changeset 2:8240d0714a97 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tools/bumbershoot commit 1e51bed3a1c10c67ef0404216608e9333db04c64
author galaxyp
date Fri, 06 Oct 2017 15:00:29 -0400
parents 1881935e5351
children 64af47ae134d
files COPYING README.md macros.xml test-data/201203-624176-12-mm-gui-test-Gene-GeneId,Accession,DistinctPeptides.tsv test-data/201203-624176-12-mm-gui-test-GeneGroup-GeneGroup,GeneId,DistinctMatches.tsv test-data/201203-624176-12-mm-gui-test-Protein-Accession,FilteredSpectra,Description.tsv test-data/201203-624176-12-mm-gui-test-ProteinGroup-ProteinGroup,Accession,PercentCoverage.tsv test-data/201203-624176-12-mm-gui-test.idpDB test-data/201208-378803-cm-filtered.idpDB test-data/201208-378803-cm.idpDB test-data/201208-378803-cm.pep.xml test-data/201208-378803-embeddedGenes.idpDB test-data/201208-378803-embeddedGenesAndQuantitation.idpDB test-data/201208-378803-embeddedGenesAndScanTimes.idpDB test-data/201208-378803-embeddedGenesAndSpectra.idpDB test-data/201208-378803-embeddedGenesAndSpectra2.idpDB test-data/201208-378803-mm-filtered.idpDB test-data/201208-378803-mm.idpDB test-data/201208-378803-msgf-filtered.idpDB test-data/201208-378803-msgf.idpDB test-data/201208-378803-msgf.mzid test-data/201208-378803.idpDB
diffstat 22 files changed, 14996 insertions(+), 177 deletions(-) [+]
line wrap: on
line diff
--- a/COPYING	Wed Feb 01 20:53:23 2017 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,121 +0,0 @@
-Creative Commons Legal Code
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-CC0 1.0 Universal
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-vii. other similar, equivalent or corresponding rights throughout the
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-as contemplated by Affirmer's express Statement of Purpose.
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-applied by Affirmer to the Work. Should any part of the License for any
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-partial invalidity or ineffectiveness shall not invalidate the remainder
-of the License, and in such case Affirmer hereby affirms that he or she
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--- a/README.md	Wed Feb 01 20:53:23 2017 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,54 +0,0 @@
-GalaxyP - MyriMatch
-===================
-
-* Home: <https://github.com/galaxyproteomics/tools-galaxyp/>
-* Galaxy Tool Shed: <http://toolshed.g2.bx.psu.edu/view/galaxyp/myrimatch>
-* Tool ID: `myrimatch`
-
-
-Description
------------
-
-Bumbershoot MyriMatch.
-
-See:
-
-* <http://fenchurch.mc.vanderbilt.edu/>
-
-
-GalaxyP Community
------------------
-
-Current governing community policies for [GalaxyP](https://github.com/galaxyproteomics/) and other information can be found at:
-
-<https://github.com/galaxyproteomics>
-
-
-License
--------
-
-Copyright (c) 2014 Regents of the University of Minnesota and Authors listed below.
-
-To the extent possible under law, the author(s) have dedicated all copyright and related and neighboring rights to this software to the public domain worldwide. This software is distributed without any warranty.
-
-You should have received a copy of the CC0 Public Domain Dedication along with this software. If not, see <https://creativecommons.org/publicdomain/zero/1.0/>.
-
-You can copy, modify, distribute and perform the work, even for commercial purposes, all without asking permission.
-
-
-Contributing
-------------
-
-Contributions to this repository are reviewed through pull requests. If you would like your work acknowledged, please also add yourself to the Authors section. If your pull request is accepted, you will also be acknowledged in <https://github.com/galaxyproteomics/tools-galaxyp/>
-
-
-Authors
--------
-
-Authors and contributors:
-
-* Matt Chambers <matt.chambers42@gmail.com>
-  Vanderbilt University Medical Center
-
-* John Chilton <jmchilton@gmail.com>
-  Minnesota Supercomputing Institute, Univeristy of Minnesota
--- a/macros.xml	Wed Feb 01 20:53:23 2017 -0500
+++ b/macros.xml	Fri Oct 06 15:00:29 2017 -0400
@@ -1,8 +1,8 @@
 <macros>
-    <token name="@VERSION@">3.0.10246</token>
+    <token name="@VERSION@">3.0.11392</token>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="3_0_10246">bumbershoot</requirement>
+            <requirement type="package" version="3_0_11392">bumbershoot</requirement>
             <yield/>
         </requirements>
     </xml>
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/201203-624176-12-mm-gui-test-Gene-GeneId,Accession,DistinctPeptides.tsv	Fri Oct 06 15:00:29 2017 -0400
@@ -0,0 +1,20 @@
+GeneId	Accession	DistinctPeptides
+Unmapped_gi|165973958|ref|NP_001107199.1|	gi|165973958|ref|NP_001107199.1|	2
+Unmapped_gi|27806851|ref|NP_776358.1|	gi|27806851|ref|NP_776358.1|	21
+Unmapped_gi|27806963|ref|NP_776953.1|	gi|27806963|ref|NP_776953.1|	2
+Unmapped_gi|27807109|ref|NP_777040.1|	gi|27807109|ref|NP_777040.1|	7
+Unmapped_gi|30466252|ref|NP_848667.1|	gi|30466252|ref|NP_848667.1|	16
+Unmapped_gi|30794280|ref|NP_851335.1|	gi|30794280|ref|NP_851335.1|	29
+Unmapped_gi|30794348|ref|NP_851372.1|	gi|30794348|ref|NP_851372.1|	13
+Unmapped_gi|32880221|ref|NP_872593.1|	gi|32880221|ref|NP_872593.1|	21
+Unmapped_gi|528903801|ref|XP_871686.4|	gi|528903801|ref|XP_871686.4|	2
+Unmapped_gi|528935739|ref|XP_005201142.1|	gi|528935739|ref|XP_005201142.1|	7
+Unmapped_gi|528947854|ref|XP_002687054.3|	gi|528947854|ref|XP_002687054.3|	2
+Unmapped_gi|528953234|ref|XP_005208080.1|	gi|528953234|ref|XP_005208080.1|	13
+Unmapped_gi|528953238|ref|XP_005208082.1|	gi|528953238|ref|XP_005208082.1|	13
+Unmapped_gi|528953240|ref|XP_005208083.1|	gi|528953240|ref|XP_005208083.1|	13
+Unmapped_gi|528969819|ref|XP_005213230.1|	gi|528969819|ref|XP_005213230.1|	18
+Unmapped_gi|528993971|ref|XP_005219929.1|	gi|528993971|ref|XP_005219929.1|	21
+Unmapped_gi|528993973|ref|XP_005219930.1|	gi|528993973|ref|XP_005219930.1|	21
+Unmapped_gi|528993975|ref|XP_005219931.1|	gi|528993975|ref|XP_005219931.1|	21
+Unmapped_gi|87196497|ref|NP_776354.2|	gi|87196497|ref|NP_776354.2|	18
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/201203-624176-12-mm-gui-test-GeneGroup-GeneGroup,GeneId,DistinctMatches.tsv	Fri Oct 06 15:00:29 2017 -0400
@@ -0,0 +1,10 @@
+GeneGroup	GeneId	DistinctMatches
+1	Unmapped_gi|27806963|ref|NP_776953.1|	2
+2	Unmapped_gi|30466252|ref|NP_848667.1|	29
+3	Unmapped_gi|30794280|ref|NP_851335.1|	43
+4	Unmapped_gi|32880221|ref|NP_872593.1|	27
+5	Unmapped_gi|528935739|ref|XP_005201142.1|;Unmapped_gi|27807109|ref|NP_777040.1|	9
+6	Unmapped_gi|528903801|ref|XP_871686.4|;Unmapped_gi|528947854|ref|XP_002687054.3|;Unmapped_gi|165973958|ref|NP_001107199.1|	4
+7	Unmapped_gi|528953234|ref|XP_005208080.1|;Unmapped_gi|528953238|ref|XP_005208082.1|;Unmapped_gi|528953240|ref|XP_005208083.1|;Unmapped_gi|30794348|ref|NP_851372.1|	17
+8	Unmapped_gi|528993971|ref|XP_005219929.1|;Unmapped_gi|528993973|ref|XP_005219930.1|;Unmapped_gi|528993975|ref|XP_005219931.1|;Unmapped_gi|27806851|ref|NP_776358.1|	27
+9	Unmapped_gi|528969819|ref|XP_005213230.1|;Unmapped_gi|87196497|ref|NP_776354.2|	33
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/201203-624176-12-mm-gui-test-Protein-Accession,FilteredSpectra,Description.tsv	Fri Oct 06 15:00:29 2017 -0400
@@ -0,0 +1,20 @@
+Accession	FilteredSpectra	Description
+gi|528903801|ref|XP_871686.4|	4	PREDICTED: cationic trypsin isoformX1 [Bos taurus]
+gi|528935739|ref|XP_005201142.1|	10	PREDICTED: superoxide dismutase [Cu-Zn] isoform X1 [Bos taurus]
+gi|528947854|ref|XP_002687054.3|	4	PREDICTED: cationic trypsin isoform X1 [Bos taurus]
+gi|528953234|ref|XP_005208080.1|	20	PREDICTED: alpha-S1-casein isoform X1 [Bos taurus]
+gi|528953238|ref|XP_005208082.1|	20	PREDICTED: alpha-S1-casein isoform X3 [Bos taurus]
+gi|528953240|ref|XP_005208083.1|	20	PREDICTED: alpha-S1-casein isoform X4 [Bos taurus]
+gi|528969819|ref|XP_005213230.1|	36	PREDICTED: beta-lactoglobulin isoform X1 [Bos taurus]
+gi|528993971|ref|XP_005219929.1|	29	PREDICTED: lactoperoxidase isoform X1 [Bos taurus]
+gi|528993973|ref|XP_005219930.1|	29	PREDICTED: lactoperoxidase isoform X2 [Bos taurus]
+gi|528993975|ref|XP_005219931.1|	29	PREDICTED: lactoperoxidase isoform X3 [Bos taurus]
+gi|30794280|ref|NP_851335.1|	43	serum albumin precursor [Bos taurus]
+gi|30794348|ref|NP_851372.1|	20	alpha-S1-casein precursor [Bos taurus]
+gi|87196497|ref|NP_776354.2|	36	beta-lactoglobulin precursor [Bos taurus]
+gi|165973958|ref|NP_001107199.1|	4	cationic trypsin precursor [Bos taurus]
+gi|27807109|ref|NP_777040.1|	10	superoxide dismutase [Cu-Zn] [Bos taurus]
+gi|27806963|ref|NP_776953.1|	2	alpha-S2-casein precursor [Bos taurus]
+gi|30466252|ref|NP_848667.1|	31	carbonic anhydrase 2 [Bos taurus]
+gi|32880221|ref|NP_872593.1|	32	glutamate dehydrogenase 1, mitochondrial precursor [Bos taurus]
+gi|27806851|ref|NP_776358.1|	29	lactoperoxidase precursor [Bos taurus]
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/201203-624176-12-mm-gui-test-ProteinGroup-ProteinGroup,Accession,PercentCoverage.tsv	Fri Oct 06 15:00:29 2017 -0400
@@ -0,0 +1,10 @@
+ProteinGroup	Accession	PercentCoverage
+1	gi|30794280|ref|NP_851335.1|	42.01
+2	gi|30466252|ref|NP_848667.1|	39.23
+3	gi|32880221|ref|NP_872593.1|	35.84
+4	gi|27806963|ref|NP_776953.1|	7.21
+5	gi|528969819|ref|XP_005213230.1|;gi|87196497|ref|NP_776354.2|	56.18
+6	gi|528993971|ref|XP_005219929.1|;gi|528993973|ref|XP_005219930.1|;gi|528993975|ref|XP_005219931.1|;gi|27806851|ref|NP_776358.1|	28.09
+7	gi|528903801|ref|XP_871686.4|;gi|528947854|ref|XP_002687054.3|;gi|165973958|ref|NP_001107199.1|	12.6
+8	gi|528953234|ref|XP_005208080.1|;gi|528953238|ref|XP_005208082.1|;gi|528953240|ref|XP_005208083.1|;gi|30794348|ref|NP_851372.1|	41.59
+9	gi|528935739|ref|XP_005201142.1|;gi|27807109|ref|NP_777040.1|	33.55
Binary file test-data/201203-624176-12-mm-gui-test.idpDB has changed
Binary file test-data/201208-378803-cm-filtered.idpDB has changed
Binary file test-data/201208-378803-cm.idpDB has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/201208-378803-cm.pep.xml	Fri Oct 06 15:00:29 2017 -0400
@@ -0,0 +1,10303 @@
+<?xml version="1.0" encoding="UTF-8"?>
+ <msms_pipeline_analysis date="2014-09-19T11:13:55" xmlns="http://regis-web.systemsbiology.net/pepXML" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://sashimi.sourceforge.net/schema_revision/pepXML/pepXML_v117.xsd" summary_xml="C:\idpicker\branches\IDPicker-3\TestData\201208-378803.pep.xml">
+ <msms_run_summary base_name="C:\idpicker\branches\IDPicker-3\TestData\201208-378803" msManufacturer="unknown" msModel="unknown" raw_data_type="raw" raw_data=".mzML">
+ <sample_enzyme name="Trypsin/P">
+  <specificity cut="KR" no_cut="-" sense="C"/>
+ </sample_enzyme>
+ <search_summary base_name="C:\idpicker\branches\IDPicker-3\TestData\201208-378803" search_engine="Comet" search_engine_version="2014.02 rev. 0" precursor_mass_type="monoisotopic" fragment_mass_type="monoisotopic" search_id="1">
+  <search_database local_path="cow.protein.PRG2012-subset.fasta" type="AA"/>
+  <enzymatic_search_constraint enzyme="Trypsin/P" max_num_internal_cleavages="2" min_number_termini="1"/>
+  <aminoacid_modification aminoacid="M" massdiff="15.994900" mass="147.035385" variable="Y" symbol="*"/>
+  <aminoacid_modification aminoacid="Q" massdiff="-17.026000" mass="111.032578" variable="Y" symbol="#"/>
+  <aminoacid_modification aminoacid="Q" massdiff="0.984016" mass="129.042594" variable="Y" symbol="@"/>
+  <aminoacid_modification aminoacid="N" massdiff="0.984016" mass="115.026943" variable="Y" symbol="@"/>
+  <aminoacid_modification aminoacid="C" massdiff="58.005480" mass="161.014665" variable="N"/>
+  <parameter name="# comet_version " value="2014.02"/>
+  <parameter name="activation_method" value="ALL"/>
+  <parameter name="add_A_alanine" value="0.000000"/>
+  <parameter name="add_B_user_amino_acid" value="0.000000"/>
+  <parameter name="add_C_cysteine" value="58.005480"/>
+  <parameter name="add_Cterm_peptide" value="0.000000"/>
+  <parameter name="add_Cterm_protein" value="0.000000"/>
+  <parameter name="add_D_aspartic_acid" value="0.000000"/>
+  <parameter name="add_E_glutamic_acid" value="0.000000"/>
+  <parameter name="add_F_phenylalanine" value="0.000000"/>
+  <parameter name="add_G_glycine" value="0.000000"/>
+  <parameter name="add_H_histidine" value="0.000000"/>
+  <parameter name="add_I_isoleucine" value="0.000000"/>
+  <parameter name="add_J_user_amino_acid" value="0.000000"/>
+  <parameter name="add_K_lysine" value="0.000000"/>
+  <parameter name="add_L_leucine" value="0.000000"/>
+  <parameter name="add_M_methionine" value="0.000000"/>
+  <parameter name="add_N_asparagine" value="0.000000"/>
+  <parameter name="add_Nterm_peptide" value="0.000000"/>
+  <parameter name="add_Nterm_protein" value="0.000000"/>
+  <parameter name="add_O_ornithine" value="0.000000"/>
+  <parameter name="add_P_proline" value="0.000000"/>
+  <parameter name="add_Q_glutamine" value="0.000000"/>
+  <parameter name="add_R_arginine" value="0.000000"/>
+  <parameter name="add_S_serine" value="0.000000"/>
+  <parameter name="add_T_threonine" value="0.000000"/>
+  <parameter name="add_U_user_amino_acid" value="0.000000"/>
+  <parameter name="add_V_valine" value="0.000000"/>
+  <parameter name="add_W_tryptophan" value="0.000000"/>
+  <parameter name="add_X_user_amino_acid" value="0.000000"/>
+  <parameter name="add_Y_tyrosine" value="0.000000"/>
+  <parameter name="add_Z_user_amino_acid" value="0.000000"/>
+  <parameter name="allowed_missed_cleavage" value="2"/>
+  <parameter name="clear_mz_range" value="0.000000 0.000000"/>
+  <parameter name="clip_nterm_methionine" value="1"/>
+  <parameter name="database_name" value="cow.protein.PRG2012-subset.fasta"/>
+  <parameter name="decoy_prefix" value="XXX_"/>
+  <parameter name="decoy_search" value="1"/>
+  <parameter name="digest_mass_range" value="600.000000 5000.000000"/>
+  <parameter name="fragment_bin_offset" value="0.020000"/>
+  <parameter name="fragment_bin_tol" value="0.020000"/>
+  <parameter name="isotope_error" value="1"/>
+  <parameter name="mass_type_fragment" value="1"/>
+  <parameter name="mass_type_parent" value="1"/>
+  <parameter name="max_fragment_charge" value="3"/>
+  <parameter name="max_precursor_charge" value="6"/>
+  <parameter name="max_variable_mods_in_peptide" value="5"/>
+  <parameter name="minimum_intensity" value="0"/>
+  <parameter name="minimum_peaks" value="10"/>
+  <parameter name="ms_level" value="2"/>
+  <parameter name="nucleotide_reading_frame" value="0"/>
+  <parameter name="num_enzyme_termini" value="1"/>
+  <parameter name="num_output_lines" value="5"/>
+  <parameter name="num_results" value="50"/>
+  <parameter name="num_threads" value="0"/>
+  <parameter name="output_outfiles" value="0"/>
+  <parameter name="output_pepxmlfile" value="1"/>
+  <parameter name="output_percolatorfile" value="0"/>
+  <parameter name="output_sqtfile" value="0"/>
+  <parameter name="output_sqtstream" value="0"/>
+  <parameter name="output_suffix" value="-cm"/>
+  <parameter name="output_txtfile" value="0"/>
+  <parameter name="override_charge" value="0"/>
+  <parameter name="peptide_mass_tolerance" value="20.000000"/>
+  <parameter name="peptide_mass_units" value="2"/>
+  <parameter name="precursor_charge" value="1 5"/>
+  <parameter name="print_expect_score" value="1"/>
+  <parameter name="remove_precursor_peak" value="0"/>
+  <parameter name="remove_precursor_tolerance" value="1.500000"/>
+  <parameter name="sample_enzyme_number" value="2"/>
+  <parameter name="scan_range" value="0 0"/>
+  <parameter name="search_enzyme_number" value="2"/>
+  <parameter name="show_fragment_ions" value="0"/>
+  <parameter name="skip_researching" value="1"/>
+  <parameter name="spectrum_batch_size" value="0"/>
+  <parameter name="theoretical_fragment_ions" value="0"/>
+  <parameter name="use_A_ions" value="0"/>
+  <parameter name="use_B_ions" value="1"/>
+  <parameter name="use_C_ions" value="0"/>
+  <parameter name="use_NL_ions" value="1"/>
+  <parameter name="use_X_ions" value="0"/>
+  <parameter name="use_Y_ions" value="1"/>
+  <parameter name="use_Z_ions" value="0"/>
+  <parameter name="use_sparse_matrix" value="0"/>
+  <parameter name="variable_mod01" value="15.994900 M 0 3 -1 0"/>
+  <parameter name="variable_mod02" value="-17.026000 Q 0 1 0 0"/>
+  <parameter name="variable_mod03" value="0.984016 QN 0 3 -1 0"/>
+  <parameter name="variable_mod04" value="0.000000 X 0 3 -1 0"/>
+  <parameter name="variable_mod05" value="0.000000 X 0 3 -1 0"/>
+  <parameter name="variable_mod06" value="0.000000 X 0 3 -1 0"/>
+  <parameter name="variable_mod07" value="0.000000 X 0 3 -1 0"/>
+  <parameter name="variable_mod08" value="0.000000 X 0 3 -1 0"/>
+  <parameter name="variable_mod09" value="0.000000 X 0 3 -1 0"/>
+ </search_summary>
+ <spectrum_query spectrum="201208-378803.00001.00001.3" spectrumNativeID="sample=1 period=1 cycle=1181 experiment=2" start_scan="1" end_scan="1" precursor_neutral_mass="1517.212359" assumed_charge="3" index="1" retention_time_sec="614.4">
+  <search_result>
+  </search_result>
+ </spectrum_query>
+ <spectrum_query spectrum="201208-378803.00001.00001.2" spectrumNativeID="sample=1 period=1 cycle=1181 experiment=2" start_scan="1" end_scan="1" precursor_neutral_mass="1011.474906" assumed_charge="2" index="2" retention_time_sec="614.4">
+  <search_result>
+   <search_hit hit_rank="1" peptide="AEPESDLPR" peptide_prev_aa="H" peptide_next_aa="N" protein="XXX_gi|528920173|ref|XP_001788336.2|" num_tot_proteins="2" num_matched_ions="0" tot_num_ions="16" calc_neutral_pep_mass="1012.482539" massdiff="-1.007633" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="622">
+    <search_score name="xcorr" value="0.474"/>
+    <search_score name="deltacn" value="0.001"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="7"/>
+    <search_score name="expect" value="9.70E+000"/>
+   </search_hit>
+   <search_hit hit_rank="2" peptide="ASQGMTPFR" peptide_prev_aa="G" peptide_next_aa="S" protein="gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="16" calc_neutral_pep_mass="1009.465100" massdiff="2.009806" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="622">
+    <modification_info modified_peptide="ASQGM[147]TPFR">
+     <mod_aminoacid_mass position="5" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.473"/>
+    <search_score name="deltacn" value="0.043"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="7"/>
+    <search_score name="expect" value="9.74E+000"/>
+   </search_hit>
+   <search_hit hit_rank="3" peptide="NESLDLYR" peptide_prev_aa="L" peptide_next_aa="L" protein="XXX_gi|528921178|ref|XP_592304.7|" num_tot_proteins="2" num_matched_ions="1" tot_num_ions="14" calc_neutral_pep_mass="1009.471640" massdiff="2.003266" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="622">
+    <modification_info modified_peptide="N[115]ESLDLYR">
+     <mod_aminoacid_mass position="1" mass="115.026943"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.453"/>
+    <search_score name="deltacn" value="0.208"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="2.8"/>
+    <search_score name="sprank" value="3"/>
+    <search_score name="expect" value="1.20E+001"/>
+   </search_hit>
+   <search_hit hit_rank="4" peptide="LMQQSSVSK" peptide_prev_aa="I" peptide_next_aa="F" protein="XXX_gi|30466252|ref|NP_848667.1|" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="16" calc_neutral_pep_mass="1008.479763" massdiff="2.995144" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="622">
+    <modification_info modified_peptide="LMQ[129]Q[129]SSVSK">
+     <mod_aminoacid_mass position="3" mass="129.042594"/>
+     <mod_aminoacid_mass position="4" mass="129.042594"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.359"/>
+    <search_score name="deltacn" value="0.019"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="3.9"/>
+    <search_score name="sprank" value="2"/>
+    <search_score name="expect" value="3.16E+001"/>
+   </search_hit>
+   <search_hit hit_rank="5" peptide="KAMGSNMEK" peptide_prev_aa="K" peptide_next_aa="Q" protein="XXX_gi|358414198|ref|XP_002700672.2|" num_tot_proteins="4" num_matched_ions="0" tot_num_ions="16" calc_neutral_pep_mass="1010.452487" massdiff="1.022420" num_tol_term="2" num_missed_cleavages="1" num_matched_peptides="622">
+    <modification_info modified_peptide="KAM[147]GSNMEK">
+     <mod_aminoacid_mass position="3" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.352"/>
+    <search_score name="deltacn" value="1.000"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="7"/>
+    <search_score name="expect" value="3.39E+001"/>
+   </search_hit>
+  </search_result>
+ </spectrum_query>
+ <spectrum_query spectrum="201208-378803.00002.00002.2" spectrumNativeID="sample=1 period=1 cycle=1183 experiment=2" start_scan="2" end_scan="2" precursor_neutral_mass="830.315297" assumed_charge="2" index="3" retention_time_sec="617.5">
+  <search_result>
+   <search_hit hit_rank="1" peptide="DGCHWR" peptide_prev_aa="P" peptide_next_aa="G" protein="XXX_gi|528961840|ref|XP_005211303.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="10" calc_neutral_pep_mass="830.312972" massdiff="0.002325" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="76">
+    <modification_info modified_peptide="DGCHWR">
+     <mod_aminoacid_mass position="3" mass="161.014665"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.208"/>
+    <search_score name="deltacn" value="0.166"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="1.20E+001"/>
+   </search_hit>
+   <search_hit hit_rank="2" peptide="YYNEDQ" peptide_prev_aa="R" peptide_next_aa="L" protein="XXX_gi|528944676|ref|XP_005204734.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="10" calc_neutral_pep_mass="830.308263" massdiff="0.007034" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="76">
+    <search_score name="xcorr" value="0.173"/>
+    <search_score name="deltacn" value="0.133"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="2.36E+001"/>
+   </search_hit>
+   <search_hit hit_rank="3" peptide="TMEEMR" peptide_prev_aa="F" peptide_next_aa="K" protein="XXX_gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="10" calc_neutral_pep_mass="827.315310" massdiff="2.999987" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="76">
+    <modification_info modified_peptide="TM[147]EEM[147]R">
+     <mod_aminoacid_mass position="2" mass="147.035385"/>
+     <mod_aminoacid_mass position="5" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.150"/>
+    <search_score name="deltacn" value="0.081"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="3.72E+001"/>
+   </search_hit>
+   <search_hit hit_rank="4" peptide="WHCGDR" peptide_prev_aa="P" peptide_next_aa="G" protein="gi|528961840|ref|XP_005211303.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="10" calc_neutral_pep_mass="830.312972" massdiff="0.002325" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="76">
+    <modification_info modified_peptide="WHCGDR">
+     <mod_aminoacid_mass position="3" mass="161.014665"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.138"/>
+    <search_score name="deltacn" value="0.035"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="4.73E+001"/>
+   </search_hit>
+   <search_hit hit_rank="5" peptide="MEEMTR" peptide_prev_aa="F" peptide_next_aa="K" protein="gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="10" calc_neutral_pep_mass="827.315310" massdiff="2.999987" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="76">
+    <modification_info modified_peptide="M[147]EEM[147]TR">
+     <mod_aminoacid_mass position="1" mass="147.035385"/>
+     <mod_aminoacid_mass position="4" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.133"/>
+    <search_score name="deltacn" value="1.000"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="5.20E+001"/>
+   </search_hit>
+  </search_result>
+ </spectrum_query>
+ <spectrum_query spectrum="201208-378803.00002.00002.3" spectrumNativeID="sample=1 period=1 cycle=1183 experiment=2" start_scan="2" end_scan="2" precursor_neutral_mass="1245.472945" assumed_charge="3" index="4" retention_time_sec="617.5">
+  <search_result>
+   <search_hit hit_rank="1" peptide="VNSGCMAMENK" peptide_prev_aa="R" peptide_next_aa="L" protein="gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="1" tot_num_ions="40" calc_neutral_pep_mass="1242.456662" massdiff="3.016283" num_tol_term="2" num_missed_cleavages="0" num_matched_peptides="54">
+    <modification_info modified_peptide="VN[115]SGCMAMEN[115]K">
+     <mod_aminoacid_mass position="2" mass="115.026943"/>
+     <mod_aminoacid_mass position="5" mass="161.014665"/>
+     <mod_aminoacid_mass position="10" mass="115.026943"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.288"/>
+    <search_score name="deltacn" value="0.321"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.4"/>
+    <search_score name="sprank" value="6"/>
+    <search_score name="expect" value="5.57E+000"/>
+   </search_hit>
+   <search_hit hit_rank="2" peptide="MMTDKEADGSE" peptide_prev_aa="R" peptide_next_aa="T" protein="gi|528944676|ref|XP_005204734.1|" num_tot_proteins="1" num_matched_ions="2" tot_num_ions="40" calc_neutral_pep_mass="1244.453654" massdiff="1.019291" num_tol_term="1" num_missed_cleavages="1" num_matched_peptides="54">
+    <modification_info modified_peptide="M[147]M[147]TDKEADGSE">
+     <mod_aminoacid_mass position="1" mass="147.035385"/>
+     <mod_aminoacid_mass position="2" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.196"/>
+    <search_score name="deltacn" value="0.168"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="3.2"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="2.71E+001"/>
+   </search_hit>
+   <search_hit hit_rank="3" peptide="MMSASSYNEDL" peptide_prev_aa="R" peptide_next_aa="A" protein="gi|528928354|ref|XP_005193233.1|" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="40" calc_neutral_pep_mass="1246.484589" massdiff="-1.011644" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="54">
+    <search_score name="xcorr" value="0.163"/>
+    <search_score name="deltacn" value="0.284"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.7"/>
+    <search_score name="sprank" value="2"/>
+    <search_score name="expect" value="4.75E+001"/>
+   </search_hit>
+   <search_hit hit_rank="4" peptide="PYDDDAEYMK" peptide_prev_aa="K" peptide_next_aa="H" protein="gi|528921178|ref|XP_592304.7|" num_tot_proteins="3" num_matched_ions="1" tot_num_ions="36" calc_neutral_pep_mass="1245.485970" massdiff="-0.013025" num_tol_term="2" num_missed_cleavages="0" num_matched_peptides="54">
+    <search_score name="xcorr" value="0.117"/>
+    <search_score name="deltacn" value="0.002"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.4"/>
+    <search_score name="sprank" value="5"/>
+    <search_score name="expect" value="1.05E+002"/>
+   </search_hit>
+   <search_hit hit_rank="5" peptide="CHEVFKQHC" peptide_prev_aa="K" peptide_next_aa="M" protein="XXX_gi|358418103|ref|XP_600387.4|" num_tot_proteins="4" num_matched_ions="1" tot_num_ions="32" calc_neutral_pep_mass="1246.474695" massdiff="-1.001750" num_tol_term="1" num_missed_cleavages="1" num_matched_peptides="54">
+    <modification_info modified_peptide="CHEVFKQ[129]HC">
+     <mod_aminoacid_mass position="1" mass="161.014665"/>
+     <mod_aminoacid_mass position="7" mass="129.042594"/>
+     <mod_aminoacid_mass position="9" mass="161.014665"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.116"/>
+    <search_score name="deltacn" value="1.000"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.5"/>
+    <search_score name="sprank" value="4"/>
+    <search_score name="expect" value="1.05E+002"/>
+   </search_hit>
+  </search_result>
+ </spectrum_query>
+ <spectrum_query spectrum="201208-378803.00003.00003.3" spectrumNativeID="sample=1 period=1 cycle=1186 experiment=2" start_scan="3" end_scan="3" precursor_neutral_mass="1575.554503" assumed_charge="3" index="5" retention_time_sec="621.2">
+  <search_result>
+   <search_hit hit_rank="1" peptide="SSSSASQSNHSCTSM" peptide_prev_aa="R" peptide_next_aa="P" protein="gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="56" calc_neutral_pep_mass="1574.546067" massdiff="1.008437" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="100">
+    <modification_info modified_peptide="SSSSASQ[129]SNHSCTSM[147]">
+     <mod_aminoacid_mass position="7" mass="129.042594"/>
+     <mod_aminoacid_mass position="12" mass="161.014665"/>
+     <mod_aminoacid_mass position="15" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.197"/>
+    <search_score name="deltacn" value="0.185"/>
+    <search_score name="deltacnstar" value="0.003"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="2"/>
+    <search_score name="expect" value="3.11E+001"/>
+   </search_hit>
+   <search_hit hit_rank="2" peptide="SSSSASQSNHSCTSM" peptide_prev_aa="R" peptide_next_aa="P" protein="gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="0" tot_num_ions="56" calc_neutral_pep_mass="1574.546067" massdiff="1.008437" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="100">
+    <modification_info modified_peptide="SSSSASQSN[115]HSCTSM[147]">
+     <mod_aminoacid_mass position="9" mass="115.026943"/>
+     <mod_aminoacid_mass position="12" mass="161.014665"/>
+     <mod_aminoacid_mass position="15" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.196"/>
+    <search_score name="deltacn" value="0.183"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="2"/>
+    <search_score name="expect" value="3.14E+001"/>
+   </search_hit>
+   <search_hit hit_rank="3" peptide="FNRGCEPCVHHC" peptide_prev_aa="K" peptide_next_aa="Q" protein="XXX_gi|528908812|ref|XP_609847.5|" num_tot_proteins="12" num_matched_ions="0" tot_num_ions="44" calc_neutral_pep_mass="1574.570069" massdiff="0.984434" num_tol_term="1" num_missed_cleavages="1" num_matched_peptides="100">
+    <modification_info modified_peptide="FNRGCEPCVHHC">
+     <mod_aminoacid_mass position="5" mass="161.014665"/>
+     <mod_aminoacid_mass position="8" mass="161.014665"/>
+     <mod_aminoacid_mass position="12" mass="161.014665"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.160"/>
+    <search_score name="deltacn" value="0.268"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="2"/>
+    <search_score name="expect" value="5.73E+001"/>
+   </search_hit>
+   <search_hit hit_rank="4" peptide="NCDVQGLEHDMEE" peptide_prev_aa="K" peptide_next_aa="I" protein="gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="1" tot_num_ions="48" calc_neutral_pep_mass="1575.581738" massdiff="-0.027235" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="100">
+    <modification_info modified_peptide="NCDVQGLEHDMEE">
+     <mod_aminoacid_mass position="2" mass="161.014665"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.117"/>
+    <search_score name="deltacn" value="0.114"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.4"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="1.18E+002"/>
+   </search_hit>
+   <search_hit hit_rank="5" peptide="FNRGCEPCVHHC" peptide_prev_aa="K" peptide_next_aa="Q" protein="XXX_gi|528908812|ref|XP_609847.5|" num_tot_proteins="12" num_matched_ions="0" tot_num_ions="44" calc_neutral_pep_mass="1575.554085" massdiff="0.000418" num_tol_term="1" num_missed_cleavages="1" num_matched_peptides="100">
+    <modification_info modified_peptide="FN[115]RGCEPCVHHC">
+     <mod_aminoacid_mass position="2" mass="115.026943"/>
+     <mod_aminoacid_mass position="5" mass="161.014665"/>
+     <mod_aminoacid_mass position="8" mass="161.014665"/>
+     <mod_aminoacid_mass position="12" mass="161.014665"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.104"/>
+    <search_score name="deltacn" value="1.000"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="2"/>
+    <search_score name="expect" value="1.47E+002"/>
+   </search_hit>
+  </search_result>
+ </spectrum_query>
+ <spectrum_query spectrum="201208-378803.00003.00003.2" spectrumNativeID="sample=1 period=1 cycle=1186 experiment=2" start_scan="3" end_scan="3" precursor_neutral_mass="1050.369669" assumed_charge="2" index="6" retention_time_sec="621.2">
+  <search_result>
+   <search_hit hit_rank="1" peptide="MMSASSYNE" peptide_prev_aa="R" peptide_next_aa="D" protein="gi|528928354|ref|XP_005193233.1|" num_tot_proteins="1" num_matched_ions="0" tot_num_ions="16" calc_neutral_pep_mass="1050.363382" massdiff="0.006287" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="2">
+    <modification_info modified_peptide="M[147]M[147]SASSYNE">
+     <mod_aminoacid_mass position="1" mass="147.035385"/>
+     <mod_aminoacid_mass position="2" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.051"/>
+    <search_score name="deltacn" value="1.000"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="0.0"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="2.26E+002"/>
+   </search_hit>
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+ </spectrum_query>
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+  </search_result>
+ </spectrum_query>
+ <spectrum_query spectrum="201208-378803.00108.00108.2" spectrumNativeID="sample=1 period=1 cycle=1627 experiment=2" start_scan="108" end_scan="108" precursor_neutral_mass="1162.515574" assumed_charge="2" index="216" retention_time_sec="1070.9">
+  <search_result>
+   <search_hit hit_rank="1" peptide="ISDMNQNIGAT" peptide_prev_aa="K" peptide_next_aa="E" protein="XXX_gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="4" tot_num_ions="20" calc_neutral_pep_mass="1163.512853" massdiff="-0.997279" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="562">
+    <modification_info modified_peptide="ISDMN[115]QNIGAT">
+     <mod_aminoacid_mass position="5" mass="115.026943"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.721"/>
+    <search_score name="deltacn" value="0.290"/>
+    <search_score name="deltacnstar" value="0.063"/>
+    <search_score name="spscore" value="28.2"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="1.00E+000"/>
+   </search_hit>
+   <search_hit hit_rank="2" peptide="ISDMNQNIGAT" peptide_prev_aa="K" peptide_next_aa="E" protein="XXX_gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="4" tot_num_ions="20" calc_neutral_pep_mass="1163.512853" massdiff="-0.997279" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="562">
+    <modification_info modified_peptide="ISDMNQ[129]NIGAT">
+     <mod_aminoacid_mass position="6" mass="129.042594"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.675"/>
+    <search_score name="deltacn" value="0.242"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="28.2"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="1.00E+000"/>
+   </search_hit>
+   <search_hit hit_rank="3" peptide="ISDMNQNIGAT" peptide_prev_aa="K" peptide_next_aa="E" protein="XXX_gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="4" tot_num_ions="20" calc_neutral_pep_mass="1163.512853" massdiff="-0.997279" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="562">
+    <modification_info modified_peptide="ISDMNQN[115]IGAT">
+     <mod_aminoacid_mass position="7" mass="115.026943"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.675"/>
+    <search_score name="deltacn" value="0.242"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="28.2"/>
+    <search_score name="sprank" value="1"/>
+    <search_score name="expect" value="1.00E+000"/>
+   </search_hit>
+   <search_hit hit_rank="4" peptide="VIDEGLMDEK" peptide_prev_aa="E" peptide_next_aa="L" protein="gi|528944676|ref|XP_005204734.1|" num_tot_proteins="1" num_matched_ions="1" tot_num_ions="18" calc_neutral_pep_mass="1163.537991" massdiff="-1.022417" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="562">
+    <modification_info modified_peptide="VIDEGLM[147]DEK">
+     <mod_aminoacid_mass position="7" mass="147.035385"/>
+    </modification_info>
+    <search_score name="xcorr" value="0.512"/>
+    <search_score name="deltacn" value="0.077"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="3.7"/>
+    <search_score name="sprank" value="3"/>
+    <search_score name="expect" value="2.60E+000"/>
+   </search_hit>
+   <search_hit hit_rank="5" peptide="ISDMNQNIGAT" peptide_prev_aa="K" peptide_next_aa="E" protein="XXX_gi|528944678|ref|XP_005204735.1|" num_tot_proteins="3" num_matched_ions="3" tot_num_ions="20" calc_neutral_pep_mass="1162.528837" massdiff="-0.013263" num_tol_term="1" num_missed_cleavages="0" num_matched_peptides="562">
+    <search_score name="xcorr" value="0.473"/>
+    <search_score name="deltacn" value="1.000"/>
+    <search_score name="deltacnstar" value="0.000"/>
+    <search_score name="spscore" value="15.4"/>
+    <search_score name="sprank" value="2"/>
+    <search_score name="expect" value="4.02E+000"/>
+   </search_hit>
+  </search_result>
+ </spectrum_query>
+ </msms_run_summary>
+</msms_pipeline_analysis>
Binary file test-data/201208-378803-embeddedGenes.idpDB has changed
Binary file test-data/201208-378803-embeddedGenesAndQuantitation.idpDB has changed
Binary file test-data/201208-378803-embeddedGenesAndScanTimes.idpDB has changed
Binary file test-data/201208-378803-embeddedGenesAndSpectra.idpDB has changed
Binary file test-data/201208-378803-embeddedGenesAndSpectra2.idpDB has changed
Binary file test-data/201208-378803-mm-filtered.idpDB has changed
Binary file test-data/201208-378803-mm.idpDB has changed
Binary file test-data/201208-378803-msgf-filtered.idpDB has changed
Binary file test-data/201208-378803-msgf.idpDB has changed
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/201208-378803-msgf.mzid	Fri Oct 06 15:00:29 2017 -0400
@@ -0,0 +1,4631 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<MzIdentML id="MS-GF+" version="1.1.0" xmlns="http://psidev.info/psi/pi/mzIdentML/1.1" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://psidev.info/psi/pi/mzIdentML/1.1 http://www.psidev.info/files/mzIdentML1.1.0.xsd" creationDate="2014-09-05T13:19:45" >
+<cvList xmlns="http://psidev.info/psi/pi/mzIdentML/1.1">
+    <cv id="PSI-MS" uri="http://psidev.cvs.sourceforge.net/viewvc/*checkout*/psidev/psi/psi-ms/mzML/controlledVocabulary/psi-ms.obo" version="3.30.0" fullName="PSI-MS"/>
+    <cv id="UNIMOD" uri="http://www.unimod.org/obo/unimod.obo" fullName="UNIMOD"/>
+    <cv id="UO" uri="http://obo.cvs.sourceforge.net/*checkout*/obo/obo/ontology/phenotype/unit.obo" fullName="UNIT-ONTOLOGY"/>
+</cvList>
+<AnalysisSoftwareList xmlns="http://psidev.info/psi/pi/mzIdentML/1.1">
+    <AnalysisSoftware version="Beta (v10072)" name="MS-GF+" id="ID_software">
+        <SoftwareName>
+            <cvParam accession="MS:1002048" cvRef="PSI-MS" name="MS-GF+"/>
+        </SoftwareName>
+    </AnalysisSoftware>
+</AnalysisSoftwareList>
+<SequenceCollection xmlns="http://psidev.info/psi/pi/mzIdentML/1.1">
+    <DBSequence accession="gi|30794280|ref|NP_851335.1|" searchDatabase_ref="SearchDB_1" length="607" id="DBSeq43937">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|30794280|ref|NP_851335.1| serum albumin precursor [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528993971|ref|XP_005219929.1|" searchDatabase_ref="SearchDB_1" length="768" id="DBSeq31093">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528993971|ref|XP_005219929.1| PREDICTED: lactoperoxidase isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528993973|ref|XP_005219930.1|" searchDatabase_ref="SearchDB_1" length="712" id="DBSeq31862">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528993973|ref|XP_005219930.1| PREDICTED: lactoperoxidase isoform X2 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528993975|ref|XP_005219931.1|" searchDatabase_ref="SearchDB_1" length="685" id="DBSeq32575">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528993975|ref|XP_005219931.1| PREDICTED: lactoperoxidase isoform X3 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|27806851|ref|NP_776358.1|" searchDatabase_ref="SearchDB_1" length="712" id="DBSeq47665">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|27806851|ref|NP_776358.1| lactoperoxidase precursor [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|27806963|ref|NP_776953.1|" searchDatabase_ref="SearchDB_1" length="222" id="DBSeq46622">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|27806963|ref|NP_776953.1| alpha-S2-casein precursor [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="XXX_gi|528968104|ref|XP_005212567.1|" searchDatabase_ref="SearchDB_1" length="815" id="DBSeq83632"/>
+    <DBSequence accession="XXX_gi|528968106|ref|XP_005212568.1|" searchDatabase_ref="SearchDB_1" length="811" id="DBSeq84448"/>
+    <DBSequence accession="XXX_gi|528968108|ref|XP_005212569.1|" searchDatabase_ref="SearchDB_1" length="766" id="DBSeq85260"/>
+    <DBSequence accession="XXX_gi|115497338|ref|NP_001069884.1|" searchDatabase_ref="SearchDB_1" length="626" id="DBSeq93486"/>
+    <DBSequence accession="XXX_gi|528944676|ref|XP_005204734.1|" searchDatabase_ref="SearchDB_1" length="7610" id="DBSeq65480"/>
+    <DBSequence accession="XXX_gi|528944678|ref|XP_005204735.1|" searchDatabase_ref="SearchDB_1" length="5498" id="DBSeq73091"/>
+    <DBSequence accession="XXX_gi|219804516|ref|NP_001137332.1|" searchDatabase_ref="SearchDB_1" length="5422" id="DBSeq94489"/>
+    <DBSequence accession="gi|528944676|ref|XP_005204734.1|" searchDatabase_ref="SearchDB_1" length="7610" id="DBSeq9505">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528944676|ref|XP_005204734.1| PREDICTED: microtubule-actin cross-linking factor 1 isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528944678|ref|XP_005204735.1|" searchDatabase_ref="SearchDB_1" length="5498" id="DBSeq17116">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528944678|ref|XP_005204735.1| PREDICTED: microtubule-actin cross-linking factor 1 isoform X2 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|219804516|ref|NP_001137332.1|" searchDatabase_ref="SearchDB_1" length="5422" id="DBSeq38514">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|219804516|ref|NP_001137332.1| microtubule-actin cross-linking factor 1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|32880221|ref|NP_872593.1|" searchDatabase_ref="SearchDB_1" length="558" id="DBSeq47106">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|32880221|ref|NP_872593.1| glutamate dehydrogenase 1, mitochondrial precursor [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528968104|ref|XP_005212567.1|" searchDatabase_ref="SearchDB_1" length="815" id="DBSeq27657">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528968104|ref|XP_005212567.1| PREDICTED: exocyst complex component 6B isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528968106|ref|XP_005212568.1|" searchDatabase_ref="SearchDB_1" length="811" id="DBSeq28473">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528968106|ref|XP_005212568.1| PREDICTED: exocyst complex component 6B isoform X2 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528968108|ref|XP_005212569.1|" searchDatabase_ref="SearchDB_1" length="766" id="DBSeq29285">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528968108|ref|XP_005212569.1| PREDICTED: exocyst complex component 6B isoform X3 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528935739|ref|XP_005201142.1|" searchDatabase_ref="SearchDB_1" length="154" id="DBSeq9350">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528935739|ref|XP_005201142.1| PREDICTED: superoxide dismutase [Cu-Zn] isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|27807109|ref|NP_777040.1|" searchDatabase_ref="SearchDB_1" length="152" id="DBSeq46469">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|27807109|ref|NP_777040.1| superoxide dismutase [Cu-Zn] [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|30466252|ref|NP_848667.1|" searchDatabase_ref="SearchDB_1" length="260" id="DBSeq46845">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|30466252|ref|NP_848667.1| carbonic anhydrase 2 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="XXX_gi|528921178|ref|XP_592304.7|" searchDatabase_ref="SearchDB_1" length="1252" id="DBSeq60575"/>
+    <DBSequence accession="XXX_gi|528921180|ref|XP_005195747.1|" searchDatabase_ref="SearchDB_1" length="1197" id="DBSeq61828"/>
+    <DBSequence accession="XXX_gi|528995523|ref|XP_002695913.2|" searchDatabase_ref="SearchDB_1" length="1299" id="DBSeq89848"/>
+    <DBSequence accession="XXX_gi|358414198|ref|XP_002700672.2|" searchDatabase_ref="SearchDB_1" length="1099" id="DBSeq104353"/>
+    <DBSequence accession="XXX_gi|528966552|ref|XP_005211956.1|" searchDatabase_ref="SearchDB_1" length="1131" id="DBSeq107227"/>
+    <DBSequence accession="XXX_gi|528966554|ref|XP_005211957.1|" searchDatabase_ref="SearchDB_1" length="1099" id="DBSeq108359"/>
+    <DBSequence accession="XXX_gi|297479727|ref|XP_002690982.1|" searchDatabase_ref="SearchDB_1" length="1099" id="DBSeq109459"/>
+    <DBSequence accession="gi|358418103|ref|XP_600387.4|" searchDatabase_ref="SearchDB_1" length="854" id="DBSeq7051">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|358418103|ref|XP_600387.4| PREDICTED: rab effector MyRIP isoform X2 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528923273|ref|XP_005196452.1|" searchDatabase_ref="SearchDB_1" length="854" id="DBSeq7906">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528923273|ref|XP_005196452.1| PREDICTED: rab effector MyRIP isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|297488451|ref|XP_002696970.1|" searchDatabase_ref="SearchDB_1" length="854" id="DBSeq35173">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|297488451|ref|XP_002696970.1| PREDICTED: rab effector MyRIP isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
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+    <DBSequence accession="XXX_gi|30794280|ref|NP_851335.1|" searchDatabase_ref="SearchDB_1" length="607" id="DBSeq99912"/>
+    <DBSequence accession="XXX_gi|27806963|ref|NP_776953.1|" searchDatabase_ref="SearchDB_1" length="222" id="DBSeq102597"/>
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+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528921178|ref|XP_592304.7| PREDICTED: protein flightless-1 homolog isoformX1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
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+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528995523|ref|XP_002695913.2| PREDICTED: protein flightless-1 homolog [Bos taurus]" name="protein description"/>
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+    <DBSequence accession="XXX_gi|139948503|ref|NP_001077142.1|" searchDatabase_ref="SearchDB_1" length="627" id="DBSeq92858"/>
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+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528954392|ref|XP_005208526.1| PREDICTED: ubiquitin-60S ribosomal protein L40 isoform X1 [Bos taurus]" name="protein description"/>
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+    <DBSequence accession="gi|115496708|ref|NP_001069831.1|" searchDatabase_ref="SearchDB_1" length="128" id="DBSeq46340">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|115496708|ref|NP_001069831.1| ubiquitin-60S ribosomal protein L40 [Bos taurus]" name="protein description"/>
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+    <DBSequence accession="XXX_gi|528908808|ref|XP_005199343.1|" searchDatabase_ref="SearchDB_1" length="615" id="DBSeq58074"/>
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+    <DBSequence accession="XXX_gi|528959651|ref|XP_005210513.1|" searchDatabase_ref="SearchDB_1" length="616" id="DBSeq81213"/>
+    <DBSequence accession="XXX_gi|528959653|ref|XP_005210514.1|" searchDatabase_ref="SearchDB_1" length="615" id="DBSeq81830"/>
+    <DBSequence accession="XXX_gi|528959655|ref|XP_005210515.1|" searchDatabase_ref="SearchDB_1" length="596" id="DBSeq82446"/>
+    <DBSequence accession="XXX_gi|528959657|ref|XP_002689899.2|" searchDatabase_ref="SearchDB_1" length="588" id="DBSeq83043"/>
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+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|115497338|ref|NP_001069884.1| exocyst complex component 6B [Bos taurus]" name="protein description"/>
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+    <DBSequence accession="gi|119924469|ref|XP_001252524.1|" searchDatabase_ref="SearchDB_1" length="376" id="DBSeq49478">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|119924469|ref|XP_001252524.1| PREDICTED: pregnancy-associated glycoprotein 2-like [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|358414198|ref|XP_002700672.2|" searchDatabase_ref="SearchDB_1" length="1099" id="DBSeq48378">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|358414198|ref|XP_002700672.2| PREDICTED: LOW QUALITY PROTEIN: solute carrier family 12 member 1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
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+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528966552|ref|XP_005211956.1| PREDICTED: solute carrier family 12 member 1 isoform X2 [Bos taurus]" name="protein description"/>
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+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528966554|ref|XP_005211957.1| PREDICTED: solute carrier family 12 member 1 isoform X3 [Bos taurus]" name="protein description"/>
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+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|297479727|ref|XP_002690982.1| PREDICTED: solute carrier family 12 member 1 isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|529012038|ref|XP_005226889.1|" searchDatabase_ref="SearchDB_1" length="337" id="DBSeq54584">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|529012038|ref|XP_005226889.1| PREDICTED: pregnancy-associated glycoprotein 2 isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|28849951|ref|NP_788787.1|" searchDatabase_ref="SearchDB_1" length="376" id="DBSeq55599">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|28849951|ref|NP_788787.1| pregnancy-associated glycoprotein 2 precursor [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528961840|ref|XP_005211303.1|" searchDatabase_ref="SearchDB_1" length="719" id="DBSeq49855">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528961840|ref|XP_005211303.1| PREDICTED: protein KHNYN isoform X1 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|528961845|ref|XP_005211304.1|" searchDatabase_ref="SearchDB_1" length="676" id="DBSeq50575">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|528961845|ref|XP_005211304.1| PREDICTED: protein KHNYN isoform X2 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="gi|156523214|ref|NP_001096021.1|" searchDatabase_ref="SearchDB_1" length="676" id="DBSeq54922">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|156523214|ref|NP_001096021.1| protein KHNYN [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="XXX_gi|528954392|ref|XP_005208526.1|" searchDatabase_ref="SearchDB_1" length="128" id="DBSeq79850"/>
+    <DBSequence accession="XXX_gi|115496708|ref|NP_001069831.1|" searchDatabase_ref="SearchDB_1" length="128" id="DBSeq102315"/>
+    <DBSequence accession="XXX_gi|358418103|ref|XP_600387.4|" searchDatabase_ref="SearchDB_1" length="854" id="DBSeq63026"/>
+    <DBSequence accession="XXX_gi|528923273|ref|XP_005196452.1|" searchDatabase_ref="SearchDB_1" length="854" id="DBSeq63881"/>
+    <DBSequence accession="XXX_gi|297488451|ref|XP_002696970.1|" searchDatabase_ref="SearchDB_1" length="854" id="DBSeq91148"/>
+    <DBSequence accession="XXX_gi|529000951|ref|XP_005222651.1|" searchDatabase_ref="SearchDB_1" length="854" id="DBSeq92003"/>
+    <DBSequence accession="gi|139948503|ref|NP_001077142.1|" searchDatabase_ref="SearchDB_1" length="627" id="DBSeq36883">
+        <cvParam accession="MS:1001088" cvRef="PSI-MS" value="gi|139948503|ref|NP_001077142.1| uncharacterized protein LOC512219 [Bos taurus]" name="protein description"/>
+    </DBSequence>
+    <DBSequence accession="XXX_gi|28849955|ref|NP_788795.1|" searchDatabase_ref="SearchDB_1" length="375" id="DBSeq94113"/>
+    <DBSequence accession="XXX_gi|528953234|ref|XP_005208080.1|" searchDatabase_ref="SearchDB_1" length="213" id="DBSeq78837"/>
+    <DBSequence accession="XXX_gi|528953236|ref|XP_005208081.1|" searchDatabase_ref="SearchDB_1" length="206" id="DBSeq79051"/>
+    <DBSequence accession="XXX_gi|528953238|ref|XP_005208082.1|" searchDatabase_ref="SearchDB_1" length="206" id="DBSeq79258"/>
+    <DBSequence accession="XXX_gi|528953240|ref|XP_005208083.1|" searchDatabase_ref="SearchDB_1" length="206" id="DBSeq79465"/>
+    <DBSequence accession="XXX_gi|30794348|ref|NP_851372.1|" searchDatabase_ref="SearchDB_1" length="214" id="DBSeq100983"/>
+    <DBSequence accession="XXX_gi|528969819|ref|XP_005213230.1|" searchDatabase_ref="SearchDB_1" length="178" id="DBSeq86184"/>
+    <DBSequence accession="XXX_gi|87196497|ref|NP_776354.2|" searchDatabase_ref="SearchDB_1" length="178" id="DBSeq101198"/>
+    <Peptide id="Pep1">
+        <PeptideSequence>YICDNQDTISSK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="5">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep2">
+        <PeptideSequence>LVNELTEFAK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep3">
+        <PeptideSequence>CCTESLVNR</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="1">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="2">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep4">
+        <PeptideSequence>CDENSPYR</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="1">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep5">
+        <PeptideSequence>NAVPITPTLNR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep6">
+        <PeptideSequence>TITGDCNNR</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="6">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep7">
+        <PeptideSequence>TITGDCNNR</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="6">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep8">
+        <PeptideSequence>ISELFDKLDSMSVDK</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep9">
+        <PeptideSequence>NEMFQQLK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep10">
+        <PeptideSequence>KQTALVELLK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep11">
+        <PeptideSequence>GFCGLSQPK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep12">
+        <PeptideSequence>EFENWLERSEK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep13">
+        <PeptideSequence>SVQESLER</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep14">
+        <PeptideSequence>KLYGTTTFKDAR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep15">
+        <PeptideSequence>LQDRWHR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep16">
+        <PeptideSequence>ELQEYQNLVR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep17">
+        <PeptideSequence>PKNDPKLKTQGK</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep18">
+        <PeptideSequence>PKNDPKLKTQGK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep19">
+        <PeptideSequence>HVGDLGNVTADK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep20">
+        <PeptideSequence>QLQTGGIIDTVTGR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep21">
+        <PeptideSequence>QLQTGGIIDTVTGR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep22">
+        <PeptideSequence>NVFTRQLCLEHDEK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="8">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep23">
+        <PeptideSequence>EQKWHVVSSKMEER</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="11">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep24">
+        <PeptideSequence>NVFTRQLCLEHDEK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="8">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep25">
+        <PeptideSequence>DFPIANGER</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep26">
+        <PeptideSequence>ALAQRFTSWAHFCR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="13">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep27">
+        <PeptideSequence>LGRQFQQIR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep28">
+        <PeptideSequence>EEVMQGEEPNLEK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="5">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep29">
+        <PeptideSequence>PTAEFQDR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep30">
+        <PeptideSequence>EPISVSSQQMLK</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep31">
+        <PeptideSequence>VICQPRFNK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep32">
+        <PeptideSequence>NEGIQEVQ</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep33">
+        <PeptideSequence>RRCGDCK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="6">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep34">
+        <PeptideSequence>RMMESR</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="3">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep35">
+        <PeptideSequence>TSDATEMFQTVMDR</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="7">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="12">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep36">
+        <PeptideSequence>YNNSVDPR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep37">
+        <PeptideSequence>FEDLAMWGGGVR</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="6">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep38">
+        <PeptideSequence>QLEGRLQDLR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep39">
+        <PeptideSequence>VWVCCVCQQARVLR</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="4">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="5">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="7">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="9">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep40">
+        <PeptideSequence>LIGSDQESK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep41">
+        <PeptideSequence>LAEAEKEGR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep42">
+        <PeptideSequence>GLKEFQDCNQK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="8">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="9">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="10">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep43">
+        <PeptideSequence>KVQDWPN</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep44">
+        <PeptideSequence>MMEQQATTE</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="1">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="2">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep45">
+        <PeptideSequence>DYELQLMTYK</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep46">
+        <PeptideSequence>SSDEETLSER</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep47">
+        <PeptideSequence>EVEDEGFLR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep48">
+        <PeptideSequence>HSFLEDMSDK</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="7">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep49">
+        <PeptideSequence>DLPFLSNEYK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep50">
+        <PeptideSequence>PYDDDAEYMK</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep51">
+        <PeptideSequence>NDQPHFDK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep52">
+        <PeptideSequence>FSDHQAHIEK</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep53">
+        <PeptideSequence>LMHDPSR</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="2">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep54">
+        <PeptideSequence>AEMFEHLSEK</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep55">
+        <PeptideSequence>AAQGALQPSL</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep56">
+        <PeptideSequence>LETQYCK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="6">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep57">
+        <PeptideSequence>QQSEVFAK</PeptideSequence>
+        <Modification monoisotopicMassDelta="-17.026" location="0">
+            <cvParam accession="UNIMOD:28" cvRef="UNIMOD" name="Gln-&gt;pyro-Glu"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep58">
+        <PeptideSequence>QRSEMMRK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep59">
+        <PeptideSequence>QSIDIEDDKKENK</PeptideSequence>
+        <Modification monoisotopicMassDelta="-17.026" location="0">
+            <cvParam accession="UNIMOD:28" cvRef="UNIMOD" name="Gln-&gt;pyro-Glu"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep60">
+        <PeptideSequence>YNCDKMICRK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="8">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep61">
+        <PeptideSequence>LQDSMAQDEK</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="5">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep62">
+        <PeptideSequence>EGSHTRQHRIL</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep63">
+        <PeptideSequence>QSHAILMEKR</PeptideSequence>
+        <Modification monoisotopicMassDelta="-17.026" location="0">
+            <cvParam accession="UNIMOD:28" cvRef="UNIMOD" name="Gln-&gt;pyro-Glu"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="7">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep64">
+        <PeptideSequence>FCKVMVDNIPKLR</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="2">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="5">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep65">
+        <PeptideSequence>DKNSCISIFQ</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="5">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="10">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep66">
+        <PeptideSequence>ARWQEYQSR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep67">
+        <PeptideSequence>ARWQEYQSR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep68">
+        <PeptideSequence>GGVYIRLKCDKWKK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="9">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep69">
+        <PeptideSequence>DFHPQDNK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep70">
+        <PeptideSequence>LDGIKTRYAD</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep71">
+        <PeptideSequence>EAQCCEQFVGNYK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="4">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="5">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="11">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep72">
+        <PeptideSequence>LQSYLEM</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="7">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep73">
+        <PeptideSequence>DAMETASR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep74">
+        <PeptideSequence>EQIGENK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep75">
+        <PeptideSequence>LMLCLPVLEMYSK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="4">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep76">
+        <PeptideSequence>YINDKCL</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="6">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep77">
+        <PeptideSequence>ALELTTVEDHVKNFR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="13">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep78">
+        <PeptideSequence>QQEEMR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep79">
+        <PeptideSequence>LEECEQ</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="4">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep80">
+        <PeptideSequence>SPDHMLKSTISVK</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="5">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep81">
+        <PeptideSequence>VVRMTQQQENPK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="10">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep82">
+        <PeptideSequence>QFMENK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="5">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep83">
+        <PeptideSequence>VVILPLKKMKTLR</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="9">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep84">
+        <PeptideSequence>EMKDTSR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep85">
+        <PeptideSequence>STDKMER</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep86">
+        <PeptideSequence>NLLNNFLEEQAYR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="10">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep87">
+        <PeptideSequence>NLLNNFLEEQAYR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="10">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep88">
+        <PeptideSequence>VDFILQREPYCR</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="11">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep89">
+        <PeptideSequence>VDFILQREPYCR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="11">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep90">
+        <PeptideSequence>KAETCNAQDADEK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="5">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep91">
+        <PeptideSequence>QVAQCKCAK</PeptideSequence>
+        <Modification monoisotopicMassDelta="-17.026" location="0">
+            <cvParam accession="UNIMOD:28" cvRef="UNIMOD" name="Gln-&gt;pyro-Glu"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="5">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="7">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep92">
+        <PeptideSequence>RHYSEAAADR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep93">
+        <PeptideSequence>ARHQELLSQQ</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="9">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep94">
+        <PeptideSequence>QDVFRSLQDT</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep95">
+        <PeptideSequence>EMNSGMAK</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="2">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep96">
+        <PeptideSequence>WVDFDFNAFEK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep97">
+        <PeptideSequence>RCIMKDCNYKQ</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="2">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="7">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="8">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep98">
+        <PeptideSequence>DLGEEHF</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep99">
+        <PeptideSequence>MDGFTGCR</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="1">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="7">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep100">
+        <PeptideSequence>LDQMVFFWED</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="4">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep101">
+        <PeptideSequence>RIYLDQMGR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep102">
+        <PeptideSequence>CESCVYPK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="1">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="4">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep103">
+        <PeptideSequence>QPWEPEDEAR</PeptideSequence>
+        <Modification monoisotopicMassDelta="-17.026" location="0">
+            <cvParam accession="UNIMOD:28" cvRef="UNIMOD" name="Gln-&gt;pyro-Glu"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep104">
+        <PeptideSequence>YEGLKEFQDCNQK</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="10">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="11">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="12">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep105">
+        <PeptideSequence>FNCMKEIER</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="4">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep106">
+        <PeptideSequence>QPEQNFSK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="5">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep107">
+        <PeptideSequence>ACQVYIQH</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="2">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="7">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep108">
+        <PeptideSequence>QRNQVQT</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep109">
+        <PeptideSequence>YESGQHR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="5">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep110">
+        <PeptideSequence>DLQYFQR</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="3">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="6">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep111">
+        <PeptideSequence>MPCTEDYLSLILN</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="1">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep112">
+        <PeptideSequence>QQQENPK</PeptideSequence>
+        <Modification monoisotopicMassDelta="-17.026" location="0">
+            <cvParam accession="UNIMOD:28" cvRef="UNIMOD" name="Gln-&gt;pyro-Glu"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="0.984016" location="5">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep113">
+        <PeptideSequence>SNLEEQMK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="7">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep114">
+        <PeptideSequence>DEMNNAWENLNK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="11">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep115">
+        <PeptideSequence>QACEGNEWK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="1">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="3">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep116">
+        <PeptideSequence>MTQQQENPKF</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="1">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep117">
+        <PeptideSequence>FDEYHAQLNK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="9">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep118">
+        <PeptideSequence>AQLEETISDMN</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="2">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="10">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep119">
+        <PeptideSequence>LIRRQRLRPR</PeptideSequence>
+    </Peptide>
+    <Peptide id="Pep120">
+        <PeptideSequence>CLFVYCD</PeptideSequence>
+        <Modification monoisotopicMassDelta="58.00548" location="1">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="58.00548" location="6">
+            <cvParam accession="MS:1001460" cvRef="UNIMOD" name="unknown modification"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep121">
+        <PeptideSequence>EWANNMEDISK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="5">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="6">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep122">
+        <PeptideSequence>EWANNMEDISK</PeptideSequence>
+        <Modification monoisotopicMassDelta="15.9949" location="6">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
+    <Peptide id="Pep123">
+        <PeptideSequence>EWANNMEDISK</PeptideSequence>
+        <Modification monoisotopicMassDelta="0.984016" location="4">
+            <cvParam accession="UNIMOD:7" cvRef="UNIMOD" name="Deamidated"/>
+        </Modification>
+        <Modification monoisotopicMassDelta="15.9949" location="6">
+            <cvParam accession="UNIMOD:35" cvRef="UNIMOD" name="Oxidation"/>
+        </Modification>
+    </Peptide>
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+    <PeptideEvidence isDecoy="false" post="T" pre="K" end="75" start="66" peptide_ref="Pep2" dBSequence_ref="DBSeq43937" id="PepEv_44002_2_66"/>
+    <PeptideEvidence isDecoy="false" post="R" pre="K" end="507" start="499" peptide_ref="Pep3" dBSequence_ref="DBSeq43937" id="PepEv_44435_3_499"/>
+    <PeptideEvidence isDecoy="false" post="T" pre="K" end="195" start="188" peptide_ref="Pep4" dBSequence_ref="DBSeq31093" id="PepEv_31280_4_188"/>
+    <PeptideEvidence isDecoy="false" post="T" pre="K" end="139" start="132" peptide_ref="Pep4" dBSequence_ref="DBSeq31862" id="PepEv_31993_4_132"/>
+    <PeptideEvidence isDecoy="false" post="T" pre="K" end="112" start="105" peptide_ref="Pep4" dBSequence_ref="DBSeq32575" id="PepEv_32679_4_105"/>
+    <PeptideEvidence isDecoy="false" post="T" pre="K" end="139" start="132" peptide_ref="Pep4" dBSequence_ref="DBSeq47665" id="PepEv_47796_4_132"/>
+    <PeptideEvidence isDecoy="false" post="E" pre="R" end="140" start="130" peptide_ref="Pep5" dBSequence_ref="DBSeq46622" id="PepEv_46751_5_130"/>
+    <PeptideEvidence isDecoy="false" post="R" pre="R" end="204" start="196" peptide_ref="Pep6" dBSequence_ref="DBSeq31093" id="PepEv_31288_6_196"/>
+    <PeptideEvidence isDecoy="false" post="R" pre="R" end="148" start="140" peptide_ref="Pep6" dBSequence_ref="DBSeq31862" id="PepEv_32001_6_140"/>
+    <PeptideEvidence isDecoy="false" post="R" pre="R" end="121" start="113" peptide_ref="Pep6" dBSequence_ref="DBSeq32575" id="PepEv_32687_6_113"/>
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+    <PeptideEvidence isDecoy="false" post="R" pre="R" end="148" start="140" peptide_ref="Pep7" dBSequence_ref="DBSeq31862" id="PepEv_32001_7_140"/>
+    <PeptideEvidence isDecoy="false" post="R" pre="R" end="121" start="113" peptide_ref="Pep7" dBSequence_ref="DBSeq32575" id="PepEv_32687_7_113"/>
+    <PeptideEvidence isDecoy="false" post="R" pre="R" end="148" start="140" peptide_ref="Pep7" dBSequence_ref="DBSeq47665" id="PepEv_47804_7_140"/>
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+    <PeptideEvidence isDecoy="true" post="I" pre="R" end="617" start="603" peptide_ref="Pep8" dBSequence_ref="DBSeq84448" id="PepEv_85050_8_603"/>
+    <PeptideEvidence isDecoy="true" post="I" pre="R" end="572" start="558" peptide_ref="Pep8" dBSequence_ref="DBSeq85260" id="PepEv_85817_8_558"/>
+    <PeptideEvidence isDecoy="true" post="I" pre="R" end="432" start="418" peptide_ref="Pep8" dBSequence_ref="DBSeq93486" id="PepEv_93903_8_418"/>
+    <PeptideEvidence isDecoy="true" post="E" pre="K" end="3336" start="3329" peptide_ref="Pep9" dBSequence_ref="DBSeq65480" id="PepEv_68808_9_3329"/>
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+    <PeptideEvidence isDecoy="false" post="H" pre="K" end="557" start="548" peptide_ref="Pep10" dBSequence_ref="DBSeq43937" id="PepEv_44484_10_548"/>
+    <PeptideEvidence isDecoy="false" post="T" pre="R" end="635" start="627" peptide_ref="Pep11" dBSequence_ref="DBSeq31093" id="PepEv_31719_11_627"/>
+    <PeptideEvidence isDecoy="false" post="T" pre="R" end="579" start="571" peptide_ref="Pep11" dBSequence_ref="DBSeq31862" id="PepEv_32432_11_571"/>
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+    <PeptideEvidence isDecoy="false" post="T" pre="R" end="579" start="571" peptide_ref="Pep11" dBSequence_ref="DBSeq47665" id="PepEv_48235_11_571"/>
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+    <PeptideEvidence isDecoy="false" post="K" pre="M" end="476" start="469" peptide_ref="Pep13" dBSequence_ref="DBSeq47106" id="PepEv_47574_13_469"/>
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+    </AnalysisData>
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Binary file test-data/201208-378803.idpDB has changed