.47886\n- 7 2.56510 5.18134 3.08042 2.44991 4.32357 3.61050 3.74285 3.81805 1.94027 3.20423 4.26943 3.0'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00883 5.14297 5.82595 0.61958 0.77255 0.54168 0.87172\n- 354 2.79737 4.35949 4.89805 4.28619 2.90388 4.14821 4.47382 2.26553 3.98259 1.23108 3.33368 4.29419 4.51202 4.12733 3.67586 3.36923 3.10516 2.14135 4.98710 2.26975 1144 l - - -\n- 2.68610 4.42226 2.77521 2.73124 3.46355 2.40507 3.72496 3.29355 2.67742 2.69356 4.24691 2.90348 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.02277 3.98729 5.53101 0.64078 0.74841 0.54254 0.87053\n- 355 2.81233 4.18193 4.95103 4.29997 2.74844 4.15295 4.47839 1.95724 4.12060 1.34956 2.36716 4.17208 4.49521 4.25106 4.11243 3.46205 3.17425 2.12237 4.71242 3.14146 1147 l - - -\n- 2.68627 4.42254 2.77505 2.73149 3.46382 2.40523 3.72524 3.29383 2.67758 2.69339 4.24553 2.90369 2.73699 3.18148 2.89749 2.37909 2.77531 2.98455 4.58493 3.61532\n- 0.15105 1.98873 5.70641 1.42880 0.27390 0.47819 0.96733\n- 356 2.32068 5.42616 2.01980 2.11209 4.80034 3.16601 3.77450 4.27417 2.29167 3.73016 4.21845 2.65633 4.09519 2.56581 2.38489 2.66485 3.03032 3.83355 5.88698 3.98916 1169 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01089 5.15467 5.28610 0.61958 0.77255 0.50605 0.92349\n- 357 2.51926 4.32301 4.78258 4.02213 2.83723 4.10097 3.83819 1.68648 3.93486 1.41300 3.40597 4.22039 4.49106 3.25423 3.73455 3.33633 3.19509 2.26863 5.00550 3.61675 1170 l - - -\n- 2.68623 4.42178 2.77522 2.73124 3.46328 2.40501 3.72500 3.29358 2.67737 2.69359 4.24696 2.90352 2.73744 3.18152 2.89798 2.37892 2.77525 2.98512 4.58483 3.61509\n- 0.08539 2.71145 4.17327 0.68907 0.69724 0.51331 0.91257\n- 358 2.83253 4.02759 4.56954 4.27945 2.47978 4.13299 4.43076 2.32126 4.07590 1.10416 3.07796 4.19093 4.50786 4.03800 3.60465 3.42415 3.04352 2.17057 4.98400 3.79215 1176 l - - -\n- 2.68591 4.42245 2.77532 2.73129 3.46361 2.40529 3.72448 3.29359 2.67754 2.69346 4.24703 2.90363 2.73675 3.18165 2.89788 2.37899 2.77523 2.98527 4.58482 3.61517\n- 0.39671 1.94756 1.68823 1.06066 0.42500 0.55275 0.85652\n- 359 2.48034 5.23936 2.73503 2.22936 4.09986 3.32444 3.71909 3.70822 2.26995 3.40729 4.23785 2.69147 3.80835 2.78397 2.49107 2.13830 2.63753 3.15054 5.21906 4.26539 1194 s - - -\n- 2.68620 4.42230 2.77525 2.73125 3.46359 2.40518 3.72451 3.29351 2.67736 2.69354 4.24695 2.90350 2.73729 3.18150 2.89797 2.37890 2.77522 2.98518 4.58482 3.61509\n- 0.24164 1.88317 2.77170 0.17014 1.85501 0.37429 1.16403\n- 360 2.53416 5.37707 2.60412 2.13315 4.75898 2.93321 3.78847 3.97929 2.28221 3.63047 4.36876 2.82139 3.91842 2.58980 1.95933 2.49490 2.95814 3.42779 5.84727 4.26081 1196 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20775 5.06922 1.70760 0.61958 0.77255 0.67806 0.70847\n- 361 2.68384 5.29659 2.46922 2.16416 3.99468 2.54802 3.57572 3.83730 2.39511 3.43388 4.23095 2.73557 3.04999 2.73035 2.78076 2.44128 2.90476 3.11064 5.54992 4.31556 1197 e - - -\n- 2.68516 4.42298 2.77525 2.73043 3.46419 2.40571 3.72518 3.29426 2.67823 2.69413 4.24674 2.90402 2.73650 3.18160 2.89645 2.37927 2.77516 2.98475 4.58443 3.61528\n- 0.98969 0.46473 * 2.29350 0.10637 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SpbK__SpbK.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SpbK__SpbK.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1109 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SpbK__SpbK\n-LENG 362\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Sep 8 10:40:45 2022\n-NSEQ 33\n-EFFN 3.500610\n-CKSUM 778639861\n-GA 80 80;\n-STATS LOCAL MSV -11.3330 0.69989\n-STATS LOCAL VITERBI -12.3879 0.69989\n-STATS LOCAL FORWARD -5.2846 0.69989\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67994 4.38254 2.89106 2.53233 3.27531 3.01901 3.71832 2.73536 2.51049 2.46198 3.67131 2.89324 3.44306 3.07257 3.04542 2.53689 2.86944 2.81273 4.60080 3.53903\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00957 5.04963 5.77197 0.61958 0.77255 0.00000 *\n- 1 4.45648 5.85590 5.64927 5.47512 4.45874 4.97880 5.95872 3.81443 5.22042 2.99044 0.19901 5.58562 5.54445 5.55185 5.25569 4.84733 4.84233 3.93706 6.30315 5.17008 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24785 5.04963 1.54592 0.61958 0.77255 0.48576 0.95510\n- 2 2.85537 5.26817 1.85969 2.32810 3.03928 3.60464 3.82754 4.02949 2.60005 3.10672 4.32498 2.01624 4.01840 2.94386 3.09134 2.30489 3.09014 3.63578 5.72584 4.33374 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28501 4.81390 1.42764 0.61958 0.77255 0.96960 0.47680\n- 3 2.73520 5.16360 2.35586 2.23428 4.47466 3.49924 3.70872 3.93852 2.46863 2.65823 4.21772 2.41161 2.99364 2.81985 2.95830 2.48130 2.40642 3.53665 5.61939 4.22649 3 e - - -\n- 2.68756 4.42296 2.77651 2.72982 3.46314 2.40630 3.72450 3.28928 2.67695 2.69142 4.24887 2.90422 2.73930 3.18270 2.89699 2.38005 2.77608 2.98297 4.58579 3.61160\n- 0.85556 0.56248 5.26715 2.92361 0.05524 0.75077 0.63866\n- 4 2.55203 4.29966 4.22440 3.64380 3.41806 3.88974 4.21654 2.44316 3.53165 1.33872 3.42178 3.86719 3.42715 3.76168 3.72984 2.75077 2.39328 2.28475 4.92855 3.73472 89 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01291 4.75173 5.47407 0.61958 0.77255 1.05301 0.42907\n- 5 3.14404 4.50716 4.95947 4.36956 1.83257 4.32810 4.61165 1.95126 4.19299 1.17803 3.30214 4.43740 4.64327 4.30785 4.24033 2.99183 3.37374 2.53609 5.03610 3.82931 90 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01291 4.75173 5.47407 0.61958 0.77255 1.05301 0.42907\n- 6 3.13804 5.56698 3.12525 2.37471 4.96166 3.75686 3.91299 4.39857 1.02206 3.83502 4.62754 2.43591 4.18629 2.44423 2.80776 3.08470 3.35260 3.99175 5.91414 4.58380 91 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01291 4.75173 5.47407 0.61958 0.77255 1.05301 0.42907\n- 7 2.97585 5.51213 1.98266 2.27720 4.84488 2.30961 3.88501 4.33868 1.49894 3.80877 4.56932 3.05566 4.06240 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34488 5.06722 0.61958 0.77255 0.87591 0.53868\n- 355 2.69521 5.16770 2.54350 1.96169 4.49278 2.79267 3.65024 3.96763 2.07141 3.46341 4.21758 2.90598 3.84711 2.36595 2.89469 2.65994 2.92916 2.97674 5.60951 4.20510 715 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01946 4.34488 5.06722 0.61958 0.77255 0.73502 0.65296\n- 356 2.71318 4.16597 4.26120 3.67860 2.47961 3.83609 4.17276 1.96049 3.55034 2.32497 3.28273 3.85740 4.20927 3.76232 3.71159 2.66751 2.19408 1.87038 4.82087 3.62845 716 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01829 4.40650 5.12885 0.61958 0.77255 0.81082 0.58787\n- 357 2.41337 4.54843 3.05842 2.59991 3.07823 3.58243 3.37842 3.08900 2.73862 2.11163 3.64255 2.97049 3.96701 3.06380 3.14583 2.47938 2.89686 2.44406 5.10702 3.84083 717 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01829 4.40650 5.12885 0.61958 0.77255 0.54018 0.87381\n- 358 3.08770 5.69345 1.79255 1.14623 4.99784 3.49637 3.93126 4.51697 2.59249 3.97906 4.77823 2.94505 4.05705 2.53530 3.39958 2.98563 3.35236 4.06840 6.11628 4.62890 718 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01627 4.52229 5.24464 0.61958 0.77255 0.66215 0.72514\n- 359 2.56987 4.23054 4.16414 3.58309 3.34199 3.84971 4.15978 1.78871 3.46582 1.86278 3.33590 3.81295 4.21863 2.97883 3.66458 2.74582 2.98087 1.94650 4.86736 3.67350 719 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01627 4.52229 5.24464 0.61958 0.77255 0.66215 0.72514\n- 360 3.02688 4.39085 4.74442 4.18269 1.82414 4.16427 4.21714 2.08972 4.01139 1.90799 3.30073 4.20749 4.49060 4.11913 4.06534 3.48023 3.25505 2.31533 4.57431 1.84172 720 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25402 4.46443 1.54735 0.61958 0.77255 0.66215 0.72514\n- 361 2.43416 4.63891 3.08044 2.25445 3.84151 3.45575 3.67794 3.22993 2.28672 2.88166 3.72787 3.03664 3.85011 2.87038 2.94323 2.51981 2.83277 2.45695 5.17208 3.14874 721 e - - -\n- 2.68693 4.42269 2.77438 2.72998 3.46172 2.40593 3.72566 3.29383 2.67739 2.69256 4.24673 2.90233 2.73772 3.18175 2.89783 2.37967 2.77630 2.98633 4.57954 3.61476\n- 0.58859 0.82821 4.82119 2.97310 0.05250 0.38720 1.13618\n- 362 2.68778 4.13973 4.22824 3.64080 2.23284 3.79901 4.06921 2.33397 3.50402 1.97740 3.25331 3.80637 4.16598 3.70766 2.84109 2.68299 2.91955 2.39328 3.48019 2.82386 750 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.40983 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,995 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SspBCDE__SspB\n-LENG 324\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:18 2021\n-NSEQ 100\n-EFFN 0.576782\n-CKSUM 3482868252\n-GA 20 20;\n-STATS LOCAL MSV -11.1207 0.70065\n-STATS LOCAL VITERBI -11.9399 0.70065\n-STATS LOCAL FORWARD -5.5621 0.70065\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62376 4.45949 2.89736 2.67507 3.17109 2.98131 3.69378 2.79319 2.63284 2.35046 3.61887 3.06310 3.61698 3.02461 3.01062 2.62744 2.83446 2.69297 4.30818 3.34003\n- 2.68617 4.42231 2.77523 2.73127 3.46349 2.40518 3.72493 3.29349 2.67741 2.69350 4.24678 2.90349 2.73740 3.18152 2.89804 2.37886 2.77514 2.98515 4.58476 3.61491\n- 0.10090 3.26327 2.85227 1.64270 0.21500 0.00000 *\n- 1 3.00350 4.52319 4.16167 3.68357 3.12103 3.99524 4.39065 2.27047 3.43575 1.62348 1.56065 3.97672 4.37718 3.79410 3.64791 3.38942 3.27720 2.29690 5.02230 3.78287 61 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03121 3.87836 4.60071 0.61958 0.77255 0.53118 0.88651\n- 2 2.32245 4.32102 2.98321 2.72766 4.17777 3.00697 3.94033 3.61089 2.83137 3.28384 4.12634 2.67855 3.68695 3.17116 3.19239 1.46225 2.54460 3.14660 5.49742 4.21163 62 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03121 3.87836 4.60071 0.61958 0.77255 0.52473 0.89579\n- 3 3.03029 4.44065 4.42218 3.98366 3.33796 4.16602 4.69732 1.13432 3.78898 1.89030 3.19370 4.23109 4.55067 4.12829 3.99198 3.58862 3.31576 1.79617 5.27149 4.00886 63 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03107 3.88269 4.60504 0.61958 0.77255 0.52737 0.89198\n- 4 2.96079 5.07433 2.49148 1.01093 4.42178 3.28045 3.86793 3.87770 2.74972 3.49310 4.46652 2.93829 3.88546 3.08327 3.15975 2.94205 3.26505 3.56042 5.59141 4.31348 64 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03107 3.88269 4.60504 0.61958 0.77255 0.52737 0.89198\n- 5 2.22444 4.16649 3.26120 2.99452 4.15159 2.93557 4.09332 3.50307 3.02441 3.25128 4.12462 3.20786 3.66391 3.36279 3.33337 1.33106 2.28215 3.03314 5.51648 4.26730 65 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03107 3.88269 4.60504 0.61958 0.77255 0.52737 0.89198\n- 6 2.13450 4.18118 3.25560 2.92652 4.11624 2.96625 4.02462 3.47206 2.95115 3.19388 4.03908 3.08595 3.66418 3.27780 3.28702 1.66453 1.94431 3.01501 5.46367 4.22617 66 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03107 3.88269 4.60504 0.61958 0.77255 0.52737 0.89198\n- 7 2.49028 4.33298 3.27042 2.73708 3.52329 3.38641 3.67180 2.62984 2.68817 2.64118 3.52406 2.99739 3.82'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02969 3.92771 4.65006 0.61958 0.77255 0.48576 0.95510\n- 317 2.57835 4.77999 2.94072 2.40116 4.02600 3.20810 3.03175 3.44280 2.29251 2.93100 3.85397 2.71473 3.78363 2.65030 2.70073 2.41145 2.69021 3.11873 5.27246 3.70576 388 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02969 3.92771 4.65006 0.61958 0.77255 0.48576 0.95510\n- 318 3.32705 4.79366 3.91980 3.65950 2.29559 3.89449 3.64467 3.32856 3.51543 2.76826 3.99785 3.79157 4.36703 3.80821 3.68784 3.45827 3.61398 3.20172 3.94149 0.87867 389 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02969 3.92771 4.65006 0.61958 0.77255 0.48576 0.95510\n- 319 3.32705 4.79366 3.91980 3.65950 2.29559 3.89449 3.64467 3.32856 3.51543 2.76826 3.99785 3.79157 4.36703 3.80821 3.68784 3.45827 3.61398 3.20172 3.94149 0.87867 390 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02969 3.92771 4.65006 0.61958 0.77255 0.48576 0.95510\n- 320 2.65284 4.90787 3.00261 2.45510 4.19338 3.44067 3.36971 3.56596 1.98767 3.07516 3.98021 2.93477 3.73758 2.04593 2.49479 2.69503 2.88024 3.27604 5.33814 3.91251 391 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02969 3.92771 4.65006 0.61958 0.77255 0.48576 0.95510\n- 321 2.57371 4.75622 2.90957 2.39484 4.12033 2.84572 3.63148 3.53754 2.37418 3.12595 3.94257 2.93204 2.92256 2.75027 2.33158 2.42516 2.76919 3.18856 5.34574 4.02449 392 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17099 3.92771 1.98427 0.61958 0.77255 0.48576 0.95510\n- 322 2.75970 5.05713 2.29967 1.46407 4.39798 3.05474 3.67463 3.86381 2.53015 3.44175 4.30783 2.63176 3.77213 2.81659 2.97496 2.72156 3.04945 3.49409 5.60949 4.21117 393 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12173 3.79084 2.38559 0.61958 0.77255 0.60216 0.79325\n- 323 2.70264 5.02259 2.27197 1.81074 4.32014 2.79651 3.60519 3.76125 2.33092 3.32555 4.16764 2.70121 3.73812 2.70702 2.91010 2.66523 2.96652 3.40352 5.52673 4.14087 394 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04078 3.70629 4.17425 0.61958 0.77255 0.66112 0.72624\n- 324 2.75844 4.89378 2.76406 2.43506 4.22677 3.33344 3.57602 3.66907 1.62605 3.22121 4.09604 2.69594 3.81905 2.66218 2.38210 2.76923 3.00121 3.34258 5.34335 4.05474 395 k - - -\n- 2.68620 4.42227 2.77517 2.73121 3.46356 2.40514 3.72496 3.29356 2.67736 2.69357 4.24691 2.90348 2.73741 3.18142 2.89797 2.37887 2.77521 2.98517 4.58479 3.61505\n- 0.07656 2.60773 * 0.82592 0.57596 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3359 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SspBCDE__SspC\n-LENG 1112\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:18 2021\n-NSEQ 98\n-EFFN 1.731628\n-CKSUM 3374647146\n-GA 100 100;\n-STATS LOCAL MSV -13.0169 0.69534\n-STATS LOCAL VITERBI -13.7791 0.69534\n-STATS LOCAL FORWARD -6.9847 0.69534\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.43060 4.59841 2.95481 2.58112 3.32342 3.04331 3.69015 2.86214 2.63289 2.36602 3.70313 3.09752 3.54219 2.97945 2.89422 2.58377 2.87402 2.71005 4.41997 3.60538\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.41758 4.52539 1.10705 0.61958 0.77255 0.00000 *\n- 1 3.19433 4.70609 4.33972 3.96072 3.34990 4.03453 4.63596 2.55281 3.71249 1.91189 0.95502 4.20376 4.50325 4.08093 3.88568 3.56691 3.50830 2.58762 5.22066 4.00196 1 m - - -\n- 2.68626 4.42251 2.77520 2.73124 3.46380 2.40534 3.72517 3.29358 2.67696 2.69379 4.24709 2.90314 2.73748 3.18111 2.89813 2.37899 2.77456 2.98529 4.58503 3.61529\n- 0.68727 0.86780 2.56165 1.22117 0.34939 0.45073 1.01380\n- 2 2.52193 4.81953 2.89745 2.39013 4.04784 3.34237 3.58926 3.31118 2.29478 3.01833 2.35794 2.99539 3.64436 2.75573 2.96890 2.62520 2.70976 3.05915 5.32910 3.82466 13 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01916 4.36013 5.08247 0.61958 0.77255 0.70994 0.67664\n- 3 2.37456 4.84812 3.06302 2.50485 4.08409 3.43942 3.69393 3.49930 2.19850 2.94290 3.53593 2.76512 3.32757 2.79686 2.80511 2.52966 2.40128 3.05820 5.35242 3.45802 14 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01906 4.36538 5.08773 0.61958 0.77255 0.40782 1.09391\n- 4 2.76437 4.28819 4.30502 3.72536 3.20808 3.93292 4.25403 2.52840 3.58446 1.10692 2.62978 3.77872 4.29534 3.80987 3.75709 3.03037 2.98925 2.42026 4.90218 3.71834 15 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01657 4.50407 5.22642 0.61958 0.77255 0.52210 0.89962\n- 5 2.29837 4.95876 3.01735 2.36694 4.21546 3.42658 3.71854 3.19060 2.41391 3.22623 3.86405 2.53014 3.90831 2.81018 2.97372 1.88948 2.88483 3.03359 5.45073 4.10180 16 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01657 4.50407 5.22642 0.61958 0.77255 0.52210 0.89962\n- 6 2.71862 5.22022 2.04640 2.07731 4.55820 3.47516 3.24497 4.04165 2.32818 3.42095 4.26402 2.58310 3.59737 2.55274 2.91572 2.41642 2.82935 3.47789 5.65578 4.24498 17 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01657 4.50407 5.22642 0.61958 0.77255 0.46369 0.99143\n- 7 2.62006 4.44968 3.31858 2.72317 3.74975 3.46495 3.19788 2.32023 2.58392 2.53209 3.46559 3.16029 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01657 4.50407 5.22642 0.61958 0.77255 0.52210 0.89962\n- 1105 2.32917 5.15424 2.55434 2.14747 4.47655 3.38675 3.58188 3.45604 2.28509 3.33365 4.20105 2.90070 3.02834 2.48686 2.90436 2.49989 2.70411 3.31436 5.60077 4.20387 1303 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01657 4.50407 5.22642 0.61958 0.77255 0.52210 0.89962\n- 1106 2.65649 5.14930 2.44654 2.15965 4.47002 3.48174 3.67158 3.64926 2.26518 3.00638 3.99378 2.84575 3.34163 2.50462 2.81412 2.36428 2.70571 3.16956 5.59681 4.20107 1304 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02734 4.50407 4.14086 0.61958 0.77255 0.52210 0.89962\n- 1107 2.60054 5.19881 2.55213 1.97237 4.53631 2.71498 3.66540 3.77671 2.19739 3.50086 4.24211 2.70561 3.65191 2.58244 2.87661 2.38445 2.85465 3.52022 5.63564 4.22772 1305 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11024 4.49348 2.37299 0.61958 0.77255 0.53939 0.87491\n- 1108 2.28157 4.57402 2.69296 2.04205 4.33382 3.24883 3.65802 3.62657 2.32056 3.05726 3.92202 2.87101 3.66760 2.59108 2.85036 2.59740 2.73980 3.10175 5.50723 4.03224 1306 e - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40511 3.72495 3.29355 2.67742 2.69348 4.24690 2.90347 2.73740 3.18147 2.89801 2.37888 2.77517 2.98519 4.58478 3.61504\n- 0.09934 3.09881 3.00651 0.51256 0.91369 0.67161 0.71516\n- 1109 2.51213 5.11659 2.66037 1.82756 4.43992 3.25814 3.62968 3.91083 2.28849 3.23095 3.97262 2.88788 3.51931 2.63927 2.71118 2.48658 2.69775 3.42644 5.56238 4.16482 1309 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02835 4.35713 4.19064 0.61958 0.77255 0.72610 0.66125\n- 1110 2.43222 5.04476 2.72843 2.12613 4.20754 3.00511 3.58159 3.37599 2.11581 3.32992 3.79292 2.85983 3.83896 2.68727 2.72131 2.58794 2.79579 3.06416 5.50627 4.12539 1310 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03403 4.34818 3.88610 0.61958 0.77255 0.73644 0.65165\n- 1111 2.54852 5.09305 2.70120 2.06582 4.41013 3.18377 3.62586 3.87687 2.21288 3.16881 4.14138 2.62940 3.56927 2.67978 2.76105 2.51168 2.64112 3.05054 5.54275 4.02874 1311 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05143 4.33383 3.29650 0.61958 0.77255 0.61997 0.77210\n- 1112 2.53711 4.85730 2.66953 2.27461 4.45127 3.01642 3.28701 3.92448 2.10378 3.21627 4.17001 2.60678 3.58941 2.63654 2.69483 2.45673 2.78248 3.26328 5.56811 4.16856 1312 k - - -\n- 2.68550 4.42265 2.77520 2.73075 3.46402 2.40506 3.72487 3.29370 2.67739 2.69385 4.24700 2.90379 2.73773 3.18171 2.89797 2.37879 2.77532 2.98462 4.58529 3.61550\n- 0.71339 0.67330 * 1.50320 0.25157 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,869 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SspBCDE__SspD\n-LENG 282\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:19 2021\n-NSEQ 100\n-EFFN 0.631714\n-CKSUM 3037085520\n-GA 20 20;\n-STATS LOCAL MSV -11.1058 0.70183\n-STATS LOCAL VITERBI -12.1022 0.70183\n-STATS LOCAL FORWARD -5.1775 0.70183\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62615 4.06764 2.87244 2.53969 3.19108 2.89450 3.67298 2.92982 2.59396 2.48145 3.74042 3.12597 3.33949 3.06242 2.85586 2.71449 2.92197 2.77409 4.21610 3.30051\n- 2.68620 4.42228 2.77520 2.73126 3.46356 2.40515 3.72497 3.29357 2.67741 2.69357 4.24585 2.90349 2.73742 3.18149 2.89803 2.37883 2.77518 2.98519 4.58479 3.61506\n- 0.40248 2.08859 1.57274 0.59278 0.80472 0.00000 *\n- 1 2.48607 4.37981 3.09773 2.60126 3.57535 3.36516 3.67431 2.90327 2.51735 2.60991 2.73173 3.00498 3.71879 2.90920 2.93625 2.61178 2.71306 2.65679 4.96615 3.70731 3 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03575 3.74489 4.46724 0.61958 0.77255 0.60577 0.78889\n- 2 2.45056 4.66935 2.78237 2.29213 3.91027 3.31893 3.59541 3.31300 2.41001 2.92206 3.38280 2.72330 3.71563 2.73383 2.86484 2.49913 2.60210 3.00603 5.20433 3.88509 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03407 3.79214 4.51449 0.61958 0.77255 0.41344 1.08285\n- 3 2.53463 4.61523 2.85314 2.30162 3.92574 3.32528 3.57919 3.28886 2.28964 2.95255 2.88136 2.93221 3.76166 2.73432 2.75516 2.57855 2.73976 3.00746 5.21380 3.80724 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02879 3.95787 4.68022 0.61958 0.77255 0.48081 0.96307\n- 4 2.34462 4.76679 2.99569 2.43082 4.02040 3.40768 3.57009 3.40062 1.95594 3.01392 3.72501 2.93052 3.50165 2.71284 2.70102 2.55482 2.75119 3.06878 5.26635 3.90064 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 5 2.54851 4.62621 2.97798 2.06604 3.83332 3.42174 3.61349 2.95743 2.49143 2.86251 3.71715 3.00097 3.82525 2.70410 2.91850 2.66442 2.77412 2.45573 5.16515 3.86551 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 6 2.86792 5.02179 3.29889 2.65076 4.35380 3.57912 3.42197 3.74959 1.49977 3.11658 4.09819 3.09584 3.94275 2.72146 1.85534 2.87717 3.05401 3.35089 5.36062 4.01640 8 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 7 3.10077 4.90071 3.22029 2.99020 3.35271 3.52867 0.95981 3.81811 2.83083 3.30011 4.35080 3.39553 4.08'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03428 3.78616 4.50851 0.61958 0.77255 0.63841 0.75106\n- 275 2.34924 4.24624 3.06073 2.93277 4.16455 1.18978 4.11319 3.68053 3.10375 3.38764 4.30922 3.20008 3.66734 3.43110 3.39093 2.45659 2.82876 3.19951 5.43868 4.24319 328 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03428 3.78616 4.50851 0.61958 0.77255 0.40093 1.10775\n- 276 1.90876 4.27358 3.41505 2.87428 3.43747 3.18094 3.83472 2.83341 2.82625 2.56624 3.39231 3.25352 3.86426 3.14057 3.18403 2.45011 2.76938 2.30661 4.98101 3.69176 329 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 277 2.69573 0.76919 4.23590 3.99721 3.96766 3.29851 4.62380 3.12749 3.82480 3.03856 4.16309 3.95932 4.01279 4.16711 3.93246 2.96749 3.17039 2.86566 5.36355 4.25455 330 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 278 2.61387 4.25171 4.19880 3.64478 3.37113 3.96398 4.34561 1.78187 3.53335 1.72804 3.26931 3.76596 4.31796 3.80325 3.76839 3.27643 3.04891 1.62173 5.06465 3.86481 331 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 279 2.23813 4.23608 3.61701 3.06287 3.38386 3.55639 3.94763 2.35001 2.99994 2.43969 3.28845 3.41892 3.98146 3.30082 3.32739 2.77367 2.19270 2.08179 4.95861 3.73291 332 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 280 2.69573 0.76919 4.23590 3.99721 3.96766 3.29851 4.62380 3.12749 3.82480 3.03856 4.16309 3.95932 4.01279 4.16711 3.93246 2.96749 3.17039 2.86566 5.36355 4.25455 333 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 281 2.97212 4.72153 3.51781 3.04750 2.51171 3.76268 1.87692 3.30083 2.86747 2.81474 3.68961 3.38510 4.14935 3.25601 3.16907 3.06569 3.20258 3.09308 4.12253 1.91275 334 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02856 3.96588 4.68823 0.61958 0.77255 0.48576 0.95510\n- 282 3.05867 5.02487 3.24080 2.84556 4.43265 3.53743 3.81304 3.86791 0.91735 3.41294 4.36995 3.26571 4.03166 2.99965 2.45232 3.09488 3.30530 3.57064 5.44940 4.27585 335 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01931 3.95663 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2309 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SspBCDE__SspE\n-LENG 762\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 20 10:38:19 2021\n-NSEQ 100\n-EFFN 2.322388\n-CKSUM 849524093\n-GA 28 28;\n-STATS LOCAL MSV -12.1347 0.69635\n-STATS LOCAL VITERBI -13.3771 0.69635\n-STATS LOCAL FORWARD -6.5074 0.69635\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57162 4.49442 2.92729 2.60176 3.24892 3.16446 3.68550 2.81909 2.57790 2.43016 3.73437 2.98214 3.50659 2.94813 2.91052 2.59138 2.80290 2.78564 4.34905 3.40032\n- 2.68614 4.42147 2.77566 2.73179 3.46418 2.40546 3.72477 3.29361 2.67798 2.69360 4.23995 2.90375 2.73730 3.18074 2.89717 2.37888 2.77497 2.98546 4.58549 3.61544\n- 0.96541 1.20271 1.14320 1.97370 0.14959 0.00000 *\n- 1 2.43904 4.43805 3.40199 2.83828 3.44683 3.13957 3.83140 2.96105 2.74614 2.56651 2.49189 3.07673 3.37489 3.11846 3.18614 2.40690 2.67956 2.49630 5.01416 3.76480 82 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05734 4.32605 3.15802 0.61958 0.77255 0.66345 0.72375\n- 2 2.48172 4.13381 4.26965 3.47222 3.15717 3.81506 4.12928 1.93023 3.54050 2.12687 2.29940 3.84061 3.91782 3.74268 3.68416 2.95566 2.69703 2.00445 4.75953 3.57211 83 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44864 5.17099 0.61958 0.77255 0.87213 0.54139\n- 3 2.92595 5.48955 1.54534 1.92528 4.80665 3.45721 3.62270 4.31127 2.66278 3.78166 4.55662 2.09700 3.96590 2.61407 2.98387 2.84853 3.17799 3.86888 5.91800 4.46116 84 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44864 5.17099 0.61958 0.77255 0.68923 0.69708\n- 4 2.75328 4.30758 4.58921 4.00952 3.42228 4.10554 4.46296 1.20730 3.86998 2.20999 2.59702 4.15946 3.63957 4.06828 4.00297 3.41686 3.02551 1.93960 5.04424 3.86314 85 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01628 4.52189 5.24424 0.61958 0.77255 0.41546 1.07892\n- 5 2.65506 5.23113 2.82747 2.11705 4.56246 3.24082 3.47471 3.88558 2.11114 3.53051 2.92984 2.77236 3.57577 2.73355 2.88269 2.14590 2.70107 3.61438 5.67209 4.26958 86 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67461 5.39696 0.61958 0.77255 0.55673 0.85116\n- 6 2.75813 5.26403 2.34928 2.29624 4.60698 3.52911 3.71829 4.09145 2.07605 3.56813 4.30559 2.67798 3.67793 2.43170 2.59438 2.10273 2.81524 3.43416 5.69752 4.28774 87 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01396 4.67461 5.39696 0.61958 0.77255 0.51775 0.90600\n- 7 2.07259 4.27407 4.11480 3.18695 3.11638 3.84784 4.14321 1.89218 3.43011 2.37617 3.25444 3.52991 3.73'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71447 5.43681 0.61958 0.77255 0.48576 0.95510\n- 755 2.77034 5.27121 1.86439 2.06465 4.61233 3.44105 3.56903 4.09529 2.18242 3.57450 4.16599 2.91101 3.93773 2.73625 2.56013 2.44675 2.84891 3.65977 4.90353 4.29756 1107 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71447 5.43681 0.61958 0.77255 0.48576 0.95510\n- 756 2.68880 5.26157 2.73398 2.31697 4.59853 3.54698 3.62630 4.07785 2.25944 3.56262 4.30480 2.50130 3.94104 2.78772 1.78232 2.56858 2.58385 3.49674 5.69830 4.03901 1108 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71447 5.43681 0.61958 0.77255 0.48576 0.95510\n- 757 2.98294 3.85758 4.90634 4.30044 2.72968 4.17769 4.51375 2.01511 4.10553 1.33218 2.17787 4.32507 4.51070 4.22312 4.12678 3.49470 2.81651 2.16544 4.97221 3.81854 1109 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71447 5.43681 0.61958 0.77255 0.48576 0.95510\n- 758 2.54001 4.85716 2.85291 2.48683 3.91160 3.51518 2.96038 2.71105 2.47070 2.77229 3.45405 3.06849 4.01525 2.89995 2.97202 2.50450 2.84419 3.06695 3.62831 3.16875 1110 k - - -\n- 2.68619 4.42226 2.77520 2.73120 3.46354 2.40513 3.72495 3.29355 2.67741 2.69348 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.03760 3.42512 5.43681 0.45945 0.99868 0.48576 0.95510\n- 759 2.26342 5.25129 2.98427 2.08170 4.58531 3.13086 3.73352 4.06341 2.09701 3.46712 4.04008 2.83697 2.67089 2.74641 2.73893 2.45077 2.81453 3.54095 5.69062 4.28662 1112 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71447 5.43681 0.61958 0.77255 0.48576 0.95510\n- 760 2.69063 4.53405 3.29929 3.08249 3.64618 3.75302 4.01488 3.04490 3.03113 2.65817 3.08619 3.08164 4.14545 3.34787 3.38205 2.83904 3.03423 2.81692 1.42445 3.83547 1113 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71447 5.43681 0.61958 0.77255 0.48576 0.95510\n- 761 4.03937 5.25558 5.85970 5.31825 3.44173 5.41579 5.74541 2.32011 5.14618 0.42734 3.19032 5.56116 5.44496 5.07772 5.13759 4.84044 4.25549 2.55255 5.71924 4.73798 1114 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08832 4.71447 2.58269 0.61958 0.77255 0.48576 0.95510\n- 762 2.35176 5.21955 2.59670 2.20838 3.98705 3.12594 3.70222 4.03139 2.27302 3.51999 4.26323 2.67964 3.90711 2.67658 2.59420 2.23419 2.64711 3.50259 5.65904 3.92640 1115 e - - -\n- 2.68624 4.42271 2.77508 2.73080 3.46373 2.40535 3.72530 3.29364 2.67757 2.69361 4.24717 2.90367 2.73689 3.18178 2.89761 2.37888 2.77534 2.98462 4.58497 3.61549\n- 0.44108 1.03097 * 1.45796 0.26489 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspF.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspF.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1853 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SspBCDE__SspF\n-LENG 610\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 10 09:51:02 2021\n-NSEQ 50\n-EFFN 1.107788\n-CKSUM 89445851\n-GA 40 40;\n-STATS LOCAL MSV -12.4636 0.69714\n-STATS LOCAL VITERBI -13.0898 0.69714\n-STATS LOCAL FORWARD -6.5591 0.69714\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57501 4.33817 2.93579 2.60585 3.29892 2.92805 3.71785 2.83707 2.70364 2.30204 3.65591 2.99034 3.53193 3.01354 2.85821 2.67232 2.87216 2.70443 4.58818 3.54251\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22841 4.24695 1.66129 0.61958 0.77255 0.00000 *\n- 1 3.11286 4.63618 4.23862 3.84831 3.29452 3.96489 4.54365 2.48784 3.60598 1.86599 1.08228 4.10354 4.42924 3.97813 3.79041 3.47848 3.42303 2.51330 5.15645 3.93188 1 m - - -\n- 2.68597 4.42284 2.77549 2.73108 3.46374 2.40518 3.72503 3.29327 2.67782 2.69321 4.24748 2.90373 2.73762 3.18112 2.89789 2.37874 2.77504 2.98483 4.58477 3.61539\n- 0.44103 1.05520 4.76724 2.20482 0.11684 0.61919 0.77301\n- 2 2.51695 4.06417 3.36223 2.79742 3.10877 3.14970 3.77466 2.69927 2.76003 2.57231 3.13140 2.68877 3.23518 3.07228 3.13653 2.64421 2.68209 2.63437 4.92991 3.50900 71 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09342 4.81576 0.61958 0.77255 0.65887 0.72864\n- 3 2.61452 4.97578 2.68026 2.34400 4.26682 3.38725 3.10224 3.71485 2.07702 2.96726 4.03717 2.75856 3.11053 2.71619 2.82533 2.34772 2.84706 3.33893 5.44221 4.06910 72 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09342 4.81576 0.61958 0.77255 0.65887 0.72864\n- 4 2.22500 4.78983 2.79071 2.43548 4.14569 2.82967 3.67452 3.57149 2.37192 3.16483 3.97316 2.94616 3.80352 2.74557 2.94832 2.16979 2.47309 3.21600 5.39468 4.05386 73 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09342 4.81576 0.61958 0.77255 0.65887 0.72864\n- 5 2.45132 5.03688 2.68732 2.14987 4.34564 3.36096 3.54022 3.79345 2.35856 3.34139 4.13987 2.11746 3.82228 2.79250 2.92213 2.16284 2.93749 3.41905 5.53218 4.15379 74 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09342 4.81576 0.61958 0.77255 0.65887 0.72864\n- 6 2.32694 5.03696 2.74886 2.27684 4.34546 3.38148 3.59343 3.80161 2.09610 3.32396 4.09591 2.40696 3.66574 2.60117 2.67559 2.43454 2.86574 3.40954 5.49102 4.10857 75 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02510 4.09342 4.81576 0.61958 0.77255 0.65887 0.72864\n- 7 3.20685 4.61105 4.42752 3.93648 2.36359 4.17910 3.85926 2.76478 3.73009 1.68355 3.38047 4.02086 4.4999'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02149 4.24695 4.96929 0.61958 0.77255 0.48576 0.95510\n- 603 2.68239 5.12173 2.26404 2.08848 4.44015 3.41883 3.63154 3.55235 2.37262 3.41132 4.17585 2.89614 3.83263 2.63661 2.05362 2.57516 2.91510 3.49921 5.56468 4.17315 728 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02149 4.24695 4.96929 0.61958 0.77255 0.48576 0.95510\n- 604 2.55374 4.97957 2.85896 2.39273 4.27422 3.42501 3.62955 3.71917 2.39108 3.26785 4.04727 2.31949 3.17020 2.65077 2.48104 2.46331 2.60854 3.03877 5.45842 4.08873 729 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02149 4.24695 4.96929 0.61958 0.77255 0.48576 0.95510\n- 605 3.17972 4.47167 5.01769 4.46202 3.20522 4.52995 4.94249 1.36533 4.34283 1.78104 2.68151 4.61987 4.78024 4.48359 4.44572 3.88003 3.41606 1.38389 5.33552 4.20312 730 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02149 4.24695 4.96929 0.61958 0.77255 0.48576 0.95510\n- 606 2.55751 4.88495 3.02221 1.99621 4.14250 3.46461 3.65618 3.02691 2.40982 3.05710 3.95500 2.98670 3.85596 2.68933 2.29324 2.67589 2.50657 3.22472 5.37273 4.03709 731 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02149 4.24695 4.96929 0.61958 0.77255 0.48576 0.95510\n- 607 3.26753 4.52615 5.12907 4.61259 3.64339 4.71823 5.24903 1.43769 4.51205 1.81862 3.42734 4.80574 4.96147 4.72155 4.66836 4.10136 3.51736 1.02966 5.64982 4.47760 732 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02149 4.24695 4.96929 0.61958 0.77255 0.48576 0.95510\n- 608 2.67258 4.91462 3.05160 2.48129 4.18124 3.47990 3.65082 3.60038 2.11325 2.89745 3.39818 2.72597 3.86604 2.70301 2.06265 2.47784 2.89804 3.26368 5.38623 3.84302 733 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02149 4.24695 4.96929 0.61958 0.77255 0.48576 0.95510\n- 609 2.46436 4.18160 3.51986 3.20754 2.90316 3.65816 3.64913 2.37051 3.12858 2.25804 3.29240 3.29504 4.03227 3.39236 3.39936 2.76099 2.76956 1.87643 4.78196 3.35901 734 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21367 4.24695 1.72553 0.61958 0.77255 0.48576 0.95510\n- 610 2.26256 3.78032 2.81951 2.21842 4.05660 2.86582 3.65677 3.47482 2.47145 3.08120 3.89479 2.95609 3.42061 2.81269 2.93244 2.32044 2.81520 3.13521 5.32479 3.99347 735 e - - -\n- 2.68588 4.42232 2.77519 2.73121 3.46361 2.40520 3.72502 3.29361 2.67748 2.69362 4.24697 2.90354 2.73739 3.18153 2.89783 2.37874 2.77527 2.98525 4.58484 3.61510\n- 0.43869 1.03530 * 0.38037 1.15078 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspG.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspG.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1559 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SspBCDE__SspG\n-LENG 512\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 10 10:08:11 2021\n-NSEQ 50\n-EFFN 1.004028\n-CKSUM 2272726167\n-GA 40 40;\n-STATS LOCAL MSV -11.7460 0.69792\n-STATS LOCAL VITERBI -12.8466 0.69792\n-STATS LOCAL FORWARD -5.9694 0.69792\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54111 4.48179 2.93297 2.59542 3.21378 3.12440 3.63043 2.91083 2.68439 2.33054 3.65316 3.06220 3.43200 3.02687 2.77818 2.66227 2.92803 2.73776 4.22268 3.40687\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67741 2.69356 4.24634 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58478 3.61504\n- 0.25583 2.83721 1.78892 0.44868 1.01741 0.00000 *\n- 1 2.63401 4.34784 3.59328 3.10597 3.46756 3.52144 3.95388 2.77832 2.85290 2.42613 1.67300 3.43232 3.99824 3.29974 2.96052 2.67439 2.92349 2.59701 4.99068 3.73643 2 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02709 4.01795 4.74030 0.61958 0.77255 0.40734 1.09488\n- 2 2.59730 4.26018 3.57781 3.00794 3.39051 3.60052 3.86697 2.53376 2.94316 2.18423 2.56991 2.97466 3.97973 3.23917 3.13000 2.43920 2.73195 2.38923 4.85412 3.63065 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02303 4.17844 4.90078 0.61958 0.77255 0.50263 0.92871\n- 3 2.63932 5.02175 2.60926 1.97232 4.31398 3.19924 3.61762 3.76654 2.31238 3.13823 4.08055 2.71965 3.80927 2.73758 2.87344 2.62397 2.27821 3.38436 5.48644 3.74975 4 e - - -\n- 2.68617 4.42230 2.77518 2.73128 3.46359 2.40518 3.72500 3.29349 2.67746 2.69360 4.24695 2.90352 2.73723 3.18152 2.89797 2.37892 2.77495 2.98516 4.58482 3.61508\n- 0.10067 2.42666 4.90078 1.06097 0.42483 0.50263 0.92871\n- 4 2.46595 4.38963 3.36945 2.80418 3.20550 3.54722 3.79017 2.56117 2.76509 2.51869 3.32694 3.07033 3.72423 2.96182 2.53327 2.55881 2.74165 2.47440 4.96189 3.71405 11 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02303 4.17844 4.90078 0.61958 0.77255 0.50263 0.92871\n- 5 2.98838 4.41724 4.45740 3.90536 3.30310 4.14570 4.52366 2.02395 3.75990 1.10450 3.18267 4.14668 4.47917 3.99922 3.95043 3.19746 3.23592 1.93943 5.11511 3.94252 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02303 4.17844 4.90078 0.61958 0.77255 0.50263 0.92871\n- 6 2.40640 5.14017 2.48251 2.03148 4.45311 3.37764 3.63929 3.92374 2.27262 3.43434 4.20384 2.57636 2.56938 2.75690 2.92546 2.65204 2.83989 3.51616 5.59525 4.18871 13 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02303 4.17844 4.90078 0.61958 0.77255 0.50263 0.92871\n- 7 2.06174 4.69029 3.16001 2.63016 4.14626 3.37770 3.76128 3.54231 2.49764 3.15839 3.98437 3.08839 3.02'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19207 4.91441 0.61958 0.77255 0.48576 0.95510\n- 505 2.74056 5.03241 2.81853 1.44658 4.29619 3.43794 3.69148 3.40907 2.43872 3.27335 4.10993 2.94767 3.88035 2.48601 2.87264 2.73613 2.97918 3.21585 5.50577 4.14655 591 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19207 4.91441 0.61958 0.77255 0.48576 0.95510\n- 506 2.76937 4.86394 2.73743 2.64336 4.40991 3.27310 4.05403 4.08857 2.96083 3.71396 4.60515 0.97112 3.95103 3.29018 3.35105 2.68477 3.17147 3.63331 5.73011 4.31558 592 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19207 4.91441 0.61958 0.77255 0.48576 0.95510\n- 507 3.23442 4.92502 3.87781 3.77144 4.71961 3.59508 4.81170 4.36155 3.85900 3.94731 5.01856 4.04047 0.40239 4.23730 4.05748 3.41449 3.70302 3.96766 5.80495 4.84831 593 P - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19207 4.91441 0.61958 0.77255 0.48576 0.95510\n- 508 2.84509 4.33609 4.07591 3.53438 1.42589 3.53859 3.43636 2.78716 3.41373 2.25873 3.20980 3.72738 4.22641 3.63368 3.62024 3.15584 3.07524 2.60987 4.29402 2.60495 594 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.19207 4.91441 0.61958 0.77255 0.48576 0.95510\n- 509 2.13380 4.84808 3.03640 2.48290 4.12995 3.25159 3.65676 3.54488 2.35352 3.13421 3.94594 2.99333 3.84960 2.48851 2.20069 2.59528 2.78544 2.97691 5.35908 4.03277 595 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06232 4.19207 3.09435 0.61958 0.77255 0.48576 0.95510\n- 510 2.56508 4.82446 3.01206 2.45440 3.71579 3.24424 3.41422 3.48967 2.30568 3.08593 3.89843 2.97085 3.83135 2.69268 2.26958 2.18190 2.84945 3.00674 5.32049 3.98940 596 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05183 4.15336 3.35827 0.61958 0.77255 0.53238 0.88480\n- 511 2.40404 5.04871 2.79354 2.12432 4.36168 3.20501 3.58974 3.82402 2.04080 3.33933 4.10285 2.71389 3.54856 2.59741 2.75033 2.46372 2.71479 3.42299 5.50090 4.11123 597 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05167 4.12582 3.37520 0.61958 0.77255 0.56325 0.84247\n- 512 2.45234 4.58020 3.14846 2.58645 3.77347 3.25280 3.68895 3.15784 2.24236 2.53051 3.47942 2.93270 3.85799 2.89534 2.75866 2.59148 2.75731 2.51680 5.12197 3.83634 598 k - - -\n- 2.68588 4.42192 2.77523 2.73113 3.46363 2.40518 3.72504 3.29363 2.67746 2.69360 4.24699 2.90356 2.73749 3.18130 2.89787 2.37891 2.77529 2.98511 4.58486 3.61512\n- 0.37656 1.15905 * 0.62691 0.76408 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspH.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/SspBCDE__SspH.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5360 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME SspBCDE__SspH\n-LENG 1779\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Nov 10 10:44:26 2021\n-NSEQ 50\n-EFFN 1.376343\n-CKSUM 1281711841\n-GA 40 40;\n-STATS LOCAL MSV -13.7831 0.69452\n-STATS LOCAL VITERBI -14.5414 0.69452\n-STATS LOCAL FORWARD -7.6511 0.69452\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48134 4.56037 2.89257 2.59556 3.41545 3.06991 3.68737 2.84096 2.65888 2.34689 3.69412 3.07805 3.40746 2.98310 2.82856 2.66288 2.87819 2.66748 4.45425 3.62423\n- 2.68591 4.42254 2.77535 2.73137 3.46383 2.40527 3.72484 3.29336 2.67757 2.69370 4.24594 2.90376 2.73702 3.18155 2.89812 2.37872 2.77492 2.98512 4.58506 3.61514\n- 0.16507 2.27807 3.00212 2.26367 0.10978 0.00000 *\n- 1 2.83118 4.36425 4.09156 3.54342 3.00120 3.87701 4.18984 2.52346 3.41142 1.99512 1.45547 3.81557 4.25721 3.68131 3.64269 2.82841 3.08158 2.43144 4.88628 3.62530 20 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04166 4.23856 3.63538 0.61958 0.77255 0.54321 0.86959\n- 2 2.66601 5.04524 2.55514 2.36269 4.34241 3.41336 3.63684 3.79357 2.20554 3.09849 4.10908 2.36982 3.82897 2.62354 2.87652 2.64964 2.13898 3.41167 5.50996 4.13037 21 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02210 4.21901 4.94135 0.61958 0.77255 0.56701 0.83752\n- 3 2.39465 4.87880 2.76345 2.43839 4.18695 3.28067 3.65541 3.61652 2.43248 3.19414 3.99038 2.95938 3.13589 2.79144 2.25934 2.63505 2.31520 3.10722 5.40953 4.05975 22 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02210 4.21901 4.94135 0.61958 0.77255 0.56701 0.83752\n- 4 2.46820 4.86575 2.82741 2.43630 4.11678 3.44004 3.41400 3.28733 2.43204 2.66031 3.93475 2.30970 3.83368 2.68983 2.79818 2.35970 2.85616 3.20542 5.35989 4.01544 23 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02210 4.21901 4.94135 0.61958 0.77255 0.56701 0.83752\n- 5 2.66599 5.13388 2.42487 1.75624 4.45690 3.39936 3.61806 3.93030 2.20902 3.42768 4.18432 2.87191 3.81500 2.62094 2.71089 2.54488 2.77468 3.51343 5.57505 3.81009 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02210 4.21901 4.94135 0.61958 0.77255 0.56701 0.83752\n- 6 3.44897 4.74690 5.09676 4.55239 3.22868 4.74933 5.10225 1.88557 4.39598 0.78785 3.01230 4.80055 4.92163 4.50645 4.50438 4.12292 3.67928 2.09606 5.35783 4.28556 25 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02210 4.21901 4.94135 0.61958 0.77255 0.56701 0.83752\n- 7 3.28579 4.55364 5.09596 4.58976 3.60754 4.71345 5.25463 0.93511 4.47210 1.92676 3.39323 4.79887 4.9'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28249 5.00484 0.61958 0.77255 0.48576 0.95510\n- 1772 2.39441 5.21999 2.12561 1.95066 4.54282 3.23900 3.66612 4.02528 2.37402 3.51690 4.27660 2.37184 3.84728 2.77863 2.87566 2.67948 2.73375 3.60056 5.66283 4.24365 1978 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28249 5.00484 0.61958 0.77255 0.48576 0.95510\n- 1773 2.13325 4.23835 3.69774 2.96783 3.36048 3.65056 3.64342 2.19231 2.92240 2.12885 3.03951 3.47159 4.02631 3.33428 3.35293 2.82930 2.70873 2.38769 4.83525 3.62012 1979 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28249 5.00484 0.61958 0.77255 0.48576 0.95510\n- 1774 2.84987 4.43284 4.74848 4.20428 3.58305 4.37844 4.83454 1.00478 4.08497 2.11424 3.15199 4.41700 4.69324 4.32588 4.27013 3.72190 3.07788 1.74777 5.40546 4.22545 1980 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28249 5.00484 0.61958 0.77255 0.48576 0.95510\n- 1775 2.36121 4.01505 3.08574 2.52554 3.99003 3.30025 3.68958 3.07181 2.40319 2.77646 3.84538 2.90235 3.87221 2.45979 2.36018 2.53383 2.86880 3.09088 5.28272 3.96556 1981 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28249 5.00484 0.61958 0.77255 0.48576 0.95510\n- 1776 2.27883 4.92876 3.01543 2.45367 4.19704 3.46492 3.65205 3.52955 1.96668 3.02291 3.99439 2.97746 3.85457 2.56224 2.61116 2.28564 2.88532 3.18148 5.40760 3.88487 1982 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02073 4.28249 5.00484 0.61958 0.77255 0.48576 0.95510\n- 1777 2.17468 4.95906 2.57765 2.34752 3.67066 3.04176 3.63801 3.67370 2.40873 3.11676 4.01927 2.81603 3.56939 2.70264 2.65252 2.56253 2.75304 3.31167 5.43629 3.75020 1983 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08295 4.28249 2.72127 0.61958 0.77255 0.48576 0.95510\n- 1778 2.44693 3.92141 2.58925 2.70550 3.66949 3.52412 3.76042 3.04688 2.67842 2.72999 3.38196 2.97425 3.91104 3.00613 3.00134 2.68523 2.84344 2.68253 2.65304 3.79296 1984 a - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40510 3.72496 3.29356 2.67743 2.69344 4.24692 2.90349 2.73729 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.12335 2.49223 3.40164 0.56670 0.83793 0.46990 0.98101\n- 1779 2.54568 4.66944 2.90357 1.91976 4.40963 3.41871 3.40854 3.87512 2.11786 3.37897 4.13529 2.58112 3.81345 2.54162 2.63752 2.52809 2.77075 3.46581 5.52940 4.13976 1987 e - - -\n- 2.68536 4.42264 2.77535 2.73093 3.46365 2.40519 3.72494 3.29379 2.67748 2.69354 4.24728 2.90359 2.73756 3.18165 2.89809 2.37891 2.77500 2.98521 4.58516 3.61518\n- 0.44833 1.01803 * 1.62785 0.21859 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Stk2__Stk2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Stk2__Stk2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1532 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Stk2__Stk2\n-LENG 503\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Apr 19 10:28:00 2021\n-NSEQ 100\n-EFFN 0.735474\n-CKSUM 327812429\n-GA 150 150;\n-STATS LOCAL MSV -11.9085 0.69801\n-STATS LOCAL VITERBI -12.6644 0.69801\n-STATS LOCAL FORWARD -6.1438 0.69801\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62766 4.42534 2.85300 2.60460 3.11450 3.06605 3.69357 2.70410 2.60096 2.43900 3.62575 2.97845 3.73530 3.06271 2.97367 2.65843 2.91895 2.65960 4.89577 3.24003\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.29461 4.01433 1.43917 0.61958 0.77255 0.00000 *\n- 1 2.88187 4.45118 3.92463 3.51283 3.16513 3.74581 4.27539 2.32941 3.28584 1.78133 1.62396 3.80371 4.20909 3.67766 3.50425 3.21701 3.18662 2.32083 4.98803 3.73714 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03538 3.75510 4.47745 0.61958 0.77255 0.39921 1.11125\n- 2 3.00132 4.40349 4.47264 3.89806 3.09654 4.17993 4.46203 1.80083 3.76274 1.49000 1.98298 4.14832 4.45310 3.94904 3.93092 3.49172 3.22713 2.20271 4.96807 3.54124 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00029 4.72263 0.61958 0.77255 0.50896 0.91909\n- 3 2.64123 4.91860 2.34692 2.31504 4.35284 3.25617 3.70902 3.80123 2.57416 3.37464 4.18661 1.94315 3.78951 2.86394 3.06482 2.41460 2.38473 3.40591 5.57724 4.19605 3 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02758 4.00029 4.72263 0.61958 0.77255 0.50896 0.91909\n- 4 2.72681 5.06285 2.53223 1.54455 4.41214 3.30117 3.68068 3.85931 2.41198 3.41041 4.22740 2.82407 3.38039 2.83017 2.96232 2.31064 2.99164 3.47889 5.59856 4.21351 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04604 4.00029 3.62366 0.61958 0.77255 0.50896 0.91909\n- 5 2.82385 5.32538 2.10634 1.43901 4.61812 3.25511 3.69340 4.10747 2.57356 3.61886 4.43627 2.35512 3.81441 2.84267 3.14526 2.74267 3.09064 3.58182 5.78569 4.32883 5 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02809 3.98233 4.70468 0.61958 0.77255 0.52684 0.89274\n- 6 2.49788 4.14428 3.99456 3.42026 2.98564 3.75248 4.06401 1.86042 3.31748 2.04508 2.67144 3.68524 4.11352 3.56196 3.54309 2.76178 2.88511 2.15645 4.79267 3.59556 6 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02809 3.98233 4.70468 0.61958 0.77255 0.52684 0.89274\n- 7 3.10967 4.58426 4.19328 3.72282 2.86974 4.10211 4.19454 2.43603 3.49982 1.01168 3.12809 3.98756 4.43765 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03082 3.97429 4.46015 0.61958 0.77255 0.53803 0.87682\n- 496 3.10877 4.50094 4.47510 4.09527 3.44240 4.17235 4.80560 0.96276 3.92530 2.00900 3.36319 4.32676 4.59473 4.26384 4.11059 3.67790 3.40647 1.85298 5.35322 4.09957 501 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02839 3.97185 4.69419 0.61958 0.77255 0.54037 0.87355\n- 497 3.03996 5.16911 2.53272 0.89198 4.52813 3.33969 3.93604 4.00185 2.82922 3.60334 4.57373 2.99246 3.94922 3.15010 3.24780 3.01271 3.34519 3.67572 5.68101 4.40416 502 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02839 3.97185 4.69419 0.61958 0.77255 0.54037 0.87355\n- 498 2.84130 5.34192 1.81630 1.47301 4.64672 3.23658 3.71233 4.12101 2.65764 3.64980 4.47983 2.70907 3.81557 2.86734 3.21319 2.75617 2.83642 3.71265 5.82639 4.35949 503 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02839 3.97185 4.69419 0.61958 0.77255 0.54037 0.87355\n- 499 2.72405 4.43879 3.55498 3.00573 3.58808 3.67172 3.93467 1.85497 2.11112 2.45002 3.49855 3.40735 4.06352 3.21225 3.04249 2.96604 2.96563 2.21334 5.10319 3.86224 504 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02839 3.97185 4.69419 0.61958 0.77255 0.54037 0.87355\n- 500 3.26776 4.70098 4.34876 3.98978 3.17551 4.10780 4.61437 2.38577 3.75654 0.76191 3.16872 4.25558 4.52653 4.10107 3.91606 3.69129 3.55776 2.44876 5.09012 3.83614 505 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02839 3.97185 4.69419 0.61958 0.77255 0.54037 0.87355\n- 501 2.71157 5.11957 2.48799 2.07512 4.43279 3.34141 3.60819 3.88578 1.75068 3.39884 4.19286 2.71686 3.80213 2.65459 2.78825 2.67216 2.76434 3.49736 5.55645 4.17482 506 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02839 3.97185 4.69419 0.61958 0.77255 0.54037 0.87355\n- 502 2.68747 5.12777 2.06014 2.16906 4.43380 2.68934 3.62034 3.90399 2.44609 3.42326 4.21094 2.60067 3.77989 2.59758 2.76907 2.44060 2.93581 3.50394 5.59438 4.18120 507 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16677 3.97185 2.00422 0.61958 0.77255 0.54037 0.87355\n- 503 2.69466 5.07588 2.09013 2.18636 4.34219 3.24899 3.38762 3.83874 2.44062 3.37501 4.19044 2.12925 3.75933 2.75764 2.70847 2.65304 2.94995 3.45917 5.53729 4.12771 508 d - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46356 2.40515 3.72496 3.29356 2.67721 2.69357 4.24656 2.90349 2.73741 3.18148 2.89803 2.37889 2.77521 2.98520 4.58479 3.61505\n- 0.19999 1.70780 * 0.31804 1.30037 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Thoeris_II__ThsA_new_petit.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Thoeris_II__ThsA_new_petit.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,716 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Thoeris_II__ThsA_new_petit\n-LENG 231\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jun 14 14:28:03 2021\n-NSEQ 20\n-EFFN 4.916992\n-CKSUM 1395713040\n-GA 20 20;\n-STATS LOCAL MSV -10.2479 0.70371\n-STATS LOCAL VITERBI -11.6442 0.70371\n-STATS LOCAL FORWARD -4.8422 0.70371\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64301 4.57672 2.94082 2.66412 3.19034 2.90633 3.75248 2.61681 2.58562 2.43970 3.73290 2.91784 3.45756 3.15045 3.03317 2.58818 2.85544 2.68158 4.75835 3.47320\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00721 5.33230 6.05465 0.61958 0.77255 0.00000 *\n- 1 4.03516 5.34108 5.87057 5.29179 2.85842 5.26899 5.54510 3.04579 5.11553 1.90616 0.55709 5.40515 5.46996 5.12147 5.11896 4.62295 3.12100 3.19726 5.76669 4.64846 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12789 5.33230 2.16093 0.61958 0.77255 0.48576 0.95510\n- 2 2.55856 3.49311 4.11995 3.54582 3.72023 3.09388 4.31616 2.08655 2.81363 1.93008 2.88397 2.66531 4.41577 3.74590 3.76251 2.23674 2.77070 2.86415 5.19919 3.98716 2 l - - -\n- 2.68796 4.41924 2.77391 2.73319 3.45324 2.40823 3.73078 3.27693 2.68007 2.68895 4.24749 2.90779 2.74021 3.18053 2.89889 2.38252 2.77674 2.98360 4.57663 3.60812\n- 1.86061 0.40522 1.72828 3.08937 0.04660 0.85299 0.55537\n- 3 2.88721 5.31875 3.16835 2.05078 4.63267 3.67333 3.86322 3.12915 1.77483 3.06012 4.36788 2.61296 4.06591 2.97078 2.64283 2.45921 2.62438 3.69257 5.77019 3.19876 54 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07668 5.02023 2.69990 0.61958 0.77255 1.20548 0.35603\n- 4 3.29136 4.62949 5.14712 4.59219 1.82086 4.42318 4.40255 1.52105 4.38285 1.61561 3.59835 4.50291 4.75513 4.44458 4.36922 3.74559 3.51902 2.84816 2.97143 2.43800 55 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01054 4.95409 5.67643 0.61958 0.77255 1.29135 0.32144\n- 5 2.86513 4.89583 3.38695 2.43891 4.09105 3.02537 3.95580 2.38884 2.17922 3.13456 3.97971 3.32133 4.12580 2.65478 3.24993 2.48888 2.69728 2.64318 3.39455 3.06678 56 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01054 4.95409 5.67643 0.61958 0.77255 1.29135 0.32144\n- 6 2.18494 5.26857 2.63057 2.25459 4.57351 2.50556 3.84124 3.11462 2.35229 2.55714 4.32011 3.13381 4.04174 2.53849 3.07908 2.84216 2.59551 3.63746 5.72604 4.34060 57 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01054 4.95409 5.67643 0.61958 0.77255 1.29135 0.32144\n- 7 2.44249 4.40047 4.20333 3.62206 3.50927 2.64841 4.25225 2.39271 2.74421 1.63162 2.75839 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11188 5.83423 0.61958 0.77255 0.88374 0.53313\n- 224 2.58167 5.03574 3.42323 2.58293 4.24670 3.80293 4.01025 2.86093 1.58592 2.10349 4.11453 3.36509 4.19027 2.36143 3.27044 3.01463 3.17762 2.75264 5.55767 4.24990 426 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00899 5.11188 5.83423 0.61958 0.77255 0.88374 0.53313\n- 225 2.02446 5.45275 3.16269 1.76139 4.79429 3.71103 3.01798 4.27743 1.95916 3.75597 4.49681 2.66710 4.11162 3.00687 3.13522 2.09790 3.18308 3.84202 5.88697 4.47792 427 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12503 5.11188 2.19371 0.61958 0.77255 0.88374 0.53313\n- 226 2.53876 4.39133 4.31968 2.92224 1.94177 3.99711 3.05688 2.09432 3.62187 2.22188 3.50550 3.11379 4.36724 3.84919 3.81692 3.28024 3.13422 2.01104 5.00126 3.80694 428 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01009 4.99695 5.71930 0.61958 0.77255 1.09074 0.40943\n- 227 2.87810 4.33031 4.43616 2.94178 2.75885 3.99547 4.30443 2.32349 2.94981 1.74067 3.44523 4.01325 4.36355 3.91250 3.07772 3.28684 3.11012 1.77662 3.17697 3.75592 429 l - - -\n- 2.68620 4.42227 2.77522 2.73126 3.46356 2.40515 3.72497 3.29356 2.67706 2.69357 4.24692 2.90349 2.73742 3.18149 2.89803 2.37889 2.77522 2.98521 4.58479 3.61505\n- 0.15279 2.61606 2.67946 0.27982 1.41026 1.09074 0.40943\n- 228 2.83353 5.27151 3.10282 2.21481 4.58801 3.61526 2.90139 3.04551 2.24775 3.56416 4.32057 2.12554 4.00953 2.91394 3.03819 2.20570 2.27576 3.64687 5.72142 4.32921 431 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01140 4.87585 5.59820 0.61958 0.77255 1.18128 0.36656\n- 229 3.01016 5.47816 2.95234 1.64539 4.84509 2.11187 3.95637 4.32580 2.29878 3.81696 4.58471 3.14444 4.12286 3.07448 3.22792 1.65794 3.26015 3.89587 5.95987 4.54644 432 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09334 4.87585 2.50731 0.61958 0.77255 1.18128 0.36656\n- 230 3.26025 4.58786 5.16633 4.57951 3.47572 4.50912 4.84754 1.69248 4.40537 1.16158 3.38703 4.64193 4.80349 4.51452 4.44146 3.83952 3.49121 1.73414 5.25080 2.68415 433 l - - -\n- 2.68578 4.42264 2.77559 2.73163 3.46208 2.40552 3.72534 3.29315 2.67617 2.69394 4.24729 2.90333 2.73740 3.18186 2.89840 2.37862 2.77514 2.98558 4.58516 3.61542\n- 1.00253 0.85797 1.56529 1.00372 0.45652 0.66451 0.72263\n- 231 2.53651 5.34183 2.48865 2.51067 4.67886 3.59053 3.03664 4.16083 1.96025 3.64450 4.39021 2.57129 4.00046 2.90454 3.04401 1.66509 3.08045 3.72937 5.78046 4.37036 439 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00818 4.81036 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Thoeris_I__ThsA_new_grand.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Thoeris_I__ThsA_new_grand.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1436 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Thoeris_I__ThsA_new_grand\n-LENG 471\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jun 14 14:28:15 2021\n-NSEQ 30\n-EFFN 3.482666\n-CKSUM 113577546\n-GA 20 20;\n-STATS LOCAL MSV -11.5774 0.69833\n-STATS LOCAL VITERBI -12.5788 0.69833\n-STATS LOCAL FORWARD -6.1770 0.69833\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54108 4.56293 2.92800 2.59327 3.27180 2.91276 3.75394 2.73498 2.60783 2.43442 3.69565 3.00538 3.52008 3.06414 2.94991 2.63398 2.85190 2.70218 4.63676 3.46354\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12618 4.87607 2.19900 0.61958 0.77255 0.00000 *\n- 1 3.99006 5.42697 5.20540 4.95719 4.00972 4.64640 5.49117 3.30537 4.68347 2.53549 0.34172 5.10350 5.17715 5.02914 4.76433 4.38639 4.34970 3.40418 5.89398 4.72356 1 M - - -\n- 2.68567 4.41974 2.77547 2.73221 3.46330 2.40538 3.72593 3.29206 2.67808 2.69257 4.24458 2.90360 2.73756 3.18219 2.89681 2.37909 2.77551 2.98504 4.58575 3.61601\n- 1.03188 0.80341 1.63034 1.85468 0.17020 0.72247 0.66466\n- 2 2.37209 5.05118 3.03794 2.16762 4.33505 3.19742 3.71442 3.46314 1.98415 3.33157 4.11334 3.01730 2.87054 2.83754 2.95660 2.71431 2.40714 3.06590 5.52788 4.16072 25 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11301 4.54982 2.34044 0.61958 0.77255 0.52146 0.90055\n- 3 2.59648 4.15844 4.59119 3.98529 2.15938 3.91782 4.24422 2.08571 3.79957 2.34132 2.48525 4.03454 4.28228 3.95603 3.85576 2.95873 2.68211 2.08832 4.77903 2.51370 26 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01404 4.66836 5.39071 0.61958 0.77255 0.86913 0.54355\n- 4 2.77096 5.19597 3.04296 2.26352 4.51279 3.55053 3.73832 3.97397 1.95122 2.89134 4.24718 2.62620 3.94470 2.84708 2.80006 1.84697 2.63129 3.57195 5.64447 4.25889 27 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01404 4.66836 5.39071 0.61958 0.77255 0.86913 0.54355\n- 5 2.40654 5.25521 3.01729 2.16422 4.59641 3.08248 3.02320 4.07534 1.80276 3.55609 4.29810 3.00720 3.43811 2.59216 2.43099 2.72957 2.82327 3.64404 5.68765 4.28519 28 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01404 4.66836 5.39071 0.61958 0.77255 0.86913 0.54355\n- 6 2.91077 5.45474 2.08510 1.53084 4.78652 3.54549 3.83121 4.28391 2.42049 3.75391 4.50873 2.61030 2.88810 2.34477 3.14457 2.85053 3.15330 3.84009 5.88457 4.44735 29 e - - -\n- 2.68596 4.42240 2.77535 2.73139 3.46369 2.40528 3.72510 3.29369 2.67743 2.69333 4.24641 2.90362 2.73755 3.18162 2.89816 2.37887 2.77535 2.98392 4.58492 3.61518\n- 0.77634 0.99885 1.76254 0.41277 1.08416 0.63300 0.75715\n- 7 2.72617 5.14560 2.55921 2.15092 4.45480 2.90166 2.93190 2.59773 2.14985 3.43499 4.19623 2.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80581 5.52815 0.61958 0.77255 0.88150 0.53471\n- 464 2.81315 3.67777 3.41279 3.59813 3.42397 3.89945 4.19526 2.34744 3.49278 1.78852 3.18882 3.84266 3.13438 3.72773 2.64127 3.17937 2.83450 1.89908 4.92581 3.36920 662 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80581 5.52815 0.61958 0.77255 0.88150 0.53471\n- 465 2.65154 5.29961 2.70567 2.14401 4.63842 3.57706 3.42566 3.56245 1.86074 3.60203 4.34219 3.04680 3.97163 2.51702 2.99483 1.92996 2.77457 3.68694 5.73573 4.32850 663 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80581 5.52815 0.61958 0.77255 0.88150 0.53471\n- 466 2.35215 4.34077 4.64681 4.04967 2.81774 4.08687 4.40663 1.40436 3.88880 1.74214 2.98451 4.16114 4.43707 2.98727 3.98394 3.39014 3.16499 2.49757 4.95718 3.78701 664 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80581 5.52815 0.61958 0.77255 0.88150 0.53471\n- 467 3.69700 4.89594 5.77427 5.28195 4.01296 5.27759 5.89957 1.28207 5.20570 1.52576 3.75560 5.43408 5.45996 5.36303 5.31237 4.69708 3.94605 1.03796 6.13524 4.99210 665 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80581 5.52815 0.61958 0.77255 0.88150 0.53471\n- 468 2.45930 5.32245 2.52481 2.11693 4.66177 3.58020 3.77895 3.66389 1.64108 3.62519 4.36615 2.38062 3.98155 2.87859 3.01457 2.45317 3.05301 3.71029 5.75778 4.34753 666 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80581 5.52815 0.61958 0.77255 0.88150 0.53471\n- 469 2.80280 5.27632 2.64131 1.98246 4.60630 3.58079 3.76989 2.90713 2.21338 2.73687 4.32116 2.88170 3.97450 2.15335 2.81687 2.51210 3.03395 3.65887 5.71777 4.31648 667 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01223 4.80581 5.52815 0.61958 0.77255 0.88150 0.53471\n- 470 2.81675 4.23077 4.00148 3.94916 2.99483 3.06898 4.27952 2.27140 3.78210 1.53162 2.77722 4.04208 4.32486 3.51315 3.87124 3.25970 3.04885 2.05625 4.84829 2.65386 668 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02991 4.80581 3.84998 0.61958 0.77255 0.47141 0.97848\n- 471 2.61385 5.27619 3.04857 2.21424 4.61202 3.26191 3.75420 4.09026 2.04254 2.92821 4.31966 2.64089 3.14553 2.59559 2.34050 2.75780 2.41903 3.66194 5.71371 4.31021 669 k - - -\n- 2.68527 4.42211 2.77526 2.73134 3.46129 2.40584 3.72443 3.29337 2.67676 2.69396 4.24679 2.90364 2.73775 3.18268 2.89799 2.37953 2.77497 2.98610 4.58203 3.61305\n- 0.90896 0.51575 * 2.16198 0.12228 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Thoeris__ThsB_Global.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Thoeris__ThsB_Global.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,602 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Thoeris__ThsB_Global\n-LENG 193\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Jun 14 14:27:40 2021\n-NSEQ 53\n-EFFN 8.730896\n-CKSUM 3204667292\n-GA 20 20;\n-STATS LOCAL MSV -10.5199 0.70579\n-STATS LOCAL VITERBI -11.5282 0.70579\n-STATS LOCAL FORWARD -4.7052 0.70579\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66814 4.44211 2.79595 2.59890 3.40228 2.81588 3.72067 2.88288 2.53312 2.61806 3.79446 2.87497 3.21153 3.14179 2.90647 2.49819 2.87916 2.87420 4.31652 3.42854\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00570 5.56634 6.28869 0.61958 0.77255 0.00000 *\n- 1 4.93112 6.18680 6.53780 6.22743 3.38559 5.87817 6.00600 3.65036 6.02193 2.63361 0.22707 6.19599 6.14883 5.91846 5.93434 5.48865 5.21532 3.94307 6.01493 4.58711 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20834 5.56634 1.69149 0.61958 0.77255 0.48576 0.95510\n- 2 2.49176 4.96957 3.71126 2.90998 3.41197 2.80002 4.21106 3.03506 2.80028 3.19572 4.06225 2.69247 4.36542 3.45195 3.53654 2.13797 2.79279 2.44234 5.52539 1.93494 2 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21285 5.36497 1.67639 0.61958 0.77255 0.67450 0.71215\n- 3 2.68767 5.33598 3.32305 2.30494 3.63684 2.94257 3.99688 2.54805 1.97756 3.61299 4.39443 2.68079 4.19311 3.11977 2.09295 2.99731 2.87149 2.72514 5.80966 4.44198 3 k - - -\n- 2.69453 4.42308 2.77717 2.72858 3.45097 2.41244 3.72392 3.27821 2.66897 2.68858 4.24630 2.90323 2.74260 3.17950 2.90037 2.38664 2.78050 2.98681 4.58069 3.58850\n- 1.61951 0.43993 1.84566 3.63136 0.02684 1.31905 0.31114\n- 4 2.94075 5.44829 2.78662 1.68921 4.78925 3.69891 3.89822 4.27445 2.24025 3.75179 4.49123 2.17258 4.10068 2.99721 3.13555 1.91027 2.80390 3.83696 5.88238 3.46137 113 e - - -\n- 2.68818 4.42456 2.78004 2.72663 3.44885 2.41638 3.72553 3.26903 2.66417 2.69078 4.24335 2.89838 2.74859 3.18391 2.89994 2.38477 2.78244 2.98624 4.58725 3.60121\n- 1.74191 0.33062 2.24117 3.94609 0.01952 1.24733 0.33865\n- 5 2.91351 4.99134 2.93371 2.83802 4.19890 3.77369 3.98650 2.56686 2.82184 2.41324 4.07220 2.09093 4.16177 3.16702 1.90988 2.98516 2.60328 2.90020 5.51814 4.21108 210 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00950 5.05745 5.77979 0.61958 0.77255 1.57815 0.23112\n- 6 2.93819 5.45623 2.03186 1.54440 4.79994 3.68584 3.89113 4.28830 2.39721 3.76072 4.49895 2.82586 3.10397 2.72697 2.76861 2.34734 3.17127 3.84647 5.88775 4.47202 211 e - - -\n- 2.68947 4.42147 2.77982 2.73114 3.45292 2.41084 3.72970 3.28112 2.66519 2.68872 4.24888 2.90049 2.74477 3.18221 2.89704 2.38408 2.77951 2.98499 4.59164 3.60452\n- 1.32922 0.31166 5.77979 3.63180 0.02683 1.57815 0.23112\n- 7 2.61061 5.33768 2.83871 2.62411 3.72804 2.25856 3.87752 3.43342 2.10312 3.63041 4.38659 3.16690'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01785 4.43046 5.15281 0.61958 0.77255 1.07743 0.41623\n- 186 2.67803 3.51238 2.72916 2.62257 3.93547 3.54309 3.76048 2.93478 1.90446 2.44411 3.81636 3.11996 3.93230 2.94805 3.04159 2.40307 2.91027 3.03748 5.26437 3.96293 853 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01785 4.43046 5.15281 0.61958 0.77255 1.07743 0.41623\n- 187 2.49366 5.20119 2.58367 2.15402 4.54105 3.45667 3.65504 4.02336 2.24886 3.50269 4.24512 2.48198 3.85913 2.31837 2.31162 2.48620 2.93320 3.58941 5.63436 4.22591 854 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01785 4.43046 5.15281 0.61958 0.77255 1.07743 0.41623\n- 188 2.00908 4.53948 3.19873 2.73400 4.04351 3.28167 3.74343 3.37516 2.34093 3.03387 3.94157 3.11935 3.81511 2.94183 1.83979 2.67265 2.88038 3.05525 5.29342 4.04526 855 r - - -\n- 2.68656 4.42263 2.77472 2.73120 3.46221 2.40492 3.72533 3.29344 2.67779 2.69353 4.24540 2.90385 2.73750 3.18120 2.89790 2.37925 2.77558 2.98504 4.58252 3.61541\n- 0.47918 0.99377 4.55345 1.92720 0.15730 0.60086 0.79483\n- 189 2.60368 4.67971 3.16782 2.67273 4.21658 2.54247 3.76453 3.61090 2.41336 3.21433 4.05006 3.10414 3.85440 2.93430 1.76907 2.68204 2.32807 3.24392 5.42146 4.14989 869 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02556 4.07522 4.79756 0.61958 0.77255 0.84440 0.56180\n- 190 3.07177 4.40917 4.71367 4.22282 3.50501 4.37411 4.94415 1.18030 4.09932 2.00261 3.32058 4.45101 4.70125 4.37068 4.30190 3.76372 3.34199 1.38826 5.47332 4.26828 870 i - - -\n- 2.68526 4.42252 2.77503 2.73109 3.46324 2.40539 3.72521 3.29308 2.67741 2.69382 4.24716 2.90373 2.73766 3.18173 2.89827 2.37856 2.77546 2.98545 4.58504 3.61463\n- 0.40589 1.12581 4.68549 1.59587 0.22656 0.63118 0.75920\n- 191 2.24041 4.83931 2.49980 2.42486 4.07471 3.41270 3.63726 3.51516 2.42246 3.11032 3.92584 2.94523 3.82257 2.78892 2.31261 2.64862 2.85885 3.18541 5.33043 3.06165 877 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02494 4.09963 4.82198 0.61958 0.77255 0.35581 1.20599\n- 192 2.94416 4.69395 3.66009 3.58835 4.71731 0.47009 4.69125 4.37207 3.79760 3.99854 4.97943 3.82508 4.09143 4.10567 4.00634 3.12280 3.44156 3.86024 5.75279 4.82787 878 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02543 4.08026 4.80261 0.61958 0.77255 0.48576 0.95510\n- 193 2.75891 4.27438 4.02036 3.44933 2.46160 3.83553 4.10154 2.47417 3.34963 1.67323 2.50422 3.73701 2.81467 3.58707 3.58409 3.12036 2.99076 2.39609 4.79672 3.57739 879 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01719 4.07202 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4637 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Tiamat__TmtA\n-LENG 1538\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:43 2021\n-NSEQ 92\n-EFFN 7.021851\n-CKSUM 25135031\n-GA 300 300;\n-STATS LOCAL MSV -13.6368 0.69473\n-STATS LOCAL VITERBI -14.6199 0.69473\n-STATS LOCAL FORWARD -7.0277 0.69473\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.65599 4.63686 2.81700 2.49379 3.26621 3.00445 3.79609 2.83090 2.55647 2.44863 4.04417 2.90452 3.35091 3.03857 2.92196 2.57822 2.84907 2.83583 4.56863 3.42211\n- 2.68627 4.42243 2.77538 2.73142 3.46372 2.40489 3.72513 3.29356 2.67746 2.69328 4.24433 2.90316 2.73749 3.18165 2.89819 2.37905 2.77514 2.98519 4.58495 3.61521\n- 0.18935 2.34308 2.57088 0.91983 0.50848 0.00000 *\n- 1 4.73120 5.93111 6.69940 6.16968 4.10208 6.12396 6.53513 3.15102 5.97934 2.07831 0.35570 6.36961 6.14923 5.84620 5.91578 5.58189 4.95811 2.69229 6.41586 5.45458 9 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00576 5.55604 6.27838 0.61958 0.77255 0.81249 0.58654\n- 2 2.30992 5.65311 2.20823 2.07485 4.99744 3.91827 4.10541 4.48288 2.50577 3.37618 4.69397 2.68581 4.31173 2.93108 2.66898 1.96556 2.88688 3.24006 6.08624 3.19670 10 s - - -\n- 2.68453 4.42412 2.77503 2.72867 3.46163 2.40616 3.72339 3.29392 2.67840 2.69264 4.24888 2.90479 2.73893 3.18339 2.89763 2.37785 2.77539 2.98460 4.58840 3.61744\n- 1.59944 0.74718 1.12613 2.33784 0.10152 0.81249 0.58654\n- 3 2.82627 5.37898 2.74143 2.25329 4.69139 2.75344 3.58945 2.77976 2.49160 2.99187 4.42836 3.21810 2.67043 2.82678 2.96798 2.30590 3.00168 3.34367 5.83172 2.96245 51 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09087 5.16682 2.51127 0.61958 0.77255 1.36479 0.29496\n- 4 2.93211 5.42622 2.63241 2.19524 4.76436 3.06050 2.84400 3.62331 2.19461 2.64301 3.93917 2.84438 3.75088 2.99482 2.15612 2.65331 3.00919 3.60107 5.86307 3.94177 52 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00882 5.13097 5.85331 0.61958 0.77255 1.49963 0.25259\n- 5 2.86863 5.36160 2.56793 2.36161 4.66958 3.55885 3.92461 3.39024 2.08689 2.85251 4.41220 3.08615 4.12577 2.65055 3.16130 2.58565 2.20554 3.52552 2.51745 4.42974 53 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00862 5.15382 5.87616 0.61958 0.77255 1.08385 0.41293\n- 6 2.17427 5.44627 3.27190 2.25598 4.76605 3.22533 3.97152 3.91782 2.39171 3.44191 3.32749 3.00822 3.42121 2.57698 3.08136 2.01881 2.47247 3.53697 5.89439 3.22021 54 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00767 5.26986 5.99220 0.61958 0.77255 1.04121 0.43545\n- 7 2.28693 5.51740 2.46648 2.08057 4.34266 2.68381 3.78550 3.65226 2.74257 3.26217 4.56128 2.8762'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00672 5.40207 6.12442 0.61958 0.77255 0.88560 0.53182\n- 1531 2.12654 5.34179 3.47464 2.24368 4.59185 3.50955 4.12252 2.95661 2.12257 2.32702 3.02570 3.44169 4.31176 2.64184 2.61086 2.83700 2.99933 3.05279 5.83594 4.12554 2848 k - - -\n- 2.68576 4.42086 2.77603 2.72845 3.46477 2.40493 3.72295 3.29272 2.67823 2.69408 4.24813 2.90375 2.73824 3.18225 2.89714 2.37960 2.77544 2.98494 4.58600 3.61443\n- 0.50265 0.93397 6.17530 1.54981 0.23862 0.53496 0.88115\n- 1532 3.27429 4.64448 5.23744 4.62412 3.12038 4.45075 3.84763 1.33542 4.41181 2.08611 2.30695 4.61239 3.30760 4.54033 4.42085 3.76363 3.50637 1.52689 5.27208 4.09927 2859 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00580 5.54794 6.27028 0.61958 0.77255 0.79549 0.60031\n- 1533 2.72924 5.64889 3.08579 2.40604 4.99333 3.91379 3.46897 4.01179 1.99482 3.37969 4.68972 2.98465 4.30724 2.74746 2.26195 1.91223 2.75294 4.03919 6.08194 2.57166 2860 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01954 5.54794 4.17002 0.61958 0.77255 0.79549 0.60031\n- 1534 2.81385 3.81184 5.19697 4.58147 1.56532 4.39480 4.72966 1.87789 4.36464 1.75716 3.44845 4.56061 4.09972 4.49348 4.36931 3.70697 3.45452 1.89626 5.21879 3.23345 2861 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00588 5.53428 6.25663 0.61958 0.77255 0.84287 0.56295\n- 1535 3.14243 5.65650 1.64315 1.98970 5.00242 3.91077 3.57039 4.13166 1.67232 3.96196 4.69731 2.40814 4.30668 2.88144 3.17833 3.00472 2.87272 4.04767 6.08817 4.67598 2862 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07727 5.53428 2.65346 0.61958 0.77255 0.84287 0.56295\n- 1536 3.10862 5.27224 3.25223 2.55981 3.12188 3.94860 4.15493 2.44042 2.02048 2.17672 3.92202 3.48941 4.33779 2.23527 2.29517 3.15361 3.04907 3.07613 5.78216 4.45562 2863 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15984 5.44841 1.94197 0.61958 0.77255 1.05034 0.43051\n- 1537 2.55414 5.40262 3.01939 2.01803 4.70067 3.80619 3.99894 2.46566 1.56933 3.49605 3.96842 3.02246 3.80507 3.11299 3.23864 2.77023 2.94473 2.91307 5.86453 4.07815 2864 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25333 5.29604 1.51970 0.61958 0.77255 1.35400 0.29868\n- 1538 2.89750 5.40173 2.74122 1.97215 3.03932 3.25963 3.37415 3.67809 2.30092 3.70586 4.44310 2.42005 3.21235 2.68545 2.69972 2.53528 2.72668 3.49849 5.83603 4.42672 2865 e - - -\n- 2.68540 4.42369 2.77447 2.72914 3.46424 2.40587 3.72619 3.29324 2.67673 2.69351 4.24855 2.90375 2.73853 3.18238 2.89703 2.37892 2.77578 2.98440 4.58722 3.61625\n- 1.40257 0.28231 * 1.98847 0.14723 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2505168307.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2505168307.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4133 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2505168307\n-LENG 1370\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:09:04 2022\n-NSEQ 10\n-EFFN 1.811523\n-CKSUM 1357428018\n-GA 300 300;\n-STATS LOCAL MSV -13.0766 0.69493\n-STATS LOCAL VITERBI -14.2975 0.69493\n-STATS LOCAL FORWARD -7.0655 0.69493\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.48163 4.44841 2.85943 2.60340 3.42769 2.88007 3.71319 2.99917 2.75974 2.38536 3.81609 3.10797 3.10122 2.99413 2.86204 2.62574 2.82497 2.70617 4.47230 3.63644\n- 2.68519 4.42210 2.77494 2.72883 3.46497 2.40634 3.72637 3.29497 2.67884 2.69163 4.24564 2.90489 2.73783 3.18234 2.89725 2.37869 2.77592 2.98253 4.58620 3.61646\n- 0.49643 1.13889 2.64333 2.70539 0.06918 0.00000 *\n- 1 3.45646 4.73826 5.30206 4.72786 3.35430 4.77993 5.13242 1.89361 4.59072 1.33726 1.47512 4.88895 4.96667 4.63529 4.63511 4.13310 3.67948 1.88462 5.39272 4.33923 23 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48774 5.21008 0.61958 0.77255 0.59858 0.79760\n- 2 2.32234 4.94042 3.16793 2.63927 4.35368 3.51292 3.81056 3.77078 2.52134 3.34871 4.15530 2.56221 3.96014 2.95423 1.88228 2.77610 1.91182 3.40426 5.55180 4.23099 24 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48774 5.21008 0.61958 0.77255 0.59858 0.79760\n- 3 2.36758 4.99593 2.56057 2.48248 4.27180 3.50077 2.97990 3.70709 2.48657 2.78357 4.06678 3.01273 2.96105 2.83938 2.96168 2.39119 2.31114 3.35106 5.48599 4.12687 25 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48774 5.21008 0.61958 0.77255 0.59858 0.79760\n- 4 2.77937 5.23161 2.09378 1.86215 4.54561 3.47870 3.73458 4.01654 2.52053 2.86149 4.29438 2.95568 2.61898 2.85063 3.02091 2.35664 3.01875 3.60781 5.68764 4.28091 26 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48774 5.21008 0.61958 0.77255 0.59858 0.79760\n- 5 2.40850 4.32347 4.21326 2.79485 3.47332 3.97915 4.30389 1.98918 3.54776 1.89657 3.42663 3.91059 4.33789 3.79927 3.77786 3.26914 3.08447 1.51638 5.04561 3.84521 27 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01685 4.48774 5.21008 0.61958 0.77255 0.59858 0.79760\n- 6 2.39259 4.86744 3.16706 2.60956 4.11289 3.55700 3.76208 3.51704 2.52770 2.24069 3.95775 3.11319 3.95191 2.21635 2.48059 2.19104 2.96108 3.20731 5.38284 4.06995 28 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12463 4.48774 2.24493 0.61958 0.77255 0.59858 0.79760\n- 7 2.01850 5.22374 1.98020 2.37782 4.58373 2.61488 3.76731 4.05702 2.59088 3.57428 4.35493'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01573 4.55604 5.27839 0.61958 0.77255 0.48576 0.95510\n- 1363 2.74229 5.08245 3.00594 1.70175 4.38179 3.51841 3.73959 3.82314 2.50720 3.37633 4.15973 3.02478 3.92699 2.47629 2.98234 2.33304 2.27075 2.87491 5.56969 4.20004 1993 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08515 4.55604 2.64333 0.61958 0.77255 0.48576 0.95510\n- 1364 2.71514 5.17062 2.55821 2.17404 4.49351 3.48135 3.67867 3.96334 1.90178 3.46488 2.80287 2.95719 3.88143 2.42901 2.90581 2.35898 2.94682 3.54963 5.61460 4.21801 1994 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09810 4.48774 2.49865 0.61958 0.77255 0.59858 0.79760\n- 1365 1.42838 4.50750 3.45669 2.98469 4.09136 3.36728 4.06585 3.44984 2.98526 3.15280 4.00413 2.53292 3.94589 3.30320 3.37387 2.16526 2.92370 2.32223 5.45605 4.19790 1995 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12543 4.40790 2.24716 0.61958 0.77255 0.70816 0.67836\n- 1366 2.78147 5.28478 1.97211 2.03359 4.61512 3.42358 3.69089 4.09768 2.45415 3.57696 4.34237 2.88780 3.87846 2.09530 2.34311 2.72779 3.02043 3.67043 5.71090 4.29508 1996 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12909 4.30278 2.22955 0.61958 0.77255 0.82559 0.57621\n- 1367 2.81475 4.36505 4.05850 3.52580 3.37174 3.85623 4.27101 2.39941 3.40686 1.39590 3.28841 3.81482 2.85523 3.69335 3.65663 3.17815 3.07918 1.85207 5.05288 3.85730 1997 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02261 4.19630 4.91865 0.61958 0.77255 0.92178 0.50718\n- 1368 2.53989 4.46616 3.32152 2.86694 3.90002 3.34390 3.93848 3.27876 2.83270 2.31035 3.85599 3.25079 2.10195 3.18588 3.20331 1.89077 2.87624 2.96842 5.29031 4.01298 1998 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02261 4.19630 4.91865 0.61958 0.77255 0.92178 0.50718\n- 1369 2.28455 4.36455 4.39922 3.88257 3.56698 4.04484 4.59708 2.04429 3.76954 1.87146 3.44261 4.11023 4.45808 4.04527 3.99492 3.39892 3.18688 1.20967 5.30803 4.10643 1999 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02261 4.19630 4.91865 0.61958 0.77255 0.71434 0.67240\n- 1370 2.82888 5.24977 2.58448 1.91095 4.63653 2.56035 3.79313 4.11570 2.65038 3.63296 4.42762 1.74835 3.91139 2.93171 3.16344 2.27893 3.10100 3.69458 5.80023 4.37859 2000 n - - -\n- 2.68760 4.42457 2.77601 2.73075 3.46295 2.40528 3.72623 3.28761 2.67870 2.69174 4.24669 2.90442 2.73845 3.18113 2.89860 2.37760 2.77552 2.98637 4.58505 3.61431\n- 0.72497 0.66231 * 2.99051 0.05157 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2599863134.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2599863134.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4988 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2599863134\n-LENG 1655\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:10:05 2022\n-NSEQ 19\n-EFFN 4.327881\n-CKSUM 3495286770\n-GA 300 300;\n-STATS LOCAL MSV -13.2738 0.69462\n-STATS LOCAL VITERBI -14.7383 0.69462\n-STATS LOCAL FORWARD -7.2780 0.69462\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58351 4.51532 2.87263 2.54372 3.32244 2.94958 3.72031 2.92765 2.60912 2.44024 3.88453 2.96006 3.24759 3.05653 2.92145 2.54092 2.84705 2.78128 4.36465 3.57991\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18552 5.90787 0.61958 0.77255 0.00000 *\n- 1 3.57261 5.05045 4.88403 4.40953 3.76015 4.60409 4.96412 3.07216 4.14914 1.86287 0.67611 3.12614 4.98556 4.47402 4.30704 3.97260 3.83235 3.07139 5.54834 4.32298 1 M - - -\n- 2.68911 4.42561 2.77332 2.72683 3.45602 2.41037 3.72840 3.28148 2.67485 2.69743 4.24730 2.90218 2.73973 3.18475 2.90150 2.37805 2.77689 2.98541 4.58695 3.60506\n- 1.53519 0.48898 1.76416 3.13773 0.04435 0.48576 0.95510\n- 2 2.90183 4.50099 4.01001 2.24696 3.62001 3.93667 4.21093 2.06086 2.80730 1.70794 3.60982 3.77212 4.31163 3.63755 3.65224 2.75038 3.13367 2.30284 5.09890 2.98015 107 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17992 5.00086 1.84557 0.61958 0.77255 0.93835 0.49639\n- 3 2.10061 5.19101 3.17242 2.64171 4.53530 3.63812 3.86578 3.97648 2.10594 3.51980 4.30286 3.16590 1.77079 2.55337 3.04329 2.86573 2.54188 3.59567 5.70102 4.34252 108 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83284 5.55519 0.61958 0.77255 1.18333 0.36565\n- 4 2.36748 5.32186 3.12411 2.23368 4.66270 3.63015 3.80025 4.12960 1.66451 3.61511 4.36795 2.59938 4.02159 2.90320 2.08170 2.83109 3.08928 3.71127 5.74738 3.14476 109 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83284 5.55519 0.61958 0.77255 1.18333 0.36565\n- 5 2.14503 5.34707 2.64683 2.00040 4.68962 2.86261 3.79037 4.17639 2.21859 3.65131 4.38979 2.55143 3.99236 2.31789 3.02938 2.39456 3.06707 3.73663 5.78010 4.36632 110 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83284 5.55519 0.61958 0.77255 1.18333 0.36565\n- 6 2.92724 4.42709 4.24264 2.55347 3.49002 4.01567 4.30374 2.70988 3.57123 1.86916 3.50698 3.94082 4.38254 3.82439 3.79091 3.30343 3.16045 1.27539 5.03265 2.81293 111 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01190 4.83284 5.55519 0.61958 0.77255 1.18333 0.36565\n- 7 3.06479 4.90017 3.72997 3.18227 4.10167 3.91233 4.11600 1.30139 2.78762 3.11623 4.03355'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01011 4.99481 5.71716 0.61958 0.77255 0.92002 0.50835\n- 1648 2.51163 5.12966 1.73926 2.70120 4.38629 2.93634 3.91325 2.64264 2.70544 3.39984 4.20380 3.22586 4.09811 2.43488 3.17504 2.54957 3.12054 2.61705 5.63049 4.28469 3030 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01011 4.99481 5.71716 0.61958 0.77255 0.92002 0.50835\n- 1649 1.80776 2.99301 3.44349 2.52487 4.06342 3.76893 3.99262 3.44973 2.08522 2.54040 3.96375 3.36902 4.15653 3.20055 3.29433 2.54450 2.64928 2.75516 5.41830 4.13039 3031 a - - -\n- 2.68632 4.42239 2.77533 2.73137 3.46368 2.40527 3.72508 3.29368 2.67719 2.69369 4.24704 2.90317 2.73753 3.18160 2.89705 2.37901 2.77533 2.98532 4.58180 3.61517\n- 0.71868 1.05003 1.81599 0.08169 2.54533 0.92002 0.50835\n- 1650 2.36396 4.64645 3.73570 3.22140 4.08320 2.78273 4.23309 3.45401 3.20159 3.15350 4.01989 2.71928 4.16615 3.50794 3.57566 2.18247 2.56541 1.35163 5.48440 4.24126 3033 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01204 4.82119 5.54353 0.61958 0.77255 1.17436 0.36964\n- 1651 2.47094 5.23770 3.10051 2.54291 4.55072 3.60122 3.01380 4.01177 2.28853 3.52743 4.28783 3.08339 3.99331 2.55655 2.21915 2.01805 2.49382 3.61122 5.68844 3.20634 3034 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01204 4.82119 5.54353 0.61958 0.77255 1.17436 0.36964\n- 1652 2.81657 4.79202 3.37963 2.42972 3.98439 3.69898 3.93526 3.37003 2.81396 3.03528 3.89029 3.31094 2.16935 3.14880 3.24079 2.49936 2.37902 2.49224 5.34490 2.41939 3035 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01204 4.82119 5.54353 0.61958 0.77255 1.17436 0.36964\n- 1653 1.96700 5.12193 3.22685 2.65821 4.39241 3.66503 3.84027 3.81527 2.24564 2.77801 3.18185 3.17783 4.05203 1.97841 2.25559 2.87259 3.08520 3.47239 5.59362 4.25595 3036 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01204 4.82119 5.54353 0.61958 0.77255 0.61803 0.77437\n- 1654 2.78825 5.21964 2.40244 2.50969 4.53738 3.56989 3.75966 4.00053 2.01542 3.51230 4.27057 3.05109 3.00292 2.86737 2.18744 2.76564 2.46355 2.62556 5.66985 4.28094 3037 k - - -\n- 2.68817 4.42127 2.77702 2.72612 3.46056 2.40529 3.72509 3.28957 2.67716 2.68925 4.24601 2.90746 2.73964 3.18195 2.90113 2.38094 2.77603 2.98261 4.57860 3.61629\n- 1.03529 0.58645 2.42388 3.67075 0.02579 0.66274 0.72450\n- 1655 1.98259 5.02353 3.14811 2.11941 4.27303 3.60358 3.80857 3.69515 2.32026 3.28707 4.09274 2.48446 3.99707 2.95144 3.06320 2.81041 3.01849 2.36083 5.51874 3.12294 3132 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00884 4.73275 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2639564464.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2639564464.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3212 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2639564464\n-LENG 1063\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:11:07 2022\n-NSEQ 48\n-EFFN 3.846680\n-CKSUM 520822960\n-GA 300 300;\n-STATS LOCAL MSV -12.9052 0.69544\n-STATS LOCAL VITERBI -13.9590 0.69544\n-STATS LOCAL FORWARD -6.6401 0.69544\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70835 4.58882 2.87767 2.49383 3.21344 3.15051 3.73054 2.69088 2.49450 2.44072 3.81388 2.84819 3.54643 3.00052 3.00358 2.61291 2.83530 2.81484 4.61291 3.51404\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00886 5.12642 5.84877 0.61958 0.77255 0.00000 *\n- 1 4.18499 5.50581 5.95400 5.47165 3.76586 5.36364 5.85543 2.89699 5.15881 1.98955 0.44405 5.61308 5.59811 5.26831 5.18955 4.81793 4.45639 2.88124 5.96413 4.86786 1 M - - -\n- 2.68764 4.42299 2.77523 2.72827 3.46400 2.40637 3.72641 3.29116 2.67802 2.69337 4.24766 2.90085 2.73851 3.18106 2.89794 2.37922 2.77444 2.98605 4.58537 3.61585\n- 1.44386 0.69196 1.33411 1.80073 0.18054 0.48576 0.95510\n- 2 2.63604 5.27419 2.86946 2.07189 4.60131 3.58758 3.77675 3.12006 2.13201 3.29851 4.31964 2.36033 3.98076 2.60282 3.00837 2.27404 2.65969 3.19465 5.71774 4.31787 25 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16540 4.82463 1.93506 0.61958 0.77255 0.39846 1.11276\n- 3 2.61445 5.23141 2.96232 2.25502 4.52566 3.04269 3.84083 2.52699 2.20230 2.71915 4.28581 2.94439 3.50179 2.56904 3.08175 2.46979 2.83665 3.00485 5.69578 4.31775 26 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01071 4.93769 5.66004 0.61958 0.77255 0.49216 0.94496\n- 4 2.63956 5.14123 2.39497 2.07400 3.74323 3.72821 3.55604 2.18278 2.72071 3.40415 4.20884 3.25000 4.11852 2.79465 2.72142 2.92904 2.73624 2.85219 5.63664 3.18267 27 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00951 5.05592 5.77826 0.61958 0.77255 0.68283 0.70357\n- 5 2.53725 5.35348 2.98356 2.12230 3.97212 3.38855 3.87263 2.69099 1.85267 2.96001 4.40034 2.94062 4.07594 2.66287 2.58926 2.87379 2.61224 3.73153 5.80034 4.40396 28 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00951 5.05592 5.77826 0.61958 0.77255 0.37973 1.15217\n- 6 2.62402 5.43617 2.16249 2.20955 4.77915 3.70463 3.89209 4.26366 2.34900 3.14580 4.47741 2.37584 4.09821 2.55661 2.96070 1.94590 2.96820 3.82569 4.23401 4.46035 29 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00886 5.12642 5.84877 0.61958 0.77255 0.48576 0.95510\n- 7 2.56516 5.40941 2.67754 2.01049 3.62887 3.70913 3.54898 4.21820 2.38219 3.27453 4.45353 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00886 5.12642 5.84877 0.61958 0.77255 0.48576 0.95510\n- 1056 4.18033 5.39478 6.17124 5.58425 2.29043 5.56354 5.86347 1.17698 5.44118 0.92844 3.02937 5.73983 5.61271 5.29904 5.36643 4.94817 4.38504 2.74641 5.88276 4.91644 1514 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00886 5.12642 5.84877 0.61958 0.77255 0.48576 0.95510\n- 1057 2.93679 5.25839 3.26977 2.49875 4.53363 3.74269 3.93801 2.69272 1.73674 2.65271 4.31833 2.34166 4.13394 2.88349 2.82617 2.46334 2.99198 2.78872 5.73489 4.37161 1515 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03561 5.12642 3.53885 0.61958 0.77255 0.48576 0.95510\n- 1058 2.34114 5.42711 2.83090 2.32525 4.77150 2.96852 3.87920 4.25700 1.80778 3.48017 3.90969 2.55189 3.33964 2.73157 2.69599 2.47012 2.84663 3.81739 5.86019 3.92733 1516 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02450 5.09991 4.01171 0.61958 0.77255 0.56616 0.83864\n- 1059 2.79829 4.83059 3.56752 2.83375 3.10842 3.83906 3.59766 2.57748 1.85577 2.67398 3.92306 3.47260 4.22332 2.95874 2.93561 2.91645 2.33232 2.61893 5.38595 2.99307 1517 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00924 5.08465 5.80700 0.61958 0.77255 0.60878 0.78530\n- 1060 2.94882 3.77700 4.73583 3.71998 2.50244 4.09776 4.42161 1.79398 3.19558 1.77566 3.47067 3.40376 4.46326 3.56733 4.02464 3.40102 2.90223 1.91027 4.97174 3.23411 1518 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05675 5.08465 3.01632 0.61958 0.77255 0.60878 0.78530\n- 1061 2.89271 4.42000 2.75791 2.03080 3.71122 3.68112 3.87233 3.31761 1.93969 2.83540 3.83595 2.54765 4.07368 2.63661 3.10872 2.29439 3.12390 3.34762 5.76821 4.37995 1519 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.33116 5.03758 1.28947 0.61958 0.77255 0.72634 0.66102\n- 1062 2.76971 4.29096 3.08598 2.06069 4.41057 3.56973 3.76415 3.17390 1.99160 3.40429 4.18151 2.30212 3.56379 2.88405 2.83767 2.59268 2.79762 2.94797 5.59450 3.67032 1520 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10342 4.71977 2.41533 0.61958 0.77255 1.00939 0.45325\n- 1063 2.44922 5.17991 2.82654 2.37029 4.48805 3.55103 3.74242 3.09557 1.91633 3.10560 3.65134 2.38234 3.54556 2.74534 2.97890 2.51484 2.73573 3.55055 5.63533 4.24788 1521 k - - -\n- 2.68630 4.42313 2.77552 2.73134 3.46369 2.40589 3.72553 3.29131 2.67744 2.69311 4.24722 2.90262 2.73806 3.18134 2.89875 2.37863 2.77469 2.98466 4.58565 3.61539\n- 1.00252 0.45721 * 1.48895 0.25568 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2660206627.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2660206627.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4481 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2660206627\n-LENG 1486\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:12:50 2022\n-NSEQ 57\n-EFFN 4.456604\n-CKSUM 1491500384\n-GA 300 300;\n-STATS LOCAL MSV -13.2768 0.69479\n-STATS LOCAL VITERBI -14.1676 0.69479\n-STATS LOCAL FORWARD -7.3944 0.69479\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.42089 4.67015 2.83769 2.55587 3.44592 2.93411 3.69806 3.06848 2.71702 2.39178 3.92672 3.14803 3.22056 3.01973 2.74920 2.61495 2.79957 2.74275 4.31161 3.70658\n- 2.68636 4.42243 2.77491 2.73126 3.46372 2.40522 3.72512 3.29345 2.67759 2.69359 4.24617 2.90365 2.73757 3.18164 2.89778 2.37865 2.77515 2.98479 4.58495 3.61521\n- 0.32563 2.40581 1.67271 1.29728 0.31920 0.00000 *\n- 1 4.20429 5.43240 6.03143 5.46346 3.08828 5.53542 5.73864 2.82636 5.31237 1.69106 0.56868 5.65722 5.57900 5.20085 5.27863 4.92555 4.40938 2.86590 5.76039 4.69132 6 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20079 5.03421 1.74064 0.61958 0.77255 0.96981 0.47668\n- 2 2.73496 5.32545 2.33723 2.51583 4.66386 3.59412 3.42854 4.14580 2.18079 3.62847 4.37006 2.28836 3.25839 2.89054 3.02572 2.14902 2.16664 3.71297 5.76309 4.35454 7 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01176 4.84517 5.56752 0.61958 0.77255 1.23964 0.34177\n- 3 2.24671 4.88125 3.31670 2.01411 4.08598 3.46874 3.90351 2.30485 2.74866 2.67317 3.96579 2.98599 2.94283 3.08966 3.19218 2.89927 2.40492 3.19317 5.41331 4.10999 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01176 4.84517 5.56752 0.61958 0.77255 0.68353 0.70286\n- 4 2.79276 5.35837 2.92610 2.24196 4.68855 3.20991 3.85187 3.38791 2.05816 3.27635 2.88107 3.01245 3.38669 2.21593 2.93607 2.37744 2.76560 3.44491 5.80007 4.39828 9 k - - -\n- 2.68463 4.42208 2.77512 2.73196 3.46516 2.40545 3.72561 3.29170 2.67869 2.69382 4.24616 2.90241 2.73765 3.18112 2.89798 2.37944 2.77425 2.98452 4.58457 3.61644\n- 1.14879 0.38600 5.74103 1.70989 0.19953 0.85343 0.55504\n- 5 2.75624 5.12680 3.29047 2.24166 4.37150 3.73003 3.93249 2.60545 2.72625 2.23130 4.19585 2.62404 2.86176 3.07769 2.42403 2.54705 2.55547 3.46230 5.62504 4.28480 29 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.28469 5.05124 1.42151 0.61958 0.77255 0.93842 0.49634\n- 6 2.58061 5.21445 2.18765 2.29641 4.52485 3.10262 3.76953 3.98702 2.51921 2.98384 4.26443 3.06067 3.97110 2.68277 2.25981 2.63572 2.60759 3.58633 3.45825 3.88969 30 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01256 4.77912 5.50147 0.61958 0.77255 1.30976 0.31455\n- 7 2.68539 5.23148 2.73371 2.43596 4.54855 3.13814 3.76529 3.31753 2.28543 3.52474 3.65118'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00802 5.22607 5.94842 0.61958 0.77255 0.52693 0.89261\n- 1479 2.97601 5.48848 2.32007 2.03036 4.83436 3.74920 3.04232 4.32086 2.14395 3.79406 4.52896 3.21636 2.99104 2.38826 2.53173 2.54400 2.43147 3.48898 5.92062 4.50923 2834 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00802 5.22607 5.94842 0.61958 0.77255 0.52693 0.89261\n- 1480 3.18311 4.59684 4.80139 2.80419 1.36974 4.29075 4.41225 2.77053 4.07238 2.20552 3.71125 4.31046 4.65116 3.55119 4.17578 3.59216 3.41394 2.85899 3.00892 1.88894 2835 f - - -\n- 2.68610 4.42230 2.77524 2.73128 3.46290 2.40518 3.72499 3.29359 2.67746 2.69360 4.24552 2.90352 2.73744 3.18151 2.89806 2.37892 2.77524 2.98523 4.58482 3.61508\n- 0.27087 2.22126 2.04940 0.18356 1.78561 0.52693 0.89261\n- 1481 2.62626 5.37753 2.81130 1.59858 4.71169 2.89082 3.02315 3.31040 2.59822 3.67816 4.42109 3.14255 3.57807 2.81402 2.71176 2.53084 2.75334 3.13587 5.81680 4.41250 2837 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00966 5.04057 5.76291 0.61958 0.77255 0.86805 0.54433\n- 1482 2.78820 5.39463 2.65768 2.37157 4.73609 3.66775 3.85515 3.34733 2.10322 3.33487 3.52518 2.64925 2.78662 2.47458 2.25322 2.47555 3.01028 3.78333 5.82947 4.42075 2838 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00966 5.04057 5.76291 0.61958 0.77255 0.86805 0.54433\n- 1483 2.25023 5.35925 2.07472 2.34192 4.68599 3.31685 3.63008 4.15923 2.49169 3.07734 3.92944 3.14888 3.78011 2.96563 2.46658 2.53748 2.38480 3.13482 5.80307 4.40345 2839 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14420 5.04057 2.05719 0.61958 0.77255 0.86805 0.54433\n- 1484 2.71581 5.32550 2.57742 2.09984 4.65902 3.32746 3.80895 4.13695 2.54982 3.62620 4.37020 2.35355 4.01288 2.90957 2.63262 2.08215 2.53059 2.65915 5.76589 4.36168 2840 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15686 4.90741 1.98205 0.61958 0.77255 1.09102 0.40928\n- 1485 2.79837 5.30244 2.15629 1.72330 4.64275 2.96657 3.42417 4.12690 2.49903 3.34240 4.34520 2.70857 3.41790 2.85662 2.80860 2.63490 2.66939 3.69069 5.73730 4.32665 2841 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03077 4.76331 3.82753 0.61958 0.77255 0.86742 0.54479\n- 1486 2.84156 5.35550 2.31930 1.84682 4.69892 2.50337 3.43298 4.18603 2.53976 3.66003 4.39770 2.67141 3.08934 2.72665 2.53903 2.51406 3.07401 3.74547 5.78798 4.37419 2842 e - - -\n- 2.68514 4.42357 2.77315 2.73166 3.46427 2.40544 3.72542 3.29245 2.67787 2.69410 4.24822 2.90308 2.73812 3.18184 2.89736 2.37930 2.77552 2.98434 4.58521 3.61559\n- 0.93132 0.50093 * 1.77547 0.18561 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2731770353.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2731770353.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4712 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2731770353\n-LENG 1563\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:16:51 2022\n-NSEQ 36\n-EFFN 1.894043\n-CKSUM 526570594\n-GA 300 300;\n-STATS LOCAL MSV -13.5124 0.69471\n-STATS LOCAL VITERBI -14.3510 0.69471\n-STATS LOCAL FORWARD -7.5029 0.69471\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50977 4.43618 2.87309 2.54370 3.35333 3.01485 3.65402 2.89380 2.67156 2.40131 3.76602 3.06099 3.34829 2.96471 2.86666 2.65225 2.85427 2.71764 4.42357 3.61004\n- 2.68628 4.42142 2.77529 2.73133 3.46366 2.40508 3.72507 3.29336 2.67734 2.69334 4.24595 2.90359 2.73752 3.18150 2.89813 2.37883 2.77514 2.98527 4.58490 3.61516\n- 0.15640 2.61510 2.63629 1.56431 0.23475 0.00000 *\n- 1 3.39443 4.84180 4.92666 4.45950 3.45853 4.45588 5.03872 2.48298 4.22114 1.89010 0.83557 4.63737 4.84539 4.47204 4.35873 3.87746 3.69238 2.27856 5.47355 4.32062 12 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01635 4.51774 5.24008 0.61958 0.77255 0.60299 0.79224\n- 2 2.35554 5.13901 2.17079 2.46256 4.53772 2.94144 3.76621 4.00601 2.54862 3.52500 4.29042 2.43717 3.91841 2.88383 3.04166 2.25459 2.17876 3.58502 5.68837 4.29455 13 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01635 4.51774 5.24008 0.61958 0.77255 0.60299 0.79224\n- 3 2.49886 5.15723 2.78978 2.31224 4.47749 2.47521 3.67998 3.94638 2.30821 3.31323 4.20555 2.57872 3.88190 2.43399 2.91535 2.52925 2.44677 3.28045 5.60558 4.20968 14 k - - -\n- 2.68537 4.42246 2.77541 2.73144 3.46365 2.40534 3.72465 3.29350 2.67762 2.69370 4.24633 2.90327 2.73756 3.18140 2.89822 2.37895 2.77497 2.98486 4.58498 3.61524\n- 1.05699 1.02883 1.22052 0.84369 0.56233 0.60299 0.79224\n- 4 2.69755 5.04130 3.00372 2.43972 4.36741 3.46345 3.61548 3.80103 2.05144 3.32012 4.10585 2.95892 2.99811 2.29545 2.16680 2.44897 2.92010 3.28557 5.47511 4.13462 21 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17556 4.89791 0.61958 0.77255 0.97363 0.47435\n- 5 2.32705 4.96203 2.83212 2.18148 4.24694 3.41089 3.60542 3.69145 2.24192 2.98760 4.01967 2.90725 3.18501 2.54998 2.64713 2.55399 2.84393 3.18433 5.43175 3.77604 22 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02309 4.17556 4.89791 0.61958 0.77255 0.53326 0.88356\n- 6 2.68392 5.12511 2.67144 2.34284 4.44267 3.46012 3.21619 3.90914 2.40095 3.41809 4.17452 2.68221 2.50529 2.70222 2.38538 2.39406 2.91547 3.10741 5.57411 4.18086 23 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01806 4.41875 5.14110 0.61958 0.77255 0.73920 0.64912\n- 7 2.67958 4.72620 3.18882 2.62693 3.92812 3.54582 3.75626 2.59388 2.52235 2.89007 3.80946 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.91446 0.51205\n- 1556 3.28504 4.59854 4.73714 4.28244 1.88562 4.27621 3.77047 2.98856 4.10975 1.45311 3.59663 4.14644 4.59264 4.13569 4.13949 3.60487 3.50744 2.88678 2.35250 1.91529 1840 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.91446 0.51205\n- 1557 3.03041 5.45369 2.40902 1.81445 4.78899 3.38244 3.89542 4.30922 2.80156 3.83398 4.69070 1.19473 3.98586 3.06560 3.29552 2.95314 3.32150 3.90086 5.96316 4.51864 1841 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.91446 0.51205\n- 1558 2.65888 4.65780 3.09551 2.29738 3.88512 3.48298 3.77365 3.26308 2.63171 1.98143 3.78867 3.10866 2.75438 2.98229 3.04804 2.36981 2.90744 2.98558 5.23499 3.94391 1842 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.91446 0.51205\n- 1559 2.63288 4.74475 3.08419 2.52919 3.96011 3.47929 3.14499 3.36572 2.50123 2.99341 2.93900 2.92831 3.86924 2.25945 2.94368 2.47997 2.41652 3.06605 5.26071 3.68039 1843 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.91446 0.51205\n- 1560 2.62418 4.63941 3.02250 2.60013 3.83800 3.16216 3.51608 3.22805 2.57562 2.28018 3.73052 3.08994 3.88775 2.92041 2.60739 2.49715 2.37393 2.74664 5.18065 3.88801 1844 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.91446 0.51205\n- 1561 2.73849 4.22515 4.12680 3.54436 3.19520 3.83269 4.11978 2.42598 3.40614 2.04073 1.70082 3.78441 4.18855 3.64890 3.60464 3.12245 2.47471 2.38450 3.73533 3.59511 1845 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.91446 0.51205\n- 1562 2.63811 4.17584 3.19428 2.62867 3.04140 3.51151 3.72715 3.22521 2.27983 2.88047 3.73244 3.11115 3.62984 2.92914 2.16355 2.73565 2.36945 2.95010 5.17769 3.89182 1846 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02145 4.24852 4.97087 0.61958 0.77255 0.62880 0.76192\n- 1563 2.58471 4.42934 3.48890 2.92299 3.57867 3.62923 3.87570 2.12746 2.53824 2.64482 3.53405 3.02461 3.36397 3.18258 2.92258 2.87405 2.90272 2.00045 5.00901 3.76916 1847 v - - -\n- 2.68610 4.42306 2.77227 2.73069 3.46435 2.40590 3.72436 3.29356 2.67793 2.69334 4.24771 2.90342 2.73785 3.18177 2.89882 2.37877 2.77537 2.98505 4.58558 3.61537\n- 0.92271 0.50657 * 1.74463 0.19202 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2731874159.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2731874159.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4679 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2731874159\n-LENG 1552\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:15:55 2022\n-NSEQ 24\n-EFFN 4.081055\n-CKSUM 434739891\n-GA 300 300;\n-STATS LOCAL MSV -13.6938 0.69472\n-STATS LOCAL VITERBI -14.8496 0.69472\n-STATS LOCAL FORWARD -7.1392 0.69472\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.70492 4.56043 2.85676 2.50680 3.14097 3.10819 3.77802 2.74553 2.49166 2.42988 3.88734 2.86367 3.48000 2.98406 3.05012 2.60505 2.87323 2.87278 4.67343 3.34509\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04170 5.13156 3.35427 0.61958 0.77255 0.00000 *\n- 1 4.54112 5.93323 5.72623 5.56450 4.54381 5.03813 6.04103 3.91105 5.31586 3.07821 0.18071 5.67032 5.60947 5.64446 5.34322 4.93021 4.93142 4.03711 6.37759 5.25257 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10715 5.09897 2.34857 0.61958 0.77255 0.58392 0.81579\n- 2 2.98797 5.30803 3.32723 2.42705 4.61317 3.77116 3.92059 2.74827 1.22861 3.00781 4.36722 3.26876 4.15562 3.04300 2.37988 2.60523 3.20976 3.67754 5.74785 4.40948 2 k - - -\n- 2.68620 4.42227 2.77521 2.73125 3.46295 2.40514 3.72496 3.29356 2.67742 2.69357 4.24691 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58479 3.61505\n- 0.05726 2.94904 5.72421 0.32720 1.27633 0.60658 0.78793\n- 3 2.91446 4.76095 3.61778 2.27354 3.91906 3.84533 4.08143 2.18338 3.02415 2.98225 3.85709 2.95624 3.28107 3.34601 2.91313 3.07567 2.45352 1.82973 5.32514 3.22836 4 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00955 5.05134 5.77369 0.61958 0.77255 0.70726 0.67923\n- 4 2.94769 5.41392 2.80041 2.65326 4.74914 3.72157 3.90130 4.22004 1.69311 3.71005 3.42609 1.90567 4.11394 3.00355 2.00480 2.91698 3.17687 3.13525 5.84811 4.45484 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04894 5.09861 3.17833 0.61958 0.77255 0.70726 0.67923\n- 5 2.97890 5.33779 1.98192 2.69292 4.65592 3.72220 3.97928 2.53851 2.76686 3.65172 4.43331 1.83741 4.15154 3.10430 3.25500 1.91803 2.76786 3.71974 5.84069 4.46000 6 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14743 5.05915 2.03464 0.61958 0.77255 0.79936 0.59714\n- 6 1.94187 4.47296 4.90989 4.32780 3.62125 4.31640 4.69275 1.91105 4.17152 1.57982 3.58027 4.42031 4.66641 4.35008 4.26387 3.63570 2.35402 1.68448 5.23178 4.04879 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01087 4.92259 5.64494 0.61958 0.77255 1.04549 0.43312\n- 7 2.91382 5.36448 3.18954 2.62177 4.70979 3.68191 3.84256 4.17240 1.47181 3.65623 4.41173 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01018 4.98813 5.71048 0.61958 0.77255 0.71124 0.67538\n- 1545 2.69103 4.61781 5.26795 4.68265 2.06098 4.56815 4.94359 1.47560 4.50589 1.55491 3.52494 4.72184 4.87387 4.62443 4.53435 3.90175 3.53284 1.73343 5.36322 4.20997 2914 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06134 4.93520 2.95069 0.61958 0.77255 0.71124 0.67538\n- 1546 2.81910 5.10823 2.82270 1.90111 2.96144 3.62702 3.82948 2.73845 2.60987 3.37868 4.17231 2.62502 4.02077 2.96194 3.08440 2.04483 2.65033 3.45456 5.59340 4.23678 2915 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13226 4.83623 2.15461 0.61958 0.77255 0.80924 0.58914\n- 1547 2.35770 4.30982 4.43343 3.84412 2.74410 3.99909 4.31066 1.85148 2.72863 1.45083 3.35275 4.01727 4.35680 3.90729 3.84803 3.29479 3.10102 2.45506 4.93224 3.74982 2916 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01337 4.71734 5.43969 0.61958 0.77255 0.62473 0.76659\n- 1548 2.23455 5.06912 3.13079 2.57221 4.34227 3.58807 3.78541 2.97979 2.00398 3.34429 4.13693 3.09987 3.14148 2.91641 2.28640 2.53664 2.38897 3.42175 5.55426 4.20036 2917 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16425 4.71881 1.94811 0.61958 0.77255 0.80924 0.58914\n- 1549 2.74943 5.22585 2.41089 2.36452 4.55717 2.43305 3.69334 4.03466 2.10422 3.52838 4.28906 2.91672 3.87960 2.10601 2.95290 2.32732 2.98830 3.61312 5.67378 4.26411 2918 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10938 4.37932 2.39601 0.61958 0.77255 1.00224 0.45737\n- 1550 2.73994 4.93402 2.24617 2.52424 4.15496 3.50296 3.72312 3.56867 2.46622 2.17647 4.00915 3.03860 3.91949 2.87880 2.04111 2.76636 2.97386 3.25962 5.41190 4.07683 2919 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02056 4.29050 5.01285 0.61958 0.77255 1.07630 0.41681\n- 1551 3.08726 5.32544 3.38812 2.77596 4.78293 3.72431 3.71035 4.15085 1.14420 3.57453 4.40981 2.60074 4.09864 2.83313 1.90337 3.06120 3.26503 3.79695 5.61505 4.40266 2920 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02056 4.29050 5.01285 0.61958 0.77255 0.77269 0.61947\n- 1552 2.69968 5.12945 2.95094 2.21492 4.44570 3.47292 3.66603 3.90835 2.15202 2.95232 4.18044 2.27107 3.87037 2.37397 2.88197 2.40129 2.51991 3.50504 5.57765 4.18952 2921 k - - -\n- 2.68640 4.42317 2.77510 2.73045 3.46091 2.40578 3.72587 3.29446 2.67702 2.69192 4.24782 2.90411 2.73725 3.18181 2.89850 2.37933 2.77477 2.98563 4.58569 3.61516\n- 0.69689 0.68942 * 1.98996 0.14699 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2734769103.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2734769103.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,5369 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2734769103\n-LENG 1782\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:15:00 2022\n-NSEQ 105\n-EFFN 5.630035\n-CKSUM 2199195801\n-GA 300 300;\n-STATS LOCAL MSV -13.6284 0.69452\n-STATS LOCAL VITERBI -14.7132 0.69452\n-STATS LOCAL FORWARD -7.5622 0.69452\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36648 4.64055 2.83668 2.56949 3.42023 2.90521 3.71654 3.11762 2.81580 2.38348 3.91774 3.19517 3.18218 3.03688 2.67857 2.64077 2.83929 2.73663 4.17116 3.71925\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.34194 5.33846 1.25595 0.61958 0.77255 0.00000 *\n- 1 4.03481 5.29458 5.87710 5.32632 3.67336 5.36179 5.74196 2.67530 5.14246 1.74674 0.63434 5.51409 5.49458 5.15397 5.16360 4.75949 4.26368 2.26443 5.85587 4.83425 1 M - - -\n- 2.68598 4.42145 2.77443 2.73124 3.46426 2.40487 3.72577 3.29324 2.67865 2.69357 4.24647 2.90470 2.73776 3.18031 2.89752 2.37927 2.77403 2.98540 4.58497 3.61453\n- 0.99946 0.72628 1.90909 2.05157 0.13758 0.61491 0.77803\n- 2 2.49318 5.25634 3.25199 2.57604 3.77842 3.13159 3.22835 3.58113 2.52218 3.35433 2.28450 2.48997 3.80151 2.31766 2.84646 2.64943 2.97997 3.05538 5.73141 4.36502 31 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18286 5.10552 1.82602 0.61958 0.77255 0.88280 0.53379\n- 3 2.55676 3.74015 4.31921 3.73427 3.50379 3.22719 4.30034 2.08347 3.62250 1.90934 3.26464 3.61931 3.95250 3.85050 3.07579 2.28075 2.49915 2.17117 5.00839 3.81416 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00995 5.01059 5.73294 0.61958 0.77255 1.03435 0.43921\n- 4 2.25332 5.35290 3.02818 2.27382 4.67081 2.63157 3.88406 3.70903 2.41939 3.52117 3.95960 3.07425 3.82952 2.88074 2.69142 2.04386 2.61917 2.72610 5.80220 4.40825 33 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00931 5.07720 5.79954 0.61958 0.77255 1.22134 0.34932\n- 5 2.22814 4.59570 3.37081 3.22221 3.72056 3.96858 4.23518 1.78621 3.34162 2.54540 2.97007 3.35303 4.34525 3.38543 3.45607 2.66720 2.32556 2.31613 5.18780 3.41557 34 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06579 5.11899 2.85271 0.61958 0.77255 1.22134 0.34932\n- 6 2.34482 5.40819 1.80773 2.16791 4.75096 3.67708 3.86464 4.23527 2.14852 3.71243 3.81274 2.88668 4.07075 2.66975 2.74174 2.86630 2.54001 3.45616 5.84216 4.43263 35 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04296 5.06265 3.33198 0.61958 0.77255 1.22416 0.34815\n- 7 2.04877 5.14967 3.01475 2.39289 3.61639 2.86431 3.92161 3.40955 2.70925 3.07347 3.3865'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00665 5.41238 6.13473 0.61958 0.77255 0.51111 0.91587\n- 1775 3.18294 5.24614 3.68795 3.10629 4.46988 4.02205 4.19124 3.61274 2.90736 3.48982 4.33241 3.37925 4.40524 3.10398 0.86715 3.08635 2.81872 3.29121 5.74558 2.87023 3281 r - - -\n- 2.68632 4.42239 2.77522 2.73084 3.46368 2.40492 3.72508 3.29348 2.67755 2.69369 4.24704 2.90360 2.73689 3.18160 2.89815 2.37881 2.77533 2.98532 4.58491 3.61517\n- 0.08034 2.59129 6.08681 1.07991 0.41495 0.51111 0.91587\n- 1776 3.18030 4.54961 5.13984 4.52908 2.11262 4.34930 4.65043 2.55248 4.31418 1.54658 3.36784 4.50674 4.70616 4.09205 4.31779 3.66231 3.41165 2.10891 3.18389 1.72853 3287 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03340 5.36446 3.56953 0.61958 0.77255 0.51111 0.91587\n- 1777 2.70269 5.51243 3.29084 2.21305 4.31632 2.48686 3.71454 4.32314 2.46418 3.81259 3.31910 3.16796 4.20212 2.64391 1.71211 2.35865 2.86745 3.89663 5.19830 3.96325 3288 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00716 5.33822 6.06057 0.61958 0.77255 0.60869 0.78540\n- 1778 3.17368 3.07627 5.06104 4.46250 0.92740 4.00679 4.57914 2.84243 4.25986 2.55493 3.67021 4.45561 4.68968 4.39168 4.28482 3.38221 3.40638 2.61262 5.03880 2.29643 3289 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00716 5.33822 6.06057 0.61958 0.77255 0.60869 0.78540\n- 1779 2.48788 4.79150 2.76431 1.83073 4.86993 3.13364 3.99303 4.07819 2.56518 3.29358 3.89243 2.88496 3.52642 2.58575 2.30952 2.46184 3.13613 3.00391 5.96502 3.75257 3290 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.30742 5.33822 1.34764 0.61958 0.77255 0.60869 0.78540\n- 1780 2.81079 4.56808 3.91217 3.06679 3.43711 3.92448 4.18903 2.56945 3.28356 2.02055 3.67477 3.71245 2.73251 3.32209 2.01842 2.73187 2.64981 2.47403 4.29734 3.44860 3291 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03294 5.04046 3.65208 0.61958 0.77255 1.25085 0.33724\n- 1781 2.77406 5.39082 2.75702 2.18985 4.73616 3.30266 3.84003 4.22226 2.06000 3.69614 4.43147 2.58282 3.69813 2.49682 1.97824 2.43515 2.95411 3.32570 5.82324 4.41219 3292 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.49241 5.00770 0.96191 0.61958 0.77255 0.24259 1.53522\n- 1782 2.83791 4.88838 2.78406 2.67147 4.08807 3.01310 3.92166 2.95831 2.77013 2.05571 3.73537 3.28195 2.85142 2.95522 2.96982 2.40918 2.49541 3.19833 4.17360 3.74822 3293 l - - -\n- 2.68606 4.42240 2.77517 2.73155 3.46403 2.40486 3.72564 3.29406 2.67811 2.69379 4.24726 2.90341 2.73697 3.18175 2.89666 2.37854 2.77489 2.98537 4.58500 3.61573\n- 0.55433 0.85439 * 1.45684 0.26523 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2752664533.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Tiamat__TmtA_2752664533.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3929 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Tiamat__TmtA_2752664533\n-LENG 1302\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:13:51 2022\n-NSEQ 23\n-EFFN 2.872192\n-CKSUM 3664830465\n-GA 300 300;\n-STATS LOCAL MSV -13.0554 0.69502\n-STATS LOCAL VITERBI -14.3458 0.69502\n-STATS LOCAL FORWARD -6.9869 0.69502\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.68363 4.55291 2.92308 2.53422 3.12852 3.12829 3.78747 2.74345 2.51854 2.43527 3.85169 2.91565 3.44086 3.00960 3.05161 2.57567 2.83810 2.78132 4.46323 3.40623\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03491 4.86293 3.62749 0.61958 0.77255 0.00000 *\n- 1 3.83131 5.14286 5.56420 5.02964 3.57224 5.07870 5.49376 2.58491 4.81138 1.79899 0.67122 5.21990 5.28755 4.91808 4.88028 4.47619 4.07665 2.33451 5.70748 4.63635 1 M - - -\n- 2.68619 4.42226 2.77520 2.73124 3.46355 2.40513 3.72495 3.29355 2.67729 2.69356 4.24690 2.90347 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58478 3.61504\n- 0.16308 3.42434 2.13784 0.43856 1.03555 0.54038 0.87354\n- 2 2.77387 5.25625 2.66820 2.18347 4.58900 3.09178 3.25224 2.92767 2.02682 3.55621 4.30052 2.61813 3.94315 2.83993 2.97123 2.08625 2.82591 3.64033 5.69608 4.29192 3 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10206 4.71872 2.42930 0.61958 0.77255 0.65510 0.73270\n- 3 2.75352 5.15393 2.68386 2.32922 4.45598 3.54448 3.73667 3.03194 1.96085 2.67482 4.20631 2.72985 3.93710 2.28781 2.97324 2.73821 2.73135 3.16143 5.61301 4.23007 4 k - - -\n- 2.68912 4.42557 2.77357 2.73191 3.45993 2.40760 3.72710 3.28739 2.67396 2.69112 4.24642 2.90165 2.73951 3.18222 2.90081 2.37999 2.77562 2.98460 4.58621 3.61328\n- 0.55723 0.86121 5.39165 3.53840 0.02949 0.46831 0.98365\n- 4 2.54340 5.37517 3.17498 2.29978 4.74132 3.66645 3.80845 4.20087 1.47930 3.66420 4.42088 3.13743 4.05445 2.17247 2.21425 2.62623 3.13669 3.77943 5.77298 4.40665 185 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01231 4.79954 5.52189 0.61958 0.77255 0.48298 0.95957\n- 5 2.81365 3.71002 2.56902 2.04082 4.65446 3.18613 3.77621 4.13734 1.90520 3.19065 4.35581 2.56146 3.98190 2.43429 3.00491 2.56278 2.72585 3.70212 5.74916 4.34080 186 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01182 4.83984 5.56218 0.61958 0.77255 0.54038 0.87354\n- 6 2.82488 4.45855 3.22596 3.28812 2.05919 3.84306 3.25904 2.23461 3.22601 2.29490 3.56616 3.06763 4.21946 2.95125 3.53708 3.09992 2.64557 2.28095 5.05140 3.83266 187 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01182 4.83984 5.56218 0.61958 0.77255 0.54038 0.87354\n- 7 3.78537 4.97792 5.83812 5.36887 4.06774 5.38737 6.07012 0.53972 5.28738 2.15514 3.80260'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01249 4.78490 5.50725 0.61958 0.77255 0.71665 0.67018\n- 1295 2.35822 5.12054 2.60038 2.39419 4.39716 3.59859 3.79522 3.38369 2.56480 3.39628 3.59052 3.10000 2.12790 2.60367 3.04247 2.55072 2.65424 3.04938 5.59704 4.23184 2318 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05265 4.78490 3.14817 0.61958 0.77255 0.71665 0.67018\n- 1296 2.78394 5.28514 2.43517 2.29115 3.70666 3.55435 3.74522 4.10872 2.30326 3.58833 4.32739 1.99593 3.19079 2.58657 2.70913 2.29862 3.01543 3.67334 5.72022 4.31123 2319 n - - -\n- 2.68535 4.42384 2.77535 2.72985 3.45688 2.40674 3.72632 3.29073 2.67812 2.69213 4.24662 2.90516 2.73868 3.17881 2.90026 2.38032 2.77581 2.98576 4.57931 3.61381\n- 0.39342 1.13620 5.46760 3.30333 0.03745 0.57197 0.83106\n- 1297 2.53203 5.32797 2.23069 2.50262 4.66509 3.16373 3.32589 4.14790 2.33705 3.63022 4.37309 2.74984 2.10766 2.72666 3.02899 2.29492 3.06210 3.71481 5.76506 4.35450 2412 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10425 4.80977 2.39851 0.61958 0.77255 0.67012 0.71671\n- 1298 2.81740 4.74851 5.47427 5.00528 4.13031 4.94773 5.69855 0.68837 4.92183 2.62950 3.89533 5.13920 5.26122 5.17751 5.08690 4.36645 3.76339 1.49720 6.13231 4.91734 2413 I - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01335 4.71887 5.44122 0.61958 0.77255 0.82582 0.57603\n- 1299 2.41200 5.15174 3.07059 2.36862 4.44629 3.56588 3.76085 3.89776 2.34784 3.43527 4.20690 2.69013 3.31136 2.64894 3.00096 2.38454 2.20610 3.51511 5.61631 2.55242 2414 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01335 4.71887 5.44122 0.61958 0.77255 0.82582 0.57603\n- 1300 2.83617 4.71661 5.37054 4.82256 3.70523 4.81302 5.26730 1.43529 4.69262 1.07491 3.51855 4.94460 5.06755 4.82798 4.77233 4.17538 3.68039 1.72309 5.63310 4.50136 2415 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01335 4.71887 5.44122 0.61958 0.77255 0.82582 0.57603\n- 1301 2.77879 5.13086 3.09661 2.01620 4.41852 3.57705 3.76716 3.02202 2.33795 2.91739 4.18781 3.07259 3.96820 2.30369 2.27138 2.52684 3.00910 3.49045 5.59755 3.11694 2416 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01335 4.71887 5.44122 0.61958 0.77255 0.82582 0.57603\n- 1302 2.76970 4.35682 3.90540 3.33099 3.47709 3.80963 4.08694 1.63965 2.88179 2.35195 3.46747 3.65716 3.33858 3.03468 3.52347 2.71085 3.00190 1.99001 4.95925 3.74907 2417 i - - -\n- 2.68619 4.42279 2.77476 2.73053 3.46408 2.40531 3.72549 3.29318 2.67746 2.69347 4.24744 2.90378 2.73770 3.18013 2.89827 2.37875 2.77552 2.98515 4.58531 3.61557\n- 0.46157 0.99505 * 1.53672 0.24218 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Uzume__UzuA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Uzume__UzuA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,857 +0,0 @@\n-HMMER3/f [3.1b2 | February 2015]\n-NAME Uzume__UzuA\n-LENG 278\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Aug 18 14:35:43 2021\n-NSEQ 260\n-EFFN 2.447815\n-CKSUM 828189035\n-GA 275 275;\n-STATS LOCAL MSV -10.9478 0.70192\n-STATS LOCAL VITERBI -11.9708 0.70192\n-STATS LOCAL FORWARD -5.2657 0.70192\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58540 4.65606 3.00125 2.60759 3.28475 2.85792 3.61232 2.95551 2.61757 2.45527 3.79028 2.99462 3.53405 2.97850 2.81609 2.66278 2.85231 2.75296 4.05878 3.27070\n- 2.68611 4.42130 2.77514 2.73154 3.46348 2.40513 3.72553 3.29326 2.67776 2.69327 4.24006 2.90379 2.73757 3.18139 2.89825 2.37928 2.77528 2.98531 4.58546 3.61470\n- 0.84687 1.12996 1.39353 2.33280 0.10206 0.00000 *\n- 1 2.53399 4.65875 3.09838 2.62249 3.67252 2.83442 3.80590 3.06489 2.50224 2.74975 2.28314 2.96414 3.63436 2.99252 3.07646 2.70866 2.90327 2.76952 5.20384 3.55371 69 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02072 4.48922 4.67999 0.61958 0.77255 0.56043 0.84622\n- 2 2.53728 4.63674 3.09749 2.54551 3.30606 3.51651 3.84165 2.66154 2.66665 2.75690 2.67490 3.13336 3.13293 3.12697 3.16771 2.69327 2.46717 2.57259 5.19319 3.88262 70 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01456 4.63277 5.35512 0.61958 0.77255 0.42864 1.05381\n- 3 2.87314 4.27443 4.63191 3.18450 2.75850 4.02760 4.34936 1.95413 3.86132 1.35722 2.56113 4.11920 4.38094 3.85402 3.93988 3.33197 2.93520 2.33386 4.88876 3.71836 71 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01306 4.74038 5.46272 0.61958 0.77255 0.53552 0.88036\n- 4 2.74935 4.83195 2.59147 2.38126 4.31862 3.33930 3.59643 3.72454 2.38488 3.25683 3.89217 2.68171 3.95922 2.65055 2.96078 2.36421 1.92488 3.55043 5.64921 3.60033 72 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74366 5.46601 0.61958 0.77255 0.54032 0.87361\n- 5 3.79884 5.04887 5.71745 5.12611 1.72516 5.11911 5.39288 1.97020 4.97436 0.83604 2.96557 5.26735 5.22525 4.88888 4.93202 4.48323 3.94843 2.64869 5.50209 4.48219 73 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74366 5.46601 0.61958 0.77255 0.54032 0.87361\n- 6 2.65595 4.96708 2.96906 2.37038 3.87306 2.55100 3.51333 3.68214 2.35673 3.00037 4.22929 2.34355 3.72493 2.47560 3.00067 2.43523 2.86972 3.24702 5.63665 3.71038 74 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01302 4.74366 5.46601 0.61958 0.77255 0.54032 0.87361\n- 7 2.57459 5.27906 1.94580 1.89344 4.42221 3.49476 3.35238 4.00839 2.42785 3.58192 4.01340 2.88726'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01642 4.75672 4.86718 0.61958 0.77255 0.51812 0.90545\n- 271 2.88479 5.01701 3.34035 2.75521 4.16461 3.70738 3.52704 3.11628 2.41212 2.93262 3.98631 3.05667 4.08785 2.93434 1.23970 2.91059 3.08064 3.34033 5.49633 4.08099 522 r - - -\n- 2.68614 4.42226 2.77520 2.73124 3.46353 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73740 3.18147 2.89796 2.37887 2.77520 2.98518 4.58477 3.61504\n- 0.03540 3.48701 5.47553 0.46321 0.99226 0.52563 0.89449\n- 272 2.17642 5.25146 2.96809 2.01134 4.58004 3.56103 3.71259 4.05442 2.28525 3.27920 4.29653 2.88657 3.68741 2.67508 2.44913 2.47743 2.52004 3.11714 5.69406 4.23240 524 e - - -\n- 2.68610 4.42229 2.77523 2.73124 3.46358 2.40517 3.72498 3.29358 2.67745 2.69359 4.24694 2.90349 2.73717 3.18148 2.89805 2.37888 2.77512 2.98518 4.58481 3.61507\n- 0.10995 2.30325 5.47553 0.44499 1.02396 0.52563 0.89449\n- 273 2.79402 4.12915 4.42892 3.83698 1.72587 3.93531 2.29123 2.60622 3.49642 2.37495 2.82604 3.82302 4.30197 3.88026 3.81541 3.20134 3.04344 2.40278 4.01969 2.82552 527 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02271 4.75319 4.28070 0.61958 0.77255 0.52563 0.89449\n- 274 3.39891 5.21771 4.40640 4.41352 5.54518 0.21884 5.50896 5.23301 4.70045 4.85650 5.78841 4.49726 4.69848 4.94422 4.85715 3.59123 3.81098 4.54578 6.61270 5.68699 528 G - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73740 3.18146 2.89801 2.37885 2.77520 2.98518 4.58477 3.61503\n- 0.01774 4.31588 5.46584 0.57843 0.82274 0.51189 0.91470\n- 275 3.30406 4.66638 4.99786 4.42163 2.95456 4.45964 4.41958 2.74469 4.25052 0.73033 2.77103 4.50864 4.74729 4.34945 4.31089 3.77785 3.48224 2.76918 4.94920 2.70196 530 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01289 4.75319 5.47553 0.61958 0.77255 0.52563 0.89449\n- 276 2.86470 3.87208 3.57257 3.34935 4.69390 3.56017 4.53447 4.23264 3.40462 3.90816 4.77767 0.59378 4.26068 3.64744 3.73204 3.03624 3.34479 3.75472 6.03580 4.70850 531 N - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01289 4.75319 5.47553 0.61958 0.77255 0.52563 0.89449\n- 277 2.45907 4.90589 2.54641 2.31028 4.59722 3.15274 3.38780 4.03172 2.35581 2.97392 3.88938 2.64427 3.95204 2.72378 1.97951 2.64172 3.01195 3.62519 5.70319 4.24620 532 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02293 4.75319 4.26564 0.61958 0.77255 0.52563 0.89449\n- 278 3.21876 5.42643 2.94727 2.83315 4.99996 3.54638 4.26695 4.34580 2.79916 4.07357 4.93912 0.65172 4.30110 3.45266 3.41069 3.22142 3.49806 4.08055 6.18055 4.80480 533 N - - -\n- 2.68548 4.41977 2.77547 2.73173 3.46372 2.40499 3.72501 3.29327 2.67799 2.69346 4.24637 2.90394 2.73717 3.18180 2.89784 2.37884 2.77529 2.98454 4.58556 3.61582\n- 0.09815 2.36995 * 2.95961 0.05323 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Uzume__UzuA_2660320622.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Uzume__UzuA_2660320622.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,953 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Uzume__UzuA_2660320622\n-LENG 310\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:17:32 2022\n-NSEQ 24\n-EFFN 1.274414\n-CKSUM 3569361537\n-GA 275 275;\n-STATS LOCAL MSV -11.0229 0.70102\n-STATS LOCAL VITERBI -12.0554 0.70102\n-STATS LOCAL FORWARD -5.4159 0.70102\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.60759 4.57701 2.84053 2.61929 3.26616 2.88322 3.60865 2.90529 2.63044 2.47269 3.76164 2.93302 3.52203 3.07492 2.85480 2.63476 2.86817 2.72273 4.40766 3.31810\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12099 4.18107 2.31597 0.61958 0.77255 0.00000 *\n- 1 3.16424 4.57833 4.57445 4.02407 3.17284 4.32249 4.66498 2.20564 3.84977 1.48497 1.46114 4.30231 4.59918 4.07588 4.03258 3.66399 3.40505 2.08744 5.15548 4.02510 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22302 4.08538 1.69782 0.61958 0.77255 0.59322 0.80418\n- 2 2.62983 4.86129 2.67498 1.90663 3.72097 3.31539 3.62958 3.54756 2.44932 3.15632 3.98754 2.29413 3.78333 2.79019 2.90685 2.64133 2.72494 3.21358 5.37768 4.01478 2 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03075 3.89311 4.61546 0.61958 0.77255 0.75660 0.63348\n- 3 2.94166 4.37149 4.32699 3.75951 2.95372 4.06851 4.26150 1.89549 3.58788 1.27379 2.97008 4.00415 4.36190 3.81437 3.76753 3.38043 3.16927 2.26228 3.96853 3.48902 3 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03075 3.89311 4.61546 0.61958 0.77255 0.75660 0.63348\n- 4 2.06091 4.49807 2.77525 2.55411 4.23144 3.08100 3.86205 3.65180 2.74272 3.31851 4.16536 1.74551 3.72642 3.07006 3.14208 2.38750 2.83133 3.21883 5.52915 4.20736 4 n - - -\n- 2.68647 4.42177 2.77505 2.73068 3.46420 2.40603 3.72415 3.29080 2.67753 2.69221 4.24780 2.90302 2.73734 3.18157 2.89861 2.37915 2.77577 2.98576 4.58405 3.61593\n- 0.49477 0.96655 4.61546 2.67006 0.07176 0.68596 0.70038\n- 5 2.63670 4.88710 2.12154 2.31880 4.22712 2.22396 3.66905 3.67087 2.51095 3.02015 4.08399 2.84902 3.78492 2.82818 2.82400 2.64369 2.90864 3.30923 5.46978 4.10064 30 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09086 3.94029 2.69691 0.61958 0.77255 0.72165 0.66543\n- 6 2.52847 4.61557 2.63719 2.47966 4.20509 3.10035 3.83864 3.77053 2.71899 3.40496 4.27057 1.55563 3.75105 3.05803 3.11319 2.28744 2.91439 3.33596 5.51473 4.13573 31 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 3.88057 4.60292 0.61958 0.77255 0.76543 0.62574\n- 7 2.62183 4.45622 3.10117 2.49540 3.63386 2.95914 3.80211 2.91454 2.67808 1.79598 3.60875 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 303 3.06424 4.93665 3.77819 3.13355 4.09374 3.81466 3.92948 2.57009 2.36082 2.98043 4.02070 3.50352 4.21952 3.13123 1.04643 3.18397 3.28922 3.14250 5.39308 4.15598 458 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 304 2.72104 5.08253 2.96450 1.78444 4.38898 3.48058 3.66366 3.07331 1.89075 3.35777 4.14148 2.97099 3.88097 2.51519 2.79731 2.70740 2.81110 3.45060 5.52788 4.16833 459 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 305 3.07576 4.78791 3.70864 3.22555 1.49145 3.92281 2.36324 3.35576 3.17897 2.91554 3.91163 2.32594 4.29840 3.45985 3.51267 3.19873 3.30548 3.14343 4.25894 2.47302 460 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 306 2.91524 4.74707 3.48375 3.20414 3.46155 1.05563 4.10426 3.64465 3.25753 3.26538 4.22652 3.54945 4.17618 3.58958 3.57689 3.05954 3.27191 3.34348 4.98464 2.07212 461 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 307 3.38722 4.70601 4.84566 4.36612 1.83832 4.43079 4.04566 2.80765 4.20345 1.08492 3.38518 4.32606 4.71039 4.24338 4.25381 3.76411 3.60727 2.83022 4.25644 2.06562 462 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 308 3.01915 5.29969 2.82064 2.56728 4.69549 3.53039 3.86050 4.17920 1.85678 3.68577 4.53149 1.23306 4.05137 3.01462 2.81689 2.99015 3.27910 3.79527 5.77134 4.43556 463 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 309 2.76599 5.18081 2.53414 2.44000 4.52997 3.48832 3.66928 3.98199 1.93744 3.47231 4.24569 2.97100 3.89812 2.78201 1.81542 2.32562 2.99289 3.57954 5.60387 4.24061 464 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01977 4.32922 5.05157 0.61958 0.77255 0.48576 0.95510\n- 310 3.18929 5.15701 3.08304 3.02706 4.60318 3.56346 4.40642 4.44290 3.36678 4.04027 5.01178 0.55039 4.24725 3.70096 3.71961 3.25157 3.59844 4.01505 5.85307 4.53491 465 N - - -\n- 2.68656 4.42263 2.77511 2.73072 3.46391 2.40550 3.72412 3.29313 2.67778 2.69350 4.24727 2.90278 2.73687 3.18184 2.89786 2.37924 2.77511 2.98556 4.58514 3.61433\n- 0.16470 1.88483 * 2.21068 0.11611 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Uzume__UzuA_2712538620.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Uzume__UzuA_2712538620.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,854 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME Uzume__UzuA_2712538620\n-LENG 277\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Sat Apr 16 21:18:24 2022\n-NSEQ 38\n-EFFN 1.869385\n-CKSUM 2156715200\n-GA 275 275;\n-STATS LOCAL MSV -11.1378 0.70195\n-STATS LOCAL VITERBI -11.8845 0.70195\n-STATS LOCAL FORWARD -5.1627 0.70195\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.64308 4.49051 2.86288 2.61499 3.14386 2.92853 3.60224 2.86781 2.60966 2.52045 3.63701 2.96966 3.57933 3.05047 2.83397 2.66373 2.83308 2.78045 4.51053 3.23076\n- 2.68604 4.42210 2.77531 2.73125 3.46356 2.40513 3.72493 3.29355 2.67743 2.69356 4.24677 2.90351 2.73740 3.18150 2.89794 2.37895 2.77511 2.98503 4.58489 3.61515\n- 0.19507 2.45965 2.38860 1.73018 0.19511 0.00000 *\n- 1 3.06041 4.54614 4.42672 3.92915 3.25822 4.11805 4.60974 2.25829 3.73100 1.75001 1.33723 4.17827 4.50202 4.01824 3.92630 3.49869 3.34222 2.05523 5.18981 4.01545 25 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20216 4.09697 1.79330 0.61958 0.77255 0.57154 0.83162\n- 2 2.41023 5.03992 2.30568 1.97825 4.34551 3.28319 3.62828 3.79678 2.34824 3.34717 4.15183 2.78300 3.77453 2.77064 2.96734 2.16401 2.92649 3.41874 5.54259 4.14686 26 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14140 3.92460 2.18829 0.61958 0.77255 0.63412 0.75588\n- 3 2.77085 4.71308 3.34458 2.73585 3.91213 3.55358 3.63985 3.26435 1.99043 2.18656 3.79212 3.15691 3.93419 2.83209 1.96342 2.86302 2.97872 3.02092 5.15684 3.91903 27 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88218 4.60453 0.61958 0.77255 0.75616 0.63387\n- 4 2.67909 4.53094 3.19471 2.14733 2.72601 3.53124 3.64005 3.03181 2.71009 2.65851 3.61040 3.16188 3.93185 3.04033 3.09133 2.80617 2.91402 2.80813 4.60620 2.41059 28 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88218 4.60453 0.61958 0.77255 0.75616 0.63387\n- 5 3.08945 4.44033 4.61660 4.09153 3.28726 4.36224 4.77760 1.31537 3.94280 1.56368 3.11651 4.35954 4.63905 4.19509 4.14134 3.72387 3.33927 1.70778 5.27500 4.09215 29 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03109 3.88218 4.60453 0.61958 0.77255 0.56598 0.83887\n- 6 2.42855 4.70484 2.58097 2.45326 4.07615 2.57958 3.67521 3.48589 2.49696 3.10143 3.91915 2.95205 3.78461 2.83613 2.81069 2.59591 2.28171 2.95783 5.34651 4.01774 30 t - - -\n- 2.68597 4.42368 2.77454 2.73003 3.46333 2.40581 3.72465 3.29425 2.67827 2.69246 4.24728 2.90446 2.73729 3.18150 2.89778 2.37977 2.77500 2.98536 4.58247 3.61341\n- 0.47002 1.00450 4.73535 3.05091 0.04847 0.65265 0.73536\n- 7 2.50243 4.52626 3.11954 2.68838 4.10239 3.24891 3.81334 3.49705 2.56997 3.13613 3.98149 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02126 4.25721 4.97956 0.61958 0.77255 0.61396 0.77915\n- 270 2.22567 4.63676 2.98422 2.50453 3.84993 2.91464 3.72141 2.68844 2.58141 2.89428 3.74033 3.08188 3.34160 2.91859 3.01838 2.49026 2.65242 2.74610 5.19115 3.89598 450 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13401 4.23583 2.19864 0.61958 0.77255 0.61396 0.77915\n- 271 2.35763 4.83301 2.95806 2.35446 4.11428 3.03795 3.63312 3.53918 2.18209 3.12723 3.93072 2.80703 3.40280 2.77526 2.88546 2.38068 2.62539 2.90157 5.35456 4.01051 451 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02428 4.12610 4.84845 0.61958 0.77255 0.72734 0.66008\n- 272 2.58558 4.80992 2.67316 2.30343 4.06823 2.99382 3.61893 3.26520 2.41755 2.94197 3.89337 2.92804 3.01543 2.76515 2.88461 2.31264 2.82157 3.00395 5.32084 3.97884 452 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02583 4.06510 4.78745 0.61958 0.77255 0.72734 0.66008\n- 273 2.55956 4.45267 3.20822 2.54862 3.61863 3.47253 3.15966 2.99651 2.61034 2.40283 3.17387 3.11045 3.56285 2.83409 3.01530 2.56018 2.70660 2.64962 5.00745 3.37664 453 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02752 4.00240 4.72474 0.61958 0.77255 0.72734 0.66008\n- 274 2.46636 4.61112 3.05524 2.50643 3.83586 3.20566 3.64127 3.05478 2.46528 2.69158 3.71408 2.87493 3.80887 2.57775 2.77059 2.44496 2.52298 2.93958 5.15591 3.85727 454 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02882 3.95688 4.67923 0.61958 0.77255 0.64088 0.74830\n- 275 2.41144 4.33451 3.30705 2.57289 3.07696 3.48138 3.74313 2.84531 2.71704 2.55899 3.44544 3.18454 3.87295 3.03445 3.09507 2.53355 2.43219 2.44233 4.91704 3.40534 455 a - - -\n- 2.68511 4.42318 2.77538 2.73064 3.46398 2.40550 3.72514 3.29331 2.67845 2.69309 4.24370 2.90449 2.73759 3.18147 2.89754 2.37899 2.77511 2.98522 4.58387 3.61532\n- 0.49832 1.08609 2.90194 3.08859 0.04664 0.59164 0.80614\n- 276 2.48704 4.85554 3.12804 2.59725 4.26336 3.17105 3.62660 3.63993 1.99395 3.19797 4.04231 3.04931 3.87908 2.77923 1.68140 2.77545 2.97342 3.30896 5.36271 4.11229 507 r - - -\n- 2.68587 4.42312 2.77511 2.73040 3.46310 2.40525 3.72527 3.29377 2.67762 2.69348 4.24651 2.90398 2.73766 3.18202 2.89788 2.37909 2.77555 2.98412 4.58342 3.61559\n- 0.57846 1.14215 2.11936 2.74293 0.06655 0.53271 0.88433\n- 277 2.49494 4.55873 2.94642 2.52252 3.98747 2.47763 3.71772 3.38953 2.55768 2.69434 3.87041 2.43854 3.27182 2.90736 2.97856 2.58021 2.65373 3.04835 5.29398 3.99004 549 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02036 3.90446 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Viperin__pVip.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Viperin__pVip.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,920 +0,0 @@\n-HMMER3/f [3.2.1 | June 2018]\n-NAME Viperin__pVip\n-LENG 299\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Fri Feb 12 16:56:56 2021\n-NSEQ 250\n-EFFN 2.246857\n-CKSUM 3286638926\n-GA 200 200;\n-STATS LOCAL MSV -10.9866 0.70131\n-STATS LOCAL VITERBI -12.0648 0.70131\n-STATS LOCAL FORWARD -5.6784 0.70131\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61547 4.01847 2.99757 2.63692 3.26867 2.96375 3.66794 2.82769 2.61590 2.49756 3.61609 2.86339 3.43363 3.03692 2.93203 2.62041 2.81923 2.71575 4.64364 3.44378\n- 2.68681 4.42010 2.77579 2.73165 3.46381 2.40507 3.72511 3.29286 2.67749 2.69292 4.24658 2.90410 2.73730 3.18148 2.89803 2.37852 2.77508 2.98490 4.58431 3.61519\n- 0.17149 1.92048 4.50478 3.06929 0.04757 0.00000 *\n- 1 3.34858 4.87884 4.78051 4.35990 3.54348 4.31132 4.92561 2.71171 4.03895 2.07713 0.71092 4.50876 4.78504 4.39473 4.18671 3.63543 3.67785 2.68291 5.46166 4.21196 54 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02877 4.64920 3.97445 0.61958 0.77255 0.48576 0.95510\n- 2 2.69842 5.17162 2.95191 2.37098 4.48500 3.45640 3.61749 3.36533 1.98701 3.31723 4.18819 2.52621 3.27071 2.61791 2.85593 2.27846 2.66364 3.16690 5.62372 3.80079 55 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11189 4.63495 2.34181 0.61958 0.77255 0.51346 0.91236\n- 3 2.57751 4.75260 3.02300 2.55541 3.86101 3.46888 3.59317 3.15088 2.43711 2.67435 3.82525 2.41801 3.93771 2.79570 2.90545 2.58884 2.10689 3.13763 5.38107 3.94811 56 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06768 4.53906 2.90487 0.61958 0.77255 0.67395 0.71272\n- 4 2.62334 5.03017 2.90050 2.37172 3.51456 3.49653 3.58057 3.48267 2.11218 2.98106 4.08868 2.65180 3.06152 2.66993 2.92910 2.43191 2.57313 3.32499 5.50409 3.85320 57 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14180 4.48822 2.11226 0.61958 0.77255 0.73916 0.64915\n- 5 2.64667 4.86926 2.97800 2.38594 3.83554 3.22278 3.42873 2.73094 2.35975 2.96249 3.93896 2.66800 3.64701 2.69677 2.90084 2.57447 2.38256 3.14664 5.36952 3.91730 58 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07646 4.36766 2.79812 0.61958 0.77255 0.75806 0.63219\n- 6 2.53152 4.74988 2.94045 2.36400 4.15203 3.33496 3.49567 3.35918 2.40255 3.13898 3.95441 2.90745 2.97011 2.69578 2.76389 2.39576 2.30998 3.12314 5.42172 3.89982 59 t - - -\n- 2.68696 4.42229 2.77468 2.73128 3.45964 2.40687 3.72508 3.28997 2.67715 2.69331 4.24545 2.90084 2.74012 3.18058 2.89820 2.37998 2.77584 2.98418 4.58926 3.61426\n- 0.74263 0.74916 2.96859 3.75920 0.02358 0.72633 0.66103\n- 7 2.57418 4.11680 4.28968 3.69634 2.96395 3.80615 4.12115 1.76760 3.51757 1.95698 2.99988 3.71383 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06636 4.19214 3.01411 0.61958 0.77255 0.50124 0.93085\n- 292 2.50074 5.11699 2.51350 1.94304 4.43628 2.77099 3.54635 3.90934 2.17817 3.41157 4.09596 2.70763 3.76985 2.72046 2.84894 2.51833 2.86565 3.47257 5.56397 4.15934 745 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02323 4.16993 4.89228 0.61958 0.77255 0.57646 0.82528\n- 293 2.52115 3.36383 3.73746 3.16855 3.22091 3.25971 3.92122 2.36794 3.13862 1.97778 3.23668 3.51845 3.80632 3.36498 3.39263 2.86483 2.59747 2.14858 4.73229 3.52810 746 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02508 4.09405 4.81639 0.61958 0.77255 0.57148 0.83170\n- 294 2.32221 3.83976 3.57948 2.96903 3.07947 3.44596 3.84641 2.58162 2.89194 2.21651 3.29221 3.33340 3.95540 3.23382 3.11364 2.55912 2.58304 2.33110 4.80517 3.58468 747 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02534 4.08399 4.80634 0.61958 0.77255 0.57365 0.82889\n- 295 2.55525 4.15373 2.92491 2.24693 3.89034 3.17935 3.62767 3.27152 2.44377 2.92380 3.75522 2.96939 3.13596 2.80073 2.84721 2.55438 2.73254 2.98397 5.19605 3.11892 748 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02785 3.99063 4.71298 0.61958 0.77255 0.57365 0.82889\n- 296 2.57275 4.99295 2.35651 2.04541 4.28749 2.96134 3.51463 3.58329 2.38319 3.26021 4.06712 2.73463 3.23513 2.71240 2.87583 2.53737 2.82659 3.33491 5.46951 4.08173 749 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08802 3.94644 2.73437 0.61958 0.77255 0.57365 0.82889\n- 297 2.52598 4.23366 3.42049 2.83699 2.78126 3.47633 3.76218 2.70538 2.78900 2.32164 3.27172 3.20620 3.80122 2.83989 3.12829 2.69977 2.72941 2.30550 4.80883 3.56479 750 v - - -\n- 2.68620 4.42228 2.77522 2.73121 3.46352 2.40511 3.72497 3.29353 2.67743 2.69352 4.24692 2.90348 2.73742 3.18148 2.89803 2.37884 2.77521 2.98521 4.58421 3.61506\n- 0.35025 1.49157 2.65263 0.27556 1.42357 0.62246 0.76921\n- 298 2.53597 4.48105 2.80947 2.48959 3.59773 3.41289 3.65229 2.93795 2.53356 2.26288 3.53131 3.03067 3.81731 2.85095 2.93254 2.67509 2.78881 2.73281 4.99906 3.47741 752 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03573 3.74552 4.46787 0.61958 0.77255 0.60588 0.78877\n- 299 2.60582 4.60620 2.80554 2.49465 3.74265 3.24670 3.60605 3.19504 2.27234 2.89563 3.85598 2.87288 3.76738 2.29519 2.53530 2.68011 2.89187 3.01295 5.09093 3.72943 753 k - - -\n- 2.68631 4.42210 2.77586 2.73170 3.46401 2.40532 3.72471 3.29244 2.67739 2.69256 4.24776 2.90388 2.73788 3.18174 2.89686 2.37880 2.77526 2.98556 4.58434 3.61409\n- 0.20043 1.70583 * 3.37746 0.03473 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetA_I.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetA_I.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1511 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetA_I\n-LENG 496\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:47 2021\n-NSEQ 100\n-EFFN 9.793091\n-CKSUM 2940922927\n-GA 20 20;\n-STATS LOCAL MSV -11.7251 0.69807\n-STATS LOCAL VITERBI -12.5263 0.69807\n-STATS LOCAL FORWARD -5.8136 0.69807\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41175 4.96817 2.76514 2.43739 3.43085 3.08549 3.72350 2.99956 2.86283 2.29269 3.82488 3.25169 3.38240 2.91489 2.52050 2.71687 2.90343 2.84739 4.66530 3.67100\n- 2.68635 4.42091 2.77645 2.73283 3.46452 2.40528 3.72455 3.29210 2.67851 2.69307 4.23835 2.90331 2.73735 3.18202 2.89635 2.37934 2.77567 2.98521 4.58492 3.61218\n- 0.72368 2.12259 0.92807 2.68631 0.07056 0.00000 *\n- 1 3.41726 5.01192 4.49898 3.54241 4.08617 4.38886 4.56962 3.41566 3.35359 2.79969 0.61560 4.19570 4.75431 3.40398 3.18888 3.70219 3.63615 3.07065 5.56410 4.37766 56 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05512 5.41807 3.01191 0.61958 0.77255 1.66140 0.21056\n- 2 1.90772 5.56639 2.75616 2.49724 4.91030 3.46259 4.01984 4.39545 2.14250 3.87118 3.39963 3.05177 3.04692 2.82115 2.94940 1.85923 2.76649 3.75846 5.99976 4.58951 57 s - - -\n- 2.68451 4.42357 2.77365 2.73217 3.46486 2.40563 3.72343 3.29460 2.67861 2.69268 4.24821 2.90345 2.73790 3.18184 2.89821 2.37765 2.77609 2.98418 4.58609 3.61635\n- 0.83191 0.63802 3.31193 1.38847 0.28696 0.98821 0.46560\n- 3 1.95775 5.54938 2.39282 2.62235 4.38294 3.13159 3.56950 4.31109 2.75879 2.55113 2.46083 3.41975 4.32662 2.91042 2.96911 2.17099 2.99261 3.26387 6.00757 4.62296 67 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 5.54688 3.79685 0.61958 0.77255 1.64771 0.21380\n- 4 2.97537 5.63185 1.85270 2.15494 4.97405 3.90282 3.66599 3.18042 2.69366 3.45468 4.67326 2.65297 3.64119 2.66238 2.28997 2.87347 2.98870 2.48335 6.06625 4.65703 68 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00593 5.52612 6.24847 0.61958 0.77255 1.67855 0.20659\n- 5 2.31110 4.78130 4.29030 3.35010 3.37190 3.55082 3.18670 2.16404 3.19428 2.24203 2.88418 4.05214 3.28991 3.91814 2.86829 2.57219 3.09699 2.78662 5.37854 2.28049 69 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00593 5.52612 6.24847 0.61958 0.77255 1.67855 0.20659\n- 6 1.68646 5.57640 2.18817 2.43070 4.89522 3.51615 3.24218 4.36308 2.85046 2.22950 4.62408 3.39289 4.30746 3.21013 2.61278 2.44134 2.83951 3.95287 4.46457 4.63059 70 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00593 5.52612 6.24847 0.61958 0.77255 1.67855 0.20659\n- 7 2.22396 5.63880 2.34030 1.80360 4.98332 3.12523 2.99219 4.46897 2.82522 3.58031 4.67968 3.37010 4.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00397 5.92664 6.64898 0.61958 0.77255 0.61767 0.77479\n- 489 2.82182 5.87411 3.28666 2.25008 5.21823 3.40203 3.28111 4.70352 2.23208 3.02511 3.75246 3.35211 4.53333 2.99783 1.21776 3.12892 2.94327 3.41305 6.30736 4.89700 784 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09314 5.92664 2.45033 0.61958 0.77255 0.61767 0.77479\n- 490 2.71061 5.82266 2.67419 1.71811 5.16885 3.72025 3.95627 4.01999 1.93713 3.31381 4.86303 2.97371 2.58825 2.83629 2.44082 2.77889 2.97051 3.44944 6.25468 4.84305 785 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06030 5.83784 2.88958 0.61958 0.77255 1.04322 0.43436\n- 491 2.37234 4.55779 2.58106 2.63368 5.09257 2.59358 4.24316 2.75274 2.36828 3.43848 4.80293 2.77661 3.28047 3.25493 2.69882 2.27144 2.68901 2.88441 6.19894 3.86244 786 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07862 5.78213 2.62377 0.61958 0.77255 1.22740 0.34680\n- 492 2.30338 5.73670 2.87638 2.72480 5.07950 3.52541 4.19334 4.01337 2.26277 2.15596 4.77796 2.90607 2.74408 2.67710 2.19163 2.70843 2.62526 3.55237 6.17075 4.76117 787 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05885 5.70845 2.92187 0.61958 0.77255 1.41684 0.27770\n- 493 2.66542 4.50080 2.65721 2.47725 5.05717 3.10606 3.89600 4.01348 1.92863 3.31529 4.75216 2.54140 3.40113 2.54414 3.14426 2.00866 2.54138 3.58380 6.14402 4.73278 788 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08978 5.65481 2.49662 0.61958 0.77255 1.52826 0.24451\n- 494 2.26367 5.65533 2.34722 1.91205 4.99707 3.15650 3.90327 2.99437 2.65486 3.06154 4.69686 2.93595 3.70453 2.85449 2.54273 2.98682 2.52246 3.05497 6.09001 4.68106 789 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05469 5.57071 3.00760 0.61958 0.77255 1.67180 0.20814\n- 495 2.26877 5.33886 3.00761 2.27798 3.41148 3.53437 3.09628 2.43004 2.61647 2.14288 3.50938 3.50166 3.28303 3.15134 3.12839 2.57533 3.37019 3.09109 5.84171 4.50672 790 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05720 5.52198 2.96433 0.61958 0.77255 1.74178 0.19263\n- 496 2.04012 5.52448 3.00777 2.20699 4.83913 2.56147 4.06594 2.88846 2.48768 2.78353 4.57326 3.35567 4.26814 2.44311 2.67083 2.73034 3.32065 2.59902 5.97581 4.58399 791 a - - -\n- 2.68392 4.42463 2.77357 2.72900 3.46405 2.40545 3.72256 3.29531 2.67913 2.69432 4.24533 2.90498 2.73846 3.17956 2.89778 2.37913 2.77583 2.98516 4.58305 3.61741\n- 1.39140 0.28598 * 1.57957 0.23075 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetA_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetA_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1604 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetA_II\n-LENG 527\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:47 2021\n-NSEQ 96\n-EFFN 5.088867\n-CKSUM 1086361349\n-GA 20 20;\n-STATS LOCAL MSV -11.7779 0.69778\n-STATS LOCAL VITERBI -12.5325 0.69778\n-STATS LOCAL FORWARD -6.0843 0.69778\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.37000 4.76160 2.89277 2.47453 3.41855 3.05437 3.65766 3.08121 2.72625 2.35210 3.78179 3.17588 3.47795 2.98263 2.62749 2.67931 2.83592 2.81831 4.40078 3.55703\n- 2.68619 4.42249 2.77513 2.73115 3.46361 2.40521 3.72497 3.29324 2.67745 2.69379 4.24561 2.90327 2.73756 3.18145 2.89808 2.37882 2.77537 2.98522 4.58345 3.61527\n- 0.25568 1.81811 2.76024 2.13872 0.12534 0.00000 *\n- 1 3.47384 5.42447 5.58064 5.21884 4.01973 4.87365 5.71590 3.14154 4.86708 2.32975 0.38584 5.25809 5.37011 5.15398 4.94750 4.35554 4.27966 3.23002 6.08853 4.93918 37 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25034 5.23123 1.53193 0.61958 0.77255 0.52735 0.89201\n- 2 2.39552 5.33546 2.96408 2.00902 3.65122 3.50906 3.36735 3.21056 2.47244 3.21319 4.38129 2.63273 3.48293 2.55806 2.73805 2.35668 2.96144 3.13077 5.78000 4.38112 38 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21585 4.99104 1.67482 0.61958 0.77255 1.07420 0.41790\n- 3 2.63184 4.61248 2.34145 1.95104 4.63022 3.27043 3.75631 4.11236 2.40535 3.59356 3.89641 2.54220 3.35702 2.63858 2.64494 2.56596 2.79465 3.12989 5.72656 4.31890 39 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03314 4.78765 3.71888 0.61958 0.77255 1.01179 0.45188\n- 4 2.61567 5.30138 2.97580 2.33178 4.63369 3.06229 3.08662 3.79432 2.22152 3.60120 4.34541 2.92463 2.66654 2.79876 2.44262 2.40997 2.73414 3.04361 5.74176 3.73903 40 k - - -\n- 2.68207 4.42277 2.77433 2.73087 3.46547 2.40384 3.72642 3.29539 2.68047 2.69481 4.24618 2.90565 2.73546 3.18263 2.89721 2.37900 2.77429 2.98496 4.58512 3.61763\n- 0.95519 0.55061 3.25294 2.75972 0.06540 0.59120 0.80668\n- 5 2.19335 4.72154 2.76410 3.00104 3.00524 3.52107 4.13616 2.51215 2.90366 2.05042 2.95955 3.58784 2.76448 3.29331 3.08532 2.98418 3.16936 2.70787 5.29474 4.04843 103 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04550 5.09814 3.26047 0.61958 0.77255 0.87601 0.53861\n- 6 2.11993 5.40164 2.26139 2.53943 4.35228 3.06681 3.60664 4.21742 2.54251 3.42252 4.44466 2.73680 3.04038 2.43069 3.00445 2.42127 2.80890 3.02856 5.83973 4.04807 104 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00922 5.08632 5.80867 0.61958 0.77255 0.78909 0.60561\n- 7 1.97762 5.32084 2.80906 2.31851 3.28046 3.23158 3.92408 4.06967 2.68149 2.51670 4.37473 2.92024 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11271 4.01471 2.42432 0.61958 0.77255 0.54199 0.87130\n- 520 2.29520 4.32522 2.80175 2.54953 4.13228 2.41586 3.81580 3.57297 2.71801 3.20890 4.04051 2.64990 3.01464 3.03040 3.11404 2.09013 2.70046 3.11775 5.43337 4.14322 922 s - - -\n- 2.68078 4.42563 2.77417 2.73162 3.46504 2.40621 3.72668 3.29607 2.68063 2.69480 4.24993 2.90573 2.72778 3.18326 2.89896 2.37857 2.77500 2.98633 4.58705 3.61762\n- 0.36678 1.21992 4.44105 4.29383 0.01375 0.56117 0.84522\n- 521 2.18713 4.46100 3.03962 2.57693 3.99232 2.80238 3.71777 3.38815 2.51521 3.02649 3.86185 3.00576 2.98643 2.90850 2.50551 2.52341 2.56917 3.02650 5.28303 4.00078 1188 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82058 4.54293 0.61958 0.77255 0.61814 0.77424\n- 522 2.67336 5.04310 2.02696 2.20614 4.34958 2.98849 3.60023 3.81101 2.40882 3.34919 4.15978 2.75635 3.75567 2.36565 2.64273 2.63884 2.92659 3.43151 5.52726 4.13517 1189 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82058 4.54293 0.61958 0.77255 0.61814 0.77424\n- 523 2.72786 5.17952 2.07804 1.78758 4.47143 3.22482 3.61367 3.94734 2.47480 3.46726 4.27941 2.38573 3.75489 2.75898 2.75259 2.66436 2.98544 3.55169 5.63767 4.21028 1190 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82058 4.54293 0.61958 0.77255 0.61814 0.77424\n- 524 2.20462 4.24373 3.70089 3.19977 3.49135 3.51673 4.09416 2.32840 3.08995 1.85732 3.39358 3.50974 4.00957 3.42848 3.38958 2.86307 2.61495 2.04592 5.10109 3.88242 1191 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82058 4.54293 0.61958 0.77255 0.61814 0.77424\n- 525 1.45346 4.08759 3.29481 3.03301 4.10819 2.88082 4.10734 3.41684 3.07934 3.19816 4.07313 3.20724 3.62104 3.39190 3.37931 1.82206 2.64099 2.95026 5.48768 4.25566 1192 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03310 3.82058 4.54293 0.61958 0.77255 0.61814 0.77424\n- 526 1.75426 4.06662 3.03982 2.84401 4.03122 2.12788 3.98951 3.32994 2.95002 3.11933 4.02426 3.08065 3.55144 3.27556 3.25189 2.31899 2.61787 2.88893 5.38498 4.16149 1193 a - - -\n- 2.68626 4.42233 2.77528 2.73115 3.46362 2.40521 3.72503 3.29362 2.67734 2.69363 4.24698 2.90336 2.73699 3.18155 2.89809 2.37884 2.77528 2.98527 4.58382 3.61511\n- 0.28144 2.06791 2.12988 1.46802 0.26186 0.48825 0.95114\n- 527 2.59279 4.62588 2.70430 2.12588 3.71800 3.27841 3.61476 3.25005 2.45447 2.90652 3.79782 2.89083 3.76804 2.84500 2.84004 2.43651 2.85560 2.96722 5.08955 3.20129 1202 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02679 3.63320 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetA_III.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetA_III.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1556 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetA_III\n-LENG 511\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:48 2021\n-NSEQ 100\n-EFFN 10.708618\n-CKSUM 1050099744\n-GA 20 20;\n-STATS LOCAL MSV -11.3497 0.69792\n-STATS LOCAL VITERBI -12.4357 0.69792\n-STATS LOCAL FORWARD -6.0348 0.69792\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66395 4.85399 2.83050 2.33519 3.21750 3.18681 3.79233 2.79651 2.61429 2.29584 3.59334 3.08476 3.57088 2.95138 2.76887 2.73673 2.94584 2.87909 4.89654 3.48814\n- 2.68418 4.42407 2.77504 2.72983 3.46347 2.40595 3.72466 3.29434 2.67847 2.69347 4.23965 2.90459 2.73826 3.18157 2.89639 2.37952 2.77524 2.98546 4.58532 3.61651\n- 0.37145 1.54901 2.32477 2.81316 0.06189 0.00000 *\n- 1 3.34864 4.95753 3.63353 2.91898 3.57846 3.94069 3.91141 3.20393 3.79174 2.71646 0.66933 4.19746 4.75113 4.06719 4.08740 3.63876 3.58076 3.21938 5.54905 4.33161 82 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13547 5.76728 2.09097 0.61958 0.77255 0.74761 0.64150\n- 2 2.48543 5.70333 2.51859 1.66456 5.04965 3.96301 3.65049 4.07083 2.47352 4.00914 4.74367 3.11376 3.39265 2.12391 2.68654 2.21119 2.79830 4.09464 6.13527 4.72356 83 e - - -\n- 2.68654 4.42318 2.77429 2.72989 3.46447 2.40481 3.72453 3.29413 2.67739 2.69372 4.24215 2.90338 2.73833 3.18142 2.89824 2.37952 2.77554 2.98537 4.58570 3.61443\n- 0.88021 1.08455 1.39735 1.24607 0.33916 0.73662 0.65149\n- 3 2.93200 5.51452 2.98301 2.34562 3.92487 3.01207 3.70852 2.78065 2.51754 2.76599 2.32871 2.84018 3.84585 2.57852 2.94019 2.83141 2.84163 2.79013 5.97714 4.59723 91 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02862 5.51667 3.72171 0.61958 0.77255 1.58040 0.23054\n- 4 2.45864 5.60934 2.09581 2.27515 4.94929 3.45419 4.07412 3.99436 2.81080 2.88726 3.17216 2.67518 3.76897 2.72978 2.59529 2.04916 3.10436 3.99723 6.04509 3.61765 92 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00613 5.49418 6.21653 0.61958 0.77255 1.32819 0.30783\n- 5 2.55007 4.59793 3.99421 4.56477 3.06743 4.39084 4.72407 1.94497 4.35099 1.27265 2.91259 4.55125 4.75458 4.48333 3.74094 3.70186 2.99889 2.00278 4.30773 3.04153 93 l - - -\n- 2.68423 4.42151 2.77580 2.73088 3.46396 2.40466 3.72636 3.29464 2.67822 2.69307 4.24748 2.90462 2.73600 3.18257 2.89708 2.37920 2.77537 2.98574 4.58492 3.61540\n- 0.15749 2.24880 3.21407 2.79465 0.06308 0.18064 1.80021\n- 6 3.01702 4.50395 3.06313 2.38327 3.88860 3.75567 3.85798 2.43471 2.33430 2.32817 3.67927 2.26249 3.44074 3.16433 3.19218 2.56223 3.21546 3.33473 6.18121 2.91149 173 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06412 5.89264 2.82426 0.61958 0.77255 0.59272 0.80480\n- 7 3.04466 5.82324 1.95742 1.58355 5.16703 2.71793 4.27702 3.88387 3.01223 3.61279 4.01232 2.67540 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04584 5.67213 3.18544 0.61958 0.77255 1.23216 0.34483\n- 504 2.83442 5.65135 2.15412 2.10117 4.99765 2.75390 3.34845 4.48451 2.21767 3.95715 4.69170 2.01471 4.30448 2.78740 2.84047 2.65930 2.66703 3.59458 6.08329 4.67156 971 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04654 5.54399 3.18064 0.61958 0.77255 1.33102 0.30681\n- 505 2.89164 5.57000 2.39907 1.85857 4.91618 2.92044 3.51752 4.40294 2.33094 3.60190 4.61038 2.82453 3.22064 2.91514 2.27802 2.20219 3.07949 3.96124 6.00202 3.79765 972 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09180 5.39177 2.48697 0.61958 0.77255 1.02385 0.44505\n- 506 2.42117 5.47017 2.57323 1.94942 4.81495 3.10441 3.92078 4.30077 2.45093 2.56507 4.51095 2.40038 3.53703 2.75629 2.51557 2.43455 3.19120 3.86066 5.90298 4.49210 973 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07488 5.19101 2.70933 0.61958 0.77255 0.99304 0.46275\n- 507 2.11750 5.21685 3.01811 2.38368 4.47729 2.60687 3.95386 3.27763 2.39177 2.24114 4.28088 3.00579 4.14568 3.08798 2.75162 2.72174 3.17089 2.72633 5.70379 3.56823 974 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02822 5.13611 3.81911 0.61958 0.77255 1.38197 0.28913\n- 508 2.86492 5.32286 2.74813 2.13358 4.64640 3.64686 3.83637 4.11745 2.42730 2.63527 4.36925 2.55652 3.11905 2.94008 2.41657 2.26329 3.09610 2.75678 5.76860 3.51338 975 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11514 4.97164 2.28444 0.61958 0.77255 1.40683 0.28093\n- 509 2.35937 5.08234 2.86545 2.60007 3.50293 2.18166 3.81602 3.32783 2.59623 3.35116 4.14619 2.82502 3.37567 2.75554 2.54186 2.63229 2.72284 3.42716 3.85535 4.21495 976 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01220 4.80855 5.53090 0.61958 0.77255 1.40323 0.28210\n- 510 2.55039 5.06614 2.69961 2.60891 4.32238 2.21456 3.82049 3.75016 2.45078 2.43132 4.13145 2.86310 4.01126 2.64540 3.07578 2.64720 2.70525 3.40811 3.84105 3.43959 977 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01221 4.80770 5.53005 0.61958 0.77255 1.15679 0.37760\n- 511 2.41292 5.00678 2.97138 2.06836 3.67261 2.96961 3.07613 3.73298 2.42850 3.28575 4.06689 2.95991 2.87191 2.57944 2.90718 2.66221 2.61972 3.36396 5.48073 4.11156 978 e - - -\n- 2.68543 4.42359 2.77390 2.73023 3.46439 2.40559 3.72575 3.29449 2.67826 2.69403 4.24824 2.90361 2.73739 3.18200 2.89827 2.37889 2.77474 2.98373 4.58611 3.61459\n- 0.76282 0.62801 * 2.35860 0.09933 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetB_I.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetB_I.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,749 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetB_I\n-LENG 242\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:48 2021\n-NSEQ 100\n-EFFN 8.718872\n-CKSUM 128746021\n-GA 20 20;\n-STATS LOCAL MSV -10.6976 0.70323\n-STATS LOCAL VITERBI -11.2775 0.70323\n-STATS LOCAL FORWARD -5.3333 0.70323\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.49418 4.85526 2.68451 2.42502 3.52171 3.03422 3.77028 3.00422 2.78446 2.29140 3.72260 3.18539 3.41530 2.99658 2.66656 2.70921 2.88319 2.75293 4.76474 3.60872\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18093 3.97753 1.91888 0.61958 0.77255 0.00000 *\n- 1 2.93633 4.49220 4.00357 3.59441 3.19046 3.80199 4.33955 2.36182 3.36459 1.79222 1.46306 3.87702 4.26291 3.74966 3.57484 3.28065 3.24108 2.36278 5.02516 3.78278 1 m - - -\n- 2.68627 4.42234 2.77529 2.73132 3.46363 2.40522 3.72504 3.29363 2.67727 2.69364 4.24699 2.90299 2.73749 3.18118 2.89810 2.37879 2.77504 2.98528 4.58486 3.61512\n- 0.32121 1.33113 4.55175 0.96512 0.47955 0.41193 1.08582\n- 2 3.08115 5.40183 5.50520 5.38266 5.61760 4.28209 6.04661 4.97289 5.26992 4.66024 0.23291 5.02741 3.78227 5.50446 5.34171 3.28499 4.09240 4.45448 7.08668 5.96392 6 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23297 5.72601 1.58687 0.61958 0.77255 0.48576 0.95510\n- 3 2.57563 5.20838 3.10836 3.08176 3.54654 3.70538 3.90070 3.13164 2.70951 1.91932 3.66224 2.99282 3.29365 3.40978 3.51289 1.92391 2.03430 3.52002 5.73711 4.43310 7 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18899 5.52047 1.78257 0.61958 0.77255 1.26645 0.33105\n- 4 2.72927 5.53038 2.31566 2.18153 4.86714 3.81647 3.40151 4.34730 2.40643 3.37618 3.04526 3.28716 3.71473 2.61096 2.67360 2.59508 2.25132 3.26614 3.25312 4.56216 8 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16922 5.35682 1.89075 0.61958 0.77255 1.57497 0.23195\n- 5 2.77864 5.47210 2.25674 1.74904 3.89097 2.97040 3.62130 3.87732 2.32172 3.48783 4.51279 2.67347 3.32899 2.48386 3.14997 2.41742 3.19272 3.86270 5.90481 4.49386 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03114 5.19587 3.68406 0.61958 0.77255 1.42689 0.27451\n- 6 2.63265 4.68797 2.80184 2.78213 2.58210 4.01677 3.27194 2.45225 3.35378 1.72440 3.40603 3.78940 3.42551 3.46244 3.68538 2.91438 2.75206 2.95695 3.40406 4.05087 10 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05612 5.24286 3.00997 0.61958 0.77255 1.44961 0.26744\n- 7 2.77093 5.48775 2.04346 2.13372 4.82922 3.76075 3.61959 4.31266 2.52287 3.39094 4.52936 2.96384 3.73'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01991 4.32249 5.04483 0.61958 0.77255 0.69889 0.68744\n- 235 2.50240 4.89394 2.75682 1.90426 4.15307 2.90866 3.67807 2.83632 2.47516 3.16682 3.97260 2.98125 3.85898 2.82120 2.94565 2.45193 2.88760 2.97131 5.39875 4.05206 400 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02029 4.30337 5.02572 0.61958 0.77255 0.82660 0.57543\n- 236 2.65229 5.42017 1.35085 2.05601 4.73672 3.38729 3.80686 4.22720 2.71008 3.73095 4.53170 2.55841 3.93036 2.94763 3.25806 2.83609 2.60375 3.80525 5.89500 4.43886 401 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02029 4.30337 5.02572 0.61958 0.77255 0.82660 0.57543\n- 237 3.07895 5.43096 0.95176 2.38576 4.97763 2.07494 4.05680 4.53599 3.13199 4.06052 4.93349 2.95180 4.02632 3.24839 3.71998 3.01454 3.42411 4.06768 6.14416 4.71941 402 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06777 4.25801 2.96865 0.61958 0.77255 0.82660 0.57543\n- 238 2.26372 5.38297 1.51789 1.94753 4.68352 3.33432 3.75348 4.17330 2.65775 3.67780 4.48325 2.79939 3.87965 2.60954 3.20329 2.79235 3.13358 3.75659 5.84343 4.38696 403 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02316 4.17284 4.89518 0.61958 0.77255 0.86821 0.54421\n- 239 2.43628 4.24719 3.59310 3.02557 3.05835 2.97836 3.87587 2.72752 2.96596 2.24931 2.61102 3.39298 3.43151 3.25499 3.28725 2.85073 2.37948 2.51221 4.85004 3.62817 404 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02316 4.17284 4.89518 0.61958 0.77255 0.86821 0.54421\n- 240 2.91179 5.45002 2.10815 1.25868 4.73852 3.30243 3.75369 4.24142 2.66926 3.73429 4.55668 2.76160 3.87372 2.44928 3.20845 2.81726 3.17992 3.82230 5.88928 4.42038 405 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02488 4.10200 4.82434 0.61958 0.77255 0.52580 0.89424\n- 241 2.53072 4.62055 2.77275 2.44584 4.11847 2.69932 3.67366 3.53005 2.07457 3.14234 3.98998 2.91349 2.73421 2.85699 2.78227 2.59332 2.83960 3.16782 5.35166 4.05811 406 k - - -\n- 2.67790 4.42454 2.77660 2.73188 3.46582 2.40705 3.72723 3.29583 2.67194 2.69583 4.24835 2.90532 2.73529 3.18211 2.89971 2.38068 2.77337 2.98519 4.58705 3.61732\n- 0.23485 1.62047 4.46505 4.16612 0.01563 0.38094 1.14955\n- 242 2.00458 4.31324 3.53609 2.99707 3.52979 3.57108 3.92900 2.09903 2.61681 2.48533 3.45969 3.38054 3.99180 3.24463 3.22303 2.85943 2.86706 2.20063 5.02366 3.79018 586 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01904 3.97074 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetB_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetB_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1268 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetB_II\n-LENG 415\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:48 2021\n-NSEQ 100\n-EFFN 5.349731\n-CKSUM 2904575991\n-GA 20 20;\n-STATS LOCAL MSV -11.3007 0.69903\n-STATS LOCAL VITERBI -12.2307 0.69903\n-STATS LOCAL FORWARD -5.8191 0.69903\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.40321 4.54987 2.84776 2.51215 3.41427 2.99917 3.71973 3.08447 2.77609 2.30206 3.69147 3.26337 3.30375 3.05917 2.63395 2.77015 2.87249 2.73777 4.41585 3.49959\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04449 5.04571 3.29463 0.61958 0.77255 0.00000 *\n- 1 4.39127 5.79618 5.58929 5.40533 4.39391 4.93293 5.89478 3.74084 5.14649 2.92384 0.21441 5.51982 5.49404 5.48003 5.18790 4.78335 4.77362 3.86064 6.24580 5.10682 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.37641 5.01117 1.18085 0.61958 0.77255 0.58128 0.81912\n- 2 2.29850 5.14293 3.04061 2.36624 4.44753 3.33077 3.73300 3.90342 2.48764 3.43288 4.19953 2.63340 3.59733 2.65447 2.71448 2.18663 2.08768 3.22491 5.60660 4.22437 2 t - - -\n- 2.68286 4.42444 2.77375 2.73145 3.46537 2.40305 3.72515 3.29453 2.67924 2.69466 4.24908 2.90467 2.73656 3.18191 2.89623 2.37997 2.77586 2.98467 4.58696 3.61722\n- 0.97293 0.53933 3.24710 2.49980 0.08567 0.70448 0.68194\n- 3 2.57007 5.19449 2.92479 2.34527 4.49350 3.29325 3.30799 3.54682 2.54330 3.47991 3.49366 3.08297 3.67800 2.62224 2.76163 2.01591 2.16599 3.36399 5.65578 3.81466 132 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14444 4.80933 2.06880 0.61958 0.77255 0.95221 0.48758\n- 4 2.52114 5.18721 2.75910 2.38393 4.49885 3.33045 3.33184 3.71414 2.28902 3.05956 4.23680 2.92433 2.55725 2.75122 2.59166 2.57126 2.72772 3.02009 5.64042 3.70259 133 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04462 4.69437 3.36696 0.61958 0.77255 0.92116 0.50759\n- 5 2.64603 4.47293 3.72444 2.98920 3.33636 3.78209 3.75131 2.59044 2.91545 1.78226 3.37204 3.54418 2.97187 3.39828 2.62049 2.77400 2.76856 2.40638 5.05942 3.83161 134 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01290 4.75305 5.47539 0.61958 0.77255 0.98523 0.46737\n- 6 1.35884 4.73577 3.46753 2.92007 3.41465 2.49252 4.00862 3.25434 2.90197 3.08926 3.94277 3.11352 3.31125 3.23060 3.31945 2.68331 2.69435 3.13102 5.39846 4.12263 135 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03506 4.78506 3.64596 0.61958 0.77255 1.00047 0.45840\n- 7 2.30950 5.29899 2.59349 2.31709 4.64238 3.56450 3.27111 4.12725 2.37955 3.60346 4.34024 2.40075 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01753 4.44862 5.17097 0.61958 0.77255 1.08463 0.41253\n- 408 2.56554 4.78475 3.15779 2.47496 3.99639 3.19645 3.75464 3.26221 2.35367 2.90406 3.31845 3.10390 2.40483 2.93009 2.86764 2.50489 2.82372 2.64145 5.30740 3.99607 821 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04870 4.47197 3.32122 0.61958 0.77255 1.12510 0.39248\n- 409 2.10711 4.53609 3.35411 2.79179 2.84340 3.12916 3.83123 3.07564 2.76237 2.62362 3.63494 3.24796 3.97828 2.71577 2.90439 2.61260 2.44096 2.61711 5.10099 3.83875 822 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42680 5.14915 0.61958 0.77255 0.68243 0.70398\n- 410 2.19263 5.05782 2.78194 2.16449 4.35630 2.41204 3.68075 3.80648 2.44276 3.17068 4.12075 2.97363 3.87517 2.79862 2.70322 2.43132 2.74484 3.25231 5.53079 4.15433 823 e - - -\n- 2.68504 4.42337 2.77505 2.73104 3.46430 2.40491 3.72588 3.29414 2.67819 2.69341 4.24762 2.90436 2.73751 3.18223 2.89818 2.37839 2.77475 2.98427 4.58335 3.61560\n- 1.03497 0.49732 3.30763 1.98411 0.14792 0.65584 0.73190\n- 411 2.09176 4.47907 2.72485 2.39448 3.76883 2.60420 3.73752 2.98437 2.54301 3.13615 3.95220 3.06770 3.70532 2.89164 2.71777 2.66455 2.73011 3.07238 5.38624 4.05520 848 a - - -\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40510 3.72480 3.29357 2.67744 2.69351 4.24693 2.90350 2.73736 3.18149 2.89804 2.37890 2.77501 2.98521 4.58480 3.61506\n- 0.21426 3.06202 1.92369 0.88849 0.52980 0.78442 0.60951\n- 412 2.69121 5.19231 2.50505 2.16899 4.53067 2.74357 3.64365 4.01352 2.22602 3.49343 4.23710 2.55987 3.29312 2.56284 2.33805 2.65188 2.92398 3.57981 5.62606 4.21596 854 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01891 4.37333 5.09567 0.61958 0.77255 0.97472 0.47369\n- 413 2.82543 4.97332 3.25993 2.67406 4.29217 3.59015 3.72355 3.68230 2.28031 3.24913 4.08595 3.14660 3.98462 2.33283 1.52943 2.66523 3.04625 2.72341 5.43667 4.16174 855 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06032 4.30635 3.09980 0.61958 0.77255 0.74244 0.64617\n- 414 2.47631 4.97161 2.40736 2.30303 4.26270 3.40530 3.63781 3.70548 2.42129 2.89100 4.04896 2.77549 2.72427 2.76563 2.90336 2.41384 2.69746 3.33685 5.46141 4.09059 856 e - - -\n- 2.68574 4.42298 2.77460 2.73028 3.46332 2.40454 3.72513 3.29427 2.67792 2.69381 4.24763 2.90406 2.73741 3.18166 2.89853 2.37883 2.77534 2.98522 4.58550 3.61497\n- 0.78916 0.71158 2.90215 1.99376 0.14639 0.59926 0.79677\n- 415 2.53171 4.86173 3.01291 2.45638 4.11063 2.50879 3.32512 3.20116 2.44270 2.97247 3.93137 2.79470 3.60038 2.48181 2.67884 2.56757 2.86333 3.02650 5.35806 4.01719 869 k - - -\n- 2.68595 4.42239 2.77514 2.73117 3.46368 2.40508 3.72508 3.29347 2.67720 2.69361 4.24704 2.90361 2.73731 3.18146 2.89798 2.37901 2.77533 2.98517 4.58491 3.61517\n- 0.58569 0.81355 * 0.53189 0.88550 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetB_III.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetB_III.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,755 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetB_III\n-LENG 244\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:49 2021\n-NSEQ 100\n-EFFN 5.422974\n-CKSUM 1990602767\n-GA 20 20;\n-STATS LOCAL MSV -10.5809 0.70315\n-STATS LOCAL VITERBI -11.4400 0.70315\n-STATS LOCAL FORWARD -5.2771 0.70315\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.66832 4.71770 2.95052 2.40854 3.23951 3.17123 3.83738 2.78434 2.55357 2.37884 3.59464 2.96360 3.78887 3.00219 2.89928 2.68562 2.87405 2.75986 4.79639 3.17377\n- 2.68670 4.42306 2.77553 2.73064 3.46367 2.40579 3.72454 3.29304 2.67735 2.69353 4.23747 2.90327 2.73797 3.18073 2.89840 2.37908 2.77509 2.98588 4.58558 3.61509\n- 0.78842 1.58238 1.07895 1.77805 0.18509 0.00000 *\n- 1 2.88695 5.11984 2.81402 2.48048 4.36704 3.70869 3.91187 3.43185 2.61284 3.20128 1.45005 2.78846 4.10018 2.76205 3.17070 2.60603 3.11836 3.27991 5.61580 4.27312 34 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01002 5.00443 5.72678 0.61958 0.77255 0.84785 0.55920\n- 2 1.96700 5.33746 3.10946 2.29184 4.30636 3.14926 3.92638 3.71719 2.48371 3.18507 2.56777 2.48579 3.84119 2.72538 3.16545 2.40954 2.91024 3.32894 5.79797 4.41581 35 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00868 5.14637 5.86872 0.61958 0.77255 0.39874 1.11220\n- 3 3.09287 4.51164 4.80308 3.63940 2.96646 3.46076 4.55112 2.44284 3.57114 2.38933 1.93362 3.07543 4.59828 4.21880 4.13799 3.53133 2.83402 2.66560 3.86290 1.61515 36 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00708 5.34962 6.07197 0.61958 0.77255 0.73037 0.65726\n- 4 3.03844 5.55045 2.39667 1.54577 4.17743 3.58824 3.99859 4.38218 2.42576 3.85584 4.59115 2.43326 3.95133 2.92263 3.00223 2.29798 2.23207 3.94125 5.98285 4.57134 37 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02636 5.34962 3.85059 0.61958 0.77255 0.63592 0.75385\n- 5 2.36981 5.48116 2.94286 2.08737 3.64016 3.59827 3.25293 3.28720 2.65263 2.84730 2.82462 2.26576 4.21251 2.75852 2.76817 2.56109 3.07475 3.85757 5.92993 4.11956 38 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00711 5.34589 6.06824 0.61958 0.77255 0.74197 0.64660\n- 6 2.72731 5.55067 2.48279 1.32088 4.89654 3.63152 3.75353 4.38323 2.36371 3.85620 4.59129 2.78453 4.20339 2.71852 2.33320 2.80661 3.26886 3.94177 5.98265 3.68782 39 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00711 5.34589 6.06824 0.61958 0.77255 0.74197 0.64660\n- 7 2.59453 5.53629 2.56733 1.88871 4.87794 3.80877 3.50154 3.52499 2.54209 3.32086 4.17149 2.04721 4'..b'.68643 4.42250 2.77528 2.73084 3.46379 2.40511 3.72520 3.29379 2.67766 2.69350 4.24715 2.90346 2.73765 3.18116 2.89817 2.37878 2.77516 2.98544 4.58502 3.61289\n- 0.68444 0.75068 3.74721 0.04836 3.05324 0.28076 1.40736\n- 237 2.73501 5.56579 3.18998 2.64427 4.90786 1.53388 4.02442 4.39147 2.47246 3.27353 4.60741 2.64670 4.23059 2.19050 2.56898 2.55520 2.99329 3.95485 6.00008 4.59127 359 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05785 5.39817 2.96261 0.61958 0.77255 0.56101 0.84544\n- 238 2.71276 5.37562 2.94729 1.86011 3.58134 2.37089 3.78488 3.54224 2.57022 2.50983 4.08662 3.24351 4.23528 2.84167 2.87229 2.99570 2.96635 2.48530 5.84989 4.05623 360 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02082 5.34741 4.14509 0.61958 0.77255 0.73726 0.65090\n- 239 2.89118 5.51512 2.59249 1.58876 4.85027 2.20742 3.85465 3.59674 2.67063 3.35523 4.55840 3.11914 4.19897 3.09343 2.79564 2.48623 2.40388 3.70198 5.11785 4.54888 361 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07450 5.33379 2.70352 0.61958 0.77255 0.77839 0.61460\n- 240 2.65041 5.49980 2.62627 1.61269 4.13189 3.35877 3.30029 3.38516 2.07969 2.88491 4.54110 2.96447 3.85459 2.83046 2.70101 2.89113 3.01172 3.75405 5.93395 4.52448 362 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08511 5.26698 2.57139 0.61958 0.77255 0.95225 0.48755\n- 241 2.22814 5.46600 2.53025 1.65348 4.80954 3.73315 3.92045 4.29445 2.32658 3.28369 4.50708 2.62636 3.83705 2.79392 3.06121 2.47530 2.68066 3.55631 5.89960 3.93865 363 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11142 5.19018 2.30394 0.61958 0.77255 1.10989 0.39987\n- 242 2.39673 5.42055 2.42953 1.71388 4.76393 2.62331 3.87517 3.24520 2.34617 3.72510 4.46170 2.78709 3.83307 2.71423 2.73785 2.78062 3.14492 3.49897 5.85421 4.44418 364 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23136 5.08797 1.60754 0.61958 0.77255 1.27330 0.32837\n- 243 2.67521 5.31243 2.58098 2.00485 4.64863 3.02814 3.24088 3.48490 2.37885 3.32598 4.35542 2.75423 3.73991 2.54053 2.72967 2.78942 2.60639 3.08745 5.75045 3.47170 365 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01149 4.86810 5.59044 0.61958 0.77255 0.82440 0.57714\n- 244 2.43833 5.42472 2.20398 1.99703 4.76985 3.08259 3.36256 4.25586 2.34375 3.73002 4.07589 2.70252 3.44745 2.47282 2.80523 2.87619 2.77139 3.10347 5.85737 4.44637 366 e - - -\n- 2.68419 4.42378 2.77403 2.72882 3.46452 2.40543 3.72450 3.29422 2.67849 2.69363 4.24738 2.90244 2.73841 3.18140 2.89856 2.37943 2.77544 2.98625 4.58630 3.61546\n- 1.34316 0.30248 * 1.50707 0.25046 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetC_I.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetC_I.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3362 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetC_I\n-LENG 1113\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:49 2021\n-NSEQ 100\n-EFFN 5.825806\n-CKSUM 2055859812\n-GA 20 20;\n-STATS LOCAL MSV -13.0058 0.69534\n-STATS LOCAL VITERBI -13.9591 0.69534\n-STATS LOCAL FORWARD -7.0133 0.69534\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.39421 4.68151 2.83192 2.44179 3.41750 2.98560 3.70542 3.06852 2.66340 2.43286 3.84176 3.09773 3.59633 2.85773 2.64400 2.67084 2.86604 2.86484 4.67539 3.62057\n- 2.68629 4.42246 2.77535 2.73136 3.46375 2.40515 3.72515 3.29348 2.67757 2.69371 4.24434 2.90287 2.73755 3.18129 2.89803 2.37882 2.77514 2.98539 4.58429 3.61524\n- 0.23903 2.71798 1.92004 1.47044 0.26114 0.00000 *\n- 1 4.47438 5.72933 6.32658 5.81869 3.87263 5.74348 6.16499 3.02528 5.54153 1.95810 0.39036 5.99046 5.86164 5.52853 5.52112 5.20329 4.71982 3.03364 6.13945 5.10819 20 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01737 5.30148 4.40337 0.61958 0.77255 0.83293 0.57053\n- 2 2.75747 4.00929 3.70047 2.87107 3.27418 3.96044 4.19175 2.91469 1.79402 3.15600 2.91224 3.29441 4.34436 3.43818 2.93440 2.36897 2.03526 3.22132 4.55349 3.28188 21 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08380 5.31662 2.58397 0.61958 0.77255 0.59261 0.80494\n- 3 2.57861 5.44475 3.02496 2.03585 4.19538 3.60925 3.59930 3.45084 2.26809 3.06873 2.98467 3.04709 3.66624 2.69184 2.91722 2.44928 2.64709 3.17809 3.37776 4.50834 22 e - - -\n- 2.68422 4.42487 2.77224 2.73144 3.46035 2.40614 3.72703 3.29336 2.67971 2.69123 4.24543 2.90495 2.73730 3.18190 2.90055 2.37875 2.77368 2.98599 4.58777 3.61717\n- 1.67157 0.65635 1.22652 2.30046 0.10560 0.72610 0.66124\n- 4 2.60628 5.35032 2.87174 2.29898 4.67645 3.36974 3.13006 3.24944 2.44670 3.64750 2.94909 2.79128 3.34909 2.72882 2.17159 2.85719 2.62849 3.49170 5.79451 3.37036 59 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07051 5.02318 2.78881 0.61958 0.77255 1.42614 0.27475\n- 5 2.30573 5.08459 3.25447 2.59248 4.32804 2.97642 3.89515 3.47456 2.55006 2.39614 4.15382 2.89286 2.63257 3.04112 2.50149 2.63805 2.58072 2.84785 5.58359 4.24410 60 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01044 4.96311 5.68546 0.61958 0.77255 1.43307 0.27256\n- 6 2.17182 5.37182 2.43729 2.10797 4.71368 2.65398 3.83028 4.19756 2.56704 3.67583 4.41363 2.99232 3.03533 2.30368 2.91748 2.46821 2.91367 3.33260 5.80654 4.39718 61 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01030 4.97623 5.69858 0.61958 0.77255 1.47653 0.25933\n- 7 2.99169 5.39538 3.23397 2.70011 4.74679 1.93956 3.23029 4.19895 2.58137 3.69594 4.46657 3.22881 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08770 5.26968 2.54062 0.61958 0.77255 1.07732 0.41628\n- 1106 2.50284 5.34720 2.67426 2.36894 4.64354 2.94111 3.94939 2.74070 2.29368 2.53730 4.40100 2.98884 4.14857 2.81162 2.21529 2.94996 3.06866 3.10988 4.19184 3.99130 1783 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03548 5.19029 3.53046 0.61958 0.77255 1.22226 0.34894\n- 1107 2.35416 5.43616 2.98590 2.03082 4.77233 3.15003 3.68316 3.73125 2.55539 3.14525 3.13802 2.94622 3.02708 2.64647 2.31779 2.47739 2.88722 3.50354 5.87421 4.46868 1784 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00854 5.16334 5.88569 0.61958 0.77255 0.74696 0.64209\n- 1108 2.61278 5.50395 2.80995 1.78139 4.84525 3.23367 3.96486 4.32856 2.31736 2.69163 3.31024 3.16490 4.17082 2.67528 2.12925 2.50130 3.09755 3.66057 5.93888 4.53023 1785 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04501 5.28175 3.24600 0.61958 0.77255 1.05219 0.42951\n- 1109 2.32022 5.38574 2.75337 2.36105 4.20004 3.07639 3.06551 3.66973 2.63507 1.98419 3.40193 3.04473 3.52509 2.96318 2.75005 2.62223 2.96806 3.43322 5.84569 4.46294 1786 l - - -\n- 2.68592 4.42252 2.77499 2.73140 3.46381 2.40486 3.72521 3.29366 2.67768 2.69382 4.24620 2.90355 2.73748 3.18134 2.89805 2.37889 2.77526 2.98522 4.58181 3.61530\n- 0.28375 1.50709 3.66947 0.83956 0.56546 1.05154 0.42986\n- 1110 2.02855 5.48716 2.25985 2.18467 4.83092 3.45857 3.62918 4.09810 2.62066 3.62041 3.90709 2.80791 3.34700 2.43841 2.64935 2.50450 2.89865 3.18877 5.92064 4.51047 1797 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13904 5.23496 2.08364 0.61958 0.77255 1.14473 0.38318\n- 1111 1.80254 5.40295 3.18096 2.19118 4.73616 2.87494 3.88811 4.21370 2.57907 3.70327 4.44705 2.63183 3.22554 2.76549 2.57747 2.45824 2.75488 2.99326 5.84309 4.43956 1798 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16614 5.10498 1.91728 0.61958 0.77255 1.34761 0.30092\n- 1112 2.36158 5.21810 2.27956 2.31339 4.50576 2.82752 2.74187 2.74090 2.61319 3.32533 4.27442 3.15043 3.85383 2.82893 3.09407 2.60905 2.95042 2.72445 5.68682 4.31338 1799 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01988 4.94943 4.37472 0.61958 0.77255 0.57943 0.82148\n- 1113 2.28206 5.48180 2.22693 2.43420 4.82623 3.17250 3.49829 3.92143 2.32429 2.97395 4.52263 2.29969 3.78880 2.62985 2.48572 2.72967 3.02265 3.42633 5.91487 4.50430 1800 d - - -\n- 2.67286 4.42980 2.77590 2.72926 3.46656 2.40552 3.72812 3.29609 2.67958 2.69600 4.24508 2.90868 2.73678 3.17997 2.89552 2.38000 2.77470 2.98497 4.59156 3.62021\n- 1.36521 0.29481 * 2.99249 0.05146 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetC_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetC_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4046 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetC_II\n-LENG 1341\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:50 2021\n-NSEQ 100\n-EFFN 4.403687\n-CKSUM 2204834332\n-GA 20 20;\n-STATS LOCAL MSV -13.0955 0.69497\n-STATS LOCAL VITERBI -14.1985 0.69497\n-STATS LOCAL FORWARD -7.0094 0.69497\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.32391 4.79334 2.84926 2.40623 3.54798 2.99350 3.73486 3.12089 2.65913 2.39667 3.82112 3.15033 3.53633 2.90423 2.64317 2.70078 2.85769 2.88147 4.50969 3.63173\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.14184 5.21663 2.06502 0.61958 0.77255 0.00000 *\n- 1 4.51538 5.90974 5.70293 5.53746 4.51784 5.02011 6.01608 3.88154 5.28690 3.05136 0.18608 5.64465 5.58975 5.61637 5.31666 4.90502 4.90434 4.00659 6.35495 5.22744 1 M - - -\n- 2.68290 4.42601 2.77431 2.73013 3.46598 2.40674 3.72557 3.29552 2.68093 2.69190 4.24831 2.90649 2.73343 3.18108 2.89667 2.38046 2.77053 2.98615 4.58573 3.61913\n- 1.26235 0.42657 2.74472 2.60605 0.07669 0.34448 1.23303\n- 2 2.34612 5.19866 3.21526 2.71481 3.88720 2.74810 3.54399 3.87141 2.50946 2.46848 2.34469 3.11278 3.56316 3.03995 2.59000 2.55447 2.71166 3.21732 5.69340 4.34905 74 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17109 5.17505 1.88650 0.61958 0.77255 0.68563 0.70073\n- 3 2.21164 5.37881 2.92762 2.18217 4.71825 3.12067 3.84503 3.84919 2.46062 3.68169 4.42097 2.51074 2.75138 2.84008 2.40980 2.36019 2.95521 3.07311 5.81488 4.40733 75 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00992 5.01388 5.73622 0.61958 0.77255 0.40846 1.09266\n- 4 2.32540 5.46518 2.68529 1.98876 4.80972 2.74357 3.24780 4.29532 2.65173 3.56162 4.50598 2.29714 3.84688 2.78442 2.62126 2.27545 3.07577 3.50285 5.89817 3.91797 76 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00837 5.18359 5.90594 0.61958 0.77255 0.46533 0.98866\n- 5 3.63249 5.87941 3.94865 3.32447 5.37709 3.32420 4.24872 4.73357 2.24600 4.14087 4.97310 3.51465 3.79285 3.21567 0.59668 3.31717 3.81059 4.37080 6.17210 4.96795 77 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22224 5.94459 0.61958 0.77255 0.54299 0.86991\n- 6 5.37557 6.21276 6.12941 6.13689 1.76851 5.77075 4.31959 4.90320 5.89394 3.54379 5.40025 5.26295 6.00751 5.45876 5.63174 5.18555 5.55567 4.87165 0.53604 1.96075 78 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00805 5.22224 5.94459 0.61958 0.77255 0.54299 0.86991\n- 7 2.99374 5.31532 3.32790 2.72301 4.59361 3.79746 3.14293 3.06249 2.20177 3.41024 3.49008 3.29919 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00828 5.19397 5.91632 0.61958 0.77255 0.51751 0.90634\n- 1334 2.43724 5.45892 3.21484 2.50951 4.79873 3.15295 2.85991 3.61543 1.89048 3.61049 4.50099 2.74509 4.13009 2.68794 2.19380 2.48135 2.77956 3.84674 5.89470 3.41269 2475 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00828 5.19397 5.91632 0.61958 0.77255 0.51751 0.90634\n- 1335 2.76283 5.45987 2.61237 2.11743 4.80013 2.96023 3.70492 3.17631 2.32888 3.56423 4.22316 2.79452 4.12958 2.23300 2.69073 2.77841 2.67914 2.58833 5.89544 4.48741 2476 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04411 5.19397 3.28062 0.61958 0.77255 0.51751 0.90634\n- 1336 2.60215 5.21315 3.44086 2.86785 4.46622 3.50582 4.01969 3.28394 1.65063 2.36453 4.28626 3.37644 4.23029 3.16872 1.63267 3.05873 2.85909 3.55295 5.69906 4.38092 2477 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01767 5.15844 4.44289 0.61958 0.77255 0.44954 1.01589\n- 1337 2.89498 5.23147 3.18713 2.41095 4.48931 3.77968 2.57881 3.33769 2.76206 2.55729 3.58569 3.29382 3.59472 2.73440 2.22797 2.52499 2.46625 2.57262 5.72020 4.36904 2478 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00835 5.18528 5.90763 0.61958 0.77255 0.54582 0.86600\n- 1338 2.51828 5.01851 2.70494 2.42035 3.68116 3.83868 3.51664 3.10522 2.90329 1.74024 3.19917 3.41489 3.92630 2.92984 2.45250 2.79410 3.20121 3.16242 4.65956 3.96765 2479 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05947 5.18528 2.95385 0.61958 0.77255 0.54582 0.86600\n- 1339 2.24647 4.63984 3.46570 2.48429 3.77029 3.95740 4.21738 2.40117 3.12144 2.09145 3.14777 3.52349 3.65088 3.57886 3.48306 3.20740 2.84065 1.74145 5.22717 4.00039 2480 v - - -\n- 2.68612 4.42226 2.77520 2.73124 3.46355 2.40514 3.72495 3.29355 2.67742 2.69356 4.24691 2.90348 2.73732 3.18147 2.89802 2.37888 2.77520 2.98519 4.58478 3.61504\n- 0.07175 3.57144 3.19132 0.41337 1.08300 0.45150 1.01244\n- 1340 2.61713 5.41984 2.39455 1.83445 4.75198 2.68266 3.11496 3.80790 2.64742 2.91842 4.46395 3.19150 3.18942 3.00811 3.02519 2.56075 2.39615 3.55135 5.86037 4.45733 2482 e - - -\n- 2.68595 4.42343 2.77344 2.72929 3.46402 2.40460 3.72559 3.29331 2.67788 2.69417 4.24808 2.90416 2.73661 3.18220 2.89814 2.37950 2.77577 2.98580 4.58557 3.61546\n- 1.19882 0.48749 2.47359 1.37510 0.29144 0.43357 1.04467\n- 1341 2.46836 5.18520 2.81901 2.45584 4.44215 2.76604 3.43975 3.23205 2.64574 2.58714 3.35639 3.14768 3.63177 2.82199 2.67295 2.53086 2.98539 2.49349 4.92569 3.96342 2497 e - - -\n- 2.68060 4.42638 2.77418 2.72910 3.46413 2.40539 3.72744 3.29586 2.68079 2.69215 4.24842 2.90629 2.73361 3.18311 2.89680 2.38037 2.77498 2.98590 4.58725 3.61823\n- 0.86708 0.54503 * 2.72179 0.06802 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetC_III.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetC_III.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,4286 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetC_III\n-LENG 1421\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:51 2021\n-NSEQ 100\n-EFFN 10.726929\n-CKSUM 3803738285\n-GA 20 20;\n-STATS LOCAL MSV -13.4455 0.69486\n-STATS LOCAL VITERBI -14.6132 0.69486\n-STATS LOCAL FORWARD -7.4359 0.69486\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53659 4.76190 2.91263 2.27346 3.50412 3.10055 3.79141 2.92716 2.47092 2.40609 3.84476 3.00511 3.63948 2.83110 2.76426 2.70992 2.93162 2.95165 4.77427 3.52576\n- 2.68619 4.42245 2.77540 2.73144 3.46374 2.40533 3.72515 3.29374 2.67761 2.69375 4.23825 2.90367 2.73720 3.18167 2.89821 2.37893 2.77540 2.98487 4.58497 3.61523\n- 0.15296 2.10154 3.93402 0.49367 0.94259 0.00000 *\n- 1 4.79389 6.08303 6.84817 6.40197 4.65919 6.08221 6.87408 2.15362 6.19753 2.92102 0.30616 6.46681 6.35581 6.22875 6.19695 5.55658 4.06962 3.38943 6.91940 5.90782 8 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00379 5.97435 6.69670 0.61958 0.77255 0.61044 0.78332\n- 2 3.00483 5.60849 3.47354 3.29807 4.84389 4.26787 4.48606 4.26127 3.29677 3.87315 4.69197 3.81310 1.03764 2.81966 3.75640 1.97806 3.36969 3.94415 3.26733 2.58992 9 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10075 5.97435 2.37197 0.61958 0.77255 0.61044 0.78332\n- 3 2.57934 4.64105 3.58650 2.31610 5.18045 4.10982 3.31469 4.66428 1.52089 2.94311 4.87984 2.99573 4.50321 2.45320 2.28012 2.62187 2.93481 3.06786 6.27287 4.01879 10 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00417 5.87777 6.60012 0.61958 0.77255 1.08491 0.41239\n- 4 4.67179 5.88859 4.10312 6.11694 4.40985 6.10060 6.48850 0.55856 5.99053 1.33266 2.96711 6.26820 6.20321 5.94056 5.96989 5.49342 4.89259 3.28248 6.57649 5.56790 11 I - - -\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24583 2.90348 2.73741 3.18148 2.89802 2.37888 2.77521 2.98520 4.58478 3.61504\n- 0.03840 3.99342 3.95104 0.35695 1.20333 0.29519 1.36411\n- 5 3.00238 5.89295 3.34455 2.64251 5.23442 4.16598 3.30522 4.71785 2.62246 3.17481 3.85194 1.50562 4.55936 3.01109 2.92962 1.75051 3.05817 4.28165 3.19609 3.55523 13 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00382 5.96507 6.68742 0.61958 0.77255 0.66960 0.71726\n- 6 2.33809 6.00595 3.78533 2.99739 5.37415 3.30109 4.44352 4.84226 1.55790 4.30588 5.05562 3.39211 4.67707 3.54357 1.02926 2.82134 3.57747 4.41229 6.41729 5.03826 14 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00382 5.96507 6.68742 0.61958 0.77255 0.66960 0.71726\n- 7 3.17775 4.98537 5.61330 5.00407 2.72645 4.82114 5.16720 0.99778 4.79298 2.21588 3.08869 4.98834'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02858 5.44406 3.73592 0.61958 0.77255 1.22302 0.34862\n- 1414 3.12582 5.63930 2.74425 1.52308 4.98559 3.07275 3.66946 4.47241 1.99389 3.94509 3.90684 2.95690 3.27764 2.58591 2.26424 2.80089 3.35697 4.03060 6.07123 3.91458 2545 e - - -\n- 2.68596 4.42280 2.77513 2.73140 3.46409 2.40490 3.72361 3.29409 2.67773 2.69390 4.24745 2.90326 2.73734 3.18106 2.89722 2.37927 2.77526 2.98494 4.58532 3.61508\n- 0.40293 1.65959 1.95597 1.39281 0.28552 0.36649 1.18145\n- 1415 2.70497 5.74583 2.97042 1.75676 5.09182 3.00769 3.30614 4.02321 2.22702 4.05151 4.78626 3.20096 4.39997 2.09437 2.80868 2.48379 2.70001 2.73797 6.17797 4.76646 2558 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10168 5.71171 2.37109 0.61958 0.77255 0.99149 0.46366\n- 1416 2.96452 5.71328 3.18092 1.30034 5.05850 3.29624 4.16305 4.54457 2.35054 3.71302 3.60382 2.74832 4.36949 2.59817 2.59474 2.78043 2.56491 3.24442 6.14587 4.73483 2559 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00519 5.65891 6.38126 0.61958 0.77255 1.43292 0.27261\n- 1417 2.63734 5.71483 3.45103 1.66259 5.06053 3.56761 3.62907 4.54682 2.45018 4.02029 4.75536 3.14199 3.12810 1.57244 2.90342 2.30946 3.43412 4.10581 4.33812 4.73589 2560 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00519 5.65891 6.38126 0.61958 0.77255 0.34110 1.24128\n- 1418 3.10561 5.27439 3.59077 3.17167 4.44637 4.25960 3.85618 2.43724 2.92007 1.40292 2.56041 3.42328 3.21158 2.56799 3.47236 2.96903 3.24776 2.46788 5.82703 4.55331 2561 l - - -\n- 2.68688 4.42295 2.77477 2.73064 3.46279 2.40537 3.72401 3.29241 2.67759 2.69414 4.24547 2.90392 2.73761 3.17979 2.89809 2.37891 2.77557 2.98562 4.58477 3.61573\n- 0.59441 1.34753 1.67009 1.02088 0.44672 0.79355 0.60191\n- 1419 2.08380 5.70062 3.02690 2.17551 5.04562 2.68412 3.66620 4.53154 2.54706 4.00588 4.05270 2.75359 2.52797 3.24738 3.08417 2.01503 2.46750 3.57941 6.13335 4.72244 2579 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.23572 5.63778 1.57777 0.61958 0.77255 0.78885 0.60581\n- 1420 2.95178 4.59840 5.07533 4.46666 3.69237 4.36738 4.69619 2.30058 4.27252 1.26768 2.43816 3.69959 4.73198 4.42224 3.67524 3.31580 2.04405 2.03573 5.21964 4.04135 2580 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00589 5.53267 6.25501 0.61958 0.77255 0.39767 1.11438\n- 1421 2.88700 5.04587 3.13252 3.34452 0.91584 3.79871 4.57008 2.60667 3.27832 2.89013 4.14945 3.62096 4.69462 3.21244 3.95908 3.28043 3.20303 3.08816 4.44134 4.39584 2581 f - - -\n- 2.68528 4.42396 2.77318 2.72914 3.46069 2.40578 3.72300 3.29316 2.67869 2.69350 4.24508 2.90470 2.73891 3.18188 2.89898 2.37918 2.77599 2.98635 4.58500 3.61347\n- 0.83396 0.56973 * 1.20395 0.35668 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetD_I.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetD_I.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1202 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetD_I\n-LENG 393\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:51 2021\n-NSEQ 100\n-EFFN 6.295776\n-CKSUM 298056822\n-GA 20 20;\n-STATS LOCAL MSV -11.4976 0.69936\n-STATS LOCAL VITERBI -12.3953 0.69936\n-STATS LOCAL FORWARD -5.5537 0.69936\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.50316 4.54276 2.91870 2.52326 3.41840 2.95433 3.67059 2.94363 2.70744 2.34294 3.71815 3.16902 3.25377 2.99550 2.73402 2.74305 2.87163 2.76383 4.18652 3.56094\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10519 4.57362 2.41323 0.61958 0.77255 0.00000 *\n- 1 3.59587 5.06505 4.79817 4.48340 3.66178 4.35388 5.07710 2.91065 4.21366 2.19616 0.55271 4.67242 4.85240 4.56984 4.33712 3.98786 3.93219 2.98236 5.55362 4.35863 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08873 4.48532 2.60864 0.61958 0.77255 0.63037 0.76013\n- 2 2.52400 5.09699 2.53280 2.18560 4.40691 3.00303 3.65510 3.86854 2.40731 3.11732 3.88268 2.62228 3.85511 2.76489 2.80209 2.41779 2.29036 3.46894 5.55277 4.16400 2 e - - -\n- 2.68628 4.42162 2.77484 2.73147 3.46378 2.40531 3.72518 3.29378 2.67744 2.69351 4.24714 2.90277 2.73758 3.18170 2.89817 2.37858 2.77499 2.98522 4.58501 3.61527\n- 0.60463 1.10037 2.11217 1.10716 0.40122 0.72514 0.66214\n- 3 2.52131 5.05681 2.60376 2.43115 4.34975 3.26347 3.67455 3.79986 2.29275 3.34036 2.88555 2.62232 3.87142 2.62270 2.91781 2.35958 2.37393 3.41960 5.52420 4.14759 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12350 4.44249 2.25937 0.61958 0.77255 0.81458 0.58487\n- 4 2.25349 4.48738 3.54019 2.97469 3.63700 3.68163 3.93564 2.99991 2.60617 2.70715 2.24773 3.39615 3.69223 3.24247 3.10682 2.73919 2.36824 2.22511 5.06847 3.82663 17 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01533 4.58119 5.30354 0.61958 0.77255 0.94520 0.49200\n- 5 2.45615 5.15963 2.80501 2.31674 4.47515 2.88137 3.69865 3.94071 2.15335 3.12424 3.83677 2.82819 3.69957 2.80545 2.76435 2.12564 2.56415 3.37993 5.61053 4.21825 18 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01533 4.58119 5.30354 0.61958 0.77255 0.49256 0.94432\n- 6 3.52504 4.88757 5.38672 3.93442 3.73060 4.70912 5.01863 2.86020 4.58303 1.86502 0.88623 4.83638 5.02149 4.69468 4.61338 4.02605 3.75160 2.81040 2.15327 4.30598 19 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00646 5.44168 6.16402 0.61958 0.77255 0.69359 0.69271\n- 7 2.43414 5.54499 3.35330 2.59435 4.86959 3.39476 4.05539 3.34948 1.72861 3.38140 3.93607 2.46393 4.2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01137 4.87845 5.60080 0.61958 0.77255 1.06979 0.42020\n- 386 2.39849 4.61503 3.08056 2.52421 3.91000 3.05799 2.92568 3.95942 2.29446 3.22971 4.24822 2.71037 3.58543 2.67212 2.59657 2.06984 2.77075 3.36376 5.65441 4.26941 822 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04863 4.77480 3.24361 0.61958 0.77255 0.56959 0.83415\n- 387 2.55130 4.97729 2.61766 2.31592 3.83771 2.85611 3.65468 3.43860 2.42465 3.25242 4.03701 2.68770 3.50451 2.64181 2.73017 2.49473 2.70529 3.19544 3.91119 4.08939 823 e - - -\n- 2.68600 4.42104 2.77420 2.73135 3.46425 2.40500 3.72480 3.29238 2.67800 2.69364 4.24761 2.90351 2.73747 3.18075 2.89819 2.37869 2.77590 2.98551 4.58548 3.61574\n- 0.68959 0.97877 2.10008 2.06649 0.13540 0.75250 0.63712\n- 388 2.40839 4.98655 2.99320 2.43707 3.93649 3.29832 3.64563 3.71282 2.25840 3.26426 4.05202 2.96421 2.79213 2.41134 2.15867 2.66833 2.89691 3.34970 5.45467 4.10053 841 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02069 4.28428 5.00663 0.61958 0.77255 0.77584 0.61677\n- 389 2.61713 4.70153 3.07777 2.41119 3.91907 3.46599 3.68970 2.86504 2.52098 2.95362 3.79049 2.58250 2.72733 2.77173 2.96409 2.68617 2.49017 2.76917 5.23372 3.92546 842 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02249 4.20156 4.92390 0.61958 0.77255 0.76088 0.62972\n- 390 2.48943 3.58202 3.45432 2.89219 3.18153 3.24012 3.84764 2.75266 2.85137 2.61015 3.49665 2.88778 2.37195 3.15890 3.21729 2.63841 2.84597 2.49086 4.97202 3.73187 843 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02136 4.25288 4.97523 0.61958 0.77255 0.72874 0.65878\n- 391 2.48867 4.73238 3.05139 2.51642 3.96855 3.45273 3.67694 3.36917 2.35355 2.39970 3.82843 2.85924 3.85409 2.52221 2.90600 2.20501 2.69404 3.06674 5.26119 3.95106 844 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09721 4.16144 2.56334 0.61958 0.77255 0.77546 0.61710\n- 392 2.65684 5.02169 2.26496 2.20691 4.36869 2.63835 3.65627 3.82587 2.47538 3.36808 4.15595 2.85229 2.87045 2.78847 2.97350 2.46756 2.52825 3.43262 5.55511 4.16398 845 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02520 4.08943 4.81178 0.61958 0.77255 0.44169 1.02989\n- 393 2.37213 4.69958 2.71362 2.17775 4.03071 2.75842 3.64519 3.42904 2.47553 2.82520 3.90147 2.56152 3.75853 2.82370 2.90963 2.61258 2.83800 3.10194 5.31358 3.98723 846 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02282 3.79160 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetD_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetD_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1361 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetD_II\n-LENG 446\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 12:00:52 2021\n-NSEQ 100\n-EFFN 5.117798\n-CKSUM 3053132695\n-GA 20 20;\n-STATS LOCAL MSV -11.2399 0.69862\n-STATS LOCAL VITERBI -12.4415 0.69862\n-STATS LOCAL FORWARD -5.8405 0.69862\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36808 4.36997 2.89870 2.56605 3.48785 2.92203 3.71614 3.04657 2.72237 2.29609 3.75031 3.19059 3.30913 3.06362 2.76296 2.69659 2.86091 2.74212 4.45997 3.59474\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.17407 3.82552 1.98081 0.61958 0.77255 0.00000 *\n- 1 2.83497 4.41784 3.85323 3.44163 3.14731 3.69332 4.21983 2.30579 3.21597 1.77984 1.78537 3.73904 4.16122 3.61559 3.44112 3.16070 3.14105 2.28772 4.95789 3.69744 1 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03783 3.68928 4.41162 0.61958 0.77255 0.59100 0.80693\n- 2 2.24886 4.31181 3.03233 2.48725 3.78712 2.83252 3.77203 3.00752 2.65879 2.80884 3.70101 3.04903 3.72713 3.01352 3.02849 2.54168 2.57161 2.39839 5.16890 3.90683 2 a - - -\n- 2.68521 4.42136 2.77557 2.73168 3.46414 2.40521 3.72472 3.29400 2.67809 2.69324 4.24766 2.90392 2.73731 3.18177 2.89534 2.37925 2.77530 2.98515 4.58553 3.61557\n- 0.23458 1.62475 4.41162 3.12485 0.04494 0.42517 1.06033\n- 3 3.78856 5.36756 5.64006 5.30344 4.22372 4.70674 5.81701 3.22654 4.97580 2.62373 0.35732 5.22309 5.29944 5.24555 5.04758 4.18741 3.64011 3.04422 6.26618 5.15033 126 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08285 5.31145 2.59589 0.61958 0.77255 0.48576 0.95510\n- 4 2.68015 4.15250 2.72043 2.31622 4.83099 3.35456 3.94195 4.31588 2.08910 3.57859 4.16993 2.52873 3.56268 2.89281 2.95730 1.76802 2.43218 3.87726 5.92104 4.51101 127 s - - -\n- 2.68393 4.42028 2.77438 2.73099 3.46545 2.40417 3.72326 3.29523 2.67814 2.69447 4.24834 2.90456 2.73723 3.18222 2.89619 2.37960 2.77473 2.98581 4.58587 3.61694\n- 1.09588 0.77875 1.57613 2.03884 0.13947 0.50733 0.92155\n- 5 2.28250 5.06914 2.75879 2.63916 4.29369 3.23955 3.96825 2.97348 2.78306 2.11530 3.71225 2.85213 3.04633 2.98537 3.01397 2.55300 2.90111 2.72594 5.58154 3.90080 174 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.13198 5.08132 2.14195 0.61958 0.77255 0.78374 0.61009\n- 6 2.57579 5.24466 2.56322 2.30682 4.12617 3.53590 3.89838 3.68944 2.55984 2.11610 3.20094 2.78326 3.20714 2.78543 2.97397 2.54651 2.99549 2.93341 5.71713 4.34789 175 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00954 5.05318 5.77552 0.61958 0.77255 0.89405 0.52593\n- 7 2.49851 5.43691 2.70635 2.26284 4.78255 3.52824 3.49002 3.92537 1.98141 3.74243 4.47742 2.70986 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02118 4.26121 4.98355 0.61958 0.77255 0.80399 0.59337\n- 439 2.49633 4.87088 2.95886 2.08257 4.13360 3.41586 3.22376 3.38650 2.37159 2.87548 3.93807 2.93084 3.47875 2.74706 2.44020 2.46756 2.83770 3.21731 5.35479 4.00912 1139 e - - -\n- 2.68551 4.42229 2.77528 2.73145 3.46408 2.40500 3.72429 3.29371 2.67779 2.69353 4.24718 2.90384 2.73705 3.18191 2.89792 2.37891 2.77516 2.98495 4.58395 3.61524\n- 0.69846 0.70390 4.82875 1.78327 0.18403 0.54857 0.86222\n- 440 2.82856 4.79408 3.08183 2.84297 4.01860 3.40760 3.13170 3.81413 2.84698 3.39311 4.31492 3.26961 1.08108 3.28576 3.17329 2.91852 3.17759 3.46103 5.36687 3.99467 1166 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02387 4.14285 4.86519 0.61958 0.77255 0.72176 0.66533\n- 441 2.58099 4.78794 2.78667 2.42337 4.07835 3.08168 3.63448 3.49855 2.42993 3.09577 3.90631 2.93879 3.79873 2.64059 2.70530 2.07563 2.58880 2.89103 5.33105 3.99403 1167 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02601 4.05812 4.78047 0.61958 0.77255 0.64090 0.74827\n- 442 2.49024 4.57043 2.62250 2.19253 4.07160 3.12134 3.69306 3.47644 2.53416 3.12167 3.98308 2.85772 2.66782 2.89274 2.93422 2.28380 2.82023 3.11569 5.36069 4.04175 1168 e - - -\n- 2.68617 4.42233 2.77505 2.73131 3.46362 2.40521 3.72387 3.29362 2.67749 2.69363 4.24656 2.90355 2.73748 3.18154 2.89809 2.37880 2.77528 2.98499 4.58485 3.61511\n- 0.24394 1.58815 4.40942 1.13608 0.38724 0.61251 0.78087\n- 443 2.39784 4.40122 3.22578 2.72636 3.44163 3.42487 2.87168 2.89690 2.57122 2.54597 2.78194 3.14677 3.85581 2.99234 2.90442 2.72384 2.81846 2.67800 4.89957 3.57726 1174 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03585 3.74213 4.46448 0.61958 0.77255 0.64398 0.74486\n- 444 2.23450 4.47814 3.03331 2.60090 3.98518 3.20400 3.70054 3.35963 2.40716 3.00213 3.87267 3.01656 2.74146 2.89768 2.29376 2.57058 2.78747 3.01953 5.26054 3.99177 1175 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03585 3.74213 4.46448 0.61958 0.77255 0.55026 0.85991\n- 445 2.03601 4.19775 3.44384 2.96764 3.65089 3.23748 3.93493 2.75655 2.89758 2.42418 3.59695 3.27614 3.80384 3.23456 3.22785 2.17483 2.73599 2.23204 5.11520 3.87265 1176 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03329 3.81484 4.53718 0.61958 0.77255 0.59100 0.80693\n- 446 2.78702 4.94166 3.09072 2.54787 4.30189 3.47216 3.55529 3.68558 1.84936 3.20628 4.05107 3.00710 3.87139 2.49373 1.84573 2.56505 2.99145 3.36178 5.33872 4.09491 1177 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 3.80408 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetD_III.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Wadjet__JetD_III.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1058 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Wadjet__JetD_III\n-LENG 345\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Mar 25 11:58:53 2021\n-NSEQ 100\n-EFFN 5.398560\n-CKSUM 361317838\n-GA 20 20;\n-STATS LOCAL MSV -11.4502 0.70022\n-STATS LOCAL VITERBI -12.2892 0.70022\n-STATS LOCAL FORWARD -5.4443 0.70022\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63900 4.62046 2.94702 2.46737 3.33473 2.95488 3.73783 2.85129 2.57224 2.38947 3.70236 3.06808 3.35452 2.96999 2.83890 2.69917 2.88827 2.87890 4.40553 3.30079\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03790 5.26065 3.44193 0.61958 0.77255 0.00000 *\n- 1 4.77175 6.14258 5.93112 5.80131 4.78043 5.19876 6.26147 4.18022 5.57271 3.32461 0.13918 5.89723 5.78444 5.89342 5.57895 5.15536 5.17351 4.31426 6.58014 5.47929 1 M - - -\n- 2.68657 4.42290 2.77538 2.73105 3.46446 2.40571 3.72605 3.29109 2.67707 2.69343 4.24586 2.90336 2.73765 3.18148 2.89756 2.37881 2.77543 2.98498 4.58373 3.61566\n- 1.17709 0.61085 1.90423 1.35040 0.29994 0.50000 0.93275\n- 2 2.34081 5.40121 3.08541 1.88538 4.73627 3.45504 3.88024 3.50642 2.10485 3.47834 3.92276 2.64165 3.50663 2.77746 2.74082 2.50027 2.97857 3.53028 5.83993 3.09776 24 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11557 5.09105 2.27315 0.61958 0.77255 0.76816 0.62337\n- 3 2.46180 5.39590 2.62656 2.04370 4.73765 3.22926 3.85551 3.98439 2.18250 3.12032 3.42578 2.40940 3.78615 2.51515 2.83757 2.74109 2.71055 3.41588 5.83057 4.42162 25 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00964 5.04198 5.76432 0.61958 0.77255 0.84992 0.55765\n- 4 2.58882 4.31723 3.01629 2.46389 3.56310 3.77264 3.97852 2.70297 2.39272 2.69026 3.11321 2.43997 3.74905 3.13516 2.55062 2.83660 2.42965 3.20924 5.61504 4.28649 26 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00893 5.11908 5.84143 0.61958 0.77255 0.97220 0.47522\n- 5 2.97089 4.34938 4.90864 3.73936 2.73645 3.43066 4.47009 1.53422 4.08594 1.66133 3.12460 4.29165 4.50148 4.22198 4.10335 3.20770 3.20307 1.99460 3.37599 3.79463 27 i - - -\n- 2.68621 4.42228 2.77522 2.73126 3.46357 2.40516 3.72497 3.29357 2.67744 2.69358 4.24693 2.90350 2.73743 3.18149 2.89804 2.37890 2.77522 2.98521 4.58242 3.61480\n- 0.07900 2.61652 5.84143 0.25084 1.50573 0.64470 0.74407\n- 6 2.48324 4.59089 4.10723 3.22775 3.22927 4.02938 4.30431 2.17574 2.77819 1.71565 3.37859 3.53693 4.40434 3.40440 2.24652 3.29197 2.93809 2.41835 5.18837 3.70229 29 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00830 5.19145 5.91380 0.61958 0.77255 0.76760 0.62386\n- 7 2.69127 5.47171 2.40944 2.09978 4.81583 3.05004 3.38978 3.87857 2.05457 3.34031 4.51262 2.84013 4'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07759 4.85466 2.70506 0.61958 0.77255 0.78438 0.60955\n- 338 2.21695 4.02650 2.93982 2.80887 3.44245 3.71186 3.96008 3.00881 2.96423 1.88054 3.60368 3.42511 4.09232 2.66725 3.33198 2.84324 2.85583 2.35818 4.03746 3.83864 721 l - - -\n- 2.68618 4.42226 2.77514 2.73124 3.46354 2.40513 3.72495 3.29355 2.67741 2.69355 4.24690 2.90347 2.73735 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61504\n- 0.16013 3.38950 2.16944 0.46412 0.99071 0.45127 1.01284\n- 339 2.62309 4.44938 3.76321 3.19608 3.56551 3.78628 4.04341 2.93751 3.00018 2.42979 3.55844 3.29069 4.16594 3.29577 3.42007 2.87055 2.75560 2.72074 1.50675 3.39312 723 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06723 4.71026 2.88214 0.61958 0.77255 0.80672 0.59117\n- 340 2.64538 5.23581 3.03121 2.12902 4.57116 3.54144 3.22541 4.04355 1.81830 3.25800 4.28064 3.01473 3.93325 2.58422 2.19553 2.59387 2.79237 3.62158 5.67035 3.74186 724 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01420 4.65724 5.37959 0.61958 0.77255 0.88282 0.53378\n- 341 2.42036 5.20900 2.70736 2.18012 4.54322 3.50249 3.69066 4.02124 2.01808 3.22293 4.25271 2.97430 3.63525 2.61279 2.47076 2.42387 2.49883 3.46285 5.64800 4.24419 725 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05678 4.58507 3.10121 0.61958 0.77255 0.78997 0.60487\n- 342 2.72167 4.85887 2.24155 2.51649 4.07609 3.54665 3.75611 3.48871 2.47031 2.76127 3.93650 3.09237 3.94255 2.92274 2.78927 2.77109 2.87079 3.18343 2.17022 4.04238 726 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01710 4.47278 5.19513 0.61958 0.77255 0.89266 0.52690\n- 343 2.69287 4.21099 4.00473 2.83718 3.32164 3.48611 3.81351 1.63788 3.32248 2.16016 3.03630 3.69240 4.14327 3.57207 3.55143 3.05119 2.92521 2.07919 4.82819 3.62870 727 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01764 4.44213 5.16448 0.61958 0.77255 0.80529 0.59232\n- 344 2.52574 4.29282 2.81293 2.23430 3.42689 3.47962 3.34417 3.24181 2.46082 3.20388 3.60763 2.59843 3.59594 2.81395 2.48422 2.42054 2.89478 3.27965 5.42403 4.07196 728 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12147 4.38987 2.28301 0.61958 0.77255 0.49229 0.94476\n- 345 2.64298 5.11240 2.49035 2.26681 4.43947 3.04784 2.99763 3.63672 2.35131 3.40935 4.15905 2.43894 3.40569 2.56996 2.52461 2.61167 2.87490 3.49360 5.55464 4.15351 729 e - - -\n- 2.68622 4.42115 2.77515 2.73127 3.46342 2.40516 3.72498 3.29358 2.67744 2.69359 4.24693 2.90350 2.73736 3.18150 2.89804 2.37891 2.77523 2.98501 4.58481 3.61507\n- 0.21113 1.65901 * 0.30960 1.32328 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya_TypeII__ZorE.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya_TypeII__ZorE.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,866 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Zorya_TypeII__ZorE\n-LENG 281\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 13:34:31 2021\n-NSEQ 20\n-EFFN 1.030273\n-CKSUM 3838430438\n-GA 20 20;\n-STATS LOCAL MSV -10.9655 0.70182\n-STATS LOCAL VITERBI -12.0483 0.70182\n-STATS LOCAL FORWARD -5.4459 0.70182\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.69910 3.74507 2.86357 2.62980 3.27051 3.12828 3.44237 2.84081 2.53493 2.48578 3.63242 2.90114 3.59089 2.98989 2.86203 2.71442 2.95641 2.71820 4.78471 3.31768\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02239 4.20623 4.92858 0.61958 0.77255 0.00000 *\n- 1 3.26912 4.77147 4.42961 4.06175 3.40361 4.09657 4.71978 2.61514 3.80841 1.95837 0.85610 4.29396 4.57008 4.17405 3.97169 3.64697 3.58692 2.65783 5.28091 4.06703 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27453 4.20623 1.49090 0.61958 0.77255 0.48576 0.95510\n- 2 2.74797 5.08183 2.41808 1.93117 4.45644 3.25109 3.70809 3.92477 2.57129 3.47855 4.30870 1.81693 3.80924 2.86937 3.04930 2.33930 3.03194 3.53349 5.65828 4.25505 2 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02872 3.96042 4.68276 0.61958 0.77255 0.50398 0.92665\n- 3 3.09780 4.40867 4.84721 4.30724 2.76335 4.42574 4.83343 1.35592 4.19742 1.96048 3.25138 4.48858 4.70220 4.37780 4.34064 3.77788 3.34175 1.34811 5.27242 4.06873 3 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02477 4.10643 4.82878 0.61958 0.77255 0.60007 0.79578\n- 4 2.79504 5.24442 2.64787 1.73373 4.57954 3.39299 3.65163 4.04023 1.94306 3.52234 4.31292 2.44293 3.85875 2.45832 2.77527 2.74178 3.02960 3.63560 5.65165 4.26845 4 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02477 4.10643 4.82878 0.61958 0.77255 0.60007 0.79578\n- 5 2.64852 4.29130 3.80759 3.29217 3.43601 3.61591 4.10550 2.52915 3.18448 1.61188 3.40553 3.59003 4.08102 3.49827 3.46493 2.19290 2.93945 2.06450 5.01533 3.78231 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02477 4.10643 4.82878 0.61958 0.77255 0.60007 0.79578\n- 6 2.63778 4.37621 2.85121 2.91496 3.56043 3.59592 3.90423 1.97199 2.89722 2.54925 3.49670 3.33455 3.26053 3.20721 3.26592 2.86494 2.88360 2.03647 5.03689 3.79055 6 i - - -\n- 2.68628 4.42235 2.77530 2.73133 3.46182 2.40523 3.72505 3.29364 2.67751 2.69349 4.24700 2.90295 2.73750 3.18156 2.89811 2.37897 2.77530 2.98528 4.58487 3.61513\n- 0.75451 1.52293 1.16576 0.97175 0.47549 0.42039 1.06941\n- 7 2.66952 4.92336 2.53438 1.83032 4.28261 3.25944 3.66740 3.69606 2.49284 3.29493 4.12995 2.42959 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03101 3.88487 4.60721 0.61958 0.77255 0.78617 0.60805\n- 274 2.65085 4.69087 2.94881 2.25823 3.87843 3.42532 3.66112 2.55929 2.41584 2.86272 3.76718 2.99981 3.84860 2.25108 2.79154 2.72251 2.88520 2.94453 5.20515 3.90709 303 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03101 3.88487 4.60721 0.61958 0.77255 0.78617 0.60805\n- 275 3.35919 4.69480 4.35865 3.98750 1.18803 4.18016 3.49247 3.03157 3.85116 2.39685 3.65626 3.91826 4.51094 3.92390 3.95789 3.54220 3.59124 2.96769 3.68095 1.68731 304 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03101 3.88487 4.60721 0.61958 0.77255 0.78617 0.60805\n- 276 3.13269 4.49193 4.59712 4.07992 3.19042 4.36411 4.73071 1.44388 3.90558 1.33018 3.04036 4.35263 4.63183 4.15679 4.09094 3.73341 3.37848 1.89501 5.19249 4.00376 305 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03101 3.88487 4.60721 0.61958 0.77255 0.78617 0.60805\n- 277 2.85807 5.07990 3.06265 2.23030 4.46459 3.50504 3.56366 3.84187 1.69952 3.32463 4.16329 3.00782 3.90153 2.69662 1.80693 2.84379 3.05196 3.50340 5.42319 4.17967 306 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03101 3.88487 4.60721 0.61958 0.77255 0.78617 0.60805\n- 278 2.70423 4.61995 3.30654 2.71713 3.82692 3.52945 3.66463 2.35111 1.94138 2.79804 3.71099 3.14893 3.91400 2.86982 2.26901 2.81801 2.92177 2.87342 5.12252 3.88039 307 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03101 3.88487 4.60721 0.61958 0.77255 0.44106 1.03102\n- 279 3.79182 5.00233 4.72180 4.43685 1.56759 4.49612 3.52290 3.47734 4.27853 2.78599 4.06976 4.15729 4.80448 4.22830 4.29917 3.87566 4.01391 3.40514 3.65352 0.85010 308 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02425 4.12724 4.84958 0.61958 0.77255 0.57820 0.82305\n- 280 2.63017 4.84514 2.95029 2.09582 4.08969 3.42613 3.63956 3.51738 2.41460 3.11046 3.92425 2.95457 3.01559 2.78914 2.59864 2.43672 2.86298 3.18874 5.33715 2.84235 309 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09301 4.12724 2.62162 0.61958 0.77255 0.57820 0.82305\n- 281 2.99231 5.20747 3.31489 2.69105 4.64217 3.63666 3.61126 4.00557 1.37868 3.44113 4.28250 3.13269 4.00502 2.10201 1.96369 2.97140 3.16643 3.66386 5.49499 4.28689 310 k - - -\n- 2.68629 4.42236 2.77531 2.73135 3.46365 2.40524 3.72506 3.29365 2.67719 2.69366 4.24701 2.90274 2.73751 3.18102 2.89812 2.37898 2.77531 2.98484 4.58488 3.61514\n- 0.17540 1.82712 * 1.31708 0.31186 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya_TypeI__ZorC.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya_TypeI__ZorC.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1697 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Zorya_TypeI__ZorC\n-LENG 558\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 13:34:14 2021\n-NSEQ 20\n-EFFN 1.323242\n-CKSUM 4284344978\n-GA 20 20;\n-STATS LOCAL MSV -11.8824 0.69752\n-STATS LOCAL VITERBI -12.7330 0.69752\n-STATS LOCAL FORWARD -5.9253 0.69752\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.45858 4.48362 2.90307 2.66950 3.32319 2.90090 3.71721 3.04409 2.67980 2.37776 3.66919 3.12251 3.33267 2.99030 2.72160 2.64561 2.92781 2.68680 4.26126 3.62080\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11208 4.35211 2.37354 0.61958 0.77255 0.00000 *\n- 1 3.32770 4.82329 4.49835 4.13959 3.44730 4.14417 4.78488 2.66553 3.88255 1.99721 0.78816 4.36355 4.62177 4.24625 4.03830 3.70905 3.64865 2.71401 5.32881 4.11846 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02118 4.26120 4.98355 0.61958 0.77255 0.60637 0.78817\n- 2 2.34352 5.00211 2.89097 2.44768 4.40618 3.40948 3.71078 3.85045 1.92755 3.39261 4.18203 2.14104 3.86673 2.84154 2.89244 2.16133 2.95148 3.45643 5.56848 4.20894 2 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10739 4.26120 2.43357 0.61958 0.77255 0.60637 0.78817\n- 3 2.78528 4.88948 3.16560 2.12865 4.12332 3.55533 3.69712 3.49837 2.30406 2.20743 3.95880 3.10395 3.94876 2.86014 1.90658 2.83014 3.00282 3.21402 5.34263 4.06152 3 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02306 4.17687 4.89922 0.61958 0.77255 0.53553 0.88035\n- 4 1.68876 4.35532 3.54304 3.07364 4.00551 2.55444 4.09406 3.34152 3.05784 3.07037 3.93208 3.36741 2.26737 3.36301 3.41712 2.63422 2.84375 2.20188 5.39483 4.15935 4 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02118 4.26120 4.98355 0.61958 0.77255 0.60637 0.78817\n- 5 2.79087 4.42780 3.89362 3.37613 3.48098 3.76639 4.21564 2.56062 3.26679 1.65123 3.41052 3.69943 1.95605 3.58469 3.55388 3.09217 3.07105 2.09687 5.12272 3.90437 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02118 4.26120 4.98355 0.61958 0.77255 0.60637 0.78817\n- 6 2.59830 4.63121 2.62493 2.65391 3.99940 3.40872 3.82028 3.34301 2.68971 3.03702 3.88440 3.12046 3.88647 3.01619 3.12511 1.96942 2.30616 2.21910 5.33451 4.03696 6 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02118 4.26120 4.98355 0.61958 0.77255 0.60637 0.78817\n- 7 2.68571 4.75755 3.15474 2.60507 3.16657 3.51902 2.27500 3.38888 2.50548 3.00907 3.85654 3.09398 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02319 4.17131 4.89365 0.61958 0.77255 0.66766 0.71930\n- 551 3.00464 4.99221 2.92301 2.84431 4.40662 3.41192 4.20915 4.19399 3.14517 3.80885 4.77055 0.72082 4.08300 3.49145 3.50239 3.06596 3.40182 3.78481 5.67785 4.34049 711 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02319 4.17131 4.89365 0.61958 0.77255 0.66766 0.71930\n- 552 1.91396 4.74694 2.98209 2.56748 4.22473 3.34240 3.78827 3.63778 2.57194 3.24313 4.07315 3.04362 2.46528 2.11433 2.98638 2.67193 2.91359 3.26965 5.47802 4.16013 712 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02319 4.17131 4.89365 0.61958 0.77255 0.66766 0.71930\n- 553 3.40429 4.69703 5.05426 4.52368 3.23309 4.70953 5.06604 1.53163 4.35646 0.95020 3.03289 4.76261 4.89545 4.49323 4.46816 4.09181 3.63716 2.11347 5.33899 4.23453 713 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02319 4.17131 4.89365 0.61958 0.77255 0.66766 0.71930\n- 554 2.96838 4.37872 4.47898 3.90314 3.22231 4.14470 4.47015 1.94107 3.77508 1.44310 2.07634 4.13553 4.44691 3.96929 3.94355 3.45469 2.62116 2.18905 5.02536 3.89027 714 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02319 4.17131 4.89365 0.61958 0.77255 0.61409 0.77900\n- 555 3.93293 5.08148 4.90050 4.65498 1.07435 4.61614 3.55303 3.57626 4.48150 2.85579 4.15348 4.26102 4.90852 4.35609 4.44394 3.99972 4.14840 3.51263 3.66494 1.11146 715 f - - -\n- 2.68665 4.41963 2.77463 2.73121 3.46298 2.40483 3.72541 3.29401 2.67741 2.69354 4.24512 2.90393 2.73737 3.18116 2.89789 2.37934 2.77507 2.98555 4.58524 3.61550\n- 0.25173 1.53594 4.92078 2.24872 0.11153 0.63903 0.75036\n- 556 3.08735 4.70554 4.03724 3.69156 2.76135 3.79354 3.92617 3.41009 3.39828 2.94110 4.04384 3.83067 4.33253 3.80992 3.58154 2.87095 3.42396 3.20784 0.96260 2.74698 730 w - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05032 4.19843 3.37970 0.61958 0.77255 0.63903 0.75036\n- 557 2.88051 5.03243 3.30947 2.70076 4.42226 3.59818 3.67854 3.79019 1.86636 3.31805 4.15886 3.15115 3.98954 2.81858 1.62049 2.90037 2.15659 3.46176 5.45619 4.21687 731 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02319 4.17131 4.89365 0.61958 0.77255 0.66766 0.71930\n- 558 2.67541 4.28376 3.89187 3.36659 3.45272 3.67264 4.14998 2.46910 3.26382 1.78158 3.41724 3.65287 4.12509 3.56334 3.53521 2.16730 2.95923 1.76801 5.02578 3.80113 732 v - - -\n- 2.68450 4.42283 2.77474 2.72984 3.46412 2.40570 3.72552 3.29412 2.67798 2.69270 4.24747 2.90346 2.73797 3.18127 2.89742 2.37944 2.77567 2.98576 4.58535 3.61561\n- 0.21708 1.63407 * 2.54494 0.08173 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya_TypeI__ZorD.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya_TypeI__ZorD.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3278 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Zorya_TypeI__ZorD\n-LENG 1085\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 13:34:20 2021\n-NSEQ 20\n-EFFN 0.717773\n-CKSUM 4047895704\n-GA 20 20;\n-STATS LOCAL MSV -13.0090 0.69540\n-STATS LOCAL VITERBI -13.9187 0.69540\n-STATS LOCAL FORWARD -6.9636 0.69540\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.46292 4.46646 2.87047 2.64775 3.36148 2.86160 3.75833 2.84720 2.71367 2.34375 3.67530 3.14900 3.33847 3.00285 2.89495 2.70391 2.90738 2.64687 4.41770 3.60376\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04977 4.02289 3.48524 0.61958 0.77255 0.00000 *\n- 1 3.07390 4.60336 4.18887 3.79358 3.26940 3.93063 4.49911 2.45805 3.55414 1.84619 1.15208 4.05476 4.39333 3.92841 3.74410 3.43566 3.38245 2.47869 5.12640 3.89867 1 m - - -\n- 2.68626 4.42233 2.77528 2.73132 3.46332 2.40521 3.72503 3.29337 2.67735 2.69328 4.24698 2.90355 2.73748 3.18155 2.89809 2.37859 2.77528 2.98527 4.58485 3.61511\n- 0.28489 1.43124 4.72304 0.85230 0.55588 0.47162 0.97813\n- 2 2.94393 4.37187 4.38150 3.80382 2.96219 4.06535 4.26155 2.38889 3.63354 1.29080 2.11627 4.02484 4.36081 3.83576 3.79218 3.37222 3.16840 2.41738 3.41815 3.50001 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 3 2.69081 4.97195 1.77274 2.29075 4.55692 1.93248 3.81275 4.03975 2.77199 3.60116 4.42561 2.82418 3.80452 2.98397 3.29877 2.33714 3.02929 3.58932 5.78406 4.37211 7 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 4 2.77376 4.69132 3.39633 2.78096 3.90952 3.59160 3.69823 2.29942 2.07047 2.87054 3.78104 3.20504 3.96908 2.89762 1.85431 2.88308 2.98538 2.95599 5.17865 3.94593 8 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 5 3.45525 4.81365 4.44508 4.19022 0.79433 4.10554 3.95214 2.96276 4.09402 2.29914 3.67201 4.19144 4.56233 4.22104 4.17648 3.71602 3.75726 2.96415 4.16051 2.51027 9 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 6 2.71607 4.58501 3.35582 2.78561 2.29297 3.56663 3.70579 3.12563 2.22914 2.75791 3.67620 3.21027 3.95434 2.97167 2.10077 2.84719 2.93999 2.88915 4.96754 3.63192 10 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02695 4.02289 4.74524 0.61958 0.77255 0.48576 0.95510\n- 7 1.94891 4.19961 3.38584 3.14691 4.31045 2.96185 4.24428 3.68279 3.21638 3.42440 4.28238 3.31081 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03282 3.82898 4.55133 0.61958 0.77255 0.65726 0.73037\n- 1078 1.86208 4.15050 3.15434 2.96756 4.22108 1.49423 4.12621 3.57294 3.10817 3.32314 4.20027 3.18456 3.63489 3.40839 3.41522 2.38718 2.70144 3.07611 5.55502 4.34184 1182 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03282 3.82898 4.55133 0.61958 0.77255 0.65726 0.73037\n- 1079 2.69886 4.92912 2.40878 1.52262 4.33032 3.19133 3.70910 3.76205 2.56676 3.37767 4.24777 2.78951 3.77579 2.89081 3.00727 2.31445 3.00451 3.39538 5.57114 4.18971 1183 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03282 3.82898 4.55133 0.61958 0.77255 0.42000 1.07015\n- 1080 3.15069 4.53943 4.60160 4.03982 3.11940 4.34402 4.66427 2.15197 3.89332 1.23449 1.90128 4.31850 4.59004 4.07900 4.06522 3.67636 3.38145 2.00699 5.11797 4.01605 1184 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02754 4.00161 4.72396 0.61958 0.77255 0.50786 0.92075\n- 1081 2.95413 4.37399 4.38038 3.81738 3.25314 4.13844 4.48380 1.72728 3.68964 1.37718 2.91160 4.09222 4.44245 3.92646 3.89777 3.45383 2.72434 2.00836 5.09100 3.94203 1185 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02754 4.00161 4.72396 0.61958 0.77255 0.50786 0.92075\n- 1082 2.96712 5.09111 3.29067 2.71914 4.45590 3.59728 3.63280 3.87542 1.98886 3.34204 4.21973 3.14771 3.99560 2.04119 1.45484 2.97194 3.16019 3.55887 5.42257 4.20272 1186 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02754 4.00161 4.72396 0.61958 0.77255 0.50786 0.92075\n- 1083 1.41353 4.16094 3.44462 3.16307 4.26146 2.94871 4.22558 3.61426 3.20899 3.35922 4.20883 3.31149 3.69779 3.50498 3.51307 1.51110 2.71332 3.10303 5.62422 4.40412 1187 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02754 4.00161 4.72396 0.61958 0.77255 0.50786 0.92075\n- 1084 2.39787 4.56146 3.20858 2.69860 3.72725 3.48043 3.76122 3.04785 2.55745 2.66000 2.58867 3.15154 3.90466 2.11197 2.91510 2.76350 2.88710 2.82751 5.13950 3.87146 1188 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02754 4.00161 4.72396 0.61958 0.77255 0.50786 0.92075\n- 1085 2.83268 4.59377 3.53277 3.44936 4.58638 0.55500 4.56037 4.21875 3.64810 3.85628 4.83413 3.69728 3.98899 3.96217 3.86863 3.00854 3.32398 3.72215 5.64601 4.69314 1189 G - - -\n- 2.68605 4.42232 2.77527 2.73131 3.46361 2.40520 3.72502 3.29361 2.67743 2.69317 4.24673 2.90354 2.73736 3.18145 2.89790 2.37890 2.77527 2.98526 4.58484 3.61510\n- 0.19653 1.72361 * 0.96583 0.47911 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya__ZorA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya__ZorA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2141 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Zorya__ZorA\n-LENG 706\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 13:33:55 2021\n-NSEQ 20\n-EFFN 1.176758\n-CKSUM 170514856\n-GA 20 20;\n-STATS LOCAL MSV -12.3208 0.69661\n-STATS LOCAL VITERBI -13.2474 0.69661\n-STATS LOCAL FORWARD -6.0782 0.69661\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.36891 4.62074 2.98279 2.60872 3.33128 2.84913 3.84564 2.96865 2.76902 2.31375 3.48743 3.15688 3.73758 2.84106 2.91720 2.56334 2.82849 2.67605 4.80910 3.82795\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12353 4.28183 2.27896 0.61958 0.77255 0.00000 *\n- 1 3.24342 4.74889 4.39900 4.02725 3.38487 4.07542 4.69107 2.59345 3.77562 1.94198 0.88842 4.26314 4.54722 4.14217 3.94227 3.61956 3.55987 2.63350 5.26008 4.04459 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25226 4.18125 1.57177 0.61958 0.77255 0.60937 0.78459\n- 2 2.68345 4.90768 1.60286 2.31566 4.37894 3.21178 3.78726 3.74487 2.72053 3.41268 4.27938 2.84487 3.80453 2.96594 3.21895 2.69238 2.11282 3.37217 5.64792 4.25997 2 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02879 3.95779 4.68014 0.61958 0.77255 0.80827 0.58992\n- 3 2.88131 4.36108 4.08030 3.56421 2.39519 3.89589 3.81667 2.56426 3.45167 2.22496 3.35096 3.75365 4.25396 3.66466 3.66195 3.20235 3.11981 1.87710 4.24587 1.83536 3 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02879 3.95779 4.68014 0.61958 0.77255 0.80827 0.58992\n- 4 2.46714 4.30035 3.40049 2.95208 3.68148 3.29890 3.93895 2.92496 2.86839 2.03950 3.65787 3.28545 3.85599 3.23316 3.19496 1.85002 2.57892 2.66611 5.14104 3.87942 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02879 3.95779 4.68014 0.61958 0.77255 0.80827 0.58992\n- 5 2.89102 5.04191 2.95306 2.58094 4.43880 3.45637 3.66993 3.87680 1.23589 3.40164 4.27219 2.72335 3.93356 2.82787 2.39650 2.89402 3.12967 3.53370 5.47549 4.20864 5 k - - -\n- 2.68637 4.42048 2.77538 2.73142 3.46298 2.40479 3.72513 3.29373 2.67759 2.69304 4.24708 2.90365 2.73758 3.18165 2.89777 2.37905 2.77538 2.98491 4.58496 3.61522\n- 0.21012 1.71349 4.68014 1.71464 0.19849 0.80827 0.58992\n- 6 3.48008 4.82397 4.22340 3.95082 2.75728 3.82719 4.00762 3.50764 3.67135 2.88765 4.13744 4.08272 4.35213 4.05456 3.78458 3.68295 3.78487 3.40034 0.72951 2.75498 14 w - - -\n- 2.68632 4.42239 2.77533 2.73137 3.46293 2.40501 3.72508 3.29178 2.67755 2.69369 4.24704 2.90361 2.73753 3.18160 2.89815 2.37901 2.77496 2.98532 4.58491 3.61517\n- 0.21012 1.71349 4.68014 1.47040 0.26115 0.46841 0.98350\n- 7 3.35143 4.67374 4.98341 4.40973 2.17726 4.57360 4.76803 2.34087 4.27158 1.08813 1.86298 4.60736 4.75366'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02074 4.28183 5.00417 0.61958 0.77255 0.48576 0.95510\n- 699 3.30234 4.55298 5.19711 4.67772 3.62591 4.76154 5.28360 1.26785 4.57701 1.68765 3.40519 4.86040 4.99123 4.76298 4.71486 4.14571 3.54944 1.21615 5.64776 4.49230 922 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02074 4.28183 5.00417 0.61958 0.77255 0.48576 0.95510\n- 700 2.87903 5.05648 3.29473 2.67685 4.36763 3.63038 3.69274 3.75528 1.85582 2.24353 4.12397 3.14810 4.00105 1.94800 2.21797 2.89502 3.07983 3.43628 5.45143 4.18941 923 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02074 4.28183 5.00417 0.61958 0.77255 0.48576 0.95510\n- 701 2.85842 5.25595 2.04902 2.44936 4.60882 3.49677 3.70573 4.05631 2.12679 3.54028 4.33558 2.97939 3.93865 2.82892 1.60252 2.81864 3.08607 3.66272 5.65934 4.30787 924 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.36785 4.28183 1.22430 0.61958 0.77255 0.48576 0.95510\n- 702 1.98341 4.84571 2.58465 1.61079 4.29041 3.25052 3.76809 3.60646 2.62151 3.29097 4.17021 2.89138 3.81705 2.94787 3.06071 2.70297 2.98447 3.26436 5.55724 4.20777 925 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02922 3.94320 4.66554 0.61958 0.77255 0.81865 0.58166\n- 703 3.23485 4.67624 4.30293 3.94325 3.16323 4.07178 4.57680 2.37132 3.71030 0.79282 3.16438 4.21186 4.49507 4.06171 3.87474 3.65110 3.52594 2.42698 5.06803 3.80763 926 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02922 3.94320 4.66554 0.61958 0.77255 0.81865 0.58166\n- 704 2.82164 5.06816 2.79821 1.67538 4.40849 3.41492 3.64177 3.83123 2.22276 3.35548 4.20419 2.94462 3.87739 2.78900 1.94839 2.80559 3.05250 3.48599 5.48863 4.18762 927 e - - -\n- 2.68590 4.42232 2.77526 2.73094 3.46361 2.40520 3.72501 3.29361 2.67748 2.69362 4.24697 2.90354 2.73746 3.18153 2.89808 2.37894 2.77526 2.98479 4.58484 3.61510\n- 0.21356 1.69890 4.66554 0.93428 0.49901 0.67958 0.70690\n- 705 1.04063 4.18873 3.46535 3.23369 4.33142 2.23244 4.30695 3.67231 3.32001 3.42960 4.28725 3.36579 3.73149 3.60228 3.60858 2.45229 2.76384 3.15360 5.68093 4.48929 931 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02669 4.03273 4.75507 0.61958 0.77255 0.34992 1.21992\n- 706 2.87819 5.22014 3.04791 2.09059 4.59553 2.91542 3.68428 4.01339 2.03200 3.49026 4.29164 3.04823 3.96562 2.80471 1.55777 2.85071 3.09019 3.63565 5.59858 4.29205 932 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01401 4.27509 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya__ZorA2.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya__ZorA2.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1379 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Zorya__ZorA2\n-LENG 452\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 13:34:02 2021\n-NSEQ 20\n-EFFN 1.333008\n-CKSUM 1555775958\n-GA 20 20;\n-STATS LOCAL MSV -11.9457 0.69855\n-STATS LOCAL VITERBI -12.6358 0.69855\n-STATS LOCAL FORWARD -5.8475 0.69855\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.56221 4.60560 2.97103 2.59153 3.20261 3.09017 3.85143 2.70896 2.62211 2.31745 3.58953 2.90847 3.74732 2.94462 3.06940 2.55747 2.82218 2.67671 4.88395 3.75587\n- 2.68599 4.42278 2.77572 2.73146 3.46029 2.40544 3.72547 3.29355 2.67751 2.69292 4.24401 2.90399 2.73760 3.18152 2.89854 2.37878 2.77572 2.98513 4.58530 3.61484\n- 0.28102 1.43228 5.07897 2.15862 0.12272 0.00000 *\n- 1 3.45797 4.77261 5.10973 4.54153 2.11220 4.67719 4.83591 2.44130 4.39465 1.35312 1.33603 4.71704 4.85726 4.42850 4.45170 4.01966 3.67219 2.60986 5.07311 3.86636 13 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 2 2.67135 4.81126 3.09940 2.55570 4.05143 3.49827 3.72346 3.47009 2.51819 3.08636 3.91186 2.67854 3.90061 2.88838 2.52922 2.04634 2.45797 3.15744 5.33473 2.74344 14 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 3 2.82822 5.16545 2.65424 1.42370 4.65756 2.71071 3.87418 4.13026 2.74182 3.66785 4.47140 2.96907 3.94423 3.02305 3.24122 1.78405 3.12797 3.69796 5.84131 4.43752 15 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 4 2.34336 4.23188 4.37030 3.78701 2.54810 3.94166 4.26798 2.14143 3.65541 1.46153 3.20860 3.96549 4.29248 3.85166 3.80494 3.24305 2.57897 2.27053 4.86990 3.69247 16 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 5 1.79342 4.48866 3.42677 2.92339 3.95967 3.39295 3.98462 3.32628 2.90070 2.37946 3.87967 3.30529 2.46884 3.22731 3.28834 1.99648 2.89569 3.00577 5.33639 4.07774 17 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01923 4.35662 5.07897 0.61958 0.77255 0.48576 0.95510\n- 6 2.30903 4.14378 4.27085 3.68174 3.21443 3.82534 4.14180 1.98494 3.53894 1.64456 3.21182 3.84950 4.18887 3.74479 3.68518 3.12161 2.54383 2.31216 3.40653 3.57940 18 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.31303 4.35662 1.36277 0.61958 0.77255 0.48576 0.95510\n- 7 1.60639 4.70477 2.22272 2.48628 4.37002 2.35446 3.86402 3.79295 2.78297 3.41479 4.23889 2.96520 3.799'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02379 4.14619 4.86854 0.61958 0.77255 0.73356 0.65431\n- 445 2.72116 4.36469 3.70300 3.19279 3.56809 3.71795 4.10523 2.08648 3.12204 2.49616 3.51573 2.34010 4.13927 3.45043 3.44495 3.02302 2.98522 1.58707 5.11893 3.86802 653 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02379 4.14619 4.86854 0.61958 0.77255 0.73356 0.65431\n- 446 2.89848 5.20012 3.06033 2.19645 4.58105 3.55533 3.64634 3.98648 2.12201 3.45406 4.27280 3.04470 3.95757 2.01439 1.68101 2.87157 3.10103 3.62328 5.54882 4.27001 654 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02379 4.14619 4.86854 0.61958 0.77255 0.73356 0.65431\n- 447 2.65102 4.48527 3.36112 2.79810 3.64693 3.56379 3.79274 2.54686 2.06946 2.12008 3.57780 3.23629 3.95257 3.05062 2.99377 2.45516 2.88410 2.70832 5.05541 3.80190 655 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02379 4.14619 4.86854 0.61958 0.77255 0.73356 0.65431\n- 448 1.82784 4.35246 3.95981 3.41453 3.36200 3.79713 4.19686 2.44070 3.29983 1.86000 2.21189 3.72531 4.19979 3.59350 3.56839 3.10762 3.03352 2.32980 5.02793 3.83596 656 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02379 4.14619 4.86854 0.61958 0.77255 0.73356 0.65431\n- 449 2.67045 4.96814 2.81257 2.41203 4.39100 2.74867 3.69522 3.83772 1.92993 3.38057 4.17555 2.48349 3.83734 2.83117 2.88208 2.01793 2.93748 3.44129 5.55690 4.19814 657 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02379 4.14619 4.86854 0.61958 0.77255 0.51714 0.90689\n- 450 2.75215 4.94459 2.99146 2.58259 4.39315 3.43976 3.78611 3.82166 2.45900 3.39064 4.21452 1.49551 3.92945 2.93864 2.38945 2.78097 2.52657 3.44753 5.56484 4.24552 658 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02114 4.26292 4.98526 0.61958 0.77255 0.61023 0.78357\n- 451 2.37750 4.68137 3.17924 2.62175 3.89358 3.51096 3.05388 3.28929 2.52974 2.28100 3.78249 3.10616 3.90604 2.92190 2.45179 2.21458 2.88896 3.00660 5.21617 3.92467 659 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10119 4.26292 2.49913 0.61958 0.77255 0.61023 0.78357\n- 452 2.90419 5.22557 3.02268 1.95040 4.60396 3.55286 3.66289 4.01577 2.15928 3.48258 4.29784 3.03918 3.96286 2.36036 1.60481 2.87323 3.11041 3.64680 5.57877 4.28892 660 r - - -\n- 2.68537 4.42231 2.77525 2.73129 3.46360 2.40518 3.72500 3.29360 2.67747 2.69361 4.24695 2.90352 2.73745 3.18152 2.89806 2.37893 2.77525 2.98524 4.58483 3.61509\n- 0.19682 1.72225 * 0.66846 0.71846 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya__ZorB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/Zorya__ZorB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,818 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME Zorya__ZorB\n-LENG 265\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Mon Mar 22 13:34:08 2021\n-NSEQ 20\n-EFFN 1.059570\n-CKSUM 3697578704\n-GA 20 20;\n-STATS LOCAL MSV -10.7193 0.70238\n-STATS LOCAL VITERBI -11.6826 0.70238\n-STATS LOCAL FORWARD -5.3160 0.70238\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53536 4.51528 2.90172 2.55214 3.31777 3.04219 3.82796 2.79390 2.67786 2.39152 3.52690 3.10508 3.60645 2.95234 2.73757 2.63386 2.92607 2.61412 4.78417 3.70615\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.00000 *\n- 1 3.28545 4.78586 4.44890 4.08355 3.41565 4.10991 4.73797 2.62905 3.82915 1.96900 0.83640 4.31344 4.58454 4.19423 3.99031 3.66432 3.60411 2.67339 5.29421 4.08132 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.22165 4.22182 1.69209 0.61958 0.77255 0.48576 0.95510\n- 2 2.14304 4.31927 4.03422 3.51293 1.93996 3.80990 4.09717 2.43563 3.41161 1.84644 3.23367 3.76520 4.20957 3.65974 3.64545 3.13289 3.04670 2.33378 4.72219 3.35615 2 l - - -\n- 2.68622 4.42229 2.77523 2.73127 3.46358 2.40474 3.72498 3.29358 2.67744 2.69359 4.24693 2.90350 2.73743 3.18150 2.89804 2.37890 2.77523 2.98522 4.58481 3.61507\n- 0.31803 1.33271 4.74935 0.22084 1.61872 0.37545 1.16148\n- 3 2.93094 5.00959 3.44205 2.78244 4.31994 3.67782 3.70098 2.62062 1.60945 3.22018 4.08864 3.21993 4.04075 2.85195 1.66982 2.96915 3.12299 3.36391 5.40393 4.17839 4 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 4 2.61662 4.49789 3.29475 2.76541 3.69854 3.49995 3.16214 3.09017 2.70649 2.12884 3.65235 3.20645 3.92530 3.06098 3.08853 2.05831 2.36416 2.83106 5.09453 3.82124 5 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 5 1.65917 4.81463 2.80865 2.02179 4.38273 2.14707 3.87631 3.79901 2.74825 3.41325 4.23824 3.02282 3.87616 3.05002 3.20619 2.70640 2.98659 3.39818 5.64020 4.30059 6 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 6 2.03351 4.94624 2.40141 2.41714 4.25524 3.41658 3.67269 3.66348 1.97114 3.25368 4.05437 2.94583 3.84405 2.80816 2.91800 2.66592 2.90225 2.89145 5.46778 4.10850 7 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02204 4.22182 4.94416 0.61958 0.77255 0.48576 0.95510\n- 7 2.08519 4.38357 3.43418 3.00423 4.28839 3.15364 4.10771 3.69666 3.01526 3.35639 4.17487 3.29677 2.04959'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.69214 0.69415\n- 258 2.05459 4.93602 2.57598 1.44720 4.37947 3.28234 3.79405 3.71290 2.65121 3.37859 4.25115 2.90217 3.85015 2.96813 3.10176 2.74132 3.03417 3.36058 5.62953 4.26746 305 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.69214 0.69415\n- 259 3.07688 5.18782 3.48566 2.81805 4.64943 3.68406 3.62632 3.99596 1.21631 3.43228 4.30498 3.21717 4.05310 2.76101 1.67688 3.07064 3.24178 3.67739 5.46738 4.30417 306 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.69214 0.69415\n- 260 1.65971 1.53387 4.07548 3.72348 3.94097 3.06609 4.44444 2.98213 3.58951 2.95091 3.92140 3.62849 3.81207 3.86311 3.77066 2.53061 2.75996 2.64937 5.43686 4.25851 307 c - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.69214 0.69415\n- 261 2.72172 4.85863 2.77942 2.52107 4.34866 2.23221 3.81079 3.84276 2.55587 3.40956 4.26918 3.00572 3.86768 1.55992 2.92529 2.75755 3.03705 3.45674 5.55036 4.23214 308 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.69214 0.69415\n- 262 2.85399 4.63565 3.49252 2.98076 3.63218 3.67554 3.87896 2.88963 1.97929 1.52842 3.59384 3.38139 4.08263 3.13608 2.78707 3.02894 3.08838 2.74698 5.12201 3.86499 309 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.69214 0.69415\n- 263 2.83640 5.11481 2.44377 1.31418 4.57516 2.18044 3.82438 4.04535 2.72796 3.61134 4.46601 2.86317 3.86785 3.00103 3.20691 2.80892 3.14464 3.64425 5.75584 4.38446 310 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.69214 0.69415\n- 264 2.02377 4.32520 3.82749 3.36366 3.47384 3.56644 4.20605 2.52562 3.23158 2.22077 1.75186 3.63313 4.08529 3.57015 3.49667 2.94293 2.98012 2.38948 5.13039 3.92159 311 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02684 4.02701 4.74935 0.61958 0.77255 0.37545 1.16148\n- 265 2.89901 4.93919 3.37274 2.88467 4.44585 3.54943 3.88958 3.89044 2.40016 3.43327 4.30897 3.30109 1.68460 3.06276 1.50854 2.96191 3.18121 3.53832 5.54737 4.32483 312 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01489 4.21467 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/dCTPdeaminase__dCTPdeaminase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/dCTPdeaminase__dCTPdeaminase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1535 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME dCTPdeaminase__dCTPdeaminase\n-LENG 504\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 27 14:28:10 2021\n-NSEQ 50\n-EFFN 2.590942\n-CKSUM 3829774877\n-GA 100 100;\n-STATS LOCAL MSV -11.7825 0.69799\n-STATS LOCAL VITERBI -12.6187 0.69799\n-STATS LOCAL FORWARD -6.0894 0.69799\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52663 4.23855 2.94300 2.56073 3.40266 2.91860 3.67423 2.80836 2.56696 2.55542 3.75118 3.01866 3.40261 3.03546 2.83598 2.59555 2.82928 2.73895 5.03535 3.46945\n- 2.68626 4.42233 2.77527 2.73131 3.46361 2.40504 3.72502 3.29362 2.67727 2.69362 4.24588 2.90354 2.73736 3.18154 2.89795 2.37880 2.77527 2.98515 4.58484 3.61511\n- 0.20604 2.50859 2.25556 1.05772 0.42656 0.00000 *\n- 1 3.20960 4.66053 4.74041 4.19159 3.48657 4.31377 4.73110 2.58541 3.99286 1.88483 0.92851 4.38322 4.67949 4.23585 4.14869 3.30679 3.46939 2.38936 5.29072 4.12427 9 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07295 4.69477 2.79348 0.61958 0.77255 0.67076 0.71605\n- 2 2.30106 5.22269 2.79764 2.34420 4.55394 3.52070 3.71176 4.03018 2.16753 3.52200 4.26772 2.15490 3.91580 2.70205 2.79679 2.13915 2.79525 3.29925 5.66373 4.26119 10 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07356 4.63633 2.79320 0.61958 0.77255 0.76429 0.62673\n- 3 2.65310 5.25395 2.95844 2.08583 4.59164 3.52314 3.72245 4.06466 1.55598 3.55089 4.30374 2.51745 3.93034 2.66189 2.91593 2.58732 2.64143 3.64211 5.68651 4.28962 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09742 4.57815 2.49436 0.61958 0.77255 0.84481 0.56149\n- 4 2.23749 5.10122 2.99024 2.43775 4.40823 3.00040 3.38170 3.86503 1.94609 3.39180 4.15746 2.84037 3.58683 2.64507 2.91715 2.22389 2.79356 3.19843 5.56296 4.18012 12 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12974 4.49742 2.20235 0.61958 0.77255 0.94027 0.49515\n- 5 2.65727 4.80378 3.10571 2.55605 4.06794 2.99408 3.73238 3.47729 2.54316 2.68478 3.91672 2.31326 3.89605 2.89438 2.81591 2.14950 2.48494 2.92543 5.35174 4.02978 13 s - - -\n- 2.68498 4.42345 2.77570 2.73176 3.46449 2.40551 3.72615 3.29337 2.67704 2.69355 4.24810 2.90452 2.73735 3.18078 2.89643 2.37805 2.77564 2.98486 4.58597 3.61624\n- 1.03442 0.55825 2.62615 2.17329 0.12082 0.94482 0.49225\n- 6 2.31971 5.06355 2.40739 2.39885 4.37891 3.44362 3.65812 3.83605 2.33701 3.36529 4.13308 2.34722 3.43912 2.77283 2.90564 2.39498 2.59500 3.09924 5.53885 4.15454 27 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05780 4.36361 3.13670 0.61958 0.77255 1.06744 0.42142\n- 7 2.49377 5.09655 2.56556 2.16853 4.40757 3.02384 3.63847 3.87102 2.08996 2.65233 4.148'..b'.68627 4.42234 2.77516 2.73091 3.46287 2.40522 3.72504 3.29363 2.67750 2.69364 4.24575 2.90356 2.73749 3.18156 2.89810 2.37883 2.77519 2.98528 4.58486 3.61512\n- 0.52219 0.91309 5.20381 0.11295 2.23672 0.82810 0.57426\n- 497 2.59144 4.88289 3.10525 2.54769 4.12488 2.63820 3.73334 2.95000 2.10179 2.91969 3.96023 3.06407 2.63840 2.88590 2.81326 2.55500 2.78422 3.21808 5.39133 4.06056 975 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01696 4.48146 5.20381 0.61958 0.77255 0.82810 0.57426\n- 498 2.14175 5.15915 2.95825 2.19524 4.48487 3.18828 3.66768 3.95560 2.17233 3.45529 4.20649 2.65112 3.87224 2.30005 2.72472 2.41811 2.93194 3.27535 5.60317 4.20657 976 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01696 4.48146 5.20381 0.61958 0.77255 0.82810 0.57426\n- 499 2.70587 4.40781 3.19194 3.04202 3.18046 3.69048 3.94624 2.87930 2.98735 1.49271 3.20425 3.43964 2.97046 3.29045 3.02969 2.94024 2.93794 2.66848 4.98596 3.75364 977 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09349 4.48146 2.55191 0.61958 0.77255 0.82810 0.57426\n- 500 2.33865 4.90962 3.02718 2.13421 3.63054 3.13036 3.67874 3.58867 2.46445 3.17513 3.57726 2.99627 3.86874 2.20146 2.78749 2.50877 2.88970 3.00346 5.40221 4.05541 978 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09412 4.36679 2.56224 0.61958 0.77255 0.91093 0.51442\n- 501 2.49720 4.83712 3.04228 2.48473 3.66502 3.15874 3.67371 3.49360 2.07633 2.70964 3.91034 2.79844 3.41500 2.82432 2.70442 2.67517 2.41944 3.17092 5.34069 4.00760 979 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02050 4.29317 5.01552 0.61958 0.77255 0.97807 0.47166\n- 502 2.65657 4.86981 3.03951 2.48481 4.11861 3.47567 3.67222 3.23437 2.10569 2.55646 3.94162 2.79161 2.76271 2.50512 2.88864 2.52860 2.88666 3.20827 5.36400 4.03052 980 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06399 4.29317 3.02992 0.61958 0.77255 0.97807 0.47166\n- 503 2.62757 4.75615 3.06920 2.20481 3.97663 3.15706 3.68231 3.05746 2.37162 2.67169 3.34565 2.83357 3.86263 2.84956 2.95063 2.17539 2.85905 3.07756 5.27269 3.95466 981 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02141 4.25059 4.97294 0.61958 0.77255 0.87008 0.54286\n- 504 2.09962 4.90618 3.00233 2.24049 4.16664 3.18951 3.65060 3.59312 2.18155 2.82405 3.54474 2.97067 3.84663 2.62204 2.71747 2.60262 2.87317 3.25076 5.39154 4.04486 982 a - - -\n- 2.68461 4.42307 2.77498 2.73130 3.46406 2.40515 3.72561 3.29427 2.67659 2.69480 4.24708 2.90381 2.73670 3.18089 2.89805 2.37952 2.77400 2.98567 4.58612 3.61638\n- 0.81512 0.58445 * 2.42184 0.09295 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/dGTPase__Sp_dGTPase.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/dGTPase__Sp_dGTPase.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1361 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME dGTPase__Sp_dGTPase\n-LENG 446\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Apr 27 14:27:54 2021\n-NSEQ 50\n-EFFN 0.704956\n-CKSUM 3821853709\n-GA 200 200;\n-STATS LOCAL MSV -11.6505 0.69861\n-STATS LOCAL VITERBI -12.5869 0.69861\n-STATS LOCAL FORWARD -5.9631 0.69861\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.61447 4.39197 2.87328 2.62746 3.30356 2.91634 3.57914 2.81886 2.61457 2.39156 3.62267 3.10506 3.43295 3.03018 2.86432 2.66737 2.86005 2.71036 4.78032 3.45022\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.25535 4.01460 1.57357 0.61958 0.77255 0.00000 *\n- 1 2.90957 4.47177 3.96527 3.55450 3.17747 3.77491 4.30809 2.34535 3.32621 1.78585 1.53884 3.84124 4.23666 3.71433 3.54048 3.24958 3.21416 2.34179 5.00665 3.76037 1 m - - -\n- 2.68623 4.42231 2.77519 2.73129 3.46359 2.40516 3.72474 3.29354 2.67746 2.69353 4.24695 2.90352 2.73745 3.18148 2.89782 2.37890 2.77493 2.98524 4.58482 3.61509\n- 0.38516 1.37297 2.71349 0.66223 0.72505 0.43247 1.04670\n- 2 2.52856 3.71764 3.63854 3.07320 3.30665 3.53649 3.87275 2.44705 2.98478 2.31320 2.43279 3.26939 3.94139 3.27835 3.27909 2.42497 2.77846 2.37218 4.79440 3.57523 5 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02965 3.92895 4.65130 0.61958 0.77255 0.50611 0.92340\n- 3 2.57465 4.98175 2.37378 2.15323 4.27500 3.34555 3.57484 3.72553 2.12529 3.26457 3.61433 2.70835 3.76427 2.69747 2.82696 2.49409 2.71463 3.34517 5.44739 4.06643 6 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96921 4.69156 0.61958 0.77255 0.53142 0.88618\n- 4 2.58437 4.64155 3.01896 2.12220 3.85016 3.35886 3.64302 2.78745 2.39616 2.60523 3.72851 2.86475 3.82101 2.76843 2.88264 2.60993 2.75755 2.95129 5.16767 3.86789 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02846 3.96921 4.69156 0.61958 0.77255 0.50726 0.92166\n- 5 2.62466 5.11017 2.35425 2.23605 4.41937 3.18935 3.62659 3.88445 2.30802 3.40918 4.20051 2.10364 3.78713 2.51350 2.93950 2.40044 2.93904 3.48982 5.58345 4.17812 8 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02804 3.98406 4.70640 0.61958 0.77255 0.51694 0.90719\n- 6 2.45653 4.19040 3.57830 2.93545 3.31958 3.57044 3.83932 2.36503 2.79597 2.19866 3.29820 3.37048 3.94737 3.22843 3.24488 2.76874 2.61943 2.18175 4.79238 3.20939 9 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02804 3.98406 4.70640 0.61958 0.77255 0.51694 0.90719\n- 7 2.81041 4.41821 3.78997 3.23746 2.85950 3.75733 3.78888 2.78505 2.95181 2.24322 3.11274 3.537'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 439 2.73956 4.85545 3.16458 2.58548 4.13868 3.51064 3.62791 3.00913 1.55613 3.09285 3.94301 3.05793 3.89678 2.64285 2.43659 2.77984 2.78817 3.20585 5.30724 4.03914 510 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 440 2.85064 4.60998 3.55336 3.47182 4.60773 0.53999 4.58161 4.24367 3.67231 3.87943 4.85771 3.71793 4.00559 3.98538 3.89100 3.02694 3.34295 3.74457 5.66349 4.71508 511 G - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 441 2.28281 4.22745 3.33956 3.10613 4.27416 2.98170 4.21115 3.66087 3.15553 3.39896 4.27149 3.29486 3.72917 3.48792 3.45439 1.06329 2.51444 3.15752 5.63798 4.38541 512 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 442 3.10839 4.44929 4.74516 4.26764 3.50761 4.39407 4.98100 1.05335 4.13062 1.99542 3.32952 4.48871 4.72988 4.40749 4.32615 3.79481 3.38339 1.53558 5.49251 4.28275 513 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 443 3.44397 4.80471 4.43367 4.17695 0.80497 4.09677 3.94741 2.95219 4.08088 2.29035 3.66250 4.18172 4.55355 4.21014 4.16541 3.70536 3.74587 2.95301 4.15774 2.50833 514 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 444 2.96703 5.40634 1.07300 2.17200 4.66934 3.24031 3.82485 4.24581 2.85186 3.77305 4.66993 2.74954 3.87709 2.72687 3.41697 2.87411 3.27368 3.84567 5.90136 4.42171 515 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 445 2.98112 5.13616 3.36086 2.71601 4.51960 3.63837 2.97125 3.90136 1.77920 3.36277 4.21426 3.14513 4.00091 2.64696 1.41594 2.97535 3.15247 3.57900 5.42615 4.21999 516 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02718 4.01460 4.73695 0.61958 0.77255 0.48576 0.95510\n- 446 3.29073 4.65891 4.70054 4.19261 3.11367 4.46455 4.79061 1.96086 3.98187 0.87546 2.96858 4.46617 4.71294 4.21271 4.14083 3.85066 3.53421 2.19186 5.17087 3.99605 517 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01838 4.00580 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__EabAgaM.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__EabAgaM.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,902 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__EabAgaM\n-LENG 293\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 15:54:40 2023\n-NSEQ 81\n-EFFN 2.397766\n-CKSUM 3768374874\n-GA 20 20;\n-STATS LOCAL MSV -10.9091 0.70147\n-STATS LOCAL VITERBI -12.0223 0.70147\n-STATS LOCAL FORWARD -5.2114 0.70147\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63820 4.53879 3.05355 2.73889 2.93900 3.26602 3.85575 2.55691 2.63385 2.30946 3.60362 2.91585 3.70196 3.09832 3.05261 2.64995 2.85896 2.63024 4.54964 3.32254\n- 2.68623 4.42230 2.77525 2.73110 3.46347 2.40514 3.72500 3.29349 2.67735 2.69354 4.24667 2.90345 2.73745 3.18142 2.89799 2.37888 2.77525 2.98524 4.58482 3.61508\n- 0.08141 3.81137 2.88122 1.46920 0.26151 0.00000 *\n- 1 3.86641 5.31307 5.08127 4.81230 3.89705 4.55613 5.36318 3.17769 4.53785 2.42402 0.39600 4.97084 5.07687 4.88691 4.63157 4.26250 4.21876 3.26875 5.78639 4.60773 15 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01388 4.68033 5.40268 0.61958 0.77255 0.58847 0.81007\n- 2 3.53055 4.80296 5.47441 5.05705 4.12044 4.94443 5.80077 1.87846 4.94626 2.57794 3.90019 5.18724 5.29419 5.24031 5.11951 4.40417 3.82445 0.50351 6.20164 4.94936 16 V - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03936 4.68033 3.52959 0.61958 0.77255 0.58847 0.81007\n- 3 2.82711 4.60097 3.64469 3.11437 2.48277 3.74277 3.99440 3.17403 3.08056 2.85408 3.76087 3.50638 2.63921 3.38452 3.44144 1.40466 3.08409 2.93506 4.96903 3.05033 17 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01423 4.65521 5.37755 0.61958 0.77255 0.63331 0.75679\n- 4 3.71679 4.93360 5.68654 5.15299 3.61173 5.18922 5.64441 1.25005 5.04045 0.95786 3.36051 5.33233 5.31610 5.07213 5.08336 4.58999 3.94862 1.90847 5.78171 4.73685 18 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01423 4.65521 5.37755 0.61958 0.77255 0.63331 0.75679\n- 5 3.04212 5.54501 2.04121 1.02412 4.84937 3.27361 3.94380 3.31607 2.81863 3.83975 4.63456 3.02920 4.08291 3.07889 3.35443 2.97416 3.29937 3.91221 6.00339 4.55716 19 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03335 4.65521 3.75962 0.61958 0.77255 0.55394 0.85491\n- 6 2.35465 5.28359 2.52366 1.59386 4.16530 3.53153 3.74485 4.09772 2.46015 3.58356 4.33014 2.24641 3.94230 2.71630 2.93520 2.75047 2.90497 3.66796 5.72181 4.31087 20 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01414 4.66195 5.38430 0.61958 0.77255 0.56272 0.84318\n- 7 3.02278 5.33919 3.38772 2.75932 4.71125 3.76147 3.26456 3.51476 1.57893 3.11890 4.39530 3.24917 4.1'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01359 4.70085 5.42320 0.61958 0.77255 0.54050 0.87336\n- 286 2.76685 5.17721 2.95901 2.47148 4.48350 3.55516 3.43570 3.78435 2.21748 3.38073 4.22866 2.64293 2.08211 2.78506 2.92707 2.05650 2.99786 3.54695 4.51929 4.24823 316 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03734 4.70085 3.59131 0.61958 0.77255 0.54050 0.87336\n- 287 2.53015 5.17727 3.04131 2.39766 4.03522 3.54368 3.73418 3.78738 1.59326 3.46719 4.22745 2.70093 3.34204 2.69817 2.72294 2.51491 2.92930 3.21466 5.63122 3.90010 317 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05086 4.67743 3.21177 0.61958 0.77255 0.58531 0.81404\n- 288 2.53789 5.20025 2.74902 1.88800 4.52389 2.97807 3.71350 3.38781 2.30820 3.37570 4.24661 2.88708 3.32547 2.65559 2.84304 2.55926 2.67550 3.24869 5.64597 3.75345 318 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02293 4.64101 4.34126 0.61958 0.77255 0.64934 0.73896\n- 289 2.57596 4.56626 3.15849 2.90491 2.78415 3.67858 3.72140 3.00779 2.36565 1.87485 3.33590 3.35048 3.71341 3.12169 3.06430 2.73004 2.76373 2.84991 5.13332 3.48873 319 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.16860 4.63264 1.92808 0.61958 0.77255 0.66318 0.72404\n- 290 2.68781 4.49322 3.12945 2.87829 3.44449 3.63383 3.87524 2.33677 2.40358 2.17760 3.37822 3.05722 4.01571 3.15980 3.22863 2.35538 2.77930 2.59235 5.06383 3.81331 320 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04884 4.48100 3.31482 0.61958 0.77255 0.87028 0.54272\n- 291 2.63795 5.16721 2.94441 2.09167 4.50022 3.32581 3.65324 3.67175 1.97376 3.46607 4.21198 2.43513 3.32498 2.62985 2.63855 2.40365 2.83833 3.55155 5.60599 4.20509 321 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08550 4.44967 2.65543 0.61958 0.77255 0.90490 0.51849\n- 292 2.60635 5.15359 2.40698 2.27894 4.48445 3.23981 3.36341 3.67170 2.09537 3.45265 4.19888 2.56990 3.84057 2.63924 2.87301 2.22938 2.71510 3.53675 5.59416 4.19011 322 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09305 4.38289 2.57226 0.61958 0.77255 0.97171 0.47552\n- 293 2.63581 4.86175 2.93149 2.34458 3.96191 3.46120 3.66331 3.12337 2.19945 2.74944 3.93044 2.67087 3.55122 2.80789 2.81521 2.29462 2.78708 2.92500 5.35916 4.01830 323 k - - -\n- 2.68655 4.42265 2.77497 2.73109 3.46385 2.40532 3.72516 3.29336 2.67645 2.69388 4.24699 2.90288 2.73771 3.18158 2.89783 2.37881 2.77519 2.98551 4.58517 3.61543\n- 0.77864 0.61439 * 1.26530 0.33150 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__EcAgaN.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__EcAgaN.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1193 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__EcAgaN\n-LENG 390\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 15:57:10 2023\n-NSEQ 100\n-EFFN 0.509644\n-CKSUM 3178587628\n-GA 20 20;\n-STATS LOCAL MSV -11.4155 0.69941\n-STATS LOCAL VITERBI -12.4545 0.69941\n-STATS LOCAL FORWARD -5.4826 0.69941\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53762 4.30552 2.89590 2.72020 3.20515 2.99050 3.72575 2.72025 2.71687 2.36823 3.65727 3.13889 3.37470 3.12839 2.97662 2.66526 2.93702 2.54807 4.26935 3.41424\n- 2.68604 4.42238 2.77505 2.73114 3.46367 2.40513 3.72504 3.29350 2.67752 2.69349 4.24659 2.90358 2.73734 3.18153 2.89780 2.37892 2.77532 2.98531 4.58475 3.61516\n- 0.11413 2.69311 3.21429 1.99388 0.14637 0.00000 *\n- 1 2.95065 4.50334 4.02373 3.61561 3.19780 3.81614 4.35634 2.37101 3.38491 1.79632 1.42487 3.89600 4.27682 3.76851 3.59301 3.29714 3.25560 2.37428 5.03526 3.79478 22 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03218 3.84839 4.57073 0.61958 0.77255 0.51309 0.91290\n- 2 2.64338 4.29412 4.04412 3.69014 3.56768 3.65434 4.53102 2.03058 3.56490 2.24425 3.49492 3.88093 4.22428 3.92241 3.79463 3.11113 3.07896 1.13218 5.35263 4.08768 23 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03218 3.84839 4.57073 0.61958 0.77255 0.51309 0.91290\n- 3 2.30852 4.27023 3.05645 2.82077 4.11672 2.98274 3.99251 3.56949 2.89974 3.25251 4.13005 3.12374 1.70543 3.25065 3.23070 2.07952 2.75314 3.11450 5.45680 4.18154 24 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04237 3.84839 3.90370 0.61958 0.77255 0.51309 0.91290\n- 4 2.99416 4.36423 4.53032 4.02519 3.41244 4.25262 4.76774 1.36948 3.89612 1.90776 3.24281 4.28259 4.58459 4.17892 4.11748 3.62490 3.26118 1.38787 5.35149 4.14216 25 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03250 3.83852 4.56087 0.61958 0.77255 0.52157 0.90038\n- 5 2.80359 4.97358 2.45979 1.29444 4.25782 3.24774 3.76087 3.62907 2.60202 3.28988 4.25271 2.85708 3.83196 2.95848 3.01252 2.80023 3.10281 3.23767 5.53110 4.16985 26 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03250 3.83852 4.56087 0.61958 0.77255 0.52157 0.90038\n- 6 2.90876 5.01205 3.16980 2.64790 4.39374 3.52046 3.57782 3.78001 1.32622 3.27337 4.15451 3.07667 3.93291 2.68221 2.04226 2.91778 3.10604 3.46851 5.36622 4.15252 27 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03250 3.83852 4.56087 0.61958 0.77255 0.52157 0.90038\n- 7 2.83829 5.27155 1.97803 1.36433 4.57354 3.14283 3.69962 4.05090 2.66521 3.60565 4.46747 2.67319 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87409 4.59643 0.61958 0.77255 0.49025 0.94796\n- 383 2.39811 4.24578 3.45171 3.05251 3.78827 3.12982 4.03348 2.82615 2.91834 2.75114 3.59145 3.31982 3.81859 3.32180 3.21377 2.60257 1.51153 2.59415 5.26973 4.00716 417 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03135 3.87409 4.59643 0.61958 0.77255 0.49025 0.94796\n- 384 2.80589 4.40888 3.73411 3.37474 3.23940 3.75749 4.17991 2.32229 3.19352 1.93731 1.67704 3.69377 4.18989 3.56458 3.44747 3.12667 3.08783 2.29367 4.99334 3.72846 418 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03652 3.87409 4.19380 0.61958 0.77255 0.49025 0.94796\n- 385 2.61736 4.90214 2.43283 2.26233 4.15095 3.21536 3.43986 3.60679 2.43177 3.18349 3.99636 2.36360 3.76290 2.75142 2.91341 2.29696 2.86241 3.25861 5.39215 3.54869 419 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12365 3.86907 2.34930 0.61958 0.77255 0.49480 0.94082\n- 386 2.52926 4.33057 3.16549 2.52482 2.67537 3.21688 3.69081 2.84214 2.64536 2.48557 3.43400 3.14014 3.84623 2.99458 3.03699 2.70719 2.76420 2.58931 4.62366 3.54695 420 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10914 3.77992 2.51859 0.61958 0.77255 0.56891 0.83504\n- 387 2.76262 4.82427 3.12074 2.59923 4.17874 3.43447 3.55760 3.53626 1.61137 3.10099 3.98815 3.02969 3.85893 2.71893 2.05451 2.80297 2.93883 3.16741 5.26788 4.03436 421 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03712 3.70790 4.43024 0.61958 0.77255 0.62077 0.77118\n- 388 2.61168 4.70587 2.84614 2.46370 4.10144 3.28300 3.60863 3.50293 1.79503 3.04811 3.96532 2.87070 3.35451 2.78357 2.54612 2.55575 2.88225 3.17038 5.29810 4.00951 422 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04170 3.70790 4.11572 0.61958 0.77255 0.62077 0.77118\n- 389 2.59324 4.72714 2.81842 2.37722 4.04515 3.05686 3.57931 3.44516 2.10529 3.04159 3.88020 2.89186 3.53044 2.62048 2.56066 2.56613 2.66481 3.12365 5.26645 3.96760 423 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05979 3.70348 3.39923 0.61958 0.77255 0.62374 0.76773\n- 390 2.54066 4.63173 2.70864 2.04267 3.96280 3.05155 3.58159 3.29318 2.43915 2.99888 3.85171 2.81232 3.73666 2.81535 2.84657 2.54428 2.74220 2.88063 5.25572 3.93971 424 e - - -\n- 2.68618 4.42225 2.77519 2.73124 3.46354 2.40513 3.72493 3.29353 2.67740 2.69354 4.24690 2.90345 2.73740 3.18147 2.89801 2.37887 2.77520 2.98519 4.58477 3.61500\n- 0.03768 3.29735 * 0.69130 0.69499 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__GbbAgaS.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__GbbAgaS.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1094 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__GbbAgaS\n-LENG 357\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Wed Mar 15 15:54:52 2023\n-NSEQ 100\n-EFFN 1.150513\n-CKSUM 2481893082\n-GA 20 20;\n-STATS LOCAL MSV -11.4882 0.69998\n-STATS LOCAL VITERBI -12.1582 0.69998\n-STATS LOCAL FORWARD -5.7839 0.69998\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63087 4.51813 2.95280 2.58875 3.10546 3.03521 3.68754 2.73298 2.60564 2.37689 3.61697 2.99959 3.61331 3.04591 3.01536 2.66633 2.93536 2.71945 4.32407 3.26610\n- 2.68619 4.42226 2.77521 2.73125 3.46355 2.40514 3.72496 3.29355 2.67742 2.69354 4.24663 2.90348 2.73737 3.18148 2.89802 2.37886 2.77521 2.98509 4.58478 3.61504\n- 0.14282 2.82104 2.60980 0.80217 0.59485 0.00000 *\n- 1 2.92081 4.48030 3.98147 3.57132 3.18281 3.78640 4.32133 2.35215 3.34241 1.78831 1.50625 3.85633 4.24774 3.72920 3.55500 3.26268 3.22544 2.35053 5.01437 3.76979 5 m - - -\n- 2.68615 4.42255 2.77532 2.73110 3.46300 2.40538 3.72518 3.29331 2.67704 2.69350 4.24668 2.90316 2.73751 3.18159 2.89824 2.37896 2.77521 2.98526 4.58504 3.61510\n- 0.36370 1.80341 1.96493 2.62777 0.07498 0.53267 0.88439\n- 2 2.38213 4.60910 2.62408 2.23547 4.05050 3.16391 3.65340 3.44625 2.42569 3.08017 3.93033 2.67124 3.60051 2.84511 2.88329 2.26278 2.74463 3.10049 5.32880 4.01601 208 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03858 3.67000 4.39235 0.61958 0.77255 0.57971 0.82112\n- 3 2.34481 4.58326 2.87500 2.45229 3.86127 3.32441 3.60441 3.14971 2.25221 2.88807 3.73299 2.83929 3.63089 2.78934 2.71638 2.59629 2.66205 2.88359 5.16086 3.86483 209 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03688 3.71434 4.43668 0.61958 0.77255 0.45687 1.00311\n- 4 2.58742 4.27181 3.34212 2.90057 3.32000 3.58120 3.74053 2.66815 2.89935 2.44959 2.12067 3.34394 3.83831 3.19757 3.18304 2.83171 2.55008 2.50821 4.85692 3.30511 210 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02376 4.14734 4.86969 0.61958 0.77255 0.51321 0.91272\n- 5 2.56665 4.79339 2.98238 2.17052 4.02582 3.33379 3.52237 3.36118 2.40848 2.91565 3.22421 2.84828 3.75095 2.76796 2.88986 2.34892 2.64557 2.93360 5.30003 3.72769 211 e - - -\n- 2.68618 4.42225 2.77520 2.73123 3.46354 2.40513 3.72495 3.29354 2.67741 2.69353 4.24679 2.90347 2.73740 3.18146 2.89801 2.37887 2.77520 2.98518 4.58477 3.61503\n- 0.04045 3.42922 4.92943 0.53572 0.88008 0.46897 0.98255\n- 6 2.59949 4.08823 4.25151 3.66164 2.19545 3.78634 4.10417 1.97108 3.52111 2.00342 3.06209 3.70097 4.14982 3.72065 3.66014 2.85081 2.79591 2.11586 4.72068 3.53184 213 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02153 4.24498 4.96733 0.61958 0.77255 0.48576 0.95510\n- 7 2.66276 5.14541 2.92889 2.34449 4.49318 3.24584 3.63507 3.93367 1.62224 3.42311 4.20151 2.91927 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02130 4.25534 4.97768 0.61958 0.77255 0.49577 0.93931\n- 350 2.61565 5.09437 2.43435 1.97991 4.41488 3.35865 3.61089 3.79176 2.33893 3.38948 4.04895 2.76881 3.05191 2.68503 2.78393 2.36621 2.76474 3.37145 5.54244 4.14472 660 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02130 4.25534 4.97768 0.61958 0.77255 0.49577 0.93931\n- 351 2.53651 5.14240 2.32646 1.82931 4.46561 3.40384 3.62690 3.85491 2.32467 3.43882 4.19340 2.71807 3.38437 2.65727 2.88518 2.49570 2.84092 3.39374 5.58705 4.18032 661 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04186 4.25534 3.61920 0.61958 0.77255 0.49577 0.93931\n- 352 2.53442 5.08747 2.20838 2.10615 4.40246 3.10075 3.61376 3.86990 2.35202 3.10226 4.01703 2.67113 3.67156 2.63610 2.86176 2.46242 2.84205 3.41269 5.53849 4.14199 662 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08185 4.23522 2.74703 0.61958 0.77255 0.52183 0.90001\n- 353 2.37068 4.69626 2.81651 2.45272 3.90989 3.32422 3.67433 3.20776 2.50776 2.64534 3.68217 2.91229 3.10422 2.85103 2.95662 2.48622 2.72225 2.67658 5.22303 3.91234 663 a - - -\n- 2.68620 4.42227 2.77515 2.73119 3.46355 2.40510 3.72496 3.29356 2.67742 2.69354 4.24691 2.90348 2.73741 3.18148 2.89802 2.37885 2.77521 2.98520 4.58478 3.61499\n- 0.27845 2.67270 1.74884 0.61078 0.78291 0.47669 0.96979\n- 354 2.58873 4.54215 3.06083 2.59393 3.74655 3.46302 3.71813 2.95687 2.54392 2.65542 3.57299 3.09578 2.16888 2.93694 2.99042 2.67508 2.82931 2.71599 5.11489 3.83391 668 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02584 4.06442 4.78676 0.61958 0.77255 0.42767 1.05562\n- 355 3.15554 4.57620 4.38459 3.93348 1.33268 4.14453 3.98573 2.40488 3.77973 1.82852 3.06783 4.05317 4.48456 3.95281 3.93657 3.50925 3.41226 2.47469 4.27308 2.68545 669 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.15326 3.90507 2.10411 0.61958 0.77255 0.53235 0.88485\n- 356 2.43502 4.73050 2.48809 2.16945 4.00995 3.26699 3.59631 3.41228 2.43755 2.90594 3.87022 2.82832 3.52986 2.73099 2.89444 2.46892 2.81341 3.01921 5.28913 3.95116 670 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90344 2.73740 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04907 3.32426 4.43255 0.58297 0.81698 0.47653 0.97004\n- 357 2.53570 4.50084 2.94512 2.28626 3.71165 3.36921 3.64934 2.95827 2.49607 2.48582 3.62416 2.99918 3.59521 2.86529 2.89591 2.59616 2.78160 2.63746 5.07933 3.79063 672 e - - -\n- 2.68608 4.42241 2.77512 2.73105 3.46367 2.40509 3.72513 3.29354 2.67751 2.69357 4.24709 2.90346 2.73731 3.18140 2.89810 2.37881 2.77523 2.98514 4.58506 3.61533\n- 0.25186 1.50217 * 2.15344 0.12339 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__SIR2APAZ.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__SIR2APAZ.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1760 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__SIR2APAZ\n-LENG 579\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 11:11:32 2023\n-NSEQ 27\n-EFFN 1.413940\n-CKSUM 742517054\n-GA 20 20;\n-STATS LOCAL MSV -11.9432 0.69736\n-STATS LOCAL VITERBI -12.9143 0.69736\n-STATS LOCAL FORWARD -6.2832 0.69736\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.41963 4.46823 2.90173 2.63967 3.27961 2.90159 3.72527 2.92602 2.71160 2.43304 3.70568 3.10698 3.35758 3.04947 2.82323 2.65431 2.84694 2.69704 4.24077 3.58768\n- 2.68476 4.42260 2.77525 2.73121 3.46325 2.40556 3.72644 3.29247 2.67855 2.69284 4.24323 2.90492 2.73815 3.18159 2.89705 2.37924 2.77537 2.98443 4.58202 3.61597\n- 0.52631 1.59447 1.57890 3.99092 0.01866 0.00000 *\n- 1 2.49593 4.14168 3.92489 3.34594 3.20624 3.70315 3.99404 2.16451 3.24368 1.99081 2.41656 3.61849 3.28662 3.49122 3.47470 2.98200 2.85531 2.32739 4.74724 3.13729 508 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06072 4.10893 3.15852 0.61958 0.77255 0.70515 0.68128\n- 2 2.64197 5.03038 2.56488 2.31047 4.33809 3.36192 3.61060 3.79332 2.18939 3.32591 4.10581 2.65812 2.61289 2.58846 2.86752 2.42413 2.70374 3.40591 5.50355 4.11811 509 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06141 4.07380 3.15717 0.61958 0.77255 0.73671 0.65141\n- 3 2.50154 4.69503 3.01433 2.13862 3.45421 3.42230 3.32312 3.31541 2.45685 2.75210 3.77475 2.97731 3.47112 2.70062 2.90417 2.63850 2.49198 3.01537 5.21289 3.89720 510 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02652 4.03892 4.76127 0.61958 0.77255 0.46773 0.98462\n- 4 2.84680 4.26879 4.37030 3.27446 3.26659 4.01391 4.33794 1.81171 3.66852 1.67695 2.34979 4.00611 4.34412 3.87680 3.84021 3.31547 3.07909 1.88777 4.94761 3.78177 511 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02208 4.21981 4.94216 0.61958 0.77255 0.58983 0.80839\n- 5 2.47904 4.98595 2.10382 2.37853 4.29593 3.22057 3.63981 3.40525 2.41583 3.29167 4.07221 2.73796 3.82038 2.76360 2.75367 2.25638 2.73583 3.36468 5.48202 4.10761 512 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02208 4.21981 4.94216 0.61958 0.77255 0.58983 0.80839\n- 6 2.24245 4.82563 3.01837 2.48091 4.14654 2.81144 3.67921 3.56827 2.45765 3.15963 3.96598 2.99083 3.83893 2.13404 2.71730 2.46114 2.75746 2.99795 5.38714 4.05173 513 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02208 4.21981 4.94216 0.61958 0.77255 0.58983 0.80839\n- 7 2.31227 5.06249 2.26350 2.34815 4.39014 2.59269 3.63877 3.85172 2.41076 3.37549 4.14515 2.89108 3.'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39327 5.11561 0.61958 0.77255 0.48576 0.95510\n- 572 3.58769 4.88975 4.76652 4.35909 1.00649 4.45770 3.05194 3.43458 4.19167 2.92536 4.03999 4.20088 4.77574 4.22253 3.43064 3.78837 3.80663 3.28361 2.28480 1.92434 1153 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39327 5.11561 0.61958 0.77255 0.48576 0.95510\n- 573 2.21626 4.40284 3.74345 3.56556 4.70207 3.15633 4.63895 4.12819 3.66070 3.85508 4.69611 3.62916 3.95288 3.94049 3.92371 0.65791 2.98955 3.50935 6.05476 4.84292 1154 S - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39327 5.11561 0.61958 0.77255 0.48576 0.95510\n- 574 2.69440 4.92144 3.08202 2.51616 4.17653 2.84310 3.69552 3.59516 2.18532 3.18154 3.56928 2.90958 3.89905 2.50524 2.15436 2.71889 2.92227 3.07565 3.34886 4.07278 1155 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39327 5.11561 0.61958 0.77255 0.48576 0.95510\n- 575 2.60559 4.90655 3.18112 2.60249 4.16466 3.56103 3.72432 3.28368 2.20782 2.79793 3.98536 3.10113 2.56202 2.87731 1.85460 2.78618 2.97079 3.24812 5.38974 4.08576 1156 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39327 5.11561 0.61958 0.77255 0.48576 0.95510\n- 576 2.03976 4.62546 3.25151 2.69631 3.83953 2.80155 3.50773 3.22493 2.67075 2.62087 3.74502 3.17092 3.93919 3.00947 2.89097 2.17802 2.89745 2.57252 5.19961 3.91737 1157 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01853 4.39327 5.11561 0.61958 0.77255 0.48576 0.95510\n- 577 2.54035 5.02359 2.99677 2.43901 4.31148 2.74417 2.57916 3.75446 2.32887 3.10439 4.08203 2.97218 3.48577 2.55488 2.42224 2.67383 2.76440 3.20039 5.49081 4.12462 1158 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12261 4.39327 2.27275 0.61958 0.77255 0.48576 0.95510\n- 578 2.49043 4.98440 2.50321 2.25927 4.27793 3.38914 3.18744 3.72898 2.35443 3.26754 4.04164 2.88005 3.46652 2.60384 2.67728 2.31615 2.84001 2.95667 5.44976 4.07167 1159 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20847 4.11927 1.76072 0.61958 0.77255 0.62478 0.76653\n- 579 2.45289 4.70106 2.92089 2.49116 3.98239 3.35877 2.40275 3.40184 2.20495 3.02168 3.87621 2.97138 3.81389 2.82252 2.69712 2.68246 2.62111 3.09382 5.24576 3.94245 1160 k - - -\n- 2.68636 4.42252 2.77511 2.73150 3.46271 2.40519 3.72471 3.29381 2.67753 2.69364 4.24716 2.90363 2.73748 3.18100 2.89745 2.37896 2.77530 2.98533 4.58503 3.61427\n- 0.33312 1.26120 * 1.79120 0.18243 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__TIRAPAZ.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__TIRAPAZ.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1424 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__TIRAPAZ\n-LENG 467\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 11:11:25 2023\n-NSEQ 15\n-EFFN 1.871338\n-CKSUM 551579659\n-GA 20 20;\n-STATS LOCAL MSV -11.6507 0.69837\n-STATS LOCAL VITERBI -12.4213 0.69837\n-STATS LOCAL FORWARD -6.2852 0.69837\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53281 4.53238 2.88059 2.58226 3.20254 3.04162 3.67345 2.86585 2.62926 2.49527 3.65615 3.03520 3.33737 3.04019 2.86717 2.63782 2.89261 2.72428 3.98307 3.59442\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11626 4.57839 2.30774 0.61958 0.77255 0.00000 *\n- 1 3.58782 5.05772 4.78948 4.47335 3.65505 4.34774 5.06846 2.90299 4.20389 2.18976 0.55838 4.66336 4.84561 4.56028 4.32827 3.97960 3.92367 2.97407 5.54678 4.35132 1 M - - -\n- 2.68260 4.42463 2.77524 2.73065 3.46250 2.40677 3.72507 3.28972 2.67929 2.69154 4.24871 2.90541 2.73741 3.18250 2.89622 2.37939 2.77620 2.98576 4.58539 3.61715\n- 0.84012 0.98011 1.64471 3.80737 0.02246 0.64686 0.74168\n- 2 2.63709 4.89234 2.42656 2.27806 4.15313 3.44648 3.65923 3.10359 2.44906 3.16441 3.96612 2.96741 3.25513 2.79858 2.92011 2.23425 2.63159 2.84147 5.39113 4.04208 209 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09075 4.27141 2.62010 0.61958 0.77255 0.88384 0.53306\n- 3 2.78264 5.27289 2.10503 2.04846 4.58847 3.37488 3.69230 4.06943 2.02732 3.56535 4.34496 2.84225 2.31687 2.81713 3.00674 2.72560 3.02922 3.65193 5.71626 4.29164 210 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02246 4.20311 4.92546 0.61958 0.77255 0.94242 0.49378\n- 4 1.19146 4.30697 3.51156 3.16481 4.35119 3.08877 4.24583 3.75304 3.20316 3.43741 4.26313 3.37197 2.32448 3.49903 3.54332 2.09927 2.81704 3.24211 5.69005 4.46479 211 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02246 4.20311 4.92546 0.61958 0.77255 0.94242 0.49378\n- 5 2.23118 5.15770 2.43336 1.91010 4.48078 3.37581 3.66093 3.95405 2.46298 3.46497 4.23639 2.53817 3.08830 2.78090 2.96863 2.38376 2.95105 3.54300 5.62694 4.21583 212 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02246 4.20311 4.92546 0.61958 0.77255 0.94242 0.49378\n- 6 2.59518 4.35732 3.53269 2.99245 3.60301 3.52326 3.93988 2.48616 2.92875 2.36868 3.55350 3.36989 3.97628 3.25173 3.27701 2.01017 2.03450 2.58307 5.06209 3.82282 213 s - - -\n- 2.68591 4.42253 2.77527 2.73094 3.46382 2.40541 3.72522 3.29382 2.67750 2.69343 4.24718 2.90375 2.73650 3.18110 2.89829 2.37872 2.77528 2.98546 4.58505 3.61531\n- 0.36278 1.21403 4.92546 1.51819 0.24732 0.47415 0.97396\n- 7 2.26936 4.88305 3.08637 2.34113 4.12109 3.51660 3.72032 3.53715 2.51835 3.14117 2.95930 3.04844 2.7'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01538 4.57839 5.30074 0.61958 0.77255 0.48576 0.95510\n- 460 3.17219 5.77016 1.58655 1.10603 5.07977 3.52499 4.01535 4.59606 2.98273 4.07535 4.89328 2.98123 4.11536 3.16493 3.56780 3.06422 2.66307 4.15073 6.22594 4.72292 720 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01538 4.57839 5.30074 0.61958 0.77255 0.48576 0.95510\n- 461 2.24682 4.60430 2.71681 2.58310 3.18107 3.07971 3.87167 3.14467 2.79504 2.20705 3.69829 3.28235 4.02341 3.12011 3.20236 2.61561 2.95278 2.41716 5.16303 3.35688 721 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01538 4.57839 5.30074 0.61958 0.77255 0.48576 0.95510\n- 462 2.97310 5.50839 1.91436 1.37733 4.84163 2.54994 3.88176 4.34168 2.74178 3.82351 4.60110 2.97818 4.02413 3.00877 3.27923 2.56180 2.77211 3.90239 5.96842 4.51559 722 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01538 4.57839 5.30074 0.61958 0.77255 0.48576 0.95510\n- 463 2.14946 5.38499 2.42412 1.39231 4.73838 3.50870 3.86144 4.22147 2.69954 3.72498 4.50311 2.99712 4.00481 2.98814 3.22000 2.05829 3.17217 3.79545 5.88206 4.45312 723 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10337 4.57839 2.43114 0.61958 0.77255 0.48576 0.95510\n- 464 2.35477 5.14232 2.28261 2.23526 4.45472 3.48316 3.68310 3.91868 2.26231 2.69957 4.19318 2.96347 3.88274 2.37095 2.92181 2.68709 2.51930 3.51541 5.59428 4.20240 724 e - - -\n- 2.68607 4.42274 2.77526 2.73009 3.46403 2.40429 3.72544 3.29369 2.67790 2.69327 4.24642 2.90373 2.73727 3.18195 2.89825 2.37922 2.77546 2.98515 4.58526 3.61552\n- 0.97425 0.93994 1.46157 1.55787 0.23646 0.62851 0.76226\n- 465 2.92642 5.48175 1.64482 1.60571 4.80188 2.66525 3.80056 4.31132 2.73331 3.79651 4.60127 2.81050 3.91224 2.94427 3.30006 2.38575 3.19785 3.87312 5.95074 4.47135 735 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02174 4.23506 4.95740 0.61958 0.77255 0.51907 0.90405\n- 466 2.56667 5.51936 2.01866 1.70723 4.83680 2.83023 3.84281 4.34375 2.72679 3.82016 4.60467 1.78199 3.97872 2.97411 3.27620 2.87510 3.21634 3.90225 5.96421 4.49757 736 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01767 4.44077 5.16312 0.61958 0.77255 0.69911 0.68722\n- 467 2.51524 5.42633 1.75219 1.63692 4.74698 3.45556 3.78443 4.24447 2.32433 3.72019 4.48996 2.91364 3.94594 2.54827 3.13468 2.81415 3.13074 3.80681 5.85821 4.41330 737 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01193 4.43503 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__XAPAZ.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__XAPAZ.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1361 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__XAPAZ\n-LENG 446\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 11:11:12 2023\n-NSEQ 21\n-EFFN 3.453003\n-CKSUM 3538435091\n-GA 20 20;\n-STATS LOCAL MSV -11.5952 0.69862\n-STATS LOCAL VITERBI -12.3713 0.69862\n-STATS LOCAL FORWARD -6.2131 0.69862\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.63302 4.53970 2.82350 2.58207 3.08410 3.10673 3.64196 2.92728 2.56822 2.49157 3.83107 3.04971 3.42171 3.00185 2.85091 2.64411 2.80074 2.73903 4.33178 3.38373\n- 2.68684 4.42345 2.77616 2.72881 3.46418 2.40616 3.72542 3.29229 2.67775 2.69280 4.23865 2.90243 2.73830 3.18083 2.89714 2.38007 2.77579 2.98484 4.58597 3.61623\n- 0.39518 1.12919 5.76093 2.09860 0.13082 0.00000 *\n- 1 2.58778 4.41597 4.51173 3.92434 3.52910 4.08042 4.40414 2.44020 3.15957 2.59570 1.27018 4.09913 4.45196 3.99937 3.93805 2.95161 3.19754 1.88368 5.05274 3.86412 14 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05855 5.03859 2.98804 0.61958 0.77255 0.48576 0.95510\n- 2 1.80893 5.01506 3.57803 3.08671 4.84745 2.59456 4.29208 4.30698 3.10702 3.87675 4.64735 2.66705 2.21937 3.43966 3.55552 1.43155 2.81214 3.80242 6.05816 4.73435 15 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01016 4.99020 5.71254 0.61958 0.77255 0.61542 0.77743\n- 3 3.91958 5.99427 4.55540 3.60845 5.64735 4.44546 4.17111 4.87804 0.79891 4.17397 5.06086 3.92821 4.74652 2.16618 1.47316 3.87694 4.00573 4.56526 6.10112 5.04355 16 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01016 4.99020 5.71254 0.61958 0.77255 0.61542 0.77743\n- 4 2.63886 4.67698 3.68153 3.11415 3.09728 3.84788 4.08858 1.72516 2.04878 2.58761 3.77643 3.54386 4.22855 2.98028 2.81219 3.08596 2.45714 2.95528 5.24913 4.00404 17 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11191 4.99020 2.31196 0.61958 0.77255 0.61542 0.77743\n- 5 2.61994 4.46828 4.66941 4.09484 3.65299 4.21717 4.59685 1.75940 3.94665 2.61841 3.61670 4.26205 4.58632 4.17916 3.06684 3.53028 2.78372 1.05707 5.23245 4.03912 18 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01124 4.88953 5.61188 0.61958 0.77255 0.58351 0.81631\n- 6 2.53029 3.68725 2.96318 2.73818 4.25974 2.49991 3.91768 3.67064 2.72994 2.87579 4.10631 2.82962 2.90650 3.07706 3.18839 1.96719 2.61428 2.70924 5.54265 4.21702 19 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01053 4.95438 5.67672 0.61958 0.77255 0.69820 0.68812\n- 7 2.41608 5.35177 2.46522 1.98690 4.68899 3.63481 3.25143 4.16945 2.56149 3.65359 4.39468 3.10524 4.02'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01111 4.90088 5.62322 0.61958 0.77255 0.80570 0.59199\n- 439 3.08988 5.63896 1.76674 2.32027 4.96751 2.52480 3.99890 4.46855 2.82966 3.94129 4.70705 3.12852 4.15810 1.74400 3.35764 1.94463 3.33919 4.02531 6.07716 4.62914 568 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01111 4.90088 5.62322 0.61958 0.77255 0.80570 0.59199\n- 440 2.83850 5.12881 2.66001 2.10311 4.39332 2.78178 3.84932 3.82616 2.62719 2.53905 3.32200 2.88019 2.94727 2.98094 3.10123 2.84909 2.42092 3.02580 5.61301 3.33511 569 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01111 4.90088 5.62322 0.61958 0.77255 0.80570 0.59199\n- 441 2.29856 5.23432 3.13319 2.26827 3.43647 3.16827 3.82189 3.99100 2.57677 3.52066 4.28714 2.76685 3.40680 2.65230 2.72603 2.11222 2.34833 3.03673 5.69473 4.31229 570 s - - -\n- 2.68538 4.42280 2.77483 2.72987 3.46409 2.40551 3.72550 3.29409 2.67796 2.69288 4.24643 2.90331 2.73741 3.18156 2.89856 2.37942 2.77575 2.98462 4.58532 3.61483\n- 0.82308 0.88811 1.90055 1.25473 0.33569 0.80570 0.59199\n- 442 2.34262 4.96908 3.18535 2.29476 3.45431 3.61371 3.81976 3.61884 2.62360 2.14144 4.04153 2.71629 4.00424 2.27225 3.08552 2.48678 2.70885 3.29926 5.47468 4.14244 581 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.18186 4.74320 1.84788 0.61958 0.77255 1.04512 0.43332\n- 443 2.49194 5.17669 2.93452 2.23433 4.50327 2.09131 3.76168 3.96267 2.53473 3.48973 4.26225 2.59037 3.94146 2.47800 3.02100 2.75942 2.16669 3.56567 5.66197 4.27353 582 g - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07359 4.57674 2.80243 0.61958 0.77255 0.63381 0.75623\n- 444 2.52908 4.44240 4.49714 3.94317 3.52119 4.04634 4.48044 2.27268 3.80553 0.97680 3.47671 4.11826 4.45341 4.03063 3.97260 2.58177 3.22305 2.50324 5.13220 3.95311 583 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01271 4.76731 5.48965 0.61958 0.77255 1.01423 0.45049\n- 445 4.33311 5.44747 5.54790 5.30278 0.56705 5.11481 4.06785 3.73178 5.08170 2.26538 4.26573 4.80898 5.36728 4.87967 4.96369 4.49744 4.54009 3.76480 2.58068 2.43878 584 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.20648 4.76731 1.72564 0.61958 0.77255 1.01423 0.45049\n- 446 2.93889 5.48299 1.69450 1.65550 4.81109 2.75424 3.84255 4.31307 2.70301 3.79202 4.56883 2.93746 2.93246 2.96905 3.24183 2.41664 3.19495 3.87266 5.93523 4.48008 585 e - - -\n- 2.68686 4.42319 2.77388 2.72851 3.46336 2.40548 3.72588 3.29353 2.67809 2.69321 4.24663 2.90344 2.73747 3.18097 2.89894 2.37946 2.77557 2.98557 4.58570 3.61466\n- 0.77405 0.61831 * 1.88512 0.16465 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_LongA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_LongA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2219 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__pAgo_LongA\n-LENG 732\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 17:12:22 2023\n-NSEQ 30\n-EFFN 5.211182\n-CKSUM 333642026\n-GA 40 40;\n-STATS LOCAL MSV -12.1072 0.69648\n-STATS LOCAL VITERBI -13.1216 0.69648\n-STATS LOCAL FORWARD -6.2382 0.69648\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59091 4.50450 2.90399 2.60828 3.33304 2.92233 3.67274 2.80324 2.60215 2.44636 3.77103 3.04647 3.26113 2.98224 2.88867 2.66690 2.85565 2.73133 4.80775 3.38802\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00685 5.38218 6.10453 0.61958 0.77255 0.00000 *\n- 1 5.04319 6.38585 6.16418 6.06815 5.06698 5.38637 6.51391 4.50726 5.86885 3.62709 0.10259 6.15763 5.98666 6.18008 5.85077 5.41963 5.45709 4.64799 6.81731 5.74941 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.07773 5.38218 2.65664 0.61958 0.77255 0.48576 0.95510\n- 2 2.38255 5.52221 2.92480 2.15838 4.86417 3.28001 3.98086 3.69844 2.28961 3.82625 4.56392 2.20220 3.49309 3.07833 3.20972 2.52646 1.76203 3.91123 5.95688 4.54763 2 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03966 5.31181 3.38293 0.61958 0.77255 0.49309 0.94351\n- 3 2.45794 5.46967 2.86711 2.42281 4.78823 3.13502 3.43295 4.25594 2.74461 2.32765 4.51738 2.24216 3.10114 2.84134 3.23259 2.37391 2.92389 2.63672 5.91855 3.75185 3 n - - -\n- 2.68297 4.43412 2.76641 2.71927 3.46449 2.40677 3.72854 3.29351 2.68558 2.69576 4.25471 2.90489 2.74018 3.18389 2.90160 2.37983 2.77125 2.98539 4.57900 3.61411\n- 0.80003 0.73794 2.62297 3.73621 0.02413 0.51683 0.90735\n- 4 3.05631 4.48935 4.69716 4.10166 2.73798 4.18573 2.27396 2.49373 3.95162 2.01395 3.60580 2.65998 4.55285 4.14148 4.07231 3.48162 2.01903 2.11950 5.10194 2.69362 184 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.08542 5.28373 2.56653 0.61958 0.77255 0.81322 0.58596\n- 5 2.63363 3.45608 4.93227 4.32019 1.87293 2.74386 4.51075 2.10446 4.11538 2.15106 3.51601 4.32655 4.54369 4.25543 4.14011 3.09807 2.84518 2.36429 5.01848 2.25397 185 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00818 5.20648 5.92883 0.61958 0.77255 0.99608 0.46096\n- 6 4.31493 5.51272 6.30810 5.72740 2.08409 5.72390 6.00733 1.89544 5.59276 0.61760 3.50352 5.90004 5.73842 5.42192 5.50834 5.12000 4.51734 2.48245 5.97934 5.00964 186 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00818 5.20648 5.92883 0.61958 0.77255 0.76212 0.62863\n- 7 2.22999 5.29272 3.34140 2.35989 4.56426 3.80604 4.00839 3.99830 2.78482 2.93843 3.49948 1.90165 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00714 5.34093 6.06327 0.61958 0.77255 0.64020 0.74905\n- 725 2.75229 4.91710 2.31832 2.12726 4.07727 3.20537 3.12820 2.41404 3.15645 2.13580 2.83608 3.63988 4.36833 3.47883 3.55732 3.21391 3.28984 2.23935 5.47950 4.21841 1204 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00714 5.34093 6.06327 0.61958 0.77255 0.64020 0.74905\n- 726 3.03429 5.53587 2.04283 1.49015 4.87691 2.59461 3.36125 4.36020 2.73319 3.31332 3.35271 3.27677 3.51849 3.09423 2.55193 2.72984 3.26556 3.92437 5.97085 4.56207 1205 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12175 5.34093 2.20876 0.61958 0.77255 0.64020 0.74905\n- 727 2.62431 5.48956 2.10026 2.03867 3.89247 3.75098 3.93887 4.32064 2.30041 3.79475 4.53034 2.39815 4.14513 2.77821 1.97456 2.94076 2.72143 3.88023 5.92206 4.51100 1206 r - - -\n- 2.68627 4.42234 2.77500 2.73045 3.46363 2.40522 3.72504 3.29363 2.67750 2.69333 4.24699 2.90356 2.73749 3.18156 2.89810 2.37896 2.77529 2.98528 4.58486 3.61513\n- 0.33370 1.65401 2.38111 0.11250 2.24052 0.27640 1.42092\n- 728 2.38843 3.32301 3.31281 2.47643 4.76262 2.13591 4.00028 4.22362 1.79520 3.18225 4.49968 3.29535 4.20474 3.10911 1.98778 2.72244 3.25713 3.82278 5.90027 4.51425 1208 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00743 5.30212 6.02446 0.61958 0.77255 0.76184 0.62887\n- 729 3.07918 4.53799 4.60600 4.01624 3.63234 3.30527 4.50088 2.00620 3.88462 1.46196 3.00505 4.19895 2.42660 2.27987 4.04389 3.48313 3.31128 2.41291 5.15199 3.96421 1209 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00743 5.30212 6.02446 0.61958 0.77255 0.76184 0.62887\n- 730 2.07906 4.49925 4.69812 4.10281 1.75555 2.79582 3.64122 2.42407 3.95422 2.69212 2.99347 4.23953 2.42994 4.14550 4.07754 3.48829 2.83849 2.46163 5.11493 3.29941 1210 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00743 5.30212 6.02446 0.61958 0.77255 0.76184 0.62887\n- 731 2.59885 4.93374 3.31264 4.30598 1.39928 4.52507 4.42961 3.41041 4.19169 3.08844 4.06006 4.42646 4.88410 4.36045 4.35258 3.13880 3.71934 3.22445 1.98550 1.61851 1211 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00743 5.30212 6.02446 0.61958 0.77255 0.52787 0.89125\n- 732 2.73351 4.50499 4.96877 4.36913 3.61270 4.28545 4.63465 2.00197 4.18489 1.13474 3.61870 4.41431 3.31218 4.34198 4.24035 2.92822 3.35325 1.79271 5.16238 3.98366 1212 l - - -\n- 2.68607 4.42249 2.77442 2.73050 3.46300 2.40537 3.72519 3.29378 2.67765 2.69379 4.24714 2.90329 2.73726 3.18171 2.89825 2.37911 2.77510 2.98543 4.58501 3.61527\n- 0.19774 1.71806 * 0.92832 0.50288 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_LongB.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_LongB.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2069 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__pAgo_LongB\n-LENG 682\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 17:12:27 2023\n-NSEQ 30\n-EFFN 3.050537\n-CKSUM 250215397\n-GA 50 50;\n-STATS LOCAL MSV -11.9674 0.69673\n-STATS LOCAL VITERBI -13.2567 0.69673\n-STATS LOCAL FORWARD -6.2739 0.69673\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.62660 4.63872 2.98892 2.62172 3.11266 3.03046 3.69085 2.79661 2.53114 2.45637 3.76164 2.95676 3.34301 3.00248 2.98447 2.63462 2.84942 2.72736 4.58790 3.35392\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.05778 4.94003 3.01611 0.61958 0.77255 0.00000 *\n- 1 4.19649 5.61718 5.40627 5.19186 4.20406 4.79486 5.70104 3.52556 4.92345 2.73051 0.26836 5.32026 5.34171 5.26310 4.98363 4.59144 4.56803 3.63595 6.07465 4.91941 1 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.24832 4.89345 1.54930 0.61958 0.77255 0.59988 0.79602\n- 2 2.25032 5.23974 2.79488 2.45657 4.57368 3.16006 3.72862 4.05057 2.27975 3.54237 4.28915 2.59533 3.92944 2.08158 2.96469 2.09683 2.71761 3.62563 5.68434 4.28053 2 q - - -\n- 2.68541 4.42346 2.77530 2.73070 3.46309 2.40578 3.72577 3.29302 2.67714 2.69293 4.24460 2.90315 2.73808 3.18107 2.89732 2.37966 2.77581 2.98537 4.58508 3.61556\n- 0.84647 1.02429 1.55105 2.34988 0.10024 0.36593 1.18270\n- 3 2.37169 5.24961 3.02992 2.09410 4.58178 3.55047 3.73951 4.05696 2.29222 3.54868 4.29513 3.02387 2.63267 2.22254 2.74421 2.53051 2.40564 3.63361 5.68993 4.28923 101 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71417 5.43652 0.61958 0.77255 0.91552 0.51134\n- 4 2.77203 5.25631 3.02457 2.23977 4.59102 2.63389 3.17191 4.06910 2.08926 3.23795 4.30014 2.30028 3.94131 2.45102 2.96210 2.31594 3.00314 3.30469 5.69463 4.29087 102 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01341 4.71417 5.43652 0.61958 0.77255 0.50584 0.92381\n- 5 2.93766 4.33523 4.71239 4.11053 2.99914 4.09412 2.94354 2.20514 3.93718 1.11624 2.97091 4.19150 4.44534 4.09240 4.00908 3.39956 2.80438 2.35269 4.94365 3.77378 103 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01168 4.85135 5.57369 0.61958 0.77255 0.56703 0.83749\n- 6 2.13739 3.16687 3.98319 3.40827 2.34082 3.88607 3.51811 2.70723 2.67060 2.19706 3.54163 3.73429 4.26062 3.20190 3.10080 2.91302 2.70229 2.51360 5.03048 3.40692 104 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01131 4.88366 5.60601 0.61958 0.77255 0.62166 0.77014\n- 7 2.88598 4.30220 4.59824 4.00167 2.08224 4.02461 4.33541 2.71328 3.83766 1.30581 3.39552 4.10105 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 675 2.45248 4.67036 3.61914 2.74889 3.82133 2.12990 4.05263 2.00581 3.02154 2.26930 3.26195 3.04364 4.19290 3.01612 3.40610 2.74104 3.09692 2.95184 5.24084 3.99044 999 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 676 2.86442 5.23073 3.17588 2.61722 3.62668 2.31702 3.84901 3.40589 1.62792 3.51149 3.58304 2.59516 4.05126 2.79272 2.41885 2.85616 3.09467 3.59327 5.69395 4.32193 1000 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 677 2.85135 5.33548 1.97417 2.23195 3.84636 3.31620 3.81749 4.14777 2.31159 3.16850 4.37905 2.51503 4.02248 2.72322 2.79423 2.46985 2.68069 3.72018 4.23754 3.70084 1001 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 678 2.55393 5.28643 3.16658 2.64490 4.67856 3.65144 3.90088 4.14215 1.84599 3.65534 4.41634 1.79083 4.07579 3.01291 3.11365 2.27306 2.14232 3.72390 5.81081 4.42761 1002 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 679 3.15066 5.25283 3.63239 3.00732 4.53618 3.93034 4.00467 3.91472 2.18918 1.51549 4.32866 3.47009 2.21723 2.84942 1.92109 3.19186 3.35421 3.61528 5.68062 4.42777 1003 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 680 5.45946 6.36448 5.87707 5.86930 4.41864 5.12064 5.67967 5.73752 5.72432 4.90672 6.28186 5.92018 5.72013 6.03218 5.63259 5.67189 5.82649 5.62373 0.08682 4.38869 1004 W - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 681 4.92194 6.01878 5.74553 5.71517 0.17806 5.15425 4.80583 4.48906 5.64405 3.64169 5.08772 5.39944 5.64664 5.55438 5.50995 5.06757 5.24925 4.53314 4.90804 3.21541 1005 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01069 4.94003 5.66238 0.61958 0.77255 0.48576 0.95510\n- 682 4.31824 5.48391 6.22548 5.68906 3.60189 5.76730 6.07676 1.94823 5.53755 0.40657 3.33631 5.94710 5.70898 5.36777 5.46944 5.22564 4.52305 2.88288 5.92880 4.98594 1006 L - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.00721 4.93655 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_S1A.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_S1A.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,3188 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__pAgo_S1A\n-LENG 1055\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 16:24:02 2023\n-NSEQ 46\n-EFFN 1.485229\n-CKSUM 1405391166\n-GA 220 220;\n-STATS LOCAL MSV -12.8510 0.69546\n-STATS LOCAL VITERBI -13.6775 0.69546\n-STATS LOCAL FORWARD -6.8765 0.69546\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.59736 4.40493 2.97264 2.65187 3.21694 3.01578 3.67246 2.74980 2.60016 2.45085 3.69280 3.00714 3.46666 3.01669 2.95629 2.62329 2.84814 2.70941 4.41638 3.29675\n- 2.68594 4.42249 2.77537 2.73128 3.46377 2.40536 3.72504 3.29340 2.67752 2.69347 4.24413 2.90341 2.73750 3.18152 2.89801 2.37902 2.77538 2.98493 4.58363 3.61509\n- 0.58562 1.64654 1.38420 1.63263 0.21743 0.00000 *\n- 1 2.49844 4.42025 3.06098 2.60057 3.59266 3.13380 3.72667 2.78964 2.65971 2.65236 2.48374 3.13857 3.61494 2.98465 3.05865 2.62401 2.79415 2.63042 4.99390 3.73264 24 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04526 4.01543 3.64149 0.61958 0.77255 0.64978 0.73849\n- 2 2.50005 4.47480 3.21959 2.50211 3.65072 3.48363 3.72155 2.89556 2.59149 2.62306 2.91831 3.12540 3.50852 2.96247 3.03593 2.46702 2.34222 2.76610 5.03773 3.76926 25 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02554 4.07619 4.79853 0.61958 0.77255 0.72780 0.65966\n- 3 2.69091 5.17254 2.24872 1.93396 4.48567 3.33825 3.62228 3.96442 2.30217 3.46394 4.23397 2.63928 3.79702 2.52200 2.92766 2.36433 2.67386 3.54825 5.61745 4.19887 26 e - - -\n- 2.68618 4.42228 2.77523 2.73117 3.46357 2.40508 3.72498 3.29341 2.67744 2.69358 4.24693 2.90333 2.73743 3.18149 2.89804 2.37890 2.77519 2.98521 4.58480 3.61506\n- 0.09377 2.51006 4.79853 0.84406 0.56205 0.52061 0.90180\n- 4 2.52888 4.83486 2.86386 2.32013 3.80563 3.43726 3.36996 3.49954 2.33183 3.09602 2.95081 2.49480 3.82842 2.78659 2.90126 2.50167 2.64896 3.06694 5.33320 3.99306 34 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02264 4.19532 4.91767 0.61958 0.77255 0.60993 0.78393\n- 5 2.60986 4.66714 3.02721 2.54951 3.58600 3.47513 3.68867 3.09844 2.46559 2.29492 3.74915 2.71755 3.63105 2.53498 2.77193 2.59709 2.84106 2.97839 5.19563 3.54634 35 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02264 4.19532 4.91767 0.61958 0.77255 0.60993 0.78393\n- 6 2.56147 4.53398 3.22294 2.66035 3.58922 3.51021 3.62482 2.47602 2.49636 2.66223 3.31630 2.94756 3.89478 2.54356 2.81463 2.65261 2.67581 2.82902 5.08459 3.51676 36 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02264 4.19532 4.91767 0.61958 0.77255 0.53122 0.88646\n- 7 3.52100 4.80547 5.18557 4.61365 3.14871 4.82160 5.11083 2.00443 4.46603 0.76791 2.35875 4.86733'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1048 2.25805 4.75694 3.14558 2.42630 4.01923 3.49903 3.75960 3.27205 2.58921 2.90267 3.88400 3.09597 2.99019 2.93400 3.03627 2.24139 2.07932 3.11111 5.32545 4.01409 1160 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1049 3.80319 5.08913 4.77685 4.45833 1.81335 4.55600 3.70964 3.64742 4.31663 3.04174 4.24630 4.25890 4.89373 4.32001 4.37550 3.29616 4.03799 3.52227 3.86519 0.69454 1161 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1050 3.66785 5.77704 0.38414 2.83480 5.25071 3.71292 4.53125 4.98363 3.73302 4.50230 5.52298 3.40738 4.40278 3.79181 4.29829 3.59027 4.02694 4.57412 6.29891 5.07551 1162 D - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1051 4.27839 5.33987 5.16648 4.99639 1.45734 4.86746 3.67481 3.89055 4.80593 3.11184 4.44795 4.46763 5.14792 4.59791 4.70841 4.26870 4.48808 3.83802 3.76813 0.66966 1163 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1052 3.72302 5.45743 4.27708 3.71335 4.95634 4.06293 4.36500 4.56728 2.65375 3.98507 4.99715 4.01817 4.56349 3.58219 0.40407 3.79887 3.96770 4.27358 5.83517 4.79952 1164 R - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1053 3.44099 4.76364 4.75741 4.31791 1.88335 4.38692 3.42232 3.20263 4.15402 1.45094 3.81331 4.20330 4.70716 4.19968 4.21385 3.71467 3.66302 3.08282 4.01042 1.34769 1165 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1054 3.83035 5.04816 5.03803 4.69787 0.76486 4.68614 3.82892 3.30171 4.51517 2.13283 3.89062 4.42239 4.96396 4.44877 4.50404 4.04712 4.04628 3.29552 3.96016 1.96321 1166 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01833 4.40408 5.12642 0.61958 0.77255 0.51728 0.90669\n- 1055 3.41795 4.70313 5.19131 4.66485 3.48193 4.76373 5.20760 0.90508 4.50522 1.88681 2.21908 4.85960 4.99219 4.66970 4.61798 4.14728 3.66140 2.03090 5.53265 4.41311 1167 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01238 4.39812 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_S1B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_S1B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1442 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__pAgo_S1B\n-LENG 473\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 16:24:07 2023\n-NSEQ 20\n-EFFN 0.932617\n-CKSUM 4105376304\n-GA 20 20;\n-STATS LOCAL MSV -11.5027 0.69829\n-STATS LOCAL VITERBI -12.7003 0.69829\n-STATS LOCAL FORWARD -6.1283 0.69829\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.47644 4.32567 2.97624 2.69727 3.23665 2.88437 3.66910 2.89028 2.68236 2.43121 3.59400 3.11758 3.25841 3.06867 2.90976 2.71038 2.87461 2.67266 4.27209 3.36281\n- 2.68620 4.42227 2.77522 2.73116 3.46356 2.40515 3.72497 3.29356 2.67743 2.69357 4.24647 2.90349 2.73742 3.18149 2.89803 2.37882 2.77522 2.98508 4.58479 3.61505\n- 0.18232 2.92655 2.17965 0.91075 0.51454 0.00000 *\n- 1 3.08519 4.61283 4.20340 3.80951 3.27658 3.94063 4.51205 2.46659 3.56924 1.85177 1.13117 4.06896 4.40378 3.94286 3.75758 3.44811 3.39420 2.48865 5.13506 3.90828 5 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02721 4.01369 4.73604 0.61958 0.77255 0.60237 0.79299\n- 2 2.33886 4.74784 2.59348 2.41957 4.18163 3.28399 3.68813 3.61174 2.51780 3.20431 4.01143 2.65067 3.40947 2.84207 2.98628 2.26888 2.20138 3.23539 5.42945 4.08556 6 t - - -\n- 2.68616 4.42229 2.77513 2.73127 3.46337 2.40517 3.72498 3.29358 2.67745 2.69349 4.24694 2.90337 2.73726 3.18150 2.89805 2.37891 2.77524 2.98522 4.58481 3.61507\n- 0.26630 2.02527 2.28445 0.75527 0.63466 0.60237 0.79299\n- 3 2.15995 4.76722 2.48133 2.36463 4.04569 3.09004 3.62763 3.46942 2.46418 3.07623 3.89771 2.73088 3.45583 2.78900 2.93316 2.60712 2.82717 3.13793 5.31912 3.39008 10 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09591 3.91602 2.63755 0.61958 0.77255 0.68588 0.70047\n- 4 2.57135 4.71639 2.95191 2.42511 3.96250 3.37955 3.59034 3.36861 2.20011 2.86046 3.47692 2.54634 3.48160 2.64894 2.76540 2.47571 2.80392 3.05750 5.22581 3.91141 11 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03205 3.85216 4.57450 0.61958 0.77255 0.58303 0.81691\n- 5 2.55981 4.28578 3.42896 2.86162 3.17688 3.53486 3.78964 2.62245 2.80049 2.23696 3.11021 3.26947 2.90562 3.11471 2.92671 2.78229 2.59899 2.52581 4.86829 3.63330 12 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02880 3.95768 4.68002 0.61958 0.77255 0.50448 0.92588\n- 6 2.36340 4.58564 3.09669 2.55759 3.81078 3.42753 3.68416 3.02201 2.53709 2.85645 3.70456 2.87619 3.83509 2.71596 2.96464 2.11353 2.55432 2.91746 5.15132 3.52923 13 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02618 4.05155 4.77389 0.61958 0.77255 0.56560 0.83938\n- 7 2.67821 5.04423 2.79203 1.79411 4.35253 3.38925 3.60652 3.79459 2.07140 3.32261 4.11265 2.87878 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 466 2.47563 4.36420 3.36957 2.81971 3.56880 3.48608 3.53963 2.76237 2.77698 2.63382 3.51765 3.23704 2.90828 3.09751 3.15028 2.40937 2.69122 2.08366 4.99033 3.74383 496 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 467 3.61679 5.00650 4.20619 3.98719 2.34579 4.12044 3.76009 3.59448 3.83828 2.98390 4.24516 4.03570 4.59139 4.08446 3.96928 3.72658 3.90622 3.47730 3.99672 0.64100 497 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 468 2.78891 5.25516 2.04597 2.12503 4.55823 3.33268 3.69587 4.03683 2.54725 3.54918 4.34603 2.80559 2.19114 2.29772 3.06190 2.73018 3.04310 3.63152 5.71594 4.28767 498 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 469 3.25588 4.61394 4.49845 4.05119 1.51842 4.20142 3.68868 2.94294 3.91140 2.43584 3.61146 4.01387 4.52951 3.99305 4.01537 3.52963 3.48468 2.38490 3.91392 1.42984 499 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 470 3.16695 5.18482 3.61404 2.96542 4.64007 3.73952 3.71942 4.01041 1.84240 3.46534 4.36842 3.33462 4.13345 2.86877 0.99730 3.18313 3.34374 3.70800 5.49593 4.34830 500 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 471 2.81693 4.32148 4.00706 3.46985 2.08618 3.83615 3.81798 2.72879 3.36228 1.65997 3.37820 3.02658 4.19615 3.58808 3.58283 3.12515 3.04774 2.56568 4.31885 2.46342 501 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 472 3.58457 4.91699 4.57333 4.34004 0.68461 4.20454 4.00929 3.08556 4.24276 2.40218 3.78334 4.30185 4.66222 4.34501 4.30204 3.83762 3.88815 3.09310 4.19769 2.53892 502 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02454 4.11539 4.83773 0.61958 0.77255 0.52880 0.88992\n- 473 3.21806 4.66796 4.50826 4.00595 3.16462 4.28072 4.63502 2.32346 3.75105 1.54451 1.24805 4.27975 4.60267 4.05584 3.93080 3.66773 3.47540 2.39602 5.13911 3.94106 503 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01659 4.10743 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_S2B.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_S2B.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1445 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__pAgo_S2B\n-LENG 474\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 10:43:58 2023\n-NSEQ 68\n-EFFN 1.656006\n-CKSUM 1076972254\n-GA 20 20;\n-STATS LOCAL MSV -11.5779 0.69830\n-STATS LOCAL VITERBI -12.4913 0.69830\n-STATS LOCAL FORWARD -5.8072 0.69830\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.53520 4.44556 3.00389 2.61821 3.31103 2.93885 3.69685 2.84404 2.62368 2.49628 3.66399 3.08573 3.21336 3.00148 2.87419 2.66998 2.79818 2.69870 4.51660 3.40953\n- 2.68643 4.42262 2.77522 2.73140 3.46383 2.40545 3.72517 3.29348 2.67765 2.69371 4.24211 2.90363 2.73719 3.18139 2.89768 2.37876 2.77482 2.98538 4.58514 3.61540\n- 0.52201 1.16683 2.35050 1.56136 0.23553 0.00000 *\n- 1 3.33515 4.66127 5.04189 4.46019 1.86385 4.56198 4.80029 2.29986 4.31744 1.48705 1.53025 4.62518 4.77130 4.36816 4.37605 3.89515 3.55245 2.41772 5.09376 3.94923 32 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35451 5.07686 0.61958 0.77255 0.61813 0.77425\n- 2 2.66412 5.18243 2.59451 2.11984 4.52118 3.44702 3.51641 3.99688 1.68939 3.47933 4.22863 2.84100 3.85121 2.66886 2.57064 2.59179 2.77686 3.57048 5.61208 4.21253 33 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35451 5.07686 0.61958 0.77255 0.61813 0.77425\n- 3 2.32359 3.95671 4.21354 3.62716 3.13686 3.79858 4.12111 2.11292 3.49914 1.72424 3.24702 3.80998 3.89856 3.71082 3.66120 3.00553 2.51160 2.02680 4.77329 3.58365 34 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35451 5.07686 0.61958 0.77255 0.61813 0.77425\n- 4 2.65673 5.08250 2.69668 2.12327 3.83484 3.44355 3.39345 3.70468 2.04771 3.29600 4.13225 2.92537 3.63674 2.68995 2.45656 2.63597 2.56212 3.20570 5.53533 4.14628 35 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35451 5.07686 0.61958 0.77255 0.61813 0.77425\n- 5 2.63953 3.63527 4.15646 3.11910 2.94309 3.75057 3.05291 2.21629 3.31494 2.14041 3.16379 3.75269 4.11934 3.64932 3.60077 3.03949 2.75975 1.94583 3.93213 3.05629 36 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01927 4.35451 5.07686 0.61958 0.77255 0.59463 0.80244\n- 6 3.50715 4.78349 5.31347 4.73000 2.41466 4.80641 5.08780 1.97634 4.59381 0.81127 2.80181 4.90766 4.94514 4.57476 4.61067 4.15972 3.71907 2.34196 5.27118 4.22920 37 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01908 4.36436 5.08670 0.61958 0.77255 0.60523 0.78954\n- 7 2.54093 5.16441 2.42362 2.00348 4.49910 3.10632 3.46411 3.97958 2.24656 3.46514 4.20889 2.69314 2'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 467 2.44202 5.15257 2.88949 2.30768 4.47732 3.47157 3.51133 3.94789 2.26993 3.19900 4.19945 2.79513 3.03733 1.97009 2.75335 2.43462 2.92579 3.53242 5.59645 4.19988 655 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 468 2.57511 4.83591 2.86841 2.55996 4.06708 3.10443 3.73789 3.14667 2.50269 2.97311 3.91669 2.90812 2.42810 2.89932 3.01013 2.51055 2.47000 2.73824 5.35395 4.02993 656 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 469 2.71825 5.20372 2.49168 2.40229 4.54382 3.33975 3.49336 4.02058 2.09505 3.50240 4.24875 2.90614 3.87639 2.37233 2.22763 2.12966 2.94864 3.59236 5.63458 4.23436 657 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 470 4.42521 5.42296 5.31194 5.17588 1.63919 4.97719 3.68844 4.05209 4.96317 3.24799 4.58280 4.53627 5.23783 4.68541 4.81649 4.36978 4.62172 3.98921 3.36839 0.57140 658 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 471 2.26460 4.75936 3.18174 2.62269 3.22635 3.34411 3.76392 3.36559 2.46176 3.00550 3.84405 3.12189 3.93946 2.94703 2.13993 2.20730 2.92229 3.07583 5.28649 3.32995 659 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 472 2.77815 4.01454 3.96481 3.39697 1.67787 3.81365 3.77143 2.79914 2.92951 2.51418 3.44175 3.67345 4.18427 3.54962 3.27457 2.96931 3.00919 2.59810 4.66335 2.14937 660 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 473 4.18649 5.32023 5.07429 4.82503 1.84644 4.83021 3.29815 3.92777 4.63679 2.96005 4.47788 4.42738 5.11560 4.52517 4.61227 4.20146 4.39351 3.83478 3.81508 0.57864 661 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01728 4.46288 5.18522 0.61958 0.77255 0.50160 0.93029\n- 474 2.96941 4.38876 4.51565 3.93408 3.33126 4.13001 4.45848 1.83256 3.77421 1.99198 1.45222 4.13813 4.45798 3.99405 3.65077 3.43865 3.03286 2.20913 5.04570 3.88958 662 m - - -\n- 2.68623 4.42203 2.77525 2.73123 3.46348 2.40506 3.72500 3.29350 2.67746 2.69350 4.24695 2.90352 2.73734 3.18151 2.89806 2.37888 2.77519 2.98510 4.58482 3.61508\n- 0.04234 3.18315 * 1.28690 0.32314 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_SPARTA.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/pAgo__pAgo_SPARTA.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,1550 +0,0 @@\n-HMMER3/f [3.3.2 | Nov 2020]\n-NAME pAgo__pAgo_SPARTA\n-LENG 509\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Tue Mar 14 10:43:31 2023\n-NSEQ 22\n-EFFN 1.044678\n-CKSUM 2649485004\n-GA 20 20;\n-STATS LOCAL MSV -11.7398 0.69793\n-STATS LOCAL VITERBI -12.6611 0.69793\n-STATS LOCAL FORWARD -6.2478 0.69793\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54657 4.32661 2.99753 2.64141 3.20734 2.86537 3.70998 2.83770 2.62034 2.49623 3.69169 3.08434 3.29272 3.04264 2.90467 2.73587 2.84526 2.63053 4.33129 3.40629\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10424 4.21393 2.47449 0.61958 0.77255 0.00000 *\n- 1 3.19611 4.70764 4.34189 3.96315 3.35115 4.03603 4.63797 2.55426 3.71479 1.91295 0.95248 4.20593 4.50486 4.08316 3.88775 3.56882 3.51016 2.58927 5.22208 4.00350 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.21982 4.13377 1.70753 0.61958 0.77255 0.58013 0.82059\n- 2 2.62331 4.71082 3.04443 2.40841 3.95254 3.43392 3.62466 2.79155 2.01645 2.96233 3.80474 2.99803 3.83179 2.79731 2.60909 2.32831 2.85126 3.04094 5.21709 3.92501 2 k - - -\n- 2.68613 4.42232 2.77527 2.73103 3.46318 2.40520 3.72502 3.29361 2.67741 2.69349 4.24697 2.90354 2.73727 3.18154 2.89800 2.37894 2.77527 2.98526 4.58484 3.61493\n- 0.25654 1.73650 2.99287 1.01192 0.45180 0.64785 0.74059\n- 3 2.65404 5.06508 2.54781 2.04098 4.36882 3.33580 3.59013 3.82673 2.26527 3.34798 4.13064 2.69247 3.77823 2.56426 2.64896 2.15090 2.89129 3.43619 5.51576 4.12668 7 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02842 3.97081 4.69315 0.61958 0.77255 0.57571 0.82623\n- 4 2.63096 4.15277 3.91493 3.33672 2.94542 3.70474 3.97221 2.41499 3.23756 1.90117 2.80877 3.61127 2.61984 3.48044 3.47032 2.98234 2.86192 2.36908 3.55888 3.47857 8 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02575 4.06814 4.79049 0.61958 0.77255 0.58357 0.81623\n- 5 2.51446 4.66176 3.08346 2.27827 3.87172 3.45359 3.66590 2.80711 2.49060 2.77872 3.74618 2.76236 3.84289 2.84879 2.56604 2.67011 2.51635 2.83033 5.19043 3.88775 9 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02484 4.10345 4.82580 0.61958 0.77255 0.61185 0.78165\n- 6 3.02391 4.39592 4.59553 4.04979 3.42777 4.27673 4.70512 1.85039 3.92949 1.49552 3.26488 4.28946 4.58886 4.16755 4.12579 3.61530 2.98263 1.33772 5.28104 4.11267 10 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02484 4.10345 4.82580 0.61958 0.77255 0.61185 0.78165\n- 7 2.58658 4.68657 2.72210 2.40897 3.53433 3.44143 3.20736 3.09531 2.22546 2.81347 3.50916 3.00081'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 502 2.62628 4.50984 3.29573 2.74420 3.70075 3.52020 3.78218 3.01027 2.35095 2.71272 2.97238 3.19336 2.26682 3.02310 3.01654 2.77302 2.86873 2.44243 5.09826 3.83735 563 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 503 2.81567 4.64861 3.46275 2.90075 3.70501 3.66044 3.81225 3.09150 2.46747 1.56004 3.64375 3.31609 4.04521 2.46729 2.45631 2.96369 3.03608 2.91030 5.11875 3.87078 564 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 504 2.43141 4.68557 2.95844 2.67855 4.26356 3.29421 3.91820 3.68037 2.70865 3.29902 4.17691 3.11599 1.45273 2.63538 3.07202 2.72357 2.98704 3.30651 5.55065 4.25065 565 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 505 3.63127 4.95462 4.61855 4.39319 0.64985 4.23969 4.03113 3.13055 4.29570 2.44034 3.82443 4.34131 4.69794 4.38931 4.34683 3.88128 3.93552 3.14018 4.21326 2.55180 566 F - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 506 3.17024 5.27955 3.59256 2.90188 4.76719 3.76281 3.68076 4.10493 1.05511 3.52096 4.39550 3.29189 4.12597 2.81307 1.73630 3.15856 3.32697 3.78477 5.53718 4.38803 567 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 507 2.82182 4.63335 3.96610 3.47394 1.84908 3.97664 2.07820 3.16394 3.38603 2.72259 3.75733 3.68339 4.33357 3.60763 3.64427 3.26506 3.31183 2.97962 4.01577 1.71814 568 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 508 3.66918 5.04547 4.25694 4.04577 2.36016 4.16047 3.78362 3.64320 3.89619 3.02370 4.29066 4.07951 4.63144 4.13395 4.01964 3.77488 3.95920 3.52776 4.01170 0.60747 569 Y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02375 4.14773 4.87008 0.61958 0.77255 0.56484 0.84037\n- 509 3.20313 4.50491 4.95378 4.47582 3.62042 4.56137 5.17736 0.95396 4.35267 2.08793 3.42025 4.67795 4.87154 4.61336 4.53505 3.96851 3.47417 1.47254 5.63583 4.43345 570 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01605 4.14003 * 0.61958 0.77255 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_II__rdrA_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_II__rdrA_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2708 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME radar_II__rdrA_II\n-LENG 895\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:49:00 2021\n-NSEQ 99\n-EFFN 0.824799\n-CKSUM 1089623610\n-GA 20 20;\n-STATS LOCAL MSV -12.8033 0.69588\n-STATS LOCAL VITERBI -13.5977 0.69588\n-STATS LOCAL FORWARD -6.7919 0.69588\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.54836 4.56034 2.92903 2.61899 3.27773 3.13552 3.68879 2.82430 2.61682 2.37173 3.69500 3.01115 3.33300 3.02082 2.91923 2.65090 2.87251 2.67864 4.35367 3.44378\n- 2.68623 4.42231 2.77520 2.73129 3.46356 2.40517 3.72491 3.29353 2.67737 2.69358 4.24561 2.90345 2.73745 3.18147 2.89802 2.37887 2.77516 2.98524 4.58483 3.61509\n- 0.42123 2.05113 1.53632 0.97902 0.47109 0.00000 *\n- 1 2.55055 4.35820 3.26745 2.72533 3.47442 3.46793 3.40414 2.86385 2.61978 2.56862 2.48743 3.15629 3.67945 2.89127 2.97350 2.57628 2.78486 2.64893 4.89549 3.50482 33 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03215 3.84913 4.57148 0.61958 0.77255 0.58284 0.81714\n- 2 2.57064 4.61846 3.02940 2.50559 3.84444 3.40517 3.49958 3.24062 2.41034 2.88123 3.16251 2.88288 3.81172 2.64593 2.85782 2.15184 2.66113 2.95165 5.15951 3.86320 34 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02968 3.92786 4.65020 0.61958 0.77255 0.47720 0.96896\n- 3 2.58615 4.80656 2.97222 2.31003 4.05489 3.41250 3.49533 3.47098 2.29074 3.03424 3.12778 2.93946 3.58744 2.28279 2.77520 2.45312 2.77526 3.12255 5.29848 3.96722 35 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02664 4.03451 4.75686 0.61958 0.77255 0.49677 0.93775\n- 4 2.55933 4.71864 3.02658 2.48113 3.95483 3.42633 3.64296 3.25506 2.30835 2.97943 3.56749 2.17048 3.82379 2.77384 2.87022 2.61464 2.50360 2.98782 5.24192 3.86588 36 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02598 4.05928 4.78163 0.61958 0.77255 0.51376 0.91190\n- 5 2.51129 4.83378 2.98745 2.43215 4.09529 3.42143 3.38968 3.44059 2.00717 2.93439 3.90884 2.73116 3.81371 2.75460 2.68575 2.51947 2.45900 3.18097 5.32172 3.99149 37 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02598 4.05928 4.78163 0.61958 0.77255 0.51376 0.91190\n- 6 2.68525 4.69943 3.22817 2.63354 3.92697 3.51979 3.62611 2.72168 2.14823 2.79343 3.78811 3.02702 3.89874 2.84873 1.96292 2.76686 2.73305 3.01978 5.19347 3.92854 38 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02598 4.05928 4.78163 0.61958 0.77255 0.51376 0.91190\n- 7 3.62782 4.91461 4.49495 4.16432 1.72001 4.35558 3.34717 3.45489 4.01653 2.80147 4.03193 4.01070 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06610 4.78844 0.61958 0.77255 0.50761 0.92114\n- 888 2.59452 4.93951 2.83755 1.99811 4.22514 3.38933 3.58151 3.66816 2.22105 3.13352 3.87986 2.70007 3.78233 2.45085 2.75924 2.59052 2.68564 3.25404 4.53997 4.04008 1062 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06610 4.78844 0.61958 0.77255 0.50761 0.92114\n- 889 2.62957 4.24387 3.68998 3.11195 3.31336 3.65070 3.78293 2.47413 2.63896 1.70226 2.84345 3.46120 4.01942 3.29974 3.25302 2.88469 2.85979 2.41042 4.82801 3.61478 1063 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06610 4.78844 0.61958 0.77255 0.50761 0.92114\n- 890 2.53662 4.72245 2.93427 2.40096 3.25803 3.42321 3.21726 3.26205 2.30699 2.85834 3.79794 2.82611 3.54285 2.66853 2.86767 2.52398 2.81097 3.04557 5.23552 3.44679 1064 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02580 4.06610 4.78844 0.61958 0.77255 0.49944 0.93362\n- 891 2.45665 4.75962 2.89696 2.40955 3.84734 3.25510 3.62329 3.29892 2.18350 2.87670 3.83491 2.87935 3.03129 2.77852 2.87003 2.54632 2.71637 2.91492 5.26864 3.93897 1065 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02568 4.07064 4.79299 0.61958 0.77255 0.50266 0.92867\n- 892 2.55515 4.99169 2.58339 1.88700 4.28760 3.13730 3.58701 3.50875 2.35507 3.27685 3.93494 2.74664 3.77945 2.64288 2.80279 2.47158 2.81487 3.29261 5.45731 4.07530 1066 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67740 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.09508 3.84539 2.66897 0.59937 0.79663 0.50266 0.92867\n- 893 2.61241 4.98513 2.77046 2.23618 4.28529 2.77220 3.57970 3.73431 2.27891 3.26970 4.04956 2.77712 3.30552 2.46129 2.56168 2.46393 2.78670 3.35382 5.44814 4.07356 1068 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.12506 4.00766 2.30883 0.61958 0.77255 0.56733 0.83710\n- 894 2.46578 4.82462 2.72678 2.19599 3.94796 3.23516 3.56721 3.36055 2.34905 3.06061 3.83963 2.75326 3.64695 2.64102 2.68829 2.50346 2.71271 3.12926 5.31370 3.96213 1069 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.11966 3.91274 2.37742 0.61958 0.77255 0.56558 0.83940\n- 895 2.52747 4.75001 2.92367 2.40920 4.03226 3.26990 3.59550 3.39240 2.13373 2.99253 3.86241 2.85845 3.19485 2.59434 2.77770 2.36412 2.80867 3.04357 5.27714 3.95406 1070 k - - -\n- 2.68624 4.42277 2.77503 2.73082 3.46394 2.40544 3.72527 3.29383 2.67735 2.69391 4.24742 2.90339 2.73693 3.17973 2.89840 2.37876 2.77530 2.98534 4.58529 3.61549\n- 0.27689 1.41940 * 2.50019 0.08563 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_II__rdrB_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_II__rdrB_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2738 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME radar_II__rdrB_II\n-LENG 905\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:49:00 2021\n-NSEQ 100\n-EFFN 0.680542\n-CKSUM 1748555358\n-GA 20 20;\n-STATS LOCAL MSV -12.9935 0.69585\n-STATS LOCAL VITERBI -13.8792 0.69585\n-STATS LOCAL FORWARD -6.7319 0.69585\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.52481 4.34847 2.91477 2.65161 3.26039 2.98146 3.55400 2.90569 2.74247 2.32595 3.62355 3.09740 3.36050 3.04059 2.81770 2.72187 2.90629 2.72894 4.04261 3.49532\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03592 3.99862 4.07822 0.61958 0.77255 0.00000 *\n- 1 3.06518 4.59609 4.17761 3.78124 3.26393 3.92286 4.48911 2.45151 3.54246 1.84198 1.16862 4.04377 4.38525 3.91724 3.73366 3.42603 3.37340 2.47104 5.11975 3.89127 1 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02785 3.99056 4.71291 0.61958 0.77255 0.49405 0.94200\n- 2 3.25341 4.67549 4.51315 4.06021 2.99489 4.30981 4.62412 2.21911 3.83530 0.84230 3.00481 4.32171 4.62621 4.10959 4.00368 3.72719 3.51655 2.31876 5.03259 3.74830 2 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02785 3.99056 4.71291 0.61958 0.77255 0.49405 0.94200\n- 3 2.63440 4.85216 2.94777 2.42456 4.10926 3.41565 3.47901 3.53120 2.22317 2.89542 3.92738 2.66763 3.81530 2.12942 2.71963 2.65524 2.60636 3.20186 5.32231 3.86666 3 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02785 3.99056 4.71291 0.61958 0.77255 0.49405 0.94200\n- 4 3.04266 4.99337 3.49090 2.94012 4.24748 3.60579 3.59151 3.85881 2.08981 3.33571 4.27590 3.31090 4.05590 2.93187 1.02631 3.09132 3.26871 3.56356 5.32476 4.09056 4 r - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02785 3.99056 4.71291 0.61958 0.77255 0.49405 0.94200\n- 5 2.46713 4.44816 3.13344 2.70759 3.96452 3.23815 3.83028 3.34338 2.67062 2.91499 3.87813 3.11152 3.79397 2.83950 3.04452 1.94873 1.92609 3.00070 5.30248 4.02559 5 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02785 3.99056 4.71291 0.61958 0.77255 0.49405 0.94200\n- 6 3.28948 4.71743 4.37869 4.02029 3.18386 4.13128 4.63905 2.39567 3.78687 0.74241 3.17213 4.28427 4.54712 4.12689 3.94313 3.71771 3.57880 2.46343 5.10474 3.85492 6 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02785 3.99056 4.71291 0.61958 0.77255 0.49405 0.94200\n- 7 2.27339 4.20755 3.38227 3.06725 4.16658 3.00486 4.13481 3.50449 3.07264 3.25160 4.11554 3.27633 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 898 3.14110 4.93370 3.25646 3.03052 3.37897 3.55923 0.90202 3.86350 2.87040 3.34100 4.39493 3.43417 4.11944 3.39881 3.12782 3.21106 3.44935 3.59630 4.84207 3.32658 986 h - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 899 2.80738 4.31087 4.06717 3.49300 3.02259 3.89995 4.17685 2.35376 3.27247 1.31659 2.80343 3.79347 4.23058 3.62300 3.44823 3.18958 3.03797 2.15607 4.88035 3.69770 987 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 900 2.44338 4.64468 2.82638 2.51985 4.20220 3.22498 3.79323 3.62170 2.62161 3.24181 4.07789 2.55555 1.89724 2.85849 3.03153 2.58844 2.75419 3.23684 5.47380 4.15972 988 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 901 2.94852 4.40039 4.45512 4.03126 3.56722 4.05904 4.79086 1.84396 3.87749 2.16796 3.45770 4.22748 4.52579 4.21272 4.09344 3.48647 3.26852 0.96176 5.45180 4.18352 989 v - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 902 3.42237 4.78763 4.41168 4.15145 0.82588 4.07991 3.93849 2.93200 4.05565 2.27364 3.64439 4.16307 4.53668 4.18920 4.14416 3.68492 3.72408 2.93173 4.15266 2.50489 990 f - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 903 2.77177 5.17070 2.28859 1.31728 4.51702 3.26463 3.72946 3.94032 2.62655 3.52272 4.36296 2.77813 3.83029 2.89047 3.13087 2.71863 2.79590 3.56020 5.72420 4.30396 991 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 904 2.54122 4.49402 3.17518 2.65001 3.78240 3.39084 3.73264 3.09733 2.54877 2.82021 3.68762 3.09929 2.47462 2.87961 2.88922 2.66422 2.33436 2.59144 5.13942 3.86732 992 t - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02763 3.99862 4.72097 0.61958 0.77255 0.48576 0.95510\n- 905 2.55606 4.16724 3.67266 2.98465 3.20333 3.60633 3.63008 2.00615 2.95862 2.26946 3.26637 3.43961 3.98079 3.23482 3.29157 2.87398 2.77943 2.07235 4.77239 3.55712 993 i - - -\n- 2.68621 4.42216 2.77505 2.73116 3.46347 2.40514 3.72498 3.29348 2.67744 2.69358 4.24693 2.90345 2.73743 3.18150 2.89801 2.37888 2.77523 2.98522 4.58480 3.61506\n- 0.12583 2.13511 * 0.72568 0.66164 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_II__rdrD_II.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_II__rdrD_II.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,755 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME radar_II__rdrD_II\n-LENG 244\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:49:02 2021\n-NSEQ 37\n-EFFN 1.621460\n-CKSUM 2895115925\n-GA 20 20;\n-STATS LOCAL MSV -10.9391 0.70315\n-STATS LOCAL VITERBI -11.6441 0.70315\n-STATS LOCAL FORWARD -4.8582 0.70315\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.67277 4.36825 3.15178 2.75156 2.98482 3.20380 3.83902 2.64801 2.69180 2.15352 3.41603 3.17997 3.80559 3.14767 2.89854 2.71153 2.79507 2.58123 4.60419 3.31322\n- 2.68619 4.42226 2.77521 2.73124 3.46355 2.40514 3.72496 3.29355 2.67742 2.69356 4.24648 2.90337 2.73741 3.18147 2.89802 2.37888 2.77521 2.98519 4.58478 3.61504\n- 0.09295 3.28189 2.97203 0.64090 0.74828 0.00000 *\n- 1 3.50660 4.98394 4.70078 4.37107 3.58804 4.28532 4.98083 2.82666 4.10473 2.12653 0.61984 4.57121 4.77663 4.46327 4.23858 3.89591 3.83770 2.89115 5.47796 4.27788 3 M - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01813 4.41496 5.13730 0.61958 0.77255 0.55667 0.85125\n- 2 2.58187 5.08642 2.91046 2.41063 4.40677 3.48744 3.39129 3.85136 2.50031 3.40100 4.19803 3.00806 3.92805 2.08568 2.94699 1.60016 3.01493 3.48048 5.58719 4.22527 4 s - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01813 4.41496 5.13730 0.61958 0.77255 0.55667 0.85125\n- 3 2.69600 5.20015 2.51962 2.20115 4.53935 2.64388 3.65142 4.02340 2.17088 3.50244 4.24409 2.53016 3.51831 2.44242 2.66045 2.45138 2.92870 3.58798 5.63448 4.22315 5 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01813 4.41496 5.13730 0.61958 0.77255 0.55667 0.85125\n- 4 2.68979 5.07105 2.97966 2.26985 4.37103 3.47643 3.66610 3.20458 2.22199 3.35401 4.12613 2.75901 3.87016 2.03807 2.79771 2.48322 2.38829 3.43765 5.52926 4.15453 6 q - - -\n- 2.68627 4.42255 2.77493 2.73145 3.46384 2.40543 3.72525 3.29368 2.67707 2.69339 4.24720 2.90254 2.73750 3.18146 2.89818 2.37892 2.77508 2.98526 4.58507 3.61506\n- 0.60633 1.17621 1.92273 1.38294 0.28880 0.52782 0.89133\n- 5 2.62790 4.56762 2.97521 2.43566 3.10224 3.25781 3.75374 2.83485 2.64857 2.21767 3.52376 2.75893 3.91285 2.97967 3.06918 2.50538 2.85959 2.86320 5.11735 3.83953 18 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02084 4.27699 4.99933 0.61958 0.77255 0.42318 1.06409\n- 6 2.62260 5.16856 2.45734 2.20610 3.84609 3.45449 3.65117 3.97714 1.98037 3.46776 4.21384 2.57919 2.86844 2.61677 2.88694 2.59758 2.79501 3.55188 5.60889 4.20435 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01792 4.42635 5.14870 0.61958 0.77255 0.53975 0.87441\n- 7 2.67326 4.54900 3.18858 2.48070 3.71243 3.34424 3.82638 2.26317 2.75418 2.77306 3.64390 2.71216 3'..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01746 4.45255 5.17489 0.61958 0.77255 0.50451 0.92584\n- 237 2.48441 4.63024 3.39149 2.83175 3.78423 3.64596 3.86230 2.89867 2.56277 1.85971 3.69723 3.28707 4.03118 1.94761 3.06875 2.89001 2.97748 2.88845 5.18104 3.92338 295 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01746 4.45255 5.17489 0.61958 0.77255 0.50451 0.92584\n- 238 2.95291 4.32008 4.70087 4.11959 3.18562 4.17512 4.53120 1.34992 3.38061 1.92187 2.99262 4.24858 4.50334 4.15097 4.08111 3.49196 3.18791 1.63251 5.06175 3.89036 296 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01746 4.45255 5.17489 0.61958 0.77255 0.50451 0.92584\n- 239 3.23006 5.68307 2.53027 0.75798 4.98225 3.53458 4.02709 4.50931 2.89252 3.99559 4.87732 3.02533 4.13806 2.78176 3.35664 3.13430 3.51104 4.11168 6.12008 4.68544 297 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.27495 4.45255 1.47517 0.61958 0.77255 0.50451 0.92584\n- 240 2.89088 5.24629 2.85874 2.47136 4.61026 3.50070 3.69106 4.04839 1.66364 3.52595 4.33772 1.84840 3.94662 2.43495 2.60679 2.85254 3.11362 3.66720 5.63186 4.30612 298 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02253 4.20012 4.92247 0.61958 0.77255 0.34524 1.23118\n- 241 3.03606 5.31313 3.40927 2.76126 4.70480 3.73986 3.74611 4.10380 1.21070 3.55636 4.37274 3.22800 4.10182 2.27032 2.06857 3.01592 3.22303 3.74515 5.62810 3.30199 299 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01746 4.45255 5.17489 0.61958 0.77255 0.50451 0.92584\n- 242 3.49034 4.76649 5.30494 4.74085 2.99135 4.82285 5.16020 2.13277 4.61299 0.85881 3.13455 4.91902 4.99708 4.65555 4.66792 4.18252 3.71444 1.62344 5.39824 4.31664 300 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01746 4.45255 5.17489 0.61958 0.77255 0.50451 0.92584\n- 243 2.26536 5.05034 3.08279 2.54896 4.37595 2.70090 3.73519 3.80024 1.50918 3.05343 4.15130 3.06344 3.94482 2.69402 2.82578 2.77606 3.00332 3.44034 5.53691 4.20174 301 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.01746 4.45255 5.17489 0.61958 0.77255 0.50451 0.92584\n- 244 2.09785 5.06319 3.00505 2.45841 4.37520 2.37929 3.68528 3.82074 2.09423 3.35738 4.13494 2.98982 3.55395 2.43280 2.69690 2.69834 2.93857 3.32819 5.53477 4.16865 302 k - - -\n- 2.68600 4.42242 2.77537 2.73140 3.46371 2.40530 3.72512 3.29354 2.67712 2.69342 4.24650 2.90364 2.73744 3.18099 2.89818 2.37876 2.77525 2.98522 4.58494 3.61490\n- 0.34831 1.22377 * 0.90840 0.51612 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_I__rdrA_I.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_I__rdrA_I.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2543 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME radar_I__rdrA_I\n-LENG 840\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:48:59 2021\n-NSEQ 99\n-EFFN 1.126923\n-CKSUM 1439432988\n-GA 150 150;\n-STATS LOCAL MSV -12.6895 0.69605\n-STATS LOCAL VITERBI -13.2630 0.69605\n-STATS LOCAL FORWARD -6.7821 0.69605\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.58343 4.43482 2.90472 2.59306 3.17017 3.19043 3.66935 2.79148 2.59073 2.41261 3.66151 2.94314 3.48867 2.98983 2.94781 2.62030 2.87488 2.75503 4.55336 3.39549\n- 2.68619 4.42214 2.77524 2.73126 3.46358 2.40511 3.72491 3.29349 2.67740 2.69349 4.24667 2.90347 2.73744 3.18143 2.89805 2.37885 2.77524 2.98522 4.58470 3.61500\n- 0.19268 3.21211 2.00260 1.24297 0.34042 0.00000 *\n- 1 3.03533 4.58179 4.24376 3.79954 3.27895 3.99763 4.51222 2.40211 3.54258 1.80457 1.22292 4.05610 4.43322 3.91196 3.74221 3.40907 3.24163 2.41235 5.16961 3.95128 14 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02478 4.10604 4.82839 0.61958 0.77255 0.41639 1.07712\n- 2 2.27558 4.32726 3.49922 2.86666 3.33538 3.58367 3.85371 2.82181 2.88594 2.43486 2.70597 3.33454 3.82642 3.18827 3.23748 2.30027 2.43995 2.46485 4.92130 3.68785 15 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02180 4.23245 4.95480 0.61958 0.77255 0.49892 0.93441\n- 3 2.65559 5.14426 2.69933 2.04005 4.46809 2.75607 3.62605 3.94230 2.30970 3.43946 4.19672 2.43879 3.82053 2.66777 2.56342 2.29673 2.90953 3.52468 5.58705 4.18256 16 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03475 4.23245 3.93042 0.61958 0.77255 0.49892 0.93441\n- 4 2.61057 5.12177 2.52598 1.88679 4.44511 3.27667 3.61403 3.65540 1.97266 3.41663 4.17241 2.75370 3.81164 2.72175 2.79817 2.56966 2.79991 3.50146 5.56514 4.16356 17 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02688 4.21979 4.43826 0.61958 0.77255 0.51505 0.90999\n- 5 3.07845 4.44470 4.64399 4.09592 3.27851 4.30481 4.59717 1.08429 3.94095 1.87732 3.25505 4.30250 4.60400 4.16599 4.10538 3.63747 3.31704 1.94252 5.09081 3.27197 18 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02219 4.21510 4.93744 0.61958 0.77255 0.52090 0.90136\n- 6 2.64496 4.38108 3.46887 2.91860 3.53292 3.59689 3.68459 1.77865 2.49447 2.59244 3.49272 2.93665 3.98540 3.16362 3.12867 2.85928 2.79432 2.45521 4.96716 3.73096 19 i - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02219 4.21510 4.93744 0.61958 0.77255 0.52090 0.90136\n- 7 3.54131 4.84713 5.03524 4.53427 2.36847 4.70613 4.74950 2.39232 4.38231 0.71481 2.98693 4.71466 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 4.15087 4.87321 0.61958 0.77255 0.60525 0.78952\n- 833 3.37023 4.66450 5.02398 4.49486 3.24710 4.68034 5.04692 1.43558 4.33034 1.03689 3.04987 4.73173 4.87611 4.47936 4.44904 4.06132 3.60503 2.05963 5.33949 4.22552 1145 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 4.15087 4.87321 0.61958 0.77255 0.60525 0.78952\n- 834 2.43646 4.91402 2.94404 2.16928 4.18560 3.23430 3.60921 3.49812 2.19815 2.98605 3.97569 2.83236 3.80581 2.55669 2.71205 2.46425 2.77422 3.26470 5.39212 3.48102 1146 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 4.15087 4.87321 0.61958 0.77255 0.60525 0.78952\n- 835 2.60869 4.85920 2.94732 2.38313 3.96245 3.42641 3.62176 3.53903 2.23137 3.00090 3.92554 2.71183 3.81630 2.31739 2.58404 2.50046 2.83897 3.20084 4.34956 3.40756 1147 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 4.15087 4.87321 0.61958 0.77255 0.60525 0.78952\n- 836 2.28641 4.43780 3.13942 2.37949 3.64590 2.67691 3.35972 3.17724 2.56174 2.83505 3.39623 3.06888 3.86279 2.83482 2.99463 2.69259 2.66817 2.81326 5.13796 3.48321 1148 a - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 4.15087 4.87321 0.61958 0.77255 0.60525 0.78952\n- 837 2.61690 4.10823 4.01037 3.42751 3.04623 3.71261 4.00922 2.20631 3.31351 1.68182 3.18796 3.66471 4.07877 3.54759 3.35623 2.91704 2.59767 2.19452 4.71773 3.19502 1149 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02368 4.15087 4.87321 0.61958 0.77255 0.60525 0.78952\n- 838 2.66430 5.23010 2.38738 2.07333 4.54295 2.57533 3.65894 4.02571 2.34141 3.52205 4.29493 2.14107 3.82690 2.55015 2.98497 2.60246 2.98112 3.60634 5.67447 4.24854 1150 e - - -\n- 2.68610 4.42234 2.77507 2.73130 3.46363 2.40514 3.72503 3.29335 2.67742 2.69353 4.24699 2.90343 2.73739 3.18155 2.89810 2.37890 2.77525 2.98516 4.58486 3.61488\n- 0.49402 1.11279 2.79371 0.51506 0.90997 0.60525 0.78952\n- 839 2.73532 5.23955 2.17880 1.76435 4.55038 3.32776 3.64915 4.03627 2.41946 3.53025 4.30626 2.52580 3.81172 2.50237 2.99252 2.51640 2.74909 3.61487 5.68201 4.24981 1153 e - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03886 4.08692 3.84804 0.61958 0.77255 0.56115 0.84525\n- 840 2.54793 5.07012 2.66492 1.96338 4.38369 3.26302 3.49428 3.85031 2.19524 3.18085 4.12210 2.71334 3.78825 2.52336 2.83591 2.35087 2.86208 3.44431 5.51902 4.02742 1154 e - - -\n- 2.68607 4.42324 2.77467 2.73061 3.46394 2.40537 3.72550 3.29274 2.67709 2.69352 4.24742 2.90300 2.73801 3.18203 2.89815 2.37859 2.77575 2.98505 4.58576 3.61534\n- 0.49115 0.94655 * 2.55764 0.08065 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_I__rdrB_I.hmm
--- a/test-data/defense-finder/defense-finder-models_1.2.3/defense-finder-models/profiles/radar_I__rdrB_I.hmm Mon Jan 22 13:09:24 2024 +0000
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000

[

b'@@ -1,2573 +0,0 @@\n-HMMER3/f [3.3 | Nov 2019]\n-NAME radar_I__rdrB_I\n-LENG 850\n-ALPH amino\n-RF no\n-MM no\n-CONS yes\n-CS no\n-MAP yes\n-DATE Thu Apr 15 11:48:59 2021\n-NSEQ 100\n-EFFN 0.863647\n-CKSUM 3429478374\n-GA 150 150;\n-STATS LOCAL MSV -12.3741 0.69602\n-STATS LOCAL VITERBI -13.6138 0.69602\n-STATS LOCAL FORWARD -6.6685 0.69602\n-HMM A C D E F G H I K L M N P Q R S T V W Y \n- m->m m->i m->d i->m i->i d->m d->d\n- COMPO 2.57597 4.27121 2.93165 2.65439 3.29157 3.05689 3.51502 2.80647 2.69041 2.40305 3.64847 3.02329 3.50274 3.01228 2.86799 2.66701 2.89469 2.67202 4.12779 3.41642\n- 2.68619 4.42227 2.77520 2.73125 3.46355 2.40513 3.72496 3.29353 2.67739 2.69355 4.24673 2.90346 2.73741 3.18148 2.89802 2.37886 2.77516 2.98516 4.58474 3.61503\n- 0.04503 3.45964 4.37452 0.93151 0.50081 0.00000 *\n- 1 3.16839 4.68367 4.30793 3.92522 3.33189 4.01262 4.60669 2.53176 3.67883 1.89669 0.99308 4.17210 4.47984 4.04836 3.85556 3.53891 3.48110 2.56370 5.20004 3.97956 17 m - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02480 4.10498 4.82732 0.61958 0.77255 0.49110 0.94663\n- 2 3.05605 4.44253 4.44618 3.93131 2.02717 4.10313 3.87020 2.30388 3.79345 1.88941 3.33028 3.99443 4.42279 3.91675 3.91544 3.41544 3.28182 2.58156 4.17343 1.61108 18 y - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02480 4.10498 4.82732 0.61958 0.77255 0.49110 0.94663\n- 3 2.58270 3.98422 3.11349 2.55944 3.84757 3.44302 3.68665 2.89812 2.23857 2.88720 3.73147 2.48098 3.67532 2.87874 2.95262 2.60560 2.36180 2.94733 5.17771 3.88219 19 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02480 4.10498 4.82732 0.61958 0.77255 0.49110 0.94663\n- 4 2.52234 4.41069 3.34464 2.78385 3.24281 3.53822 3.78699 2.55087 2.73502 2.53793 3.50029 3.22343 3.92437 2.13123 3.11656 2.66012 2.78089 2.49588 4.98961 3.73510 20 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02480 4.10498 4.82732 0.61958 0.77255 0.49110 0.94663\n- 5 2.74145 5.04272 1.36802 2.31505 4.56621 3.24688 3.82403 4.01841 2.76376 3.59956 4.42720 2.85424 3.84590 2.99022 3.28711 2.26927 2.64397 3.59107 5.79348 4.37764 21 d - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02480 4.10498 4.82732 0.61958 0.77255 0.49110 0.94663\n- 6 2.62709 4.71020 2.46270 2.51990 3.92715 3.43464 3.71288 2.95509 2.55576 2.66131 3.81635 3.02295 2.28138 2.89547 3.00019 2.69604 2.87430 2.97881 5.26796 3.94588 22 p - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02480 4.10498 4.82732 0.61958 0.77255 0.49110 0.94663\n- 7 2.55111 4.63521 3.01904 2.44724 4.15575 3.44573 3.15753 3.57645 1.92438 3.07401 3.95363 2.96167 '..b'.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02468 4.10972 4.83207 0.61958 0.77255 0.48918 0.94967\n- 843 2.93966 4.93247 2.86931 2.78225 4.33547 3.35901 4.14057 4.10451 3.06845 3.72585 4.68476 0.79767 4.02540 3.41929 3.42647 3.00124 3.33274 3.70214 5.61420 4.27108 1103 n - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02468 4.10972 4.83207 0.61958 0.77255 0.48918 0.94967\n- 844 3.29024 5.05379 3.39106 3.18115 3.47819 3.67145 0.72720 4.03035 3.01899 3.49130 4.55798 3.57827 4.24015 3.55233 3.26712 3.36071 3.60439 3.76121 4.93845 3.42369 1104 h - - -\n- 2.68616 4.42233 2.77520 2.73125 3.46354 2.40512 3.72496 3.29349 2.67738 2.69357 4.24692 2.90347 2.73744 3.18144 2.89804 2.37888 2.77517 2.98514 4.58461 3.61505\n- 0.02943 3.86156 4.83207 1.87590 0.16631 0.48918 0.94967\n- 845 3.34475 4.65024 4.97500 4.41911 3.19358 4.64853 4.98961 1.71687 4.27522 0.93271 2.89825 4.67464 4.82813 4.39937 4.39961 4.00693 3.57196 2.05007 5.29208 4.21836 1204 l - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.02468 4.10972 4.83207 0.61958 0.77255 0.48918 0.94967\n- 846 2.57058 4.76223 2.38423 2.25841 4.28335 3.38631 3.58393 3.68532 2.16975 3.21024 3.69782 2.69562 3.30196 2.69929 2.82388 2.40023 2.80719 3.35076 5.44876 4.06874 1205 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.10594 4.10972 2.47565 0.61958 0.77255 0.48918 0.94967\n- 847 2.86814 4.71293 3.39074 2.89860 3.18152 3.63384 3.70918 3.29029 2.57830 2.82265 3.81652 3.30141 4.04883 1.82657 2.86490 2.97678 3.10295 3.07371 2.27834 3.17973 1206 q - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.03367 4.03053 4.17730 0.61958 0.77255 0.57337 0.82925\n- 848 2.51445 4.62191 2.68958 2.47792 3.57195 3.43263 3.64957 3.11089 2.44599 2.64535 3.70503 2.68814 3.82150 2.83749 2.92020 2.57218 2.75843 2.61878 5.15281 3.75453 1207 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.04216 4.02379 3.75511 0.61958 0.77255 0.57993 0.82084\n- 849 2.53254 4.82433 2.77319 2.38070 4.08446 3.34472 3.59589 3.50971 2.31447 3.04688 3.43796 2.42834 3.30714 2.71553 2.83151 2.46227 2.70556 3.12224 5.32293 3.97626 1208 k - - -\n- 2.68618 4.42225 2.77519 2.73123 3.46354 2.40513 3.72494 3.29354 2.67741 2.69355 4.24690 2.90347 2.73739 3.18146 2.89801 2.37887 2.77519 2.98518 4.58477 3.61503\n- 0.06333 4.00897 3.14161 0.61958 0.77255 0.53599 0.87969\n- 850 2.55543 4.80950 2.70537 2.25233 4.05910 3.13092 3.59448 3.00658 2.26578 2.98980 3.87831 2.91266 3.57186 2.70875 2.69535 2.59749 2.76022 2.97082 5.30412 3.96144 1209 e - - -\n- 2.68604 4.42252 2.77524 2.73126 3.46318 2.40532 3.72500 3.29349 2.67749 2.69347 4.24678 2.90342 2.73736 3.18128 2.89829 2.37893 2.77511 2.98518 4.58466 3.61478\n- 0.40412 1.10131 * 1.85367 0.17039 0.00000 *\n-//\n'

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/outputs/prot/defense_finder_genes.tsv
--- a/test-data/outputs/prot/defense_finder_genes.tsv Mon Jan 22 13:09:24 2024 +0000
+++ b/test-data/outputs/prot/defense_finder_genes.tsv Tue Mar 05 13:16:41 2024 +0000

@@ -148,7 +148,7 @@
df_test_prot SIAM001.0722.00001.P003_00013 Lamassu-Fam__LmuA_effector_FMO 493 defense-finder-models/DefenseFinder_1/Lamassu-Fam/Lamassu-FMO df_test_prot_Lamassu-FMO_42 1 1 1.000 2.500 1 Lamassu-Fam__LmuA_effector_FMO mandatory 833 0.0 1098.700 0.995 0.994 2 829
df_test_prot PEAT002.0722.00001.C001_02031 radar_I__rdrA_I 503 defense-finder-models/DefenseFinder_1/RADAR/radar_I df_test_prot_radar_I_71 1 1 1.000 2.000 1 radar_I__rdrA_I mandatory 852 0.0 1282.100 0.996 0.995 1 848
df_test_prot PEAT002.0722.00001.C001_02032 radar_I__rdrB_I 504 defense-finder-models/DefenseFinder_1/RADAR/radar_I df_test_prot_radar_I_71 1 1 1.000 2.000 1 radar_I__rdrB_I mandatory 858 0.0 1374.900 0.998 0.998 1 856
-df_test_prot LYCA003.0722.00001.C001_04185 CARD_NLR__Subtilase_small_new 514 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_Subtilase df_test_prot_CARD_NLR_Subtilase_23 1 1 1.000 2.500 1 CARD_NLR__Subtilase_long_new mandatory 534 2.5e-251 832.300 0.996 0.991 1 529
+df_test_prot LYCA003.0722.00001.C001_04185 CARD_NLR__Subtilase_small_new 514 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_Subtilase df_test_prot_CARD_NLR_Subtilase_23 1 1 1.000 2.500 1 CARD_NLR__Subtilase_small_new mandatory 534 2.5e-251 832.300 0.996 0.991 1 529
df_test_prot LYCA003.0722.00001.C001_04186 CARD_NLR__Trypsin_new 515 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_Subtilase df_test_prot_CARD_NLR_Subtilase_23 1 1 1.000 2.500 1 CARD_NLR__Trypsin accessory 342 3.2e-100 333.100 0.888 0.974 3 335
df_test_prot LYCA003.0722.00001.C001_04187 CARD_NLR__CARD_Protease 516 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_Subtilase df_test_prot_CARD_NLR_Subtilase_23 1 1 1.000 2.500 1 CARD_NLR__CARD_Protease accessory 705 2e-173 575.800 0.967 0.970 17 700
df_test_prot LYCA003.0722.00001.C001_04188 CARD_NLR__NLR_IMG 517 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_Subtilase df_test_prot_CARD_NLR_Subtilase_23 1 1 1.000 2.500 1 CARD_NLR__NLR_new accessory 1117 1.1e-265 882.000 0.996 0.991 9 1115
@@ -260,7 +260,7 @@
df_test_prot PSSP190.0722.00001.C001_03845 CARD_NLR__CARD_Protease_supposed 2563 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_like df_test_prot_CARD_NLR_like_24 1 1 0.714 3.500 1 CARD_NLR__CARD_Protease accessory 667 4.2e-136 452.500 0.929 0.916 30 640
df_test_prot PSSP190.0722.00001.C001_03846 CARD_NLR__Trypsin_new 2564 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_like df_test_prot_CARD_NLR_like_24 1 1 0.714 3.500 1 CARD_NLR__Trypsin accessory 334 9.5e-100 331.600 0.919 0.982 2 329
df_test_prot PSSP190.0722.00001.C001_03847 CARD_NLR__Endonuclease_new 2565 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_like df_test_prot_CARD_NLR_like_24 1 1 0.714 3.500 1 CARD_NLR__Endonuclease mandatory 299 4.3e-84 279.500 0.800 0.863 15 272
-df_test_prot PSSP190.0722.00001.C001_03848 CARD_NLR__Subtilase_small_new 2566 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_like df_test_prot_CARD_NLR_like_24 1 1 0.714 3.500 1 CARD_NLR__Subtilase_long_new mandatory 537 6.3e-225 745.200 0.987 0.965 9 526
+df_test_prot PSSP190.0722.00001.C001_03848 CARD_NLR__Subtilase_small_new 2566 defense-finder-models/DefenseFinder_1/CARD_NLR/CARD_NLR_like df_test_prot_CARD_NLR_like_24 1 1 0.714 3.500 1 CARD_NLR__Subtilase_small_new mandatory 537 6.3e-225 745.200 0.987 0.965 9 526
df_test_prot BOFL001.0722.00001.C001_04681 Lamassu-Fam__LmuB_SMC_Amidase 2576 defense-finder-models/DefenseFinder_1/Lamassu-Fam/Lamassu-Amidase df_test_prot_Lamassu-Amidase_40 1 1 0.667 2.000 1 Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II mandatory 1205 0.0 1786.800 1.000 1.000 1 1205
df_test_prot BOFL001.0722.00001.C001_04682 Lamassu-Fam__LmuA_effector_Amidase 2577 defense-finder-models/DefenseFinder_1/Lamassu-Fam/Lamassu-Amidase df_test_prot_Lamassu-Amidase_40 1 1 0.667 2.000 1 Lamassu-Fam__LmuA_effector_Amidase mandatory 595 2.6e-292 967.800 0.998 0.998 1 594
df_test_prot SHHA001.0722.00001.C001_00539 Lamassu-Fam__LmuB_SMC_Hydrolase_protease 2628 defense-finder-models/DefenseFinder_1/Lamassu-Fam/Lamassu-Fam df_test_prot_Lamassu-Fam_44 1 1 0.333 2.500 1 Lamassu-Fam__LmuB_SMC_Cap4_nuclease_II mandatory 1043 1.7e-302 1003.500 0.999 0.995 1 1038
@@ -286,8 +286,8 @@
df_test_prot DEOL002.0722.00001.C001_00643 Azaca__ZacA 630 defense-finder-models/DefenseFinder_3/Azaca/Azaca df_test_prot_Azaca_120 1 1 1.000 3.000 1 Azaca__ZacA mandatory 409 6.1e-147 487.400 0.995 0.985 1 403
df_test_prot DEOL002.0722.00001.C001_00644 Azaca__ZacB 631 defense-finder-models/DefenseFinder_3/Azaca/Azaca df_test_prot_Azaca_120 1 1 1.000 3.000 1 Azaca__ZacB mandatory 604 2.3e-185 615.000 0.997 0.997 1 602
df_test_prot DEOL002.0722.00001.C001_00645 Azaca__ZacC 632 defense-finder-models/DefenseFinder_3/Azaca/Azaca df_test_prot_Azaca_120 1 1 1.000 3.000 1 Azaca__ZacC mandatory 1079 0.0 1222.500 0.992 0.968 8 1051
-df_test_prot VIPA004.0722.00050.C001_01741 DdmDE__DdmE 653 defense-finder-models/DefenseFinder_3/DmdDE/DdmDE df_test_prot_DdmDE_125 1 1 1.000 2.000 1 DdmDE__DdmE mandatory 687 4.5e-302 1000.800 0.996 0.984 11 686
-df_test_prot VIPA004.0722.00050.C001_01742 DmdDE__DdmD 654 defense-finder-models/DefenseFinder_3/DmdDE/DdmDE df_test_prot_DdmDE_125 1 1 1.000 2.000 1 DmdDE__DdmD mandatory 1190 0.0 1229.800 0.998 0.977 27 1189
+df_test_prot VIPA004.0722.00050.C001_01741 DdmDE__DdmE 653 defense-finder-models/DefenseFinder_3/DdmDE/DdmDE df_test_prot_DdmDE_125 1 1 1.000 2.000 1 DdmDE__DdmE mandatory 687 4.5e-302 1000.800 0.996 0.984 11 686
+df_test_prot VIPA004.0722.00050.C001_01742 DdmDE__DdmD 654 defense-finder-models/DefenseFinder_3/DdmDE/DdmDE df_test_prot_DdmDE_125 1 1 1.000 2.000 1 DdmDE__DdmD mandatory 1190 0.0 1229.800 0.998 0.977 27 1189
df_test_prot ESCO001.0722.00231.C001_01896 Gao_Her_SIR__SIR2 722 defense-finder-models/DefenseFinder_3/Gao_Her/Gao_Her_SIR df_test_prot_Gao_Her_SIR_130 1 1 1.000 2.000 1 Gao_Her_SIR__SIR2 mandatory 415 2e-256 848.000 1.000 1.000 1 415
df_test_prot ESCO001.0722.00231.C001_01897 Gao_Her_SIR__HerA_SIR2 723 defense-finder-models/DefenseFinder_3/Gao_Her/Gao_Her_SIR df_test_prot_Gao_Her_SIR_130 1 1 1.000 2.000 1 Gao_Her_SIR__HerA_SIR2 mandatory 606 0.0 1224.300 1.000 1.000 1 606
df_test_prot ESCO001.0722.00123.C001_01297 Gao_Her_DUF__DUF4297 823 defense-finder-models/DefenseFinder_3/Gao_Her/Gao_Her_DUF df_test_prot_Gao_Her_DUF_129 1 1 1.000 2.000 1 Gao_Her_DUF__DUF4297 mandatory 394 1.6e-212 702.900 1.000 1.000 1 394

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/outputs/prot/defense_finder_hmmer.tsv
--- a/test-data/outputs/prot/defense_finder_hmmer.tsv Mon Jan 22 13:09:24 2024 +0000
+++ b/test-data/outputs/prot/defense_finder_hmmer.tsv Tue Mar 05 13:16:41 2024 +0000

@@ -554,7 +554,6 @@
LELO001.0722.00004.C001_00674 df_test_prot 1261 288 Zorya_TypeII__ZorE 5.800e-132 436.400 0.986 0.972 4 283
LIMA001.0722.00001.P002_00015 df_test_prot 2099 308 AbiJ__AbiJ 1.200e-168 557.300 0.997 0.977 1 301
LYCA003.0722.00001.C001_04185 df_test_prot 514 534 CARD_NLR__Subtilase 5.600e-240 796.500 0.571 0.983 4 528
-LYCA003.0722.00001.C001_04185 df_test_prot 514 534 CARD_NLR__Subtilase_long_new 2.500e-251 832.300 0.996 0.991 1 529
LYCA003.0722.00001.C001_04185 df_test_prot 514 534 CARD_NLR__Subtilase_small_new 2.500e-251 832.300 0.996 0.991 1 529
LYCA003.0722.00001.C001_04186 df_test_prot 515 342 CARD_NLR__Trypsin_new 3.200e-100 333.100 0.888 0.974 3 335
LYCA003.0722.00001.C001_04186 df_test_prot 515 342 CARD_NLR__Trypsin 4.300e-36 121.900 0.720 0.868 23 319
@@ -820,7 +819,6 @@
PSSP190.0722.00001.C001_03846 df_test_prot 2564 334 CARD_NLR__Trypsin 1.600e-46 156.300 0.628 0.757 62 314
PSSP190.0722.00001.C001_03847 df_test_prot 2565 299 CARD_NLR__Endonuclease_new 4.300e-84 279.500 0.800 0.863 15 272
PSSP190.0722.00001.C001_03848 df_test_prot 2566 537 CARD_NLR__Subtilase 9.200e-194 643.500 0.554 0.926 20 516
-PSSP190.0722.00001.C001_03848 df_test_prot 2566 537 CARD_NLR__Subtilase_long_new 6.300e-225 745.200 0.987 0.965 9 526
PSSP190.0722.00001.C001_03848 df_test_prot 2566 537 CARD_NLR__Subtilase_small_new 6.300e-225 745.200 0.987 0.965 9 526
RAOR001.0722.00008.C001_00215 df_test_prot 1438 160 PD-Lambda-3__PD-Lambda-3_A 1.300e-103 340.800 1.000 0.994 2 160
RAOR001.0722.00008.C001_00216 df_test_prot 1439 270 PD-Lambda-3__PD-Lambda-3_B 4.400e-181 597.200 0.996 0.996 1 269
@@ -1211,7 +1209,7 @@
VIPA004.0722.00031.C002_00019 df_test_prot 1041 551 Bunzi__BnzA 3.300e-211 699.800 1.000 1.000 1 551
VIPA004.0722.00031.C002_00020 df_test_prot 1042 499 Bunzi__BnzB 2.200e-217 720.200 0.978 0.992 4 498
VIPA004.0722.00050.C001_01741 df_test_prot 653 687 DdmDE__DdmE 4.500e-302 1000.800 0.996 0.984 11 686
-VIPA004.0722.00050.C001_01742 df_test_prot 654 1190 DmdDE__DdmD 0.000e+00 1229.800 0.998 0.977 27 1189
+VIPA004.0722.00050.C001_01742 df_test_prot 654 1190 DdmDE__DdmD 0.000e+00 1229.800 0.998 0.977 27 1189
VIPA004.0722.00056.C001_00825 df_test_prot 1501 407 Lamassu-Fam__LmuA_effector_Hydrolase 8.600e-91 301.700 0.994 0.995 1 405
VIPA004.0722.00056.C001_00825 df_test_prot 1501 407 Avs_I__Avs1A 2.600e-109 362.800 0.973 0.985 2 402
VIPA004.0722.00056.C001_00828 df_test_prot 1502 181 Lamassu-Fam__LmuC_acc_hydrolase_protease 3.300e-35 119.000 0.972 0.983 4 181

diff -r 298b53571782 -r 5ec0f8b1a609 test-data/outputs/prot/defense_finder_systems.tsv
--- a/test-data/outputs/prot/defense_finder_systems.tsv Mon Jan 22 13:09:24 2024 +0000
+++ b/test-data/outputs/prot/defense_finder_systems.tsv Tue Mar 05 13:16:41 2024 +0000

@@ -115,7 +115,7 @@
df_test_prot_Druantia_III_128 Druantia Druantia_III ACBA002.0722.00172.C001_01790 ACBA002.0722.00172.C001_01791 ACBA002.0722.00172.C001_01790,ACBA002.0722.00172.C001_01791 2 Druantia_III__DruH,Druantia__DruE_3
df_test_prot_Gao_Qat_131 Gao_Qat Gao_Qat PSAE004.0722.00062.C001_02465 PSAE004.0722.00062.C001_02468 PSAE004.0722.00062.C001_02465,PSAE004.0722.00062.C001_02466,PSAE004.0722.00062.C001_02467,PSAE004.0722.00062.C001_02468 4 Gao_Qat__QatA,Gao_Qat__QatB,Gao_Qat__QatC,Gao_Qat__QatD
df_test_prot_Azaca_120 Azaca Azaca DEOL002.0722.00001.C001_00643 DEOL002.0722.00001.C001_00645 DEOL002.0722.00001.C001_00643,DEOL002.0722.00001.C001_00644,DEOL002.0722.00001.C001_00645 3 Azaca__ZacA,Azaca__ZacB,Azaca__ZacC
-df_test_prot_DdmDE_125 DmdDE DdmDE VIPA004.0722.00050.C001_01741 VIPA004.0722.00050.C001_01742 VIPA004.0722.00050.C001_01741,VIPA004.0722.00050.C001_01742 2 DdmDE__DdmE,DmdDE__DdmD
+df_test_prot_DdmDE_125 DdmDE DdmDE VIPA004.0722.00050.C001_01741 VIPA004.0722.00050.C001_01742 VIPA004.0722.00050.C001_01741,VIPA004.0722.00050.C001_01742 2 DdmDE__DdmE,DdmDE__DdmD
df_test_prot_Gao_Her_SIR_130 Gao_Her Gao_Her_SIR ESCO001.0722.00231.C001_01896 ESCO001.0722.00231.C001_01897 ESCO001.0722.00231.C001_01896,ESCO001.0722.00231.C001_01897 2 Gao_Her_SIR__SIR2,Gao_Her_SIR__HerA_SIR2
df_test_prot_Gao_Her_DUF_129 Gao_Her Gao_Her_DUF ESCO001.0722.00123.C001_01297 ESCO001.0722.00123.C001_01298 ESCO001.0722.00123.C001_01297,ESCO001.0722.00123.C001_01298 2 Gao_Her_DUF__DUF4297,Gao_Her_DUF__HerA_DUF
df_test_prot_Panchino_gp28_146 Panchino_gp28 Panchino_gp28 VIHA002.0722.00003.P005_00028 VIHA002.0722.00003.P005_00028 VIHA002.0722.00003.P005_00028 1 Panchino_gp28__gp28